Psyllid ID: psy13287

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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
Protein Sequence
MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM
Secondary Structure (PSIPRED)
cHHHHHHHcccccEEEEEEccccHHHHHHHHHHcccccEEEEccccccccEEEEEEEEccccHHHHHHHHHHHccccEEEEEEccHHHHHHHHHHHHHccccEEEEccccccHHHHHHHHHHHcccccEEEEHHHHcccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHccHHHcEEEEEccccHHHHHHHHHHHcccEEEEEccccccccEEEEEEEccHHHHHHHHHHHHHcccccEEEEEEcccccHHHHHHHHHHccccEEEHcccccHHHHHHHHHHHHccccEEEEEEHHHHccc
Coil and Loop (DISEMBL)
MLDHVISILPHERQILLYSATFPLTVKNFMEKhlkdpyeiNLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRnlvcsgdssamm
Flexible Loop (DISEMBL)
MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNlvcsgdssamm
Low Complexity Region (SEG)
MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM
Disordered region (IsUnstruct)
***HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVC********
Disordered Region (DISOPRED)
MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM
Disordered Region (DISEMBL)
MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM
Disordered Region (DISPRO)
MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM
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	140	2.2.26 [Sep-21-2011]
P23128	459	Putative ATP-dependent RN	yes	N/A	0.95	0.289	0.924	2e-70
Q95YF3	430	ATP-dependent RNA helicas	yes	N/A	0.95	0.309	0.812	6e-62
P54823	483	Probable ATP-dependent RN	yes	N/A	0.95	0.275	0.781	6e-61
Q5RFQ5	483	Probable ATP-dependent RN	yes	N/A	0.95	0.275	0.781	7e-61
P26196	483	Probable ATP-dependent RN	yes	N/A	0.95	0.275	0.781	7e-61
Q5ZKB9	483	Probable ATP-dependent RN	yes	N/A	0.95	0.275	0.781	7e-61
Q0IHV9	481	Probable ATP-dependent RN	yes	N/A	0.95	0.276	0.781	1e-60
P54824	481	ATP-dependent RNA helicas	N/A	N/A	0.95	0.276	0.781	2e-60
Q09181	485	Putative ATP-dependent RN	yes	N/A	0.95	0.274	0.781	4e-60
A1CJ18	503	ATP-dependent RNA helicas	N/A	N/A	0.95	0.264	0.751	4e-60

>sp|P23128|DDX6_DROME Putative ATP-dependent RNA helicase me31b OS=Drosophila melanogaster GN=me31B PE=1 SV=3

 Score =  263 bits (672), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 123/133 (92%), Positives = 128/133 (96%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           MLDHVI  LP + QILL+SATFPLTVKNFMEKHL++PYEINLMEELTLKGVTQYYAFVQE
Sbjct: 220 MLDHVILKLPKDPQILLFSATFPLTVKNFMEKHLREPYEINLMEELTLKGVTQYYAFVQE 279

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHA+MAQAHRNRVFH
Sbjct: 280 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHAKMAQAHRNRVFH 339

Query: 121 DFRSGLCRNLVCS 133
           DFR GLCRNLVCS
Sbjct: 340 DFRQGLCRNLVCS 352

Unwinds RNA in an ATP-dependent fashion.
Drosophila melanogaster (taxid: 7227)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 3

>sp|Q95YF3|CGH1_CAEEL ATP-dependent RNA helicase cgh-1 OS=Caenorhabditis elegans GN=cgh-1 PE=1 SV=1

 Score =  235 bits (599), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 108/133 (81%), Positives = 120/133 (90%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           +LD +I+ LP ERQ++LYSATFP TV +FM+KH+  PYEINLMEELTL GVTQYYAFVQE
Sbjct: 205 ILDRLINFLPKERQVMLYSATFPNTVTSFMQKHMHKPYEINLMEELTLLGVTQYYAFVQE 264

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           +QKVHCLNTLF KLQINQSIIFCNSTQRVELLAKKITE+GY CYYIH++MAQ HRNRVFH
Sbjct: 265 KQKVHCLNTLFRKLQINQSIIFCNSTQRVELLAKKITEIGYSCYYIHSKMAQNHRNRVFH 324

Query: 121 DFRSGLCRNLVCS 133
           DFR G CRNLVCS
Sbjct: 325 DFRQGNCRNLVCS 337

Probable RNA helicase required for oocyte and sperm function. Also required to prevent the physiological germline apoptosis mechanism killing essentially all developing oocytes.

Caenorhabditis elegans (taxid: 6239)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|P54823|DDX6_MOUSE Probable ATP-dependent RNA helicase DDX6 OS=Mus musculus GN=Ddx6 PE=2 SV=1

 Score =  232 bits (591), Expect = 6e-61,   Method: Compositional matrix adjust.
 Identities = 104/133 (78%), Positives = 120/133 (90%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct: 259 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLQKPYEINLMEELTLKGVTQYYAYVTE 318

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct: 319 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 378

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLVC+
Sbjct: 379 DFRNGLCRNLVCT 391

In the process of mRNA degradation, may play a role in mRNA decapping.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q5RFQ5|DDX6_PONAB Probable ATP-dependent RNA helicase DDX6 OS=Pongo abelii GN=DDX6 PE=2 SV=1

 Score =  231 bits (590), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 104/133 (78%), Positives = 120/133 (90%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct: 259 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLQKPYEINLMEELTLKGVTQYYAYVTE 318

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct: 319 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 378

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLVC+
Sbjct: 379 DFRNGLCRNLVCT 391

In the process of mRNA degradation, may play a role in mRNA decapping.

Pongo abelii (taxid: 9601)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|P26196|DDX6_HUMAN Probable ATP-dependent RNA helicase DDX6 OS=Homo sapiens GN=DDX6 PE=1 SV=2

 Score =  231 bits (590), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 104/133 (78%), Positives = 120/133 (90%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct: 259 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLQKPYEINLMEELTLKGVTQYYAYVTE 318

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct: 319 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 378

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLVC+
Sbjct: 379 DFRNGLCRNLVCT 391

In the process of mRNA degradation, may play a role in mRNA decapping.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q5ZKB9|DDX6_CHICK Probable ATP-dependent RNA helicase DDX6 OS=Gallus gallus GN=DDX6 PE=2 SV=1

 Score =  231 bits (590), Expect = 7e-61,   Method: Compositional matrix adjust.
 Identities = 104/133 (78%), Positives = 120/133 (90%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct: 259 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLQKPYEINLMEELTLKGVTQYYAYVTE 318

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct: 319 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 378

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLVC+
Sbjct: 379 DFRNGLCRNLVCT 391

In the process of mRNA degradation, may play a role in mRNA decapping.

Gallus gallus (taxid: 9031)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q0IHV9|DDX6_XENTR Probable ATP-dependent RNA helicase ddx6 OS=Xenopus tropicalis GN=ddx6 PE=2 SV=1

 Score =  231 bits (589), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 104/133 (78%), Positives = 120/133 (90%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct: 258 IMEDIIITLPKNRQILLYSATFPLSVQKFMTSHLQKPYEINLMEELTLKGVTQYYAYVTE 317

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct: 318 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 377

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLVC+
Sbjct: 378 DFRNGLCRNLVCT 390

ATP-dependent RNA helicase that is an integral component of messenger ribonucleoprotein complexes (mRNPs), storage particles that mask maternal mRNAs from the translational apparatus during oocyte maturation.

Xenopus tropicalis (taxid: 8364)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|P54824|DDX6_XENLA ATP-dependent RNA helicase ddx6 OS=Xenopus laevis GN=ddx6 PE=1 SV=2

 Score =  230 bits (587), Expect = 2e-60,   Method: Compositional matrix adjust.
 Identities = 104/133 (78%), Positives = 120/133 (90%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct: 258 IMEDIIMTLPKNRQILLYSATFPLSVQKFMTLHLQKPYEINLMEELTLKGVTQYYAYVTE 317

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct: 318 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 377

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLVC+
Sbjct: 378 DFRNGLCRNLVCT 390

ATP-dependent RNA helicase that is an integral component of messenger ribonucleoprotein complexes (mRNPs), storage particles that mask maternal mRNAs from the translational apparatus during oocyte maturation.

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q09181|DHH1_SCHPO Putative ATP-dependent RNA helicase ste13 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=ste13 PE=3 SV=1

 Score =  229 bits (584), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 104/133 (78%), Positives = 118/133 (88%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           +++ ++S  P  RQI LYSATFPL VKNFM+KHL  PYEINLM+ELTL+GVTQYYAFV E
Sbjct: 206 IIEQLLSYFPKNRQISLYSATFPLIVKNFMDKHLNKPYEINLMDELTLRGVTQYYAFVDE 265

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
            QKVHCLNTLFSKLQINQSIIFCNST RVELLAKKITELGY C+Y HA+M Q+HRNRVFH
Sbjct: 266 SQKVHCLNTLFSKLQINQSIIFCNSTNRVELLAKKITELGYSCFYSHAKMLQSHRNRVFH 325

Query: 121 DFRSGLCRNLVCS 133
           +FR+G+CRNLVCS
Sbjct: 326 NFRNGVCRNLVCS 338

ATP-dependent RNA helicase involved in mRNA turnover, and more specifically in mRNA decapping. Is involved in G1/S DNA-damage checkpoint recovery, probably through the regulation of the translational status of a subset of mRNAs. May also have a role in translation and mRNA nuclear export.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|A1CJ18|DHH1_ASPCL ATP-dependent RNA helicase dhh1 OS=Aspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1) GN=dhh1 PE=3 SV=1

 Score =  229 bits (584), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 100/133 (75%), Positives = 122/133 (91%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           +++ ++S  P +RQ++L+SATFPL VK+F +KH+++PYEINLM+ELTL+G+TQYYAFV+E
Sbjct: 209 VIEQLLSFHPKDRQVMLFSATFPLIVKSFKDKHMRNPYEINLMDELTLRGITQYYAFVEE 268

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           +QKVHCLNTLFSKLQINQSIIFCNST RVELLAKKITELGY C+Y HARM Q HRNRVFH
Sbjct: 269 KQKVHCLNTLFSKLQINQSIIFCNSTNRVELLAKKITELGYSCFYSHARMLQQHRNRVFH 328

Query: 121 DFRSGLCRNLVCS 133
           DFR+G+CRNLVCS
Sbjct: 329 DFRNGVCRNLVCS 341

ATP-dependent RNA helicase involved in mRNA turnover, and more specifically in mRNA decapping. Is involved in G1/S DNA-damage checkpoint recovery, probably through the regulation of the translational status of a subset of mRNAs. May also have a role in translation and mRNA nuclear export.

Aspergillus clavatus (strain ATCC 1007 / CBS 513.65 / DSM 816 / NCTC 3887 / NRRL 1) (taxid: 344612)

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	140
156547575	445	PREDICTED: putative ATP-dependent RNA he	0.95	0.298	0.947	2e-71
158299881	430	AGAP009135-PA [Anopheles gambiae str. PE	0.95	0.309	0.947	3e-70
312377194	415	hypothetical protein AND_11577 [Anophele	0.95	0.320	0.947	3e-70
332020362	444	Putative ATP-dependent RNA helicase me31	0.95	0.299	0.939	4e-70
340728954	444	PREDICTED: putative ATP-dependent RNA he	0.95	0.299	0.939	4e-70
328783051	444	PREDICTED: putative ATP-dependent RNA he	0.95	0.299	0.939	4e-70
383858347	444	PREDICTED: putative ATP-dependent RNA he	0.95	0.299	0.939	4e-70
307168696	443	Putative ATP-dependent RNA helicase me31	0.95	0.300	0.939	5e-70
242014232	460	DEAD box ATP-dependent RNA helicase, put	0.95	0.289	0.932	6e-70
307206923	435	Putative ATP-dependent RNA helicase me31	0.95	0.305	0.939	6e-70

>gi|156547575|ref|XP_001602897.1| PREDICTED: putative ATP-dependent RNA helicase me31b-like isoform 1 [Nasonia vitripennis] gi|345485131|ref|XP_003425200.1| PREDICTED: putative ATP-dependent RNA helicase me31b-like isoform 2 [Nasonia vitripennis]

 Score =  273 bits (698), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 126/133 (94%), Positives = 131/133 (98%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           MLDHVIS LPHERQILLYSATFPLTVK FMEKHL+DPYEINLMEELTLKGVTQYYAFVQE
Sbjct: 217 MLDHVISRLPHERQILLYSATFPLTVKQFMEKHLRDPYEINLMEELTLKGVTQYYAFVQE 276

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFSKLQINQSIIFCN+TQRVELLAKKIT+LGYCCYYIHA+MAQAHRNRVFH
Sbjct: 277 RQKVHCLNTLFSKLQINQSIIFCNTTQRVELLAKKITDLGYCCYYIHAKMAQAHRNRVFH 336

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLVCS
Sbjct: 337 DFRAGLCRNLVCS 349

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158299881|ref|XP_319893.3| AGAP009135-PA [Anopheles gambiae str. PEST] gi|157013731|gb|EAA14695.3| AGAP009135-PA [Anopheles gambiae str. PEST]

 Score =  269 bits (688), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 126/133 (94%), Positives = 129/133 (96%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           MLDHVI  LP ERQILL+SATFPL+VKNFMEKHL+DPYEINLMEELTLKGVTQYYAFVQE
Sbjct: 202 MLDHVIMRLPKERQILLFSATFPLSVKNFMEKHLRDPYEINLMEELTLKGVTQYYAFVQE 261

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM QAHRNRVFH
Sbjct: 262 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMQQAHRNRVFH 321

Query: 121 DFRSGLCRNLVCS 133
           DFRSGLCRNLVCS
Sbjct: 322 DFRSGLCRNLVCS 334

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312377194|gb|EFR24088.1| hypothetical protein AND_11577 [Anopheles darlingi]

 Score =  269 bits (688), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 126/133 (94%), Positives = 129/133 (96%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           MLDHVI  LP ERQILL+SATFPL+VKNFMEKHL+DPYEINLMEELTLKGVTQYYAFVQE
Sbjct: 173 MLDHVIMRLPKERQILLFSATFPLSVKNFMEKHLRDPYEINLMEELTLKGVTQYYAFVQE 232

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM QAHRNRVFH
Sbjct: 233 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMQQAHRNRVFH 292

Query: 121 DFRSGLCRNLVCS 133
           DFRSGLCRNLVCS
Sbjct: 293 DFRSGLCRNLVCS 305

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332020362|gb|EGI60783.1| Putative ATP-dependent RNA helicase me31b [Acromyrmex echinatior]

 Score =  268 bits (686), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 125/133 (93%), Positives = 129/133 (96%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           MLDHVIS LPHERQILLYSATFPLTVK FMEKHL+DPYEINLMEELTLKGVTQYYAFVQE
Sbjct: 217 MLDHVISRLPHERQILLYSATFPLTVKQFMEKHLRDPYEINLMEELTLKGVTQYYAFVQE 276

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFSKLQI QSIIFCNSTQRVELLAKKIT+LGYCCYYIHA+MAQAHRNRVFH
Sbjct: 277 RQKVHCLNTLFSKLQITQSIIFCNSTQRVELLAKKITDLGYCCYYIHAKMAQAHRNRVFH 336

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLV S
Sbjct: 337 DFRAGLCRNLVSS 349

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340728954|ref|XP_003402776.1| PREDICTED: putative ATP-dependent RNA helicase me31b-like [Bombus terrestris] gi|350412268|ref|XP_003489590.1| PREDICTED: putative ATP-dependent RNA helicase me31b-like [Bombus impatiens]

 Score =  268 bits (686), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 125/133 (93%), Positives = 129/133 (96%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           MLDHVIS LPHERQILLYSATFPLTVK FMEKHL+DPYEINLMEELTLKGVTQYYAFVQE
Sbjct: 217 MLDHVISRLPHERQILLYSATFPLTVKQFMEKHLRDPYEINLMEELTLKGVTQYYAFVQE 276

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFSKLQI QSIIFCNSTQRVELLAKKIT+LGYCCYYIHA+MAQAHRNRVFH
Sbjct: 277 RQKVHCLNTLFSKLQITQSIIFCNSTQRVELLAKKITDLGYCCYYIHAKMAQAHRNRVFH 336

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLV S
Sbjct: 337 DFRAGLCRNLVSS 349

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328783051|ref|XP_624586.2| PREDICTED: putative ATP-dependent RNA helicase me31b-like isoform 1 [Apis mellifera] gi|380013249|ref|XP_003690677.1| PREDICTED: putative ATP-dependent RNA helicase me31b-like [Apis florea]

 Score =  268 bits (686), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 125/133 (93%), Positives = 129/133 (96%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           MLDHVIS LPHERQILLYSATFPLTVK FMEKHL+DPYEINLMEELTLKGVTQYYAFVQE
Sbjct: 217 MLDHVISRLPHERQILLYSATFPLTVKQFMEKHLRDPYEINLMEELTLKGVTQYYAFVQE 276

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFSKLQI QSIIFCNSTQRVELLAKKIT+LGYCCYYIHA+MAQAHRNRVFH
Sbjct: 277 RQKVHCLNTLFSKLQITQSIIFCNSTQRVELLAKKITDLGYCCYYIHAKMAQAHRNRVFH 336

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLV S
Sbjct: 337 DFRAGLCRNLVSS 349

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383858347|ref|XP_003704663.1| PREDICTED: putative ATP-dependent RNA helicase me31b-like [Megachile rotundata]

 Score =  268 bits (686), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 125/133 (93%), Positives = 129/133 (96%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           MLDHVIS LPHERQILLYSATFPLTVK FMEKHL+DPYEINLMEELTLKGVTQYYAFVQE
Sbjct: 217 MLDHVISRLPHERQILLYSATFPLTVKQFMEKHLRDPYEINLMEELTLKGVTQYYAFVQE 276

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFSKLQI QSIIFCNSTQRVELLAKKIT+LGYCCYYIHA+MAQAHRNRVFH
Sbjct: 277 RQKVHCLNTLFSKLQITQSIIFCNSTQRVELLAKKITDLGYCCYYIHAKMAQAHRNRVFH 336

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLV S
Sbjct: 337 DFRAGLCRNLVSS 349

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307168696|gb|EFN61728.1| Putative ATP-dependent RNA helicase me31b [Camponotus floridanus]

 Score =  268 bits (686), Expect = 5e-70,   Method: Compositional matrix adjust.
 Identities = 125/133 (93%), Positives = 129/133 (96%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           MLDHVIS LPHERQILLYSATFPLTVK FMEKHL+DPYEINLMEELTLKGVTQYYAFVQE
Sbjct: 216 MLDHVISRLPHERQILLYSATFPLTVKQFMEKHLRDPYEINLMEELTLKGVTQYYAFVQE 275

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFSKLQI QSIIFCNSTQRVELLAKKIT+LGYCCYYIHA+MAQAHRNRVFH
Sbjct: 276 RQKVHCLNTLFSKLQITQSIIFCNSTQRVELLAKKITDLGYCCYYIHAKMAQAHRNRVFH 335

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLV S
Sbjct: 336 DFRAGLCRNLVSS 348

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242014232|ref|XP_002427795.1| DEAD box ATP-dependent RNA helicase, putative [Pediculus humanus corporis] gi|212512264|gb|EEB15057.1| DEAD box ATP-dependent RNA helicase, putative [Pediculus humanus corporis]

 Score =  268 bits (685), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 124/133 (93%), Positives = 130/133 (97%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           MLDHVIS LP +RQILLYSATFP+TVKNFMEKHL +PYE+NLMEELTLKGVTQYYAFVQE
Sbjct: 233 MLDHVISRLPKDRQILLYSATFPVTVKNFMEKHLHEPYEVNLMEELTLKGVTQYYAFVQE 292

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHA+MAQAHRNRVFH
Sbjct: 293 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHAKMAQAHRNRVFH 352

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLVCS
Sbjct: 353 DFRNGLCRNLVCS 365

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307206923|gb|EFN84769.1| Putative ATP-dependent RNA helicase me31b [Harpegnathos saltator]

 Score =  268 bits (684), Expect = 6e-70,   Method: Compositional matrix adjust.
 Identities = 125/133 (93%), Positives = 129/133 (96%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           MLDHVIS LPHERQILLYSATFPLTVK FMEKHL+DPYEINLMEELTLKGVTQYYAFVQE
Sbjct: 217 MLDHVISRLPHERQILLYSATFPLTVKQFMEKHLRDPYEINLMEELTLKGVTQYYAFVQE 276

Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQKVHCLNTLFSKLQI QSIIFCNSTQRVELLAKKIT+LGYCCYYIHA+MAQAHRNRVFH
Sbjct: 277 RQKVHCLNTLFSKLQITQSIIFCNSTQRVELLAKKITDLGYCCYYIHAKMAQAHRNRVFH 336

Query: 121 DFRSGLCRNLVCS 133
           DFR+GLCRNLV S
Sbjct: 337 DFRAGLCRNLVSS 349

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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	140
FB|FBgn0004419	459	me31B "maternal expression at	0.95	0.289	0.924	4.7e-64
WB|WBGene00000479	430	cgh-1 [Caenorhabditis elegans	0.95	0.309	0.812	1.2e-56
UNIPROTKB|Q95YF3	430	cgh-1 "ATP-dependent RNA helic	0.95	0.309	0.812	1.2e-56
ZFIN|ZDB-GENE-030131-6611	483	wu:fk48d07 "wu:fk48d07" [Danio	0.95	0.275	0.781	6.8e-56
ZFIN|ZDB-GENE-070912-83	485	ddx6 "DEAD (Asp-Glu-Ala-Asp) b	0.95	0.274	0.781	3.7e-55
UNIPROTKB|E1C8R1	483	DDX6 "Probable ATP-dependent R	0.95	0.275	0.781	6.1e-55
UNIPROTKB|Q5ZKB9	483	DDX6 "Probable ATP-dependent R	0.95	0.275	0.781	6.1e-55
UNIPROTKB|E1BDM8	483	DDX6 "Uncharacterized protein"	0.95	0.275	0.781	6.1e-55
UNIPROTKB|E2RR01	483	DDX6 "Uncharacterized protein"	0.95	0.275	0.781	6.1e-55
UNIPROTKB|P26196	483	DDX6 "Probable ATP-dependent R	0.95	0.275	0.781	6.1e-55

FB|FBgn0004419 me31B "maternal expression at 31B" [Drosophila melanogaster (taxid:7227)]

 Score = 653 (234.9 bits), Expect = 4.7e-64, P = 4.7e-64
 Identities = 123/133 (92%), Positives = 128/133 (96%)

Query:     1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
             MLDHVI  LP + QILL+SATFPLTVKNFMEKHL++PYEINLMEELTLKGVTQYYAFVQE
Sbjct:   220 MLDHVILKLPKDPQILLFSATFPLTVKNFMEKHLREPYEINLMEELTLKGVTQYYAFVQE 279

Query:    61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
             RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHA+MAQAHRNRVFH
Sbjct:   280 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHAKMAQAHRNRVFH 339

Query:   121 DFRSGLCRNLVCS 133
             DFR GLCRNLVCS
Sbjct:   340 DFRQGLCRNLVCS 352

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

GO:0005524 "ATP binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IDA

GO:0000932 "cytoplasmic mRNA processing body" evidence=IDA

GO:0033962 "cytoplasmic mRNA processing body assembly" evidence=IMP

GO:0005875 "microtubule associated complex" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0007095 "mitotic G2 DNA damage checkpoint" evidence=IGI

GO:0043186 "P granule" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

WB|WBGene00000479 cgh-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 583 (210.3 bits), Expect = 1.2e-56, P = 1.2e-56
 Identities = 108/133 (81%), Positives = 120/133 (90%)

Query:     1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
             +LD +I+ LP ERQ++LYSATFP TV +FM+KH+  PYEINLMEELTL GVTQYYAFVQE
Sbjct:   205 ILDRLINFLPKERQVMLYSATFPNTVTSFMQKHMHKPYEINLMEELTLLGVTQYYAFVQE 264

Query:    61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
             +QKVHCLNTLF KLQINQSIIFCNSTQRVELLAKKITE+GY CYYIH++MAQ HRNRVFH
Sbjct:   265 KQKVHCLNTLFRKLQINQSIIFCNSTQRVELLAKKITEIGYSCYYIHSKMAQNHRNRVFH 324

Query:   121 DFRSGLCRNLVCS 133
             DFR G CRNLVCS
Sbjct:   325 DFRQGNCRNLVCS 337

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:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0000003 "reproduction" evidence=IMP

GO:0002009 "morphogenesis of an epithelium" evidence=IMP

GO:0008340 "determination of adult lifespan" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

GO:0006915 "apoptotic process" evidence=IMP

GO:0051729 "germline cell cycle switching, mitotic to meiotic cell cycle" evidence=IMP

GO:0008219 "cell death" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

GO:0010467 "gene expression" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0007276 "gamete generation" evidence=IMP

GO:0043066 "negative regulation of apoptotic process" evidence=IMP

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0005737 "cytoplasm" evidence=IDA

GO:0043186 "P granule" evidence=IDA

GO:0000932 "cytoplasmic mRNA processing body" evidence=IDA

GO:0003724 "RNA helicase activity" evidence=ISS

GO:0005515 "protein binding" evidence=IPI

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

UNIPROTKB|Q95YF3 cgh-1 "ATP-dependent RNA helicase cgh-1" [Caenorhabditis elegans (taxid:6239)]

 Score = 583 (210.3 bits), Expect = 1.2e-56, P = 1.2e-56
 Identities = 108/133 (81%), Positives = 120/133 (90%)

Query:     1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
             +LD +I+ LP ERQ++LYSATFP TV +FM+KH+  PYEINLMEELTL GVTQYYAFVQE
Sbjct:   205 ILDRLINFLPKERQVMLYSATFPNTVTSFMQKHMHKPYEINLMEELTLLGVTQYYAFVQE 264

Query:    61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
             +QKVHCLNTLF KLQINQSIIFCNSTQRVELLAKKITE+GY CYYIH++MAQ HRNRVFH
Sbjct:   265 KQKVHCLNTLFRKLQINQSIIFCNSTQRVELLAKKITEIGYSCYYIHSKMAQNHRNRVFH 324

Query:   121 DFRSGLCRNLVCS 133
             DFR G CRNLVCS
Sbjct:   325 DFRQGNCRNLVCS 337

GO:0005515 "protein binding" evidence=IPI

ZFIN|ZDB-GENE-030131-6611 wu:fk48d07 "wu:fk48d07" [Danio rerio (taxid:7955)]

 Score = 576 (207.8 bits), Expect = 6.8e-56, P = 6.8e-56
 Identities = 104/133 (78%), Positives = 123/133 (92%)

Query:     1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
             +++ +IS LP +RQILLYSATFP++V+ FM KHL+ PYEINLM+ELTLKG+TQYYA+V E
Sbjct:   251 LIEDIISFLPKKRQILLYSATFPISVQKFMTKHLQKPYEINLMDELTLKGITQYYAYVTE 310

Query:    61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
             RQKVHCLNTLFS+LQINQSIIFCNSTQRVELLAKKIT+LGY C+YIHA+M Q +RNRVFH
Sbjct:   311 RQKVHCLNTLFSRLQINQSIIFCNSTQRVELLAKKITQLGYSCFYIHAKMMQEYRNRVFH 370

Query:   121 DFRSGLCRNLVCS 133
             DFR+GLCRNLVC+
Sbjct:   371 DFRNGLCRNLVCT 383

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-070912-83 ddx6 "DEAD (Asp-Glu-Ala-Asp) box polypeptide 6" [Danio rerio (taxid:7955)]

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 104/133 (78%), Positives = 121/133 (90%)

Query:     1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
             M++ ++S L  +RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct:   261 MMEEILSSLSKQRQILLYSATFPLSVQKFMNSHLQKPYEINLMEELTLKGVTQYYAYVTE 320

Query:    61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
             RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct:   321 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 380

Query:   121 DFRSGLCRNLVCS 133
             DFR+GLCRNLVC+
Sbjct:   381 DFRNGLCRNLVCT 393

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:0016787 "hydrolase activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|E1C8R1 DDX6 "Probable ATP-dependent RNA helicase DDX6" [Gallus gallus (taxid:9031)]

 Score = 567 (204.7 bits), Expect = 6.1e-55, P = 6.1e-55
 Identities = 104/133 (78%), Positives = 120/133 (90%)

Query:     1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
             +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct:   259 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLQKPYEINLMEELTLKGVTQYYAYVTE 318

Query:    61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
             RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct:   319 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 378

Query:   121 DFRSGLCRNLVCS 133
             DFR+GLCRNLVC+
Sbjct:   379 DFRNGLCRNLVCT 391

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|Q5ZKB9 DDX6 "Probable ATP-dependent RNA helicase DDX6" [Gallus gallus (taxid:9031)]

 Score = 567 (204.7 bits), Expect = 6.1e-55, P = 6.1e-55
 Identities = 104/133 (78%), Positives = 120/133 (90%)

Query:     1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
             +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct:   259 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLQKPYEINLMEELTLKGVTQYYAYVTE 318

Query:    61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
             RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct:   319 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 378

Query:   121 DFRSGLCRNLVCS 133
             DFR+GLCRNLVC+
Sbjct:   379 DFRNGLCRNLVCT 391

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

GO:0003723 "RNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0000932 "cytoplasmic mRNA processing body" evidence=IEA

GO:0010494 "cytoplasmic stress granule" evidence=IEA

GO:0016442 "RNA-induced silencing complex" evidence=IEA

GO:0033962 "cytoplasmic mRNA processing body assembly" evidence=IEA

UNIPROTKB|E1BDM8 DDX6 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 567 (204.7 bits), Expect = 6.1e-55, P = 6.1e-55
 Identities = 104/133 (78%), Positives = 120/133 (90%)

Query:     1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
             +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct:   259 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLQKPYEINLMEELTLKGVTQYYAYVTE 318

Query:    61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
             RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct:   319 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 378

Query:   121 DFRSGLCRNLVCS 133
             DFR+GLCRNLVC+
Sbjct:   379 DFRNGLCRNLVCT 391

GO:0033962 "cytoplasmic mRNA processing body assembly" evidence=IEA

GO:0016442 "RNA-induced silencing complex" evidence=IEA

GO:0010494 "cytoplasmic stress granule" evidence=IEA

GO:0000932 "cytoplasmic mRNA processing body" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|E2RR01 DDX6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 567 (204.7 bits), Expect = 6.1e-55, P = 6.1e-55
 Identities = 104/133 (78%), Positives = 120/133 (90%)

Query:     1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
             +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct:   259 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLQKPYEINLMEELTLKGVTQYYAYVTE 318

Query:    61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
             RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct:   319 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 378

Query:   121 DFRSGLCRNLVCS 133
             DFR+GLCRNLVC+
Sbjct:   379 DFRNGLCRNLVCT 391

GO:0033962 "cytoplasmic mRNA processing body assembly" evidence=IEA

GO:0016442 "RNA-induced silencing complex" evidence=IEA

GO:0010494 "cytoplasmic stress granule" evidence=IEA

GO:0000932 "cytoplasmic mRNA processing body" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|P26196 DDX6 "Probable ATP-dependent RNA helicase DDX6" [Homo sapiens (taxid:9606)]

 Score = 567 (204.7 bits), Expect = 6.1e-55, P = 6.1e-55
 Identities = 104/133 (78%), Positives = 120/133 (90%)

Query:     1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
             +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEINLMEELTLKGVTQYYA+V E
Sbjct:   259 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLQKPYEINLMEELTLKGVTQYYAYVTE 318

Query:    61 RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
             RQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAKKI++LGY C+YIHA+M Q HRNRVFH
Sbjct:   319 RQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFH 378

Query:   121 DFRSGLCRNLVCS 133
             DFR+GLCRNLVC+
Sbjct:   379 DFRNGLCRNLVCT 391

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

GO:0003723 "RNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0010494 "cytoplasmic stress granule" evidence=IDA

GO:0000932 "cytoplasmic mRNA processing body" evidence=IDA

GO:0004386 "helicase activity" evidence=TAS

GO:0003724 "RNA helicase activity" evidence=TAS

GO:0016442 "RNA-induced silencing complex" evidence=IDA

GO:0033962 "cytoplasmic mRNA processing body assembly" evidence=IDA

GO:0000288 "nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay" 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:0043928 "exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay" evidence=TAS

---

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)
A3LWX3	DHH1_PICST	3, ., 6, ., 4, ., 1, 3	0.7293	0.95	0.2612	yes	N/A
Q75BS4	DHH1_ASHGO	3, ., 6, ., 4, ., 1, 3	0.7443	0.95	0.2747	yes	N/A
Q54E49	DDX6_DICDI	3, ., 6, ., 4, ., 1, 3	0.7669	0.95	0.3144	yes	N/A
P54823	DDX6_MOUSE	3, ., 6, ., 4, ., 1, 3	0.7819	0.95	0.2753	yes	N/A
Q4WWD3	DHH1_ASPFU	3, ., 6, ., 4, ., 1, 3	0.7518	0.95	0.2623	yes	N/A
Q6C0X2	DHH1_YARLI	3, ., 6, ., 4, ., 1, 3	0.7443	0.95	0.2547	yes	N/A
Q6FQU5	DHH1_CANGA	3, ., 6, ., 4, ., 1, 3	0.7593	0.95	0.2623	yes	N/A
Q9WTM2	DDX6_CAVPO	3, ., 6, ., 4, ., 1, 3	0.7669	0.95	0.2817	yes	N/A
Q0IHV9	DDX6_XENTR	3, ., 6, ., 4, ., 1, 3	0.7819	0.95	0.2765	yes	N/A
P23128	DDX6_DROME	3, ., 6, ., 4, ., 1, 3	0.9248	0.95	0.2897	yes	N/A
Q2U5A2	DHH1_ASPOR	3, ., 6, ., 4, ., 1, 3	0.7518	0.95	0.2602	yes	N/A
Q95YF3	CGH1_CAEEL	3, ., 6, ., 4, ., 1, 3	0.8120	0.95	0.3093	yes	N/A
Q8SQK9	DHH1_ENCCU	3, ., 6, ., 4, ., 1, 3	0.5116	0.9214	0.2638	yes	N/A
Q8RXK6	RH8_ARATH	3, ., 6, ., 4, ., 1, 3	0.7575	0.9428	0.2613	yes	N/A
Q6BJX6	DHH1_DEBHA	3, ., 6, ., 4, ., 1, 3	0.6917	0.95	0.2577	yes	N/A
Q109G2	RH12_ORYSJ	3, ., 6, ., 4, ., 1, 3	0.7651	0.9428	0.2533	yes	N/A
Q5RFQ5	DDX6_PONAB	3, ., 6, ., 4, ., 1, 3	0.7819	0.95	0.2753	yes	N/A
P26196	DDX6_HUMAN	3, ., 6, ., 4, ., 1, 3	0.7819	0.95	0.2753	yes	N/A
Q6CSZ7	DHH1_KLULA	3, ., 6, ., 4, ., 1, 3	0.7142	0.95	0.2587	yes	N/A
Q5ZKB9	DDX6_CHICK	3, ., 6, ., 4, ., 1, 3	0.7819	0.95	0.2753	yes	N/A
Q4HW67	DHH1_GIBZE	3, ., 6, ., 4, ., 1, 3	0.7218	0.95	0.2736	yes	N/A
Q09181	DHH1_SCHPO	3, ., 6, ., 4, ., 1, 3	0.7819	0.95	0.2742	yes	N/A
P0CQ80	DHH1_CRYNJ	3, ., 6, ., 4, ., 1, 3	0.7368	0.95	0.2128	yes	N/A
P39517	DHH1_YEAST	3, ., 6, ., 4, ., 1, 3	0.7518	0.95	0.2628	yes	N/A
A2QY39	DHH1_ASPNC	3, ., 6, ., 4, ., 1, 3	0.7518	0.95	0.2633	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	140
COG0513	513	COG0513, SrmB, Superfamily II DNA and RNA helicase	2e-34
PTZ00424	401	PTZ00424, PTZ00424, helicase 45; Provisional	1e-22
PRK11776	460	PRK11776, PRK11776, ATP-dependent RNA helicase Dbp	1e-14
PRK10590	456	PRK10590, PRK10590, ATP-dependent RNA helicase Rhl	2e-14
cd00079	131	cd00079, HELICc, Helicase superfamily c-terminal d	8e-14
cd00268	203	cd00268, DEADc, DEAD-box helicases	5e-11
PTZ00110	545	PTZ00110, PTZ00110, helicase; Provisional	4e-09
PRK01297	475	PRK01297, PRK01297, ATP-dependent RNA helicase Rhl	2e-08
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	3e-07
smart00490	82	smart00490, HELICc, helicase superfamily c-termina	5e-07
PRK04537	572	PRK04537, PRK04537, ATP-dependent RNA helicase Rhl	5e-07
PRK11634	629	PRK11634, PRK11634, ATP-dependent RNA helicase Dea	5e-06
pfam00271	78	pfam00271, Helicase_C, Helicase conserved C-termin	7e-06
smart00487	201	smart00487, DEXDc, DEAD-like helicases superfamily	2e-05
PLN00206	518	PLN00206, PLN00206, DEAD-box ATP-dependent RNA hel	7e-04
COG1202	830	COG1202, COG1202, Superfamily II helicase, archaea	0.001
COG0514	590	COG0514, RecQ, Superfamily II DNA helicase [DNA re	0.003

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

 Score =  124 bits (313), Expect = 2e-34
 Identities = 42/136 (30%), Positives = 70/136 (51%), Gaps = 4/136 (2%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINL---MEELTLKGVTQYYAFV 58
           ++ ++  LP +RQ LL+SAT P  ++    ++L DP EI +     E TLK + Q+Y  V
Sbjct: 195 IEKILKALPPDRQTLLFSATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEV 254

Query: 59  -QERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNR 117
             E +K+  L  L       + I+F  + + VE LA+ + + G+    +H  + Q  R+R
Sbjct: 255 ESEEEKLELLLKLLKDEDEGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDR 314

Query: 118 VFHDFRSGLCRNLVCS 133
               F+ G  R LV +
Sbjct: 315 ALEKFKDGELRVLVAT 330

Length = 513

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

 Score = 91.0 bits (226), Expect = 1e-22
 Identities = 47/129 (36%), Positives = 73/129 (56%), Gaps = 2/129 (1%)

Query: 5   VISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQ-ERQ 62
           V   LP + Q+ L+SAT P  +     K ++DP  I +  +ELTL+G+ Q+Y  V+ E  
Sbjct: 194 VFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVEKEEW 253

Query: 63  KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDF 122
           K   L  L+  L I Q+II+CN+ ++V+ L KK+ E  +    +H  M Q  R+ +  +F
Sbjct: 254 KFDTLCDLYETLTITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREF 313

Query: 123 RSGLCRNLV 131
           RSG  R L+
Sbjct: 314 RSGSTRVLI 322

Length = 401

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

 Score = 69.1 bits (170), Expect = 1e-14
 Identities = 33/130 (25%), Positives = 61/130 (46%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQER 61
           +D +I   P  RQ LL+SAT+P  +    ++  +DP E+ +     L  + Q +  V   
Sbjct: 168 IDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTHDLPAIEQRFYEVSPD 227

Query: 62  QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
           +++  L  L    Q    ++FCN+ +  + +A  +   G+    +H  + Q  R++V   
Sbjct: 228 ERLPALQRLLLHHQPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVR 287

Query: 122 FRSGLCRNLV 131
           F +  C  LV
Sbjct: 288 FANRSCSVLV 297

Length = 460

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

 Score = 68.3 bits (167), Expect = 2e-14
 Identities = 47/140 (33%), Positives = 70/140 (50%), Gaps = 9/140 (6%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTL-KGV 51
           MLD         V++ LP +RQ LL+SATF   +K   EK L +P EI +    T  + V
Sbjct: 161 MLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQV 220

Query: 52  TQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMA 111
           TQ+  FV +++K   L+ +  K    Q ++F  +      LA+++ + G     IH   +
Sbjct: 221 TQHVHFVDKKRKRELLSQMIGKGNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKS 280

Query: 112 QAHRNRVFHDFRSGLCRNLV 131
           Q  R R   DF+SG  R LV
Sbjct: 281 QGARTRALADFKSGDIRVLV 300

Length = 456

>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 = 63.4 bits (155), Expect = 8e-14
 Identities = 24/85 (28%), Positives = 39/85 (45%), Gaps = 3/85 (3%)

Query: 51  VTQYYAFVQERQKVHCLNTLFSKLQIN--QSIIFCNSTQRVELLAKKITELGYCCYYIHA 108
           + QY   V E +K+  L  L  +      + +IFC S + ++ LA+ + + G     +H 
Sbjct: 2   IKQYVLPV-EDEKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHG 60

Query: 109 RMAQAHRNRVFHDFRSGLCRNLVCS 133
             +Q  R  V  DFR G    LV +
Sbjct: 61  DGSQEEREEVLKDFREGEIVVLVAT 85

Length = 131

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

 Score = 57.5 bits (140), Expect = 5e-11
 Identities = 15/40 (37%), Positives = 25/40 (62%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEIN 41
           +  ++ +LP +RQ LL+SAT P  V++   K L++P  I 
Sbjct: 164 IREILKLLPKDRQTLLFSATMPKEVRDLARKFLRNPVRIL 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|240273 PTZ00110, PTZ00110, helicase; Provisional

 Score = 53.2 bits (128), Expect = 4e-09
 Identities = 34/127 (26%), Positives = 60/127 (47%), Gaps = 8/127 (6%)

Query: 5   VISILPHERQILLYSATFPLTVKNFMEKHLKD-PYEINLMEELTLKG---VTQYYAFVQE 60
           V  I P +RQ L++SAT+P  V++      K+ P  +N+   L L     + Q    V+E
Sbjct: 302 VSQIRP-DRQTLMWSATWPKEVQSLARDLCKEEPVHVNV-GSLDLTACHNIKQEVFVVEE 359

Query: 61  RQKVHCLNTLFSKLQINQS--IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRV 118
            +K   L  L  ++  +    +IF  + +  + L K++   G+    IH    Q  R  V
Sbjct: 360 HEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWV 419

Query: 119 FHDFRSG 125
            ++F++G
Sbjct: 420 LNEFKTG 426

Length = 545

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

 Score = 51.1 bits (122), Expect = 2e-08
 Identities = 37/144 (25%), Positives = 59/144 (40%), Gaps = 11/144 (7%)

Query: 1   MLD--------HVISILPH--ERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLK 49
           MLD         +I   P   ERQ LL+SATF   V N  ++   DP  + +  E +   
Sbjct: 249 MLDMGFIPQVRQIIRQTPRKEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASD 308

Query: 50  GVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHAR 109
            V Q+   V    K   L  L ++    + ++F N    V  + +++ + G     +   
Sbjct: 309 TVEQHVYAVAGSDKYKLLYNLVTQNPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGD 368

Query: 110 MAQAHRNRVFHDFRSGLCRNLVCS 133
           + Q  R +    FR G  R LV +
Sbjct: 369 VPQHKRIKTLEGFREGKIRVLVAT 392

Length = 475

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

 Score = 47.6 bits (114), Expect = 3e-07
 Identities = 42/141 (29%), Positives = 63/141 (44%), Gaps = 21/141 (14%)

Query: 1   MLD----HVISILPHE----RQILLYSATFPL---TVKNFMEKHLKDPYEIN----LMEE 45
           MLD      I  +  E    +Q LL+SAT  L    V++F E+ L DP E+       E 
Sbjct: 159 MLDMGFAQDIETIAAETRWRKQTLLFSAT--LEGDAVQDFAERLLNDPVEVEAEPSRRER 216

Query: 46  LTLKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCY 104
              K + Q+Y    + + K   L  L  + ++ +SI+F  + +RV  LA  + + G  C 
Sbjct: 217 ---KKIHQWYYRADDLEHKTALLCHLLKQPEVTRSIVFVRTRERVHELAGWLRKAGINCC 273

Query: 105 YIHARMAQAHRNRVFHDFRSG 125
           Y+   M QA RN        G
Sbjct: 274 YLEGEMVQAKRNEAIKRLTDG 294

Length = 434

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

 Score = 44.1 bits (105), Expect = 5e-07
 Identities = 13/44 (29%), Positives = 22/44 (50%)

Query: 90  ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
           E LA+ + ELG     +H  ++Q  R  +   F +G  + LV +
Sbjct: 1   EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVAT 44

Length = 82

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

 Score = 47.3 bits (112), Expect = 5e-07
 Identities = 32/122 (26%), Positives = 58/122 (47%), Gaps = 1/122 (0%)

Query: 13  RQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCLNTLF 71
           RQ LL+SAT    V     +H+ +P ++ +  E +T   V Q   F  + +K   L  L 
Sbjct: 193 RQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFPADEEKQTLLLGLL 252

Query: 72  SKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLV 131
           S+ +  ++++F N+   VE +A+ +   GY    +   + Q  R  + + F+ G    LV
Sbjct: 253 SRSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILV 312

Query: 132 CS 133
            +
Sbjct: 313 AT 314

Length = 572

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

 Score = 44.1 bits (104), Expect = 5e-06
 Identities = 30/128 (23%), Positives = 58/128 (45%), Gaps = 7/128 (5%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLK-GVTQYYAFVQE 60
           ++ +++ +P   Q  L+SAT P  ++    + +K+P E+ +   +T +  ++Q Y  V  
Sbjct: 170 VETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVWG 229

Query: 61  RQKVHCLNTLFSKLQINQSIIFC---NSTQRVELLAKKITELGYCCYYIHARMAQAHRNR 117
            +K   L         + +IIF    N+T  V   A+ +   GY    ++  M QA R +
Sbjct: 230 MRKNEALVRFLEAEDFDAAIIFVRTKNATLEV---AEALERNGYNSAALNGDMNQALREQ 286

Query: 118 VFHDFRSG 125
                + G
Sbjct: 287 TLERLKDG 294

Length = 629

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

 Score = 41.4 bits (98), Expect = 7e-06
 Identities = 11/40 (27%), Positives = 20/40 (50%)

Query: 94  KKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
           K + + G     +H  ++Q  R  +  DFR+G  + LV +
Sbjct: 1   KLLRKPGIKVARLHGGLSQEEREEILEDFRNGKSKVLVAT 40

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|214692 smart00487, DEXDc, DEAD-like helicases superfamily

 Score = 42.1 bits (99), Expect = 2e-05
 Identities = 18/53 (33%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQY 54
           L+ ++ +LP   Q+LL SAT P  ++N +E  L DP  I++     L+ + Q+
Sbjct: 150 LEKLLKLLPKNVQLLLLSATPPEEIENLLELFLNDPVFIDV-GFTPLEPIEQF 201

Length = 201

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

 Score = 37.8 bits (88), Expect = 7e-04
 Identities = 37/128 (28%), Positives = 55/128 (42%), Gaps = 10/128 (7%)

Query: 14  QILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCLNTLFS 72
           Q+LL+SAT    V+ F     KD   I++       K V Q   +V+ +QK      LF 
Sbjct: 302 QVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVETKQKKQ---KLFD 358

Query: 73  KLQINQ-----SIIFCNSTQRVELLAKKITEL-GYCCYYIHARMAQAHRNRVFHDFRSGL 126
            L+  Q     +++F +S    +LLA  IT + G     IH   +   R  V   F  G 
Sbjct: 359 ILKSKQHFKPPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGE 418

Query: 127 CRNLVCSG 134
              +V +G
Sbjct: 419 VPVIVATG 426

Length = 518

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

 Score = 37.5 bits (87), Expect = 0.001
 Identities = 14/48 (29%), Positives = 20/48 (41%)

Query: 78  QSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
           Q+I+F  S +R   LA  +T  G      HA +    R  V   F + 
Sbjct: 442 QTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQ 489

Length = 830

>gnl|CDD|223588 COG0514, RecQ, Superfamily II DNA helicase [DNA replication, recombination, and repair]

 Score = 36.1 bits (84), Expect = 0.003
 Identities = 15/54 (27%), Positives = 27/54 (50%)

Query: 79  SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVC 132
            II+C + ++VE LA+ + + G      HA ++   R RV   F +   + +V 
Sbjct: 233 GIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVA 286

Length = 590

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	140
KOG0328|consensus	400		100.0
KOG0326|consensus	459		99.97
COG0513	513	SrmB Superfamily II DNA and RNA helicases [DNA rep	99.97
KOG0331|consensus	519		99.97
KOG0333|consensus	673		99.96
KOG0330|consensus	476		99.96
PRK11776	460	ATP-dependent RNA helicase DbpA; Provisional	99.96
KOG0332|consensus	477		99.95
PRK11634	629	ATP-dependent RNA helicase DeaD; Provisional	99.95
KOG0327|consensus	397		99.95
PRK10590	456	ATP-dependent RNA helicase RhlE; Provisional	99.94
PRK04537	572	ATP-dependent RNA helicase RhlB; Provisional	99.94
PTZ00110	545	helicase; Provisional	99.94
PRK04837	423	ATP-dependent RNA helicase RhlB; Provisional	99.94
KOG0338|consensus	691		99.93
PRK01297	475	ATP-dependent RNA helicase RhlB; Provisional	99.93
PLN00206	518	DEAD-box ATP-dependent RNA helicase; Provisional	99.93
KOG0343|consensus	758		99.92
PRK11192	434	ATP-dependent RNA helicase SrmB; Provisional	99.92
PTZ00424	401	helicase 45; Provisional	99.92
KOG0342|consensus	543		99.92
KOG0335|consensus	482		99.91
KOG0345|consensus	567		99.91
KOG0340|consensus	442		99.9
KOG0336|consensus	629		99.89
KOG0341|consensus	610		99.89
KOG4284|consensus	980		99.89
KOG0339|consensus	731		99.89
TIGR03817	742	DECH_helic helicase/secretion neighborhood putativ	99.88
TIGR00614	470	recQ_fam ATP-dependent DNA helicase, RecQ family.	99.87
PRK11057	607	ATP-dependent DNA helicase RecQ; Provisional	99.87
KOG0334|consensus	997		99.86
TIGR01389	591	recQ ATP-dependent DNA helicase RecQ. The ATP-depe	99.86
PLN03137	1195	ATP-dependent DNA helicase; Q4-like; Provisional	99.86
PRK10689	1147	transcription-repair coupling factor; Provisional	99.85
TIGR02621	844	cas3_GSU0051 CRISPR-associated helicase Cas3, Anae	99.85
KOG0337|consensus	529		99.85
TIGR01587	358	cas3_core CRISPR-associated helicase Cas3. This mo	99.84
COG0514	590	RecQ Superfamily II DNA helicase [DNA replication,	99.84
KOG0346|consensus	569		99.84
KOG0344|consensus	593		99.83
TIGR00580	926	mfd transcription-repair coupling factor (mfd). Al	99.83
PRK09401	1176	reverse gyrase; Reviewed	99.82
TIGR01970	819	DEAH_box_HrpB ATP-dependent helicase HrpB. This mo	99.82
PRK11664	812	ATP-dependent RNA helicase HrpB; Provisional	99.81
PHA02653	675	RNA helicase NPH-II; Provisional	99.8
PRK09751	1490	putative ATP-dependent helicase Lhr; Provisional	99.78
TIGR03158	357	cas3_cyano CRISPR-associated helicase, Cyano-type.	99.77
TIGR01054	1171	rgy reverse gyrase. Generally, these gyrases are e	99.77
PRK13767	876	ATP-dependent helicase; Provisional	99.76
PRK14701	1638	reverse gyrase; Provisional	99.76
KOG0347|consensus	731		99.76
PRK00254	720	ski2-like helicase; Provisional	99.74
KOG0348|consensus	708		99.71
PRK10917	681	ATP-dependent DNA helicase RecG; Provisional	99.71
COG1202	830	Superfamily II helicase, archaea-specific [General	99.71
PRK02362	737	ski2-like helicase; Provisional	99.71
PRK01172	674	ski2-like helicase; Provisional	99.68
COG1201	814	Lhr Lhr-like helicases [General function predictio	99.67
KOG0351|consensus	941		99.66
PRK12898	656	secA preprotein translocase subunit SecA; Reviewed	99.65
TIGR00643	630	recG ATP-dependent DNA helicase RecG.	99.65
PRK11131	1294	ATP-dependent RNA helicase HrpA; Provisional	99.64
KOG0350|consensus	620		99.63
KOG0349|consensus	725		99.62
PRK09694	878	helicase Cas3; Provisional	99.56
cd00079	131	HELICc Helicase superfamily c-terminal domain; ass	99.55
PHA02558	501	uvsW UvsW helicase; Provisional	99.54
COG1204	766	Superfamily II helicase [General function predicti	99.54
PRK04914	956	ATP-dependent helicase HepA; Validated	99.53
COG4098	441	comFA Superfamily II DNA/RNA helicase required for	99.53
TIGR01967	1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	99.52
KOG0353|consensus	695		99.52
COG1200	677	RecG RecG-like helicase [DNA replication, recombin	99.52
TIGR00631	655	uvrb excinuclease ABC, B subunit. This family is b	99.52
TIGR03714	762	secA2 accessory Sec system translocase SecA2. Memb	99.48
PRK09200	790	preprotein translocase subunit SecA; Reviewed	99.47
PRK05298	652	excinuclease ABC subunit B; Provisional	99.47
PRK12904	830	preprotein translocase subunit SecA; Reviewed	99.45
KOG0951|consensus	1674		99.44
PRK13104	896	secA preprotein translocase subunit SecA; Reviewed	99.41
COG0556	663	UvrB Helicase subunit of the DNA excision repair c	99.4
COG1205	851	Distinct helicase family with a unique C-terminal	99.4
TIGR00963	745	secA preprotein translocase, SecA subunit. The pro	99.38
COG1197	1139	Mfd Transcription-repair coupling factor (superfam	99.37
COG1111	542	MPH1 ERCC4-like helicases [DNA replication, recomb	99.37
PRK13107	908	preprotein translocase subunit SecA; Reviewed	99.35
PRK12900	1025	secA preprotein translocase subunit SecA; Reviewed	99.34
PRK12906	796	secA preprotein translocase subunit SecA; Reviewed	99.33
PRK13766	773	Hef nuclease; Provisional	99.31
KOG0329|consensus	387		99.3
TIGR00595	505	priA primosomal protein N'. All proteins in this f	99.22
KOG0952|consensus	1230		99.21
KOG0354|consensus	746		99.21
KOG0352|consensus	641		99.17
COG1203	733	CRISPR-associated helicase Cas3 [Defense mechanism	99.17
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	99.14
PF00271	78	Helicase_C: Helicase conserved C-terminal domain;	99.13
PRK05580	679	primosome assembly protein PriA; Validated	99.11
TIGR00603	732	rad25 DNA repair helicase rad25. All proteins in t	99.07
KOG0950|consensus	1008		99.01
smart00490	82	HELICc helicase superfamily c-terminal domain.	98.92
KOG0922|consensus	674		98.87
KOG0948|consensus	1041		98.8
KOG0947|consensus	1248		98.73
COG1110	1187	Reverse gyrase [DNA replication, recombination, an	98.73
TIGR01407	850	dinG_rel DnaQ family exonuclease/DinG family helic	98.71
COG1061	442	SSL2 DNA or RNA helicases of superfamily II [Trans	98.63
PLN03142	1033	Probable chromatin-remodeling complex ATPase chain	98.57
COG4581	1041	Superfamily II RNA helicase [DNA replication, reco	98.55
KOG4150|consensus	1034		98.48
KOG0953|consensus	700		98.46
KOG0923|consensus	902		98.34
KOG0920|consensus	924		98.34
PRK11448	1123	hsdR type I restriction enzyme EcoKI subunit R; Pr	98.33
PF06862	442	DUF1253: Protein of unknown function (DUF1253); In	98.24
PRK12903	925	secA preprotein translocase subunit SecA; Reviewed	98.22
KOG0924|consensus	1042		98.16
PRK12326	764	preprotein translocase subunit SecA; Reviewed	98.14
PRK07246	820	bifunctional ATP-dependent DNA helicase/DNA polyme	98.0
PRK08074	928	bifunctional ATP-dependent DNA helicase/DNA polyme	97.95
PRK13103	913	secA preprotein translocase subunit SecA; Reviewed	97.89
CHL00122	870	secA preprotein translocase subunit SecA; Validate	97.85
PRK12899	970	secA preprotein translocase subunit SecA; Reviewed	97.84
PRK14873	665	primosome assembly protein PriA; Provisional	97.83
PRK12902	939	secA preprotein translocase subunit SecA; Reviewed	97.76
PRK12901	1112	secA preprotein translocase subunit SecA; Reviewed	97.76
COG1199	654	DinG Rad3-related DNA helicases [Transcription / D	97.76
TIGR00595	505	priA primosomal protein N'. All proteins in this f	97.74
KOG0925|consensus	699		97.73
PRK05580	679	primosome assembly protein PriA; Validated	97.69
COG1198	730	PriA Primosomal protein N' (replication factor Y)	97.67
PRK11747	697	dinG ATP-dependent DNA helicase DinG; Provisional	97.64
TIGR03117	636	cas_csf4 CRISPR-associated DEAD/DEAH-box helicase	97.61
COG1110	1187	Reverse gyrase [DNA replication, recombination, an	97.56
PRK10917	681	ATP-dependent DNA helicase RecG; Provisional	97.5
TIGR00604	705	rad3 DNA repair helicase (rad3). All proteins in t	97.49
KOG0392|consensus	1549		97.45
COG1198	730	PriA Primosomal protein N' (replication factor Y)	97.45
TIGR00643	630	recG ATP-dependent DNA helicase RecG.	97.33
PRK14701	1638	reverse gyrase; Provisional	97.28
KOG1000|consensus	689		97.23
PF13307	167	Helicase_C_2: Helicase C-terminal domain; PDB: 4A1	97.18
COG0513	513	SrmB Superfamily II DNA and RNA helicases [DNA rep	97.12
KOG0387|consensus	923		97.12
TIGR00614	470	recQ_fam ATP-dependent DNA helicase, RecQ family.	97.04
TIGR00580	926	mfd transcription-repair coupling factor (mfd). Al	96.99
TIGR01054	1171	rgy reverse gyrase. Generally, these gyrases are e	96.91
TIGR01389	591	recQ ATP-dependent DNA helicase RecQ. The ATP-depe	96.82
COG0553	866	HepA Superfamily II DNA/RNA helicases, SNF2 family	96.81
COG1200	677	RecG RecG-like helicase [DNA replication, recombin	96.79
cd00268	203	DEADc DEAD-box helicases. A diverse family of prot	96.77
PRK10689	1147	transcription-repair coupling factor; Provisional	96.75
KOG0385|consensus	971		96.72
KOG0389|consensus	941		96.65
KOG0384|consensus	1373		96.61
KOG0347|consensus	731		96.61
KOG0926|consensus	1172		96.43
KOG0388|consensus	1185		96.43
KOG0389|consensus	941		96.38
PRK11057	607	ATP-dependent DNA helicase RecQ; Provisional	96.32
KOG1002|consensus	791		96.3
PRK11776	460	ATP-dependent RNA helicase DbpA; Provisional	96.28
TIGR00348	667	hsdR type I site-specific deoxyribonuclease, HsdR	96.26
PLN03137	1195	ATP-dependent DNA helicase; Q4-like; Provisional	96.13
PRK11634	629	ATP-dependent RNA helicase DeaD; Provisional	96.11
PF00270	169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	96.1
COG0653	822	SecA Preprotein translocase subunit SecA (ATPase,	96.03
KOG0390|consensus	776		95.9
PRK04537	572	ATP-dependent RNA helicase RhlB; Provisional	95.78
PRK09401	1176	reverse gyrase; Reviewed	95.71
KOG1123|consensus	776		95.66
KOG0330|consensus	476		95.64
KOG0391|consensus	1958		95.64
COG0514	590	RecQ Superfamily II DNA helicase [DNA replication,	95.57
PRK11192	434	ATP-dependent RNA helicase SrmB; Provisional	95.52
KOG0949|consensus	1330		95.51
PRK01297	475	ATP-dependent RNA helicase RhlB; Provisional	95.46
COG1197	1139	Mfd Transcription-repair coupling factor (superfam	95.4
PRK04837	423	ATP-dependent RNA helicase RhlB; Provisional	95.36
cd01524	90	RHOD_Pyr_redox Member of the Rhodanese Homology Do	95.34
PF02399	824	Herpes_ori_bp: Origin of replication binding prote	95.17
TIGR03817	742	DECH_helic helicase/secretion neighborhood putativ	94.94
KOG0331|consensus	519		94.9
PRK10590	456	ATP-dependent RNA helicase RhlE; Provisional	94.83
cd01523	100	RHOD_Lact_B Member of the Rhodanese Homology Domai	94.81
KOG0338|consensus	691		94.77
smart00450	100	RHOD Rhodanese Homology Domain. An alpha beta fold	94.65
PRK12898	656	secA preprotein translocase subunit SecA; Reviewed	94.59
KOG0334|consensus	997		94.52
PRK13766	773	Hef nuclease; Provisional	94.44
TIGR00963	745	secA preprotein translocase, SecA subunit. The pro	94.43
cd01529	96	4RHOD_Repeats Member of the Rhodanese Homology Dom	94.42
smart00115	241	CASc Caspase, interleukin-1 beta converting enzyme	94.4
KOG0385|consensus	971		94.39
KOG0339|consensus	731		94.36
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	94.3
COG4096	875	HsdR Type I site-specific restriction-modification	94.09
cd01518	101	RHOD_YceA Member of the Rhodanese Homology Domain	94.01
PRK13104	896	secA preprotein translocase subunit SecA; Reviewed	93.93
cd01534	95	4RHOD_Repeat_3 Member of the Rhodanese Homology Do	93.77
PTZ00110	545	helicase; Provisional	93.68
PRK09751	1490	putative ATP-dependent helicase Lhr; Provisional	93.56
cd01526	122	RHOD_ThiF Member of the Rhodanese Homology Domain	93.52
cd01527	99	RHOD_YgaP Member of the Rhodanese Homology Domain	93.22
PRK09200	790	preprotein translocase subunit SecA; Reviewed	93.19
cd01521	110	RHOD_PspE2 Member of the Rhodanese Homology Domain	93.14
cd01444	96	GlpE_ST GlpE sulfurtransferase (ST) and homologs a	93.07
cd00158	89	RHOD Rhodanese Homology Domain (RHOD); an alpha be	93.05
PRK05320	257	rhodanese superfamily protein; Provisional	92.95
cd01449	118	TST_Repeat_2 Thiosulfate sulfurtransferase (TST),	92.91
cd01520	128	RHOD_YbbB Member of the Rhodanese Homology Domain	92.85
KOG0343|consensus	758		92.83
cd01528	101	RHOD_2 Member of the Rhodanese Homology Domain sup	92.82
PRK13103	913	secA preprotein translocase subunit SecA; Reviewed	92.8
cd01532	92	4RHOD_Repeat_1 Member of the Rhodanese Homology Do	92.77
cd00032	243	CASc Caspase, interleukin-1 beta converting enzyme	92.71
cd01533	109	4RHOD_Repeat_2 Member of the Rhodanese Homology Do	92.59
cd01525	105	RHOD_Kc Member of the Rhodanese Homology Domain su	92.44
COG1111	542	MPH1 ERCC4-like helicases [DNA replication, recomb	92.29
cd01519	106	RHOD_HSP67B2 Member of the Rhodanese Homology Doma	92.08
cd01447	103	Polysulfide_ST Polysulfide-sulfurtransferase - Rho	91.9
KOG0329|consensus	387		91.75
PRK12899	970	secA preprotein translocase subunit SecA; Reviewed	91.5
PRK12904	830	preprotein translocase subunit SecA; Reviewed	91.41
cd01448	122	TST_Repeat_1 Thiosulfate sulfurtransferase (TST),	91.33
smart00487	201	DEXDc DEAD-like helicases superfamily.	91.07
KOG0342|consensus	543		91.06
PRK02362	737	ski2-like helicase; Provisional	90.73
KOG0350|consensus	620		90.66
cd01535	145	4RHOD_Repeat_4 Member of the Rhodanese Homology Do	90.64
COG1205	851	Distinct helicase family with a unique C-terminal	90.58
TIGR00631	655	uvrb excinuclease ABC, B subunit. This family is b	90.35
smart00487	201	DEXDc DEAD-like helicases superfamily.	90.31
PRK01415	247	hypothetical protein; Validated	90.1
PRK13767	876	ATP-dependent helicase; Provisional	90.03
COG2519	256	GCD14 tRNA(1-methyladenosine) methyltransferase an	89.91
PF02602	231	HEM4: Uroporphyrinogen-III synthase HemD; InterPro	89.91
KOG0340|consensus	442		89.89
PF01751	100	Toprim: Toprim domain; InterPro: IPR006171 This is	89.87
TIGR02562	1110	cas3_yersinia CRISPR-associated helicase Cas3. The	89.71
KOG4439|consensus	901		89.63
PF02142	95	MGS: MGS-like domain This is a subfamily of this f	89.29
cd01445	138	TST_Repeats Thiosulfate sulfurtransferases (TST) c	89.27
cd06578	239	HemD Uroporphyrinogen-III synthase (HemD) catalyze	88.85
PRK10287	104	thiosulfate:cyanide sulfurtransferase; Provisional	88.66
PRK00254	720	ski2-like helicase; Provisional	88.58
PLN00206	518	DEAD-box ATP-dependent RNA helicase; Provisional	88.43
smart00851	90	MGS MGS-like domain. This domain composes the whol	88.26
PRK05928	249	hemD uroporphyrinogen-III synthase; Reviewed	88.24
cd01522	117	RHOD_1 Member of the Rhodanese Homology Domain sup	88.15
PRK05298	652	excinuclease ABC subunit B; Provisional	88.13
KOG0345|consensus	567		88.05
PTZ00424	401	helicase 45; Provisional	87.95
KOG0335|consensus	482		87.87
KOG0348|consensus	708		87.81
PRK00162	108	glpE thiosulfate sulfurtransferase; Validated	87.77
TIGR02621	844	cas3_GSU0051 CRISPR-associated helicase Cas3, Anae	87.46
PLN02160	136	thiosulfate sulfurtransferase	87.45
PRK05752	255	uroporphyrinogen-III synthase; Validated	87.4
TIGR03714	762	secA2 accessory Sec system translocase SecA2. Memb	87.21
PRK00142	314	putative rhodanese-related sulfurtransferase; Prov	87.15
KOG4284|consensus	980		87.14
TIGR00696	177	wecB_tagA_cpsF bacterial polymer biosynthesis prot	87.14
cd01530	121	Cdc25 Cdc25 phosphatases are members of the Rhodan	87.06
TIGR02981	101	phageshock_pspE phage shock operon rhodanese PspE.	86.88
KOG0386|consensus	1157		86.51
TIGR00596	814	rad1 DNA repair protein (rad1). This family is bas	86.49
KOG0951|consensus	1674		86.48
PF11019	252	DUF2608: Protein of unknown function (DUF2608); In	86.43
PRK11493	281	sseA 3-mercaptopyruvate sulfurtransferase; Provisi	86.22
TIGR03865	162	PQQ_CXXCW PQQ-dependent catabolism-associated CXXC	86.16
PRK06827	382	phosphoribosylpyrophosphate synthetase; Provisiona	86.14
KOG0352|consensus	641		86.12
KOG1015|consensus	1567		85.82
PF14617	252	CMS1: U3-containing 90S pre-ribosomal complex subu	85.39
KOG0346|consensus	569		84.82
PLN02723	320	3-mercaptopyruvate sulfurtransferase	84.64
PRK12326	764	preprotein translocase subunit SecA; Reviewed	84.46
smart00492	141	HELICc3 helicase superfamily c-terminal domain.	84.43
PF00581	113	Rhodanese: Rhodanese-like domain This Prosite entr	84.15
PRK09189	240	uroporphyrinogen-III synthase; Validated	84.09
KOG0351|consensus	941		84.02
cd06533	171	Glyco_transf_WecG_TagA The glycosyltransferase Wec	83.89
smart00493	76	TOPRIM topoisomerases, DnaG-type primases, OLD fam	83.49
PF03808	172	Glyco_tran_WecB: Glycosyl transferase WecB/TagA/Cp	83.47
cd01446	132	DSP_MapKP N-terminal regulatory rhodanese domain o	83.32
KOG0341|consensus	610		82.83
COG0607	110	PspE Rhodanese-related sulfurtransferase [Inorgani	82.26
COG1204	766	Superfamily II helicase [General function predicti	82.17
PRK05597	355	molybdopterin biosynthesis protein MoeB; Validated	81.95
PRK15327	393	type III secretion system needle complex protein P	81.91
PRK09860	383	putative alcohol dehydrogenase; Provisional	81.84
PRK12906	796	secA preprotein translocase subunit SecA; Reviewed	81.63
PRK13958	207	N-(5'-phosphoribosyl)anthranilate isomerase; Provi	81.18
PF08704	247	GCD14: tRNA methyltransferase complex GCD14 subuni	80.98
cd03418	75	GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX b	80.78
cd03027	73	GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Eg	80.65
KOG0384|consensus	1373		80.15
TIGR03167	311	tRNA_sel_U_synt tRNA 2-selenouridine synthase. The	80.13

>KOG0328|consensus

Probab=100.00  E-value=9.3e-33  Score=189.81  Aligned_cols=140  Identities=32%  Similarity=0.583  Sum_probs=133.3

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCc-cchHHHHHHHHhhCCCCc
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQE-RQKVHCLNTLFSKLQINQ   78 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~-~~k~~~l~~ll~~~~~~~   78 (140)
                      |+.+|.+++|++.|.+++|||+|..+.+....++.+|..+-++ ++...+.+.++|+.++. ++|.+.|+++...+...|
T Consensus       189 Qiydiyr~lp~~~Qvv~~SATlp~eilemt~kfmtdpvrilvkrdeltlEgIKqf~v~ve~EewKfdtLcdLYd~LtItQ  268 (400)
T KOG0328|consen  189 QIYDIYRYLPPGAQVVLVSATLPHEILEMTEKFMTDPVRILVKRDELTLEGIKQFFVAVEKEEWKFDTLCDLYDTLTITQ  268 (400)
T ss_pred             HHHHHHHhCCCCceEEEEeccCcHHHHHHHHHhcCCceeEEEecCCCchhhhhhheeeechhhhhHhHHHHHhhhhehhe
Confidence            5778999999999999999999999999999999999999888 56788889999999975 569999999999999999


Q ss_pred             EEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++|||||++.++++.+.+++.++.|..+||+|++++|.+++++||.|+.+||+|||+-||||
T Consensus       269 avIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~SrvLitTDVwaRGi  330 (400)
T KOG0328|consen  269 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTDVWARGI  330 (400)
T ss_pred             EEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCceEEEEechhhccC
Confidence            99999999999999999999999999999999999999999999999999999999999997

>KOG0326|consensus

Probab=99.97  E-value=4.9e-32  Score=188.95  Aligned_cols=139  Identities=82%  Similarity=1.294  Sum_probs=136.3

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSII   81 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lI   81 (140)
                      +++++..+|+++|++++|||+|-.+.....+++++|..|...++..+..+.|+|.++++.+|+.-|..+..++...|.||
T Consensus       248 ~e~li~~lP~~rQillySATFP~tVk~Fm~~~l~kPy~INLM~eLtl~GvtQyYafV~e~qKvhCLntLfskLqINQsII  327 (459)
T KOG0326|consen  248 VEKLISFLPKERQILLYSATFPLTVKGFMDRHLKKPYEINLMEELTLKGVTQYYAFVEERQKVHCLNTLFSKLQINQSII  327 (459)
T ss_pred             HHHHHHhCCccceeeEEecccchhHHHHHHHhccCcceeehhhhhhhcchhhheeeechhhhhhhHHHHHHHhcccceEE
Confidence            67899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||||.+.+|.+|+++.+.|+.|.++|+.|-++.|+.++.+|++|.++.|||||++-||+
T Consensus       328 FCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL~TRGI  386 (459)
T KOG0326|consen  328 FCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGI  386 (459)
T ss_pred             EeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhccccceeeehhhhhccc
Confidence            99999999999999999999999999999999999999999999999999999999996

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

Probab=99.97  E-value=3.2e-30  Score=194.98  Aligned_cols=140  Identities=30%  Similarity=0.523  Sum_probs=132.5

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-Ccc--cCCCeEEEEEEcCccc-hHHHHHHHHhhCCC
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EEL--TLKGVTQYYAFVQERQ-KVHCLNTLFSKLQI   76 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~--~~~~i~~~~~~~~~~~-k~~~l~~ll~~~~~   76 (140)
                      ++..|++.+|.+.|+++||||+|..+..+.+.++++|..+.+. ...  ..+.+.|+++.++..+ |...|..+++....
T Consensus       194 ~i~~I~~~~p~~~qtllfSAT~~~~i~~l~~~~l~~p~~i~v~~~~~~~~~~~i~q~~~~v~~~~~k~~~L~~ll~~~~~  273 (513)
T COG0513         194 DIEKILKALPPDRQTLLFSATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEVESEEEKLELLLKLLKDEDE  273 (513)
T ss_pred             HHHHHHHhCCcccEEEEEecCCCHHHHHHHHHHccCCcEEEEccccccccccCceEEEEEeCCHHHHHHHHHHHHhcCCC
Confidence            4789999999999999999999999999999999999988887 333  7899999999999776 99999999999888


Q ss_pred             CcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         77 NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .++||||+|+..++.++..|+..|+++..+||++++++|..++++|++|+.++|||||++||||
T Consensus       274 ~~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaTDvaaRGi  337 (513)
T COG0513         274 GRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGL  337 (513)
T ss_pred             CeEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEechhhccC
Confidence            8999999999999999999999999999999999999999999999999999999999999997

>KOG0331|consensus

Probab=99.97  E-value=1.6e-30  Score=192.78  Aligned_cols=140  Identities=26%  Similarity=0.454  Sum_probs=129.8

Q ss_pred             CHHHHHhhC-CCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCC---cccCCCeEEEEEEcCccchHHHHHHHHhhC--
Q psy13287          1 MLDHVISIL-PHERQILLYSATFPLTVKNFMEKHLKDPYEINLME---ELTLKGVTQYYAFVQERQKVHCLNTLFSKL--   74 (140)
Q Consensus         1 ~l~~il~~~-~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~---~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~--   74 (140)
                      ||++|+..+ ++..|++++|||+|.+++.++..++.+|..+.+..   ...+.++.|.+..|++..|...|.++|.+.  
T Consensus       259 qI~~Il~~i~~~~rQtlm~saTwp~~v~~lA~~fl~~~~~i~ig~~~~~~a~~~i~qive~~~~~~K~~~l~~lL~~~~~  338 (519)
T KOG0331|consen  259 QIRKILSQIPRPDRQTLMFSATWPKEVRQLAEDFLNNPIQINVGNKKELKANHNIRQIVEVCDETAKLRKLGKLLEDISS  338 (519)
T ss_pred             HHHHHHHhcCCCcccEEEEeeeccHHHHHHHHHHhcCceEEEecchhhhhhhcchhhhhhhcCHHHHHHHHHHHHHHHhc
Confidence            588999999 55669999999999999999999999999888873   357889999999999999999999988777  


Q ss_pred             -CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         75 -QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        75 -~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                       +.+++||||+|++.|++++..|+..++++..+||+.++++|..+++.|++|+..||||||+|||||
T Consensus       339 ~~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdVAaRGL  405 (519)
T KOG0331|consen  339 DSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDVAARGL  405 (519)
T ss_pred             cCCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhcccCCcceEEEcccccccC
Confidence             467999999999999999999999999999999999999999999999999999999999999997

>KOG0333|consensus

Probab=99.96  E-value=4e-28  Score=178.09  Aligned_cols=128  Identities=25%  Similarity=0.345  Sum_probs=122.8

Q ss_pred             CeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHH
Q psy13287         13 RQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVEL   91 (140)
Q Consensus        13 ~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~   91 (140)
                      .|+++||||+||.+..+++.+|.+|.++.++ .+...+.+.|.+..+.+++|...|.++|++....++|||+|+++.|+.
T Consensus       453 rqT~mftatm~p~verlar~ylr~pv~vtig~~gk~~~rveQ~v~m~~ed~k~kkL~eil~~~~~ppiIIFvN~kk~~d~  532 (673)
T KOG0333|consen  453 RQTVMFTATMPPAVERLARSYLRRPVVVTIGSAGKPTPRVEQKVEMVSEDEKRKKLIEILESNFDPPIIIFVNTKKGADA  532 (673)
T ss_pred             eEEEEEecCCChHHHHHHHHHhhCCeEEEeccCCCCccchheEEEEecchHHHHHHHHHHHhCCCCCEEEEEechhhHHH
Confidence            7999999999999999999999999999998 566778899999999999999999999998878899999999999999


Q ss_pred             HHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         92 LAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        92 ~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +|+.|.+.|++|..+||+.++++|+.+++.|++|..+||||||+++||+
T Consensus       533 lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~fr~~t~dIlVaTDvAgRGI  581 (673)
T KOG0333|consen  533 LAKILEKAGYKVTTLHGGKSQEQRENALADFREGTGDILVATDVAGRGI  581 (673)
T ss_pred             HHHHHhhccceEEEeeCCccHHHHHHHHHHHHhcCCCEEEEecccccCC
Confidence            9999999999999999999999999999999999999999999999997

>KOG0330|consensus

Probab=99.96  E-value=7.3e-29  Score=176.47  Aligned_cols=139  Identities=29%  Similarity=0.522  Sum_probs=133.2

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSI   80 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~l   80 (140)
                      ++.|++.+|..+|+++||||+|..+.++....+++|..+.+. ....-+++.|+|++++.-+|...|..+|+.......|
T Consensus       225 ld~ILk~ip~erqt~LfsATMt~kv~kL~rasl~~p~~v~~s~ky~tv~~lkQ~ylfv~~k~K~~yLV~ll~e~~g~s~i  304 (476)
T KOG0330|consen  225 LDYILKVIPRERQTFLFSATMTKKVRKLQRASLDNPVKVAVSSKYQTVDHLKQTYLFVPGKDKDTYLVYLLNELAGNSVI  304 (476)
T ss_pred             HHHHHHhcCccceEEEEEeecchhhHHHHhhccCCCeEEeccchhcchHHhhhheEeccccccchhHHHHHHhhcCCcEE
Confidence            688999999999999999999999999999999999999887 5678889999999999999999999999998889999


Q ss_pred             EEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||+|..++++++-.|+..|+.+..+||.|++..|...+++|++|..+||||||++|||+
T Consensus       305 VF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~TDVaSRGL  364 (476)
T KOG0330|consen  305 VFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTDVASRGL  364 (476)
T ss_pred             EEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhccCCcEEEecchhcccC
Confidence            999999999999999999999999999999999999999999999999999999999997

>PRK11776 ATP-dependent RNA helicase DbpA; Provisional

Probab=99.96  E-value=1.2e-27  Score=179.40  Aligned_cols=139  Identities=24%  Similarity=0.468  Sum_probs=130.3

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSII   81 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lI   81 (140)
                      +..+++.++...|++++|||+|+.+..+...++++|..+.+......+.+.+.++.++..+|...+..++....+.++||
T Consensus       168 l~~i~~~~~~~~q~ll~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lV  247 (460)
T PRK11776        168 IDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTHDLPAIEQRFYEVSPDERLPALQRLLLHHQPESCVV  247 (460)
T ss_pred             HHHHHHhCCcccEEEEEEecCcHHHHHHHHHhcCCCEEEEECcCCCCCCeeEEEEEeCcHHHHHHHHHHHHhcCCCceEE
Confidence            67889999999999999999999999999999999998888765566779999999988889999999998888889999


Q ss_pred             EeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||+|++.++.+++.|.+.++.+..+||++++.+|..++++|++|++++|||||+++||+
T Consensus       248 F~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaTdv~~rGi  306 (460)
T PRK11776        248 FCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGL  306 (460)
T ss_pred             EECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEeccccccc
Confidence            99999999999999999999999999999999999999999999999999999999996

>KOG0332|consensus

Probab=99.95  E-value=2.1e-27  Score=168.47  Aligned_cols=137  Identities=28%  Similarity=0.458  Sum_probs=129.1

Q ss_pred             HHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcC-ccchHHHHHHHHhhCCCCcEEE
Q psy13287          4 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSII   81 (140)
Q Consensus         4 ~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~-~~~k~~~l~~ll~~~~~~~~lI   81 (140)
                      +|.+.+|++.|.++||||+...+.+.+.+.+.++..+.+. ++....+|.|+++.|+ ..+|++.|.+++.-...++.||
T Consensus       256 rI~~~lP~~~QllLFSATf~e~V~~Fa~kivpn~n~i~Lk~eel~L~~IkQlyv~C~~~~~K~~~l~~lyg~~tigqsiI  335 (477)
T KOG0332|consen  256 RIMRSLPRNQQLLLFSATFVEKVAAFALKIVPNANVIILKREELALDNIKQLYVLCACRDDKYQALVNLYGLLTIGQSII  335 (477)
T ss_pred             hhhhhcCCcceEEeeechhHHHHHHHHHHhcCCCceeeeehhhccccchhhheeeccchhhHHHHHHHHHhhhhhhheEE
Confidence            5778888999999999999999999999999999888887 6678899999999996 5679999999888878899999


Q ss_pred             EeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||.|+++|++++..|+..|+.|..+||+|.-++|..++++||.|+.+|||+||+.+||+
T Consensus       336 Fc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTnV~ARGi  394 (477)
T KOG0332|consen  336 FCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTNVCARGI  394 (477)
T ss_pred             EEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCcceEEEEechhhccc
Confidence            99999999999999999999999999999999999999999999999999999999996

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional

Probab=99.95  E-value=2.8e-26  Score=176.77  Aligned_cols=139  Identities=20%  Similarity=0.355  Sum_probs=129.0

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSI   80 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~l   80 (140)
                      +..|++.++..+|+++||||+|+.+..+.+.++.+|..+.+. .....+.+.+.++.+....|.+.|..++......++|
T Consensus       170 i~~Il~~lp~~~q~llfSAT~p~~i~~i~~~~l~~~~~i~i~~~~~~~~~i~q~~~~v~~~~k~~~L~~~L~~~~~~~~I  249 (629)
T PRK11634        170 VETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVWGMRKNEALVRFLEAEDFDAAI  249 (629)
T ss_pred             HHHHHHhCCCCCeEEEEEccCChhHHHHHHHHcCCCeEEEccCccccCCceEEEEEEechhhHHHHHHHHHHhcCCCCEE
Confidence            678899999999999999999999999999999999888776 3456678889988888889999999999887788999


Q ss_pred             EEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||+|+..++.+++.|.+.|+.+..+||++++.+|..++++|++|++++|||||+++||+
T Consensus       250 VF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVATdv~arGI  309 (629)
T PRK11634        250 IFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGL  309 (629)
T ss_pred             EEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEcchHhcCC
Confidence            999999999999999999999999999999999999999999999999999999999996

>KOG0327|consensus

Probab=99.95  E-value=7.5e-27  Score=165.76  Aligned_cols=138  Identities=31%  Similarity=0.584  Sum_probs=132.1

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcE
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQS   79 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~   79 (140)
                      +|.+|++.+|++.|++++|||+|+++....++++++|..+.++ .+...+.++|+++.+..++|+..|..+.+  ...+.
T Consensus       189 qI~~if~~lp~~vQv~l~SAT~p~~vl~vt~~f~~~pv~i~vkk~~ltl~gikq~~i~v~k~~k~~~l~dl~~--~~~q~  266 (397)
T KOG0327|consen  189 QIYDIFQELPSDVQVVLLSATMPSDVLEVTKKFMREPVRILVKKDELTLEGIKQFYINVEKEEKLDTLCDLYR--RVTQA  266 (397)
T ss_pred             HHHHHHHHcCcchhheeecccCcHHHHHHHHHhccCceEEEecchhhhhhheeeeeeeccccccccHHHHHHH--hhhcc
Confidence            4789999999999999999999999999999999999999998 66789999999999998889999999988  57889


Q ss_pred             EEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +|||||++.+..+..+|...+..+.++||++.+.+|..++..|+.|..++||+||++||||
T Consensus       267 ~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~gssrvlIttdl~argi  327 (397)
T KOG0327|consen  267 VIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDLLARGI  327 (397)
T ss_pred             eEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcCCceEEeecccccccc
Confidence            9999999999999999988899999999999999999999999999999999999999997

>PRK10590 ATP-dependent RNA helicase RhlE; Provisional

Probab=99.94  E-value=8.2e-26  Score=169.38  Aligned_cols=139  Identities=31%  Similarity=0.451  Sum_probs=126.6

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSI   80 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~l   80 (140)
                      ++.++..++...|++++|||+++.+..+...++.++..+.+. .....+.+.+.+..++...|.+.+..++......++|
T Consensus       170 i~~il~~l~~~~q~l~~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~~~~k~~~l~~l~~~~~~~~~l  249 (456)
T PRK10590        170 IRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFVDKKRKRELLSQMIGKGNWQQVL  249 (456)
T ss_pred             HHHHHHhCCccCeEEEEeCCCcHHHHHHHHHHcCCCeEEEEecccccccceeEEEEEcCHHHHHHHHHHHHHcCCCCcEE
Confidence            567888899999999999999999999999999998887776 3445677888888888888888888888877778999


Q ss_pred             EEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||+++..++.+++.|++.++.+..+||++++.+|..++++|++|++++|||||+++||+
T Consensus       250 VF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaTdv~~rGi  309 (456)
T PRK10590        250 VFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGL  309 (456)
T ss_pred             EEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEccHHhcCC
Confidence            999999999999999999999999999999999999999999999999999999999996

>PRK04537 ATP-dependent RNA helicase RhlB; Provisional

Probab=99.94  E-value=9.5e-26  Score=172.60  Aligned_cols=139  Identities=24%  Similarity=0.381  Sum_probs=125.8

Q ss_pred             HHHHHhhCCC--CCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCc
Q psy13287          2 LDHVISILPH--ERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQ   78 (140)
Q Consensus         2 l~~il~~~~~--~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~   78 (140)
                      ++.|++.++.  +.|+++||||++..+..+...++.++..+.+. .......+.|.+..+...+|...+..++......+
T Consensus       180 i~~il~~lp~~~~~q~ll~SATl~~~v~~l~~~~l~~p~~i~v~~~~~~~~~i~q~~~~~~~~~k~~~L~~ll~~~~~~k  259 (572)
T PRK04537        180 IRFLLRRMPERGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFPADEEKQTLLLGLLSRSEGAR  259 (572)
T ss_pred             HHHHHHhcccccCceEEEEeCCccHHHHHHHHHHhcCCcEEEeccccccccceeEEEEecCHHHHHHHHHHHHhcccCCc
Confidence            5678888886  68999999999999999999999888777665 33456778898888888889999999998877889


Q ss_pred             EEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +||||||+..++.+++.|.+.++.+..+||++++.+|..++++|++|+++||||||+++||+
T Consensus       260 ~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTdv~arGI  321 (572)
T PRK04537        260 TMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGL  321 (572)
T ss_pred             EEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEehhhhcCC
Confidence            99999999999999999999999999999999999999999999999999999999999997

>PTZ00110 helicase; Provisional

Probab=99.94  E-value=1.7e-25  Score=170.48  Aligned_cols=140  Identities=22%  Similarity=0.393  Sum_probs=124.6

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhcc-CCcEEEcCC--cccCCCeEEEEEEcCccchHHHHHHHHhhC--C
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLK-DPYEINLME--ELTLKGVTQYYAFVQERQKVHCLNTLFSKL--Q   75 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~-~~~~i~~~~--~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~--~   75 (140)
                      ++.+|+..+++++|++++|||+|..+..+.+.++. ++..+.+..  .....++.+.+..++..+|...|.+++...  .
T Consensus       297 ~i~~il~~~~~~~q~l~~SAT~p~~v~~l~~~l~~~~~v~i~vg~~~l~~~~~i~q~~~~~~~~~k~~~L~~ll~~~~~~  376 (545)
T PTZ00110        297 QIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTACHNIKQEVFVVEEHEKRGKLKMLLQRIMRD  376 (545)
T ss_pred             HHHHHHHhCCCCCeEEEEEeCCCHHHHHHHHHHhccCCEEEEECCCccccCCCeeEEEEEEechhHHHHHHHHHHHhccc
Confidence            36788889989999999999999999999998886 566676653  235577888888888888999999988776  4


Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ..++||||++++.|+.+++.|+..++.+..+||++++++|..++++|++|+++||||||+++||+
T Consensus       377 ~~k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~G~~~ILVaTdv~~rGI  441 (545)
T PTZ00110        377 GDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRGL  441 (545)
T ss_pred             CCeEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhcCCCcEEEEcchhhcCC
Confidence            67999999999999999999999999999999999999999999999999999999999999996

>PRK04837 ATP-dependent RNA helicase RhlB; Provisional

Probab=99.94  E-value=2.1e-25  Score=165.90  Aligned_cols=139  Identities=21%  Similarity=0.326  Sum_probs=124.3

Q ss_pred             HHHHHhhCCC--CCeEEEEEecCchhHHHHHHHhccCCcEEEcCC-cccCCCeEEEEEEcCccchHHHHHHHHhhCCCCc
Q psy13287          2 LDHVISILPH--ERQILLYSATFPLTVKNFMEKHLKDPYEINLME-ELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQ   78 (140)
Q Consensus         2 l~~il~~~~~--~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~   78 (140)
                      ++.|++.++.  ..|.+++|||++..+.......+.+|..+.+.+ ......+.+.+.++...+|...+..++......+
T Consensus       178 i~~i~~~~~~~~~~~~~l~SAT~~~~~~~~~~~~~~~p~~i~v~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~  257 (423)
T PRK04837        178 IRWLFRRMPPANQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKEELFYPSNEEKMRLLQTLIEEEWPDR  257 (423)
T ss_pred             HHHHHHhCCCccceeEEEEeccCCHHHHHHHHHHCCCCEEEEEcCCCcCCCceeEEEEeCCHHHHHHHHHHHHHhcCCCe
Confidence            5667888874  567899999999999999999999998887763 3455677888887788889999999998877889


Q ss_pred             EEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +||||+++..|+.+++.|+..|+++..+||++++++|..++++|++|++++|||||+++||+
T Consensus       258 ~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~g~~~vLVaTdv~~rGi  319 (423)
T PRK04837        258 AIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDVAARGL  319 (423)
T ss_pred             EEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHcCCCcEEEEechhhcCC
Confidence            99999999999999999999999999999999999999999999999999999999999997

>KOG0338|consensus

Probab=99.93  E-value=1.1e-25  Score=165.03  Aligned_cols=140  Identities=21%  Similarity=0.326  Sum_probs=129.2

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCC-cccCCCeEEEEEEcC---ccchHHHHHHHHhhCCC
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME-ELTLKGVTQYYAFVQ---ERQKVHCLNTLFSKLQI   76 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~i~~~~~~~~---~~~k~~~l~~ll~~~~~   76 (140)
                      ++++|++.+|+++|++||||||+..+.+++.-.+..|..+.+++ ....+.+.|.|+.+.   +.++...|..++.+.-.
T Consensus       347 emnEii~lcpk~RQTmLFSATMteeVkdL~slSL~kPvrifvd~~~~~a~~LtQEFiRIR~~re~dRea~l~~l~~rtf~  426 (691)
T KOG0338|consen  347 EMNEIIRLCPKNRQTMLFSATMTEEVKDLASLSLNKPVRIFVDPNKDTAPKLTQEFIRIRPKREGDREAMLASLITRTFQ  426 (691)
T ss_pred             HHHHHHHhccccccceeehhhhHHHHHHHHHhhcCCCeEEEeCCccccchhhhHHHheeccccccccHHHHHHHHHHhcc
Confidence            47899999999999999999999999999999999999999985 467889999988775   44688889999988888


Q ss_pred             CcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         77 NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .++|||+.|++.|-++.=.|-=.|++++-+||.+++++|...+++|+++++++|||||++||||
T Consensus       427 ~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsRGL  490 (691)
T KOG0338|consen  427 DRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASRGL  490 (691)
T ss_pred             cceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhccCCEEEEechhhccC
Confidence            9999999999999999877777799999999999999999999999999999999999999997

>PRK01297 ATP-dependent RNA helicase RhlB; Provisional

Probab=99.93  E-value=4.9e-24  Score=160.56  Aligned_cols=139  Identities=24%  Similarity=0.345  Sum_probs=124.1

Q ss_pred             HHHHHhhCCC--CCeEEEEEecCchhHHHHHHHhccCCcEEEcCC-cccCCCeEEEEEEcCccchHHHHHHHHhhCCCCc
Q psy13287          2 LDHVISILPH--ERQILLYSATFPLTVKNFMEKHLKDPYEINLME-ELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQ   78 (140)
Q Consensus         2 l~~il~~~~~--~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~   78 (140)
                      +++|++.++.  +.|++++|||++.++.+..+.++.++..+.+.. ....+++.+.+..+...+|...+..++......+
T Consensus       258 l~~i~~~~~~~~~~q~i~~SAT~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~k~~~l~~ll~~~~~~~  337 (475)
T PRK01297        258 VRQIIRQTPRKEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQHVYAVAGSDKYKLLYNLVTQNPWER  337 (475)
T ss_pred             HHHHHHhCCCCCCceEEEEEeecCHHHHHHHHHhccCCEEEEeccCcCCCCcccEEEEEecchhHHHHHHHHHHhcCCCe
Confidence            5677887764  579999999999999999999999988877763 3445667777777788889999999998877789


Q ss_pred             EEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +||||++++.++.+++.|.+.++.+..+||++++++|.+++++|++|++++|||||+++||+
T Consensus       338 ~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT~~l~~GI  399 (475)
T PRK01297        338 VMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGI  399 (475)
T ss_pred             EEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEccccccCC
Confidence            99999999999999999999999999999999999999999999999999999999999996

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

Probab=99.93  E-value=3.5e-24  Score=162.67  Aligned_cols=138  Identities=26%  Similarity=0.326  Sum_probs=121.3

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCC--CCc
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQ--INQ   78 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~--~~~   78 (140)
                      +.+|+..++ +.|++++|||+|+.+..+...++.++..+.+. .......+.+.+.+++..+|...+.+++....  .++
T Consensus       291 i~~i~~~l~-~~q~l~~SATl~~~v~~l~~~~~~~~~~i~~~~~~~~~~~v~q~~~~~~~~~k~~~l~~~l~~~~~~~~~  369 (518)
T PLN00206        291 VMQIFQALS-QPQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVETKQKKQKLFDILKSKQHFKPP  369 (518)
T ss_pred             HHHHHHhCC-CCcEEEEEeeCCHHHHHHHHHhCCCCEEEEeCCCCCCCcceeEEEEeccchhHHHHHHHHHHhhcccCCC
Confidence            456777774 68999999999999999999999998888876 34556778899999988888888888887543  368


Q ss_pred             EEEEeCchHHHHHHHHHHHh-cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         79 SIIFCNSTQRVELLAKKITE-LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~-~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +||||+++..++.+++.|+. .++++..+||++++.+|..++++|++|+++||||||+++||+
T Consensus       370 ~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G~~~ILVaTdvl~rGi  432 (518)
T PLN00206        370 AVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGRGV  432 (518)
T ss_pred             EEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCCCCCEEEEecHhhccC
Confidence            99999999999999999986 589999999999999999999999999999999999999997

>KOG0343|consensus

Probab=99.92  E-value=1e-24  Score=161.30  Aligned_cols=140  Identities=28%  Similarity=0.404  Sum_probs=132.4

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC---CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCC
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM---EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQIN   77 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~---~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~   77 (140)
                      +++.|+..+|..+|+++||||-+..+.++++-.+.+|..|.+.   ....+.++.|+|+.++-++|+..|...+......
T Consensus       235 tL~~Ii~~lP~~RQTLLFSATqt~svkdLaRLsL~dP~~vsvhe~a~~atP~~L~Q~y~~v~l~~Ki~~L~sFI~shlk~  314 (758)
T KOG0343|consen  235 TLNAIIENLPKKRQTLLFSATQTKSVKDLARLSLKDPVYVSVHENAVAATPSNLQQSYVIVPLEDKIDMLWSFIKSHLKK  314 (758)
T ss_pred             HHHHHHHhCChhheeeeeecccchhHHHHHHhhcCCCcEEEEeccccccChhhhhheEEEEehhhHHHHHHHHHHhcccc
Confidence            3788999999999999999999999999999999999998886   2468899999999999999999999999998889


Q ss_pred             cEEEEeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         78 QSIIFCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++|||+.|.+++..+++.|++.  |+++..+||+|++..|.+++++|-..+--||+|||++||||
T Consensus       315 K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~~~~vLF~TDv~aRGL  379 (758)
T KOG0343|consen  315 KSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRKRAVVLFCTDVAARGL  379 (758)
T ss_pred             ceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHHHHHHHHHHhcceEEEeehhhhccC
Confidence            9999999999999999999987  88999999999999999999999998899999999999997

>PRK11192 ATP-dependent RNA helicase SrmB; Provisional

Probab=99.92  E-value=7.2e-24  Score=158.10  Aligned_cols=139  Identities=27%  Similarity=0.427  Sum_probs=121.8

Q ss_pred             HHHHHhhCCCCCeEEEEEecCch-hHHHHHHHhccCCcEEEcCC-cccCCCeEEEEEEcC-ccchHHHHHHHHhhCCCCc
Q psy13287          2 LDHVISILPHERQILLYSATFPL-TVKNFMEKHLKDPYEINLME-ELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQ   78 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~-~~~~~~~~~~~~~~~i~~~~-~~~~~~i~~~~~~~~-~~~k~~~l~~ll~~~~~~~   78 (140)
                      +..|...++...|+++||||++. .+..+...++.++..+...+ ......+.+++..++ ...|...|..+++.....+
T Consensus       168 ~~~i~~~~~~~~q~~~~SAT~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~~~~~k~~~l~~l~~~~~~~~  247 (434)
T PRK11192        168 IETIAAETRWRKQTLLFSATLEGDAVQDFAERLLNDPVEVEAEPSRRERKKIHQWYYRADDLEHKTALLCHLLKQPEVTR  247 (434)
T ss_pred             HHHHHHhCccccEEEEEEeecCHHHHHHHHHHHccCCEEEEecCCcccccCceEEEEEeCCHHHHHHHHHHHHhcCCCCe
Confidence            45677777778999999999985 47778888888888887763 345667888888776 4678899999988767889


Q ss_pred             EEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +||||++++.++.+++.|++.++++..+||++++.+|..++++|++|+++||||||+++||+
T Consensus       248 ~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaTd~~~~Gi  309 (434)
T PRK11192        248 SIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGI  309 (434)
T ss_pred             EEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEccccccCc
Confidence            99999999999999999999999999999999999999999999999999999999999996

>PTZ00424 helicase 45; Provisional

Probab=99.92  E-value=2.1e-23  Score=154.11  Aligned_cols=139  Identities=33%  Similarity=0.585  Sum_probs=122.5

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCc-cchHHHHHHHHhhCCCCcE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQE-RQKVHCLNTLFSKLQINQS   79 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~-~~k~~~l~~ll~~~~~~~~   79 (140)
                      +.++++.++++.|++++|||+|+.+......++.++..+.+. ......++.+.+..++. ..+...+..++......++
T Consensus       191 ~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  270 (401)
T PTZ00424        191 IYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVEKEEWKFDTLCDLYETLTITQA  270 (401)
T ss_pred             HHHHHhhCCCCcEEEEEEecCCHHHHHHHHHHcCCCEEEEeCCCCcccCCceEEEEecChHHHHHHHHHHHHHhcCCCeE
Confidence            456788888899999999999999999998999888777665 34456777888877764 4577888888887777899


Q ss_pred             EEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||||+|++.++.+++.|++.++.+..+||++++.+|..++++|++|++++||||++++||+
T Consensus       271 ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~~l~~Gi  331 (401)
T PTZ00424        271 IIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGI  331 (401)
T ss_pred             EEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEcccccCCc
Confidence            9999999999999999999999999999999999999999999999999999999999996

>KOG0342|consensus

Probab=99.92  E-value=2.8e-24  Score=156.77  Aligned_cols=140  Identities=27%  Similarity=0.395  Sum_probs=128.5

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhcc-CCcEEEcCC---cccCCCeEEEEEEcCccchHHHHHHHHhhCCC
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLK-DPYEINLME---ELTLKGVTQYYAFVQERQKVHCLNTLFSKLQI   76 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~-~~~~i~~~~---~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~   76 (140)
                      +|+.|++.+|.++|+++||||.|+.|++++..-++ +|..+...+   ....+.+.|-|+.++.+.++..+..+|++...
T Consensus       250 di~~Ii~~lpk~rqt~LFSAT~~~kV~~l~~~~L~~d~~~v~~~d~~~~~The~l~Qgyvv~~~~~~f~ll~~~LKk~~~  329 (543)
T KOG0342|consen  250 DVEQIIKILPKQRQTLLFSATQPSKVKDLARGALKRDPVFVNVDDGGERETHERLEQGYVVAPSDSRFSLLYTFLKKNIK  329 (543)
T ss_pred             HHHHHHHhccccceeeEeeCCCcHHHHHHHHHhhcCCceEeecCCCCCcchhhcccceEEeccccchHHHHHHHHHHhcC
Confidence            57899999999999999999999999999999887 588887763   45778899999989988889999998877654


Q ss_pred             -CcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         77 -NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        77 -~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                       .++||||.|...+..+++.|+...++|..+||++++..|-.+..+|++.+..||||||++||||
T Consensus       330 ~~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~cTDVaARGl  394 (543)
T KOG0342|consen  330 RYKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTDVAARGL  394 (543)
T ss_pred             CceEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhcccceEEecchhhccC
Confidence             8999999999999999999999999999999999999999999999999999999999999997

>KOG0335|consensus

Probab=99.91  E-value=9.8e-24  Score=154.91  Aligned_cols=140  Identities=27%  Similarity=0.378  Sum_probs=126.4

Q ss_pred             CHHHHHhhCCC----CCeEEEEEecCchhHHHHHHHhccC-CcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhC
Q psy13287          1 MLDHVISILPH----ERQILLYSATFPLTVKNFMEKHLKD-PYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKL   74 (140)
Q Consensus         1 ~l~~il~~~~~----~~q~v~~SAT~~~~~~~~~~~~~~~-~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~   74 (140)
                      +|++|+.+...    +.|+++||||+|..++.+...++.+ ...+.+. -+..++++.|.+.+|.+.+|...|.+++...
T Consensus       247 ~Ir~iv~~~~~~~~~~~qt~mFSAtfp~~iq~l~~~fl~~~yi~laV~rvg~~~~ni~q~i~~V~~~~kr~~Lldll~~~  326 (482)
T KOG0335|consen  247 QIRKIVEQLGMPPKNNRQTLLFSATFPKEIQRLAADFLKDNYIFLAVGRVGSTSENITQKILFVNEMEKRSKLLDLLNKD  326 (482)
T ss_pred             cHHHHhcccCCCCccceeEEEEeccCChhhhhhHHHHhhccceEEEEeeeccccccceeEeeeecchhhHHHHHHHhhcc
Confidence            57788888753    7899999999999999988888886 5666666 5678999999999999999999999999755


Q ss_pred             C----CC-----cEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         75 Q----IN-----QSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        75 ~----~~-----~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .    .+     .++|||.|++.|..++..|...++++..+||+..+.+|...++.|++|++.+||||++++||+
T Consensus       327 ~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg~~tq~er~~al~~Fr~g~~pvlVaT~VaaRGl  401 (482)
T KOG0335|consen  327 DGPPSDGEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIEREQALNDFRNGKAPVLVATNVAARGL  401 (482)
T ss_pred             cCCcccCCcccceEEEEeeccchhhHHHHHHhcCCCCceeecchhhhhHHHHHHHHhhcCCcceEEEehhhhcCC
Confidence            3    23     799999999999999999999999999999999999999999999999999999999999997

>KOG0345|consensus

Probab=99.91  E-value=9.4e-24  Score=153.51  Aligned_cols=140  Identities=24%  Similarity=0.383  Sum_probs=131.1

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcc---cCCCeEEEEEEcCccchHHHHHHHHhhCCCC
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEEL---TLKGVTQYYAFVQERQKVHCLNTLFSKLQIN   77 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~---~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~   77 (140)
                      +++.|+..+|+++.+-+||||.+..+.++.+..++||..+.+....   .+..+..+|+.|+...|...+..+|.....+
T Consensus       177 ~~n~ILs~LPKQRRTGLFSATq~~~v~dL~raGLRNpv~V~V~~k~~~~tPS~L~~~Y~v~~a~eK~~~lv~~L~~~~~k  256 (567)
T KOG0345|consen  177 SVNTILSFLPKQRRTGLFSATQTQEVEDLARAGLRNPVRVSVKEKSKSATPSSLALEYLVCEADEKLSQLVHLLNNNKDK  256 (567)
T ss_pred             HHHHHHHhcccccccccccchhhHHHHHHHHhhccCceeeeecccccccCchhhcceeeEecHHHHHHHHHHHHhccccc
Confidence            3688999999999999999999999999999999999999998433   7788999999999999999999999998899


Q ss_pred             cEEEEeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         78 QSIIFCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++|||++|...++.+...|...  +..+..+||.|++..|..++++|++..-.+|+|||++||||
T Consensus       257 K~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl~~TDVaARGl  321 (567)
T KOG0345|consen  257 KCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRKLSNGVLFCTDVAARGL  321 (567)
T ss_pred             cEEEEecCcchHHHHHHHHHHHhCCCcEEEecchhcchhHHHHHHHHHhccCceEEeehhhhccC
Confidence            9999999999999999999876  66899999999999999999999998889999999999997

>KOG0340|consensus

Probab=99.90  E-value=2.9e-23  Score=146.69  Aligned_cols=140  Identities=26%  Similarity=0.390  Sum_probs=121.5

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccC--CcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCC--
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKD--PYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQ--   75 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~--~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~--   75 (140)
                      +++.|++.+|..+|+++||||+++.+.++..--...  +...+.. +....+.+.+.|+.++...|-..+..+|.+..  
T Consensus       173 ~L~~i~e~lP~~RQtLlfSATitd~i~ql~~~~i~k~~a~~~e~~~~vstvetL~q~yI~~~~~vkdaYLv~~Lr~~~~~  252 (442)
T KOG0340|consen  173 ILEGIEECLPKPRQTLLFSATITDTIKQLFGCPITKSIAFELEVIDGVSTVETLYQGYILVSIDVKDAYLVHLLRDFENK  252 (442)
T ss_pred             HHhhhhccCCCccceEEEEeehhhHHHHhhcCCcccccceEEeccCCCCchhhhhhheeecchhhhHHHHHHHHhhhhhc
Confidence            367788889989999999999998877765444443  3344443 55788899999999999999888888887773  


Q ss_pred             -CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         76 -INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        76 -~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                       ++.++||+|+..+|+.++..|+..++++..+||.|++.+|...+.+|+.+.+++|||||++|||+
T Consensus       253 ~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaTDVAsRGL  318 (442)
T KOG0340|consen  253 ENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNAARILIATDVASRGL  318 (442)
T ss_pred             cCceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcCccEEEEechhhcCC
Confidence             46799999999999999999999999999999999999999999999999999999999999997

>KOG0336|consensus

Probab=99.89  E-value=7.1e-23  Score=147.44  Aligned_cols=140  Identities=21%  Similarity=0.338  Sum_probs=126.5

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCC--cccCCCeEEEEEEcCccchHHHHHHHHhhC-CCC
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME--ELTLKGVTQYYAFVQERQKVHCLNTLFSKL-QIN   77 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~--~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~-~~~   77 (140)
                      ||++|+=.+.+++|+++.|||+|+.++.+...++++|..+.++.  -.....+.|.++...+.+|.+.+..++... ++.
T Consensus       387 qIrkilldiRPDRqtvmTSATWP~~VrrLa~sY~Kep~~v~vGsLdL~a~~sVkQ~i~v~~d~~k~~~~~~f~~~ms~nd  466 (629)
T KOG0336|consen  387 QIRKILLDIRPDRQTVMTSATWPEGVRRLAQSYLKEPMIVYVGSLDLVAVKSVKQNIIVTTDSEKLEIVQFFVANMSSND  466 (629)
T ss_pred             HHHHHhhhcCCcceeeeecccCchHHHHHHHHhhhCceEEEecccceeeeeeeeeeEEecccHHHHHHHHHHHHhcCCCc
Confidence            57788888889999999999999999999999999999988873  335567888886666788999998888877 568


Q ss_pred             cEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         78 QSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++||||..+-.|+.+...|.-.|+....+||+-++.+|+..++.|+.|+++|||+||+++|||
T Consensus       467 KvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG~vrILvaTDlaSRGl  529 (629)
T KOG0336|consen  467 KVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGEVRILVATDLASRGL  529 (629)
T ss_pred             eEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHHhhhcCceEEEEEechhhcCC
Confidence            999999999999999999988899999999999999999999999999999999999999997

>KOG0341|consensus

Probab=99.89  E-value=2.5e-23  Score=148.99  Aligned_cols=139  Identities=24%  Similarity=0.326  Sum_probs=126.9

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCC-cccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcE
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME-ELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQS   79 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~   79 (140)
                      ||+.|+.+....+|+++||||+|..++.+++.-+-.|..+++++ +..+-++.|.+.++..+.|+--|.+-|++. ..++
T Consensus       346 dir~iF~~FK~QRQTLLFSATMP~KIQ~FAkSALVKPvtvNVGRAGAAsldViQevEyVkqEaKiVylLeCLQKT-~PpV  424 (610)
T KOG0341|consen  346 DIRTIFSFFKGQRQTLLFSATMPKKIQNFAKSALVKPVTVNVGRAGAASLDVIQEVEYVKQEAKIVYLLECLQKT-SPPV  424 (610)
T ss_pred             hHHHHHHHHhhhhheeeeeccccHHHHHHHHhhcccceEEecccccccchhHHHHHHHHHhhhhhhhHHHHhccC-CCce
Confidence            57889999999999999999999999999999999999999984 456667888888888888888777777664 5679


Q ss_pred             EEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||||..+.+++.+.++|--.|..+..+||+-++++|...++.|+.|+-+|||+||++|.|+
T Consensus       425 LIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~ai~afr~gkKDVLVATDVASKGL  485 (610)
T KOG0341|consen  425 LIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEAFRAGKKDVLVATDVASKGL  485 (610)
T ss_pred             EEEeccccChHHHHHHHHHccceeEEeecCcchhHHHHHHHHHhcCCCceEEEecchhccC
Confidence            9999999999999999998899999999999999999999999999999999999999996

>KOG4284|consensus

Probab=99.89  E-value=3.4e-23  Score=155.70  Aligned_cols=140  Identities=25%  Similarity=0.438  Sum_probs=129.1

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCcc--------chHHHHHHHH
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER--------QKVHCLNTLF   71 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~--------~k~~~l~~ll   71 (140)
                      +|..|+..+|..+|++.+|||.|.++.+...++|++|..+... +....-+++|++..+...        .|...|-.++
T Consensus       188 ~In~ii~slP~~rQv~a~SATYp~nLdn~Lsk~mrdp~lVr~n~~d~~L~GikQyv~~~~s~nnsveemrlklq~L~~vf  267 (980)
T KOG4284|consen  188 DINIIINSLPQIRQVAAFSATYPRNLDNLLSKFMRDPALVRFNADDVQLFGIKQYVVAKCSPNNSVEEMRLKLQKLTHVF  267 (980)
T ss_pred             HHHHHHHhcchhheeeEEeccCchhHHHHHHHHhcccceeecccCCceeechhheeeeccCCcchHHHHHHHHHHHHHHH
Confidence            5789999999999999999999999999999999999999887 556677888888876532        3788888899


Q ss_pred             hhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         72 SKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        72 ~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.++..|+||||+....|+-++.+|...|+.|.++.|.|++.+|..+++.+|+-.++|||+||+.+||+
T Consensus       268 ~~ipy~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~~rILVsTDLtaRGI  336 (980)
T KOG4284|consen  268 KSIPYVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFRVRILVSTDLTARGI  336 (980)
T ss_pred             hhCchHHHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhhceEEEEEecchhhccC
Confidence            999999999999999999999999999999999999999999999999999999999999999999996

>KOG0339|consensus

Probab=99.89  E-value=2.5e-22  Score=147.60  Aligned_cols=140  Identities=21%  Similarity=0.298  Sum_probs=126.0

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcC-ccchHHHHHHHHhhC-CCC
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKL-QIN   77 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~-~~~k~~~l~~ll~~~-~~~   77 (140)
                      |++.|-+.+.+++|+++||||++..++.+++.++.+|..+... -...+..|.|.+..++ ++.|..+|..-|... ..+
T Consensus       390 qVrSI~~hirpdrQtllFsaTf~~kIe~lard~L~dpVrvVqg~vgean~dITQ~V~V~~s~~~Kl~wl~~~L~~f~S~g  469 (731)
T KOG0339|consen  390 QVRSIKQHIRPDRQTLLFSATFKKKIEKLARDILSDPVRVVQGEVGEANEDITQTVSVCPSEEKKLNWLLRHLVEFSSEG  469 (731)
T ss_pred             HHHHHHhhcCCcceEEEeeccchHHHHHHHHHHhcCCeeEEEeehhccccchhheeeeccCcHHHHHHHHHHhhhhccCC
Confidence            5788999999999999999999999999999999999887666 4567788999888875 456788777755443 678


Q ss_pred             cEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         78 QSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++|+|+....++++++..|.-.+++|..+||++++.+|++++.+|+.+...|||+||+++||+
T Consensus       470 kvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKkk~~~VlvatDvaargl  532 (731)
T KOG0339|consen  470 KVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATDVAARGL  532 (731)
T ss_pred             cEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHHHhhcCCceEEEeeHhhcCC
Confidence            999999999999999999999999999999999999999999999999999999999999996

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

Probab=99.88  E-value=8.7e-22  Score=154.46  Aligned_cols=134  Identities=13%  Similarity=0.066  Sum_probs=101.0

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCc-----------------cchHH
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE-----------------RQKVH   65 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~-----------------~~k~~   65 (140)
                      .++.+.++.++|++++|||+++... ....+++.+..+...+........+ ..+.+.                 .++..
T Consensus       185 ~ri~~~~g~~~q~i~~SATi~n~~~-~~~~l~g~~~~~i~~~~~~~~~~~~-~~~~p~~~~~~~~~~~~~r~~~~~~~~~  262 (742)
T TIGR03817       185 RRLCARYGASPVFVLASATTADPAA-AASRLIGAPVVAVTEDGSPRGARTV-ALWEPPLTELTGENGAPVRRSASAEAAD  262 (742)
T ss_pred             HHHHHhcCCCCEEEEEecCCCCHHH-HHHHHcCCCeEEECCCCCCcCceEE-EEecCCccccccccccccccchHHHHHH
Confidence            3445556678999999999998754 6777888775543223322232333 222221                 13455


Q ss_pred             HHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhc--------CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccC
Q psy13287         66 CLNTLFSKLQINQSIIFCNSTQRVELLAKKITEL--------GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSS  137 (140)
Q Consensus        66 ~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~--------~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~  137 (140)
                      .+..+++.  ..++||||||++.++.+++.|++.        +.++..+||++++++|..++++|++|++++|||||+++
T Consensus       263 ~l~~l~~~--~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~G~i~vLVaTd~le  340 (742)
T TIGR03817       263 LLADLVAE--GARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRDGELLGVATTNALE  340 (742)
T ss_pred             HHHHHHHC--CCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHcCCceEEEECchHh
Confidence            66666654  579999999999999999998764        56899999999999999999999999999999999999


Q ss_pred             CCC
Q psy13287        138 AMM  140 (140)
Q Consensus       138 rGl  140 (140)
                      ||+
T Consensus       341 rGI  343 (742)
T TIGR03817       341 LGV  343 (742)
T ss_pred             ccC
Confidence            997

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.

>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family

Probab=99.87  E-value=1.1e-20  Score=142.32  Aligned_cols=132  Identities=16%  Similarity=0.211  Sum_probs=101.9

Q ss_pred             HHhhCCCCCeEEEEEecCchhHHHHHHHhcc--CCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHh-hCCCCcEEE
Q psy13287          5 VISILPHERQILLYSATFPLTVKNFMEKHLK--DPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFS-KLQINQSII   81 (140)
Q Consensus         5 il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~--~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~-~~~~~~~lI   81 (140)
                      +.+.+ ++.|++++|||+++.+.......++  ++..+...  ...+++...+.. ........+..++. ..+..++||
T Consensus       156 l~~~~-~~~~~l~lTAT~~~~~~~di~~~l~l~~~~~~~~s--~~r~nl~~~v~~-~~~~~~~~l~~~l~~~~~~~~~II  231 (470)
T TIGR00614       156 LKQKF-PNVPIMALTATASPSVREDILRQLNLKNPQIFCTS--FDRPNLYYEVRR-KTPKILEDLLRFIRKEFKGKSGII  231 (470)
T ss_pred             HHHHc-CCCceEEEecCCCHHHHHHHHHHcCCCCCcEEeCC--CCCCCcEEEEEe-CCccHHHHHHHHHHHhcCCCceEE
Confidence            33444 4788999999999998877776654  44444332  233444443332 22245556666665 334556799


Q ss_pred             EeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||+|++.++.+++.|++.|+.+..+||+|++++|..++++|++|+++|||||++++||+
T Consensus       232 F~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~g~~~vLVaT~~~~~GI  290 (470)
T TIGR00614       232 YCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDEIQVVVATVAFGMGI  290 (470)
T ss_pred             EECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHcCCCcEEEEechhhccC
Confidence            99999999999999999999999999999999999999999999999999999999996

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

>PRK11057 ATP-dependent DNA helicase RecQ; Provisional

Probab=99.87  E-value=1.6e-20  Score=145.00  Aligned_cols=131  Identities=18%  Similarity=0.172  Sum_probs=103.0

Q ss_pred             HHhhCCCCCeEEEEEecCchhHHHHHHHhcc--CCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEE
Q psy13287          5 VISILPHERQILLYSATFPLTVKNFMEKHLK--DPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIF   82 (140)
Q Consensus         5 il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~--~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF   82 (140)
                      +.+.+ ++.|++++|||+++.+.......+.  +|.....  ....+++...  .++...+...+..++......++|||
T Consensus       168 l~~~~-p~~~~v~lTAT~~~~~~~di~~~l~l~~~~~~~~--~~~r~nl~~~--v~~~~~~~~~l~~~l~~~~~~~~IIF  242 (607)
T PRK11057        168 LRQRF-PTLPFMALTATADDTTRQDIVRLLGLNDPLIQIS--SFDRPNIRYT--LVEKFKPLDQLMRYVQEQRGKSGIIY  242 (607)
T ss_pred             HHHhC-CCCcEEEEecCCChhHHHHHHHHhCCCCeEEEEC--CCCCCcceee--eeeccchHHHHHHHHHhcCCCCEEEE
Confidence            33343 4788999999999988776655544  4433222  2233444332  23444556677777777677899999


Q ss_pred             eCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         83 CNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        83 ~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |+|++.|+.+++.|++.|+++..+||+|++++|..++++|++|+++|||||++++||+
T Consensus       243 c~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~a~~~GI  300 (607)
T PRK11057        243 CNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGI  300 (607)
T ss_pred             ECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCCCCCEEEEechhhccC
Confidence            9999999999999999999999999999999999999999999999999999999996

>KOG0334|consensus

Probab=99.86  E-value=1.1e-21  Score=153.29  Aligned_cols=139  Identities=27%  Similarity=0.458  Sum_probs=128.6

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcC-ccchHHHHHHHHhhC-CCCc
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKL-QINQ   78 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~-~~~k~~~l~~ll~~~-~~~~   78 (140)
                      +-.|++.+++.+|+++||||+|..++.+....++.|..+.++ .......+.+.+..+. +++|+..|.++|... ...+
T Consensus       536 ~~~Ii~nlrpdrQtvlfSatfpr~m~~la~~vl~~Pveiiv~~~svV~k~V~q~v~V~~~e~eKf~kL~eLl~e~~e~~~  615 (997)
T KOG0334|consen  536 ITRILQNLRPDRQTVLFSATFPRSMEALARKVLKKPVEIIVGGRSVVCKEVTQVVRVCAIENEKFLKLLELLGERYEDGK  615 (997)
T ss_pred             cchHHhhcchhhhhhhhhhhhhHHHHHHHHHhhcCCeeEEEccceeEeccceEEEEEecCchHHHHHHHHHHHHHhhcCC
Confidence            345899999999999999999999999999999988888777 5678899999999998 889999999999655 5789


Q ss_pred             EEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +||||.+...|..+.+.|.+.|+.|..+||+.++.+|..++++|++|.+.+||||++++||+
T Consensus       616 tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~~~~~LLvaTsvvarGL  677 (997)
T KOG0334|consen  616 TIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNGVVNLLVATSVVARGL  677 (997)
T ss_pred             EEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHhccCceEEEehhhhhccc
Confidence            99999999999999999999999999999999999999999999999999999999999997

>TIGR01389 recQ ATP-dependent DNA helicase RecQ

Probab=99.86  E-value=2.5e-20  Score=143.70  Aligned_cols=132  Identities=18%  Similarity=0.223  Sum_probs=106.1

Q ss_pred             HHHhhCCCCCeEEEEEecCchhHHHHHHHhcc--CCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEE
Q psy13287          4 HVISILPHERQILLYSATFPLTVKNFMEKHLK--DPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSII   81 (140)
Q Consensus         4 ~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~--~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lI   81 (140)
                      .+...++ +.+++++|||+++.+...+...++  ++..+.  .....+++...+  .+..++...+.+++......++||
T Consensus       155 ~l~~~~~-~~~vi~lTAT~~~~~~~~i~~~l~~~~~~~~~--~~~~r~nl~~~v--~~~~~~~~~l~~~l~~~~~~~~II  229 (591)
T TIGR01389       155 SLAERFP-QVPRIALTATADAETRQDIRELLRLADANEFI--TSFDRPNLRFSV--VKKNNKQKFLLDYLKKHRGQSGII  229 (591)
T ss_pred             HHHHhCC-CCCEEEEEeCCCHHHHHHHHHHcCCCCCCeEe--cCCCCCCcEEEE--EeCCCHHHHHHHHHHhcCCCCEEE
Confidence            3444454 455999999999999888877775  333322  223344554433  344567778888887766788999


Q ss_pred             EeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||+|++.++.+++.|+..|+++..|||+|++++|..++++|++|++++||||+++++|+
T Consensus       230 f~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g~~~vlVaT~a~~~GI  288 (591)
T TIGR01389       230 YASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGI  288 (591)
T ss_pred             EECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEechhhccC
Confidence            99999999999999999999999999999999999999999999999999999999996

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.

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

Probab=99.86  E-value=2.5e-20  Score=148.55  Aligned_cols=134  Identities=14%  Similarity=0.123  Sum_probs=103.0

Q ss_pred             HhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhC-CCCcEEEEeC
Q psy13287          6 ISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKL-QINQSIIFCN   84 (140)
Q Consensus         6 l~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~-~~~~~lIF~~   84 (140)
                      +....++.|++++|||+++.+.+.+...++....+........+++...+.. ........+.+++... ...++||||+
T Consensus       610 Lr~~fp~vPilALTATAT~~V~eDI~~~L~l~~~~vfr~Sf~RpNL~y~Vv~-k~kk~le~L~~~I~~~~~~esgIIYC~  688 (1195)
T PLN03137        610 LKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVFRQSFNRPNLWYSVVP-KTKKCLEDIDKFIKENHFDECGIIYCL  688 (1195)
T ss_pred             HHHhCCCCCeEEEEecCCHHHHHHHHHHcCCCCcEEeecccCccceEEEEec-cchhHHHHHHHHHHhcccCCCceeEeC
Confidence            3334457899999999999999877777653222222223344555444332 2222245566666543 3567999999


Q ss_pred             chHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         85 STQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        85 t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |++.++.+++.|++.|+.+..|||+|++++|..++++|++|+++|||||++++|||
T Consensus       689 SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F~~Gei~VLVATdAFGMGI  744 (1195)
T PLN03137        689 SRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDEINIICATVAFGMGI  744 (1195)
T ss_pred             chhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHHhcCCCcEEEEechhhcCC
Confidence            99999999999999999999999999999999999999999999999999999997

>PRK10689 transcription-repair coupling factor; Provisional

Probab=99.85  E-value=4.4e-20  Score=149.56  Aligned_cols=134  Identities=18%  Similarity=0.165  Sum_probs=106.9

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCcc-chHHHHHHHHhhCCCCcEEE
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQER-QKVHCLNTLFSKLQINQSII   81 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~-~k~~~l~~ll~~~~~~~~lI   81 (140)
                      .+.++.++.+.|++++|||+++++..+....+.++..+...+.. ...+.+++...... .+...+.++.   ..++++|
T Consensus       739 ~e~lk~l~~~~qvLl~SATpiprtl~l~~~gl~d~~~I~~~p~~-r~~v~~~~~~~~~~~~k~~il~el~---r~gqv~v  814 (1147)
T PRK10689        739 KERIKAMRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPAR-RLAVKTFVREYDSLVVREAILREIL---RGGQVYY  814 (1147)
T ss_pred             HHHHHhcCCCCcEEEEcCCCCHHHHHHHHhhCCCcEEEecCCCC-CCCceEEEEecCcHHHHHHHHHHHh---cCCeEEE
Confidence            34567788899999999999999888888888888777664332 23455555443321 2233333332   3579999


Q ss_pred             EeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||+++.++++++.|++.  +.++..+||+|++++|..++++|++|+++||||||+++||+
T Consensus       815 f~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTdIierGI  875 (1147)
T PRK10689        815 LYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGI  875 (1147)
T ss_pred             EECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECchhhccc
Confidence            999999999999999987  78999999999999999999999999999999999999996

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

Probab=99.85  E-value=4e-20  Score=144.72  Aligned_cols=137  Identities=15%  Similarity=0.266  Sum_probs=104.1

Q ss_pred             CHHHHHhhC--CCC---CeEEEEEecCchhHHHHHHHhccCCcEEEcCC-cccCCCeEEEEEEcCccchHHHHHHHH---
Q psy13287          1 MLDHVISIL--PHE---RQILLYSATFPLTVKNFMEKHLKDPYEINLME-ELTLKGVTQYYAFVQERQKVHCLNTLF---   71 (140)
Q Consensus         1 ~l~~il~~~--~~~---~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~i~~~~~~~~~~~k~~~l~~ll---   71 (140)
                      +++.|++.+  ++.   .|+++||||+|..+......++.++..+.+.. ....+.+.++ +.++...|...+...+   
T Consensus       189 ~l~~Il~~l~rp~~~rprQtLLFSAT~p~ei~~l~~~~~~~p~~i~V~~~~l~a~ki~q~-v~v~~e~Kl~~lv~~L~~l  267 (844)
T TIGR02621       189 LLKQIMNEQQRPPDFLPLRVVELTATSRTDGPDRTTLLSAEDYKHPVLKKRLAAKKIVKL-VPPSDEKFLSTMVKELNLL  267 (844)
T ss_pred             HHHHHHHhcccCcccccceEEEEecCCCccHHHHHHHHccCCceeecccccccccceEEE-EecChHHHHHHHHHHHHHH
Confidence            367788864  332   69999999999988888888887777666643 3344566664 3444444543333222   


Q ss_pred             hhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHH-----HHHHHhhc----CC-------ccEEEEecc
Q psy13287         72 SKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRN-----RVFHDFRS----GL-------CRNLVCSGD  135 (140)
Q Consensus        72 ~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~-----~~~~~f~~----g~-------~~vlv~T~~  135 (140)
                      .....+++||||||++.|+.+++.|++.++  ..+||+|++.+|.     .++++|++    |+       .++|||||+
T Consensus       268 l~e~g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~~ILVATdV  345 (844)
T TIGR02621       268 MKDSGGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGTVYLVCTSA  345 (844)
T ss_pred             HhhCCCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccceEEeccch
Confidence            122467899999999999999999998887  8999999999999     88999987    54       689999999


Q ss_pred             cCCCC
Q psy13287        136 SSAMM  140 (140)
Q Consensus       136 ~~rGl  140 (140)
                      ++||+
T Consensus       346 aerGL  350 (844)
T TIGR02621       346 GEVGV  350 (844)
T ss_pred             hhhcc
Confidence            99996

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.

>KOG0337|consensus

Probab=99.85  E-value=1.1e-20  Score=136.26  Aligned_cols=140  Identities=24%  Similarity=0.301  Sum_probs=130.3

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhC-CCCc
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKL-QINQ   78 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~-~~~~   78 (140)
                      |+.+++..+|.+.|+++||||+|..+-+..+..+.+|..+-++ +....+.+.+.+..+...+|...|..++... .+++
T Consensus       184 ql~e~l~rl~~~~QTllfSatlp~~lv~fakaGl~~p~lVRldvetkise~lk~~f~~~~~a~K~aaLl~il~~~~~~~~  263 (529)
T KOG0337|consen  184 QLHEILSRLPESRQTLLFSATLPRDLVDFAKAGLVPPVLVRLDVETKISELLKVRFFRVRKAEKEAALLSILGGRIKDKQ  263 (529)
T ss_pred             HHHHHHHhCCCcceEEEEeccCchhhHHHHHccCCCCceEEeehhhhcchhhhhheeeeccHHHHHHHHHHHhccccccc
Confidence            4678999999999999999999999999999999999988877 5567888999999999999999999999766 5679


Q ss_pred             EEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++|||.|...+|.+...|+..|+.+..++|.+++..|..-+.+|+.++..+||.||+++||+
T Consensus       264 t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG~  325 (529)
T KOG0337|consen  264 TIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGL  325 (529)
T ss_pred             eeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCCccceEEEehhhhccC
Confidence            99999999999999999999999999999999999999999999999999999999999996

>TIGR01587 cas3_core CRISPR-associated helicase Cas3

Probab=99.84  E-value=5.1e-20  Score=134.33  Aligned_cols=136  Identities=18%  Similarity=0.240  Sum_probs=96.4

Q ss_pred             HHhhCC-CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcC--ccchHHHHHHHHhhC-CCCcEE
Q psy13287          5 VISILP-HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQ--ERQKVHCLNTLFSKL-QINQSI   80 (140)
Q Consensus         5 il~~~~-~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~--~~~k~~~l~~ll~~~-~~~~~l   80 (140)
                      +++.++ .+.|++++|||+|+.+.+........+...............+.+..+.  ...+...+.+++... +++++|
T Consensus       147 ~l~~l~~~~~~~i~~SATlp~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~l  226 (358)
T TIGR01587       147 VLEVLKDNDVPILLMSATLPKFLKEYAEKIGYVEFNEPLDLKEERRFERHRFIKIESDKVGEISSLERLLEFIKKGGKIA  226 (358)
T ss_pred             HHHHHHHcCCCEEEEecCchHHHHHHHhcCCCcccccCCCCccccccccccceeeccccccCHHHHHHHHHHhhCCCeEE
Confidence            344443 4789999999999777666555433321111111111111233333322  235667777777654 468999


Q ss_pred             EEeCchHHHHHHHHHHHhcCc--eEEEEecCCCHHHHHH----HHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQRVELLAKKITELGY--CCYYIHARMAQAHRNR----VFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~~~~--~v~~~h~~~~~~~R~~----~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||||++.|+.+++.|++.+.  .+..+||++++.+|..    ++++|++|+.++|||||+++||+
T Consensus       227 Vf~~t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~~~~~Gi  292 (358)
T TIGR01587       227 IIVNTVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQVIEASL  292 (358)
T ss_pred             EEECCHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECcchhcee
Confidence            999999999999999988765  5999999999999976    48999999999999999999996

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.

>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]

Probab=99.84  E-value=3.3e-20  Score=140.31  Aligned_cols=137  Identities=18%  Similarity=0.192  Sum_probs=106.8

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcC-ccchHHHHHHHHhhCCCCcEE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSI   80 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~-~~~k~~~l~~ll~~~~~~~~l   80 (140)
                      +..+.+.++ +.+++++|||.++.+...+...++-..-........++|+...+.... ..++...+.+ +.....+.+|
T Consensus       157 lg~l~~~~~-~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~~sfdRpNi~~~v~~~~~~~~q~~fi~~-~~~~~~~~GI  234 (590)
T COG0514         157 LGRLRAGLP-NPPVLALTATATPRVRDDIREQLGLQDANIFRGSFDRPNLALKVVEKGEPSDQLAFLAT-VLPQLSKSGI  234 (590)
T ss_pred             HHHHHhhCC-CCCEEEEeCCCChHHHHHHHHHhcCCCcceEEecCCCchhhhhhhhcccHHHHHHHHHh-hccccCCCeE
Confidence            455666776 889999999999999998888876322222223345566666555443 3334443333 1133567799


Q ss_pred             EEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||.|++.+|.++++|++.|+++..|||+|+.++|..+.++|..++++|+|||.+++||+
T Consensus       235 IYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~~~~~iiVAT~AFGMGI  294 (590)
T COG0514         235 IYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGI  294 (590)
T ss_pred             EEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhcCCCcEEEEeccccCcc
Confidence            999999999999999999999999999999999999999999999999999999999996

>KOG0346|consensus

Probab=99.84  E-value=2.2e-20  Score=135.38  Aligned_cols=137  Identities=26%  Similarity=0.352  Sum_probs=125.5

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcc--cCCCeEEEEEEcCccchHHHHHHHHh-hCCCC
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEEL--TLKGVTQYYAFVQERQKVHCLNTLFS-KLQIN   77 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~--~~~~i~~~~~~~~~~~k~~~l~~ll~-~~~~~   77 (140)
                      ++++|...+|+.+|.+++|||++.++..+-+.++++|..+.+.++.  .+..+.|+++.|++.+|+..+..+++ ++-.+
T Consensus       190 dlk~l~~~LPr~~Q~~LmSATl~dDv~~LKkL~l~nPviLkl~e~el~~~dqL~Qy~v~cse~DKflllyallKL~LI~g  269 (569)
T KOG0346|consen  190 DLKKLRSHLPRIYQCFLMSATLSDDVQALKKLFLHNPVILKLTEGELPNPDQLTQYQVKCSEEDKFLLLYALLKLRLIRG  269 (569)
T ss_pred             HHHHHHHhCCchhhheeehhhhhhHHHHHHHHhccCCeEEEeccccCCCcccceEEEEEeccchhHHHHHHHHHHHHhcC
Confidence            4788999999999999999999999999999999999999887543  45899999999999999988888876 44679


Q ss_pred             cEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccC
Q psy13287         78 QSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSS  137 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~  137 (140)
                      +.|||+||.+.|.++.-.|.+-|++-..++|.++...|..+++.|..|-.+++||||.-+
T Consensus       270 KsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~YdivIAtD~s~  329 (569)
T KOG0346|consen  270 KSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGLYDIVIATDDSA  329 (569)
T ss_pred             ceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCcceeEEEEccCcc
Confidence            999999999999999999999999999999999999999999999999999999999543

>KOG0344|consensus

Probab=99.83  E-value=2.6e-20  Score=138.49  Aligned_cols=140  Identities=21%  Similarity=0.255  Sum_probs=125.0

Q ss_pred             CHHHHHhhCC-CCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcC-ccchHHHHHHHHhhCCCC
Q psy13287          1 MLDHVISILP-HERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQIN   77 (140)
Q Consensus         1 ~l~~il~~~~-~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~-~~~k~~~l~~ll~~~~~~   77 (140)
                      |+.+|++.+. ++...-+||||+|.++++.++....++..+.++ .+.....+.|..++|. +..|.-.+.+++...-+.
T Consensus       309 Qla~I~sac~s~~i~~a~FSat~~~~VEE~~~~i~~~~~~vivg~~~sa~~~V~QelvF~gse~~K~lA~rq~v~~g~~P  388 (593)
T KOG0344|consen  309 QLADIYSACQSPDIRVALFSATISVYVEEWAELIKSDLKRVIVGLRNSANETVDQELVFCGSEKGKLLALRQLVASGFKP  388 (593)
T ss_pred             HHHHHHHHhcCcchhhhhhhccccHHHHHHHHHhhccceeEEEecchhHhhhhhhhheeeecchhHHHHHHHHHhccCCC
Confidence            4567777775 356678899999999999999999999888887 4566788999999985 567999999999998888


Q ss_pred             cEEEEeCchHHHHHHHHHH-HhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         78 QSIIFCNSTQRVELLAKKI-TELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L-~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++|||+.+.+.|.+++..| .-.++.+.++||+.++.+|.+++++||.|++++|||||+++|||
T Consensus       389 P~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTdll~RGi  452 (593)
T KOG0344|consen  389 PVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMERFRIGKIWVLICTDLLARGI  452 (593)
T ss_pred             CeEEEEecHHHHHHHHHHhhhccCcceeeEecccchhHHHHHHHHHhccCeeEEEehhhhhccc
Confidence            9999999999999999999 55589999999999999999999999999999999999999996

>TIGR00580 mfd transcription-repair coupling factor (mfd)

Probab=99.83  E-value=3.4e-19  Score=141.98  Aligned_cols=135  Identities=18%  Similarity=0.130  Sum_probs=103.3

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEE
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIF   82 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF   82 (140)
                      ++.++.++.+.|++++|||+++....+....+.++..+...+.. ...+.+++.......-...+...+.  ..++++||
T Consensus       590 ~~~L~~~~~~~~vL~~SATpiprtl~~~l~g~~d~s~I~~~p~~-R~~V~t~v~~~~~~~i~~~i~~el~--~g~qv~if  666 (926)
T TIGR00580       590 KEKLKELRTSVDVLTLSATPIPRTLHMSMSGIRDLSIIATPPED-RLPVRTFVMEYDPELVREAIRRELL--RGGQVFYV  666 (926)
T ss_pred             HHHHHhcCCCCCEEEEecCCCHHHHHHHHhcCCCcEEEecCCCC-ccceEEEEEecCHHHHHHHHHHHHH--cCCeEEEE
Confidence            45667778889999999999888777766666676666554332 2345555543322111122222222  46899999


Q ss_pred             eCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         83 CNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        83 ~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||+++.++.+++.|++.  ++++..+||+|++.+|..++++|++|+++|||||+++++|+
T Consensus       667 ~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~iie~GI  726 (926)
T TIGR00580       667 HNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTTIIETGI  726 (926)
T ss_pred             ECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECChhhccc
Confidence            99999999999999985  78999999999999999999999999999999999999996

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.

>PRK09401 reverse gyrase; Reviewed

Probab=99.82  E-value=2.4e-19  Score=145.59  Aligned_cols=118  Identities=21%  Similarity=0.252  Sum_probs=96.7

Q ss_pred             CCeEEEEEecCchh-HHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHH-
Q psy13287         12 ERQILLYSATFPLT-VKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQR-   88 (140)
Q Consensus        12 ~~q~v~~SAT~~~~-~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~-   88 (140)
                      +.|+++||||+++. +..   .++.++..+.++ ......++.|.++.++  +|...+.++++... .++||||+++.. 
T Consensus       268 ~~q~ilfSAT~~~~~~~~---~l~~~ll~~~v~~~~~~~rnI~~~yi~~~--~k~~~L~~ll~~l~-~~~LIFv~t~~~~  341 (1176)
T PRK09401        268 KGVLVVSSATGRPRGNRV---KLFRELLGFEVGSPVFYLRNIVDSYIVDE--DSVEKLVELVKRLG-DGGLIFVPSDKGK  341 (1176)
T ss_pred             CceEEEEeCCCCccchHH---HHhhccceEEecCcccccCCceEEEEEcc--cHHHHHHHHHHhcC-CCEEEEEecccCh
Confidence            68999999999975 332   344565556665 3446678999888766  67888888887764 579999999877 


Q ss_pred             --HHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEE----ecccCCCC
Q psy13287         89 --VELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVC----SGDSSAMM  140 (140)
Q Consensus        89 --~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~----T~~~~rGl  140 (140)
                        ++++++.|+..|+++..+||++   .  ..+++|++|++++|||    ||+++|||
T Consensus       342 ~~ae~l~~~L~~~gi~v~~~hg~l---~--~~l~~F~~G~~~VLVatas~tdv~aRGI  394 (1176)
T PRK09401        342 EYAEELAEYLEDLGINAELAISGF---E--RKFEKFEEGEVDVLVGVASYYGVLVRGI  394 (1176)
T ss_pred             HHHHHHHHHHHHCCCcEEEEeCcH---H--HHHHHHHCCCCCEEEEecCCCCceeecC
Confidence              9999999999999999999999   2  2359999999999999    69999997

>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB

Probab=99.82  E-value=7.7e-19  Score=138.62  Aligned_cols=132  Identities=14%  Similarity=0.150  Sum_probs=103.8

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchH-----HHHHHHHhhCCCC
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKV-----HCLNTLFSKLQIN   77 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~-----~~l~~ll~~~~~~   77 (140)
                      .++.+.++++.|+++||||++...   ...+++++..+.+....  -.+.++|......++.     ..+..+++. ..+
T Consensus       137 ~~i~~~lr~dlqlIlmSATl~~~~---l~~~l~~~~vI~~~gr~--~pVe~~y~~~~~~~~~~~~v~~~l~~~l~~-~~g  210 (819)
T TIGR01970       137 LDVQSSLREDLKILAMSATLDGER---LSSLLPDAPVVESEGRS--FPVEIRYLPLRGDQRLEDAVSRAVEHALAS-ETG  210 (819)
T ss_pred             HHHHHhcCCCceEEEEeCCCCHHH---HHHHcCCCcEEEecCcc--eeeeeEEeecchhhhHHHHHHHHHHHHHHh-cCC
Confidence            345566778899999999999653   45677776666654322  2367777666544442     234444443 468


Q ss_pred             cEEEEeCchHHHHHHHHHHHh---cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         78 QSIIFCNSTQRVELLAKKITE---LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~---~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++||||++.++++.+++.|++   .++.+..+||++++++|..+++.|++|+.+|+||||++++|+
T Consensus       211 ~iLVFlpg~~eI~~l~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G~rkVlVATnIAErgI  276 (819)
T TIGR01970       211 SILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLATNIAETSL  276 (819)
T ss_pred             cEEEEECCHHHHHHHHHHHHhhcCCCcEEEEecCCCCHHHHHHHHhhcccCCeEEEEecchHhhcc
Confidence            899999999999999999987   378999999999999999999999999999999999999996

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=99.81  E-value=7.7e-19  Score=138.72  Aligned_cols=132  Identities=12%  Similarity=0.138  Sum_probs=104.6

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHH-----HHHHHHhhCCCC
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVH-----CLNTLFSKLQIN   77 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~-----~l~~ll~~~~~~   77 (140)
                      .++++.++++.|+++||||++..   ....++.++..+.+...  .-.+.++|..++..++..     .+..++.. ..+
T Consensus       140 ~~i~~~lr~~lqlilmSATl~~~---~l~~~~~~~~~I~~~gr--~~pV~~~y~~~~~~~~~~~~v~~~l~~~l~~-~~g  213 (812)
T PRK11664        140 LDVQQGLRDDLKLLIMSATLDND---RLQQLLPDAPVIVSEGR--SFPVERRYQPLPAHQRFDEAVARATAELLRQ-ESG  213 (812)
T ss_pred             HHHHHhCCccceEEEEecCCCHH---HHHHhcCCCCEEEecCc--cccceEEeccCchhhhHHHHHHHHHHHHHHh-CCC
Confidence            35666778889999999999865   34567777666655432  223777777666555543     34444443 468


Q ss_pred             cEEEEeCchHHHHHHHHHHHh---cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         78 QSIIFCNSTQRVELLAKKITE---LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~---~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++||||++.++++.+++.|++   .++.+..+||++++++|..+++.|++|+.+|+||||++++|+
T Consensus       214 ~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G~rkVlvATnIAErsL  279 (812)
T PRK11664        214 SLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSL  279 (812)
T ss_pred             CEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccCCCeEEEEecchHHhcc
Confidence            899999999999999999987   478899999999999999999999999999999999999996

>PHA02653 RNA helicase NPH-II; Provisional

Probab=99.80  E-value=1.5e-18  Score=134.51  Aligned_cols=132  Identities=16%  Similarity=0.188  Sum_probs=98.2

Q ss_pred             HHhhCC-CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCc----------cchHHHHHHHHhh
Q psy13287          5 VISILP-HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE----------RQKVHCLNTLFSK   73 (140)
Q Consensus         5 il~~~~-~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~----------~~k~~~l~~ll~~   73 (140)
                      +++.+. ..+|+++||||+|.++..+ ..+++++..+.+.. .....+.++++....          .++...+..+...
T Consensus       313 llk~~~~~~rq~ILmSATl~~dv~~l-~~~~~~p~~I~I~g-rt~~pV~~~yi~~~~~~~~~~~y~~~~k~~~l~~L~~~  390 (675)
T PHA02653        313 VARKHIDKIRSLFLMTATLEDDRDRI-KEFFPNPAFVHIPG-GTLFPISEVYVKNKYNPKNKRAYIEEEKKNIVTALKKY  390 (675)
T ss_pred             HHHHhhhhcCEEEEEccCCcHhHHHH-HHHhcCCcEEEeCC-CcCCCeEEEEeecCcccccchhhhHHHHHHHHHHHHHh
Confidence            344333 3469999999999887766 67889988888753 334567777764321          1222223322222


Q ss_pred             C--CCCcEEEEeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHh-hcCCccEEEEecccCCCC
Q psy13287         74 L--QINQSIIFCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDF-RSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        74 ~--~~~~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f-~~g~~~vlv~T~~~~rGl  140 (140)
                      .  ..+++||||+++++++.+++.|++.  ++.+..+||++++.  ++.+++| ++|+.+||||||+++||+
T Consensus       391 ~~~~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~Lsq~--eq~l~~ff~~gk~kILVATdIAERGI  460 (675)
T PHA02653        391 TPPKGSSGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGKVPNI--DEILEKVYSSKNPSIIISTPYLESSV  460 (675)
T ss_pred             hcccCCcEEEEECcHHHHHHHHHHHHhhcCCceEEeccCCcCHH--HHHHHHHhccCceeEEeccChhhccc
Confidence            1  3568999999999999999999887  78999999999975  5677887 689999999999999996

>PRK09751 putative ATP-dependent helicase Lhr; Provisional

Probab=99.78  E-value=8.1e-18  Score=138.17  Aligned_cols=136  Identities=17%  Similarity=0.191  Sum_probs=93.1

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhcc--CCcEEEcCCcccCCCeEEEEEEcCccch----------------
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLK--DPYEINLMEELTLKGVTQYYAFVQERQK----------------   63 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~--~~~~i~~~~~~~~~~i~~~~~~~~~~~k----------------   63 (140)
                      +++|...++.+.|+|++|||+++. .++. .++.  .+..+...+......+... +.+.+..+                
T Consensus       149 LeRL~~l~~~~~QrIgLSATI~n~-eevA-~~L~g~~pv~Iv~~~~~r~~~l~v~-vp~~d~~~~~~~~~~~~~~~~~~r  225 (1490)
T PRK09751        149 LERLDALLHTSAQRIGLSATVRSA-SDVA-AFLGGDRPVTVVNPPAMRHPQIRIV-VPVANMDDVSSVASGTGEDSHAGR  225 (1490)
T ss_pred             HHHHHHhCCCCCeEEEEEeeCCCH-HHHH-HHhcCCCCEEEECCCCCcccceEEE-EecCchhhccccccccccccchhh
Confidence            455666667789999999999974 5555 4553  3444432222233333322 22221110                


Q ss_pred             -----HHHHHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcC---------------------------------ceEE
Q psy13287         64 -----VHCLNTLFSKL-QINQSIIFCNSTQRVELLAKKITELG---------------------------------YCCY  104 (140)
Q Consensus        64 -----~~~l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~---------------------------------~~v~  104 (140)
                           ......++... ...++||||||++.||.++..|++..                                 ..+.
T Consensus       226 ~~~i~~~v~~~il~~i~~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~  305 (1490)
T PRK09751        226 EGSIWPYIETGILDEVLRHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIAR  305 (1490)
T ss_pred             hhhhhHHHHHHHHHHHhcCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeee
Confidence                 01112333322 45789999999999999999997641                                 1267


Q ss_pred             EEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287        105 YIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       105 ~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++||++++++|..+++.|++|++++||||+.+++||
T Consensus       306 ~HHGsLSkeeR~~IE~~fK~G~LrvLVATssLELGI  341 (1490)
T PRK09751        306 SHHGSVSKEQRAITEQALKSGELRCVVATSSLELGI  341 (1490)
T ss_pred             eccccCCHHHHHHHHHHHHhCCceEEEeCcHHHccC
Confidence            899999999999999999999999999999999997

>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type

Probab=99.77  E-value=2.6e-17  Score=120.15  Aligned_cols=124  Identities=16%  Similarity=0.032  Sum_probs=89.3

Q ss_pred             CCCCeEEEEEecCchhHHHHHHHh--ccCCcEEEcCC-----c--------------ccCCCeEEEEEEcCccchHHHHH
Q psy13287         10 PHERQILLYSATFPLTVKNFMEKH--LKDPYEINLME-----E--------------LTLKGVTQYYAFVQERQKVHCLN   68 (140)
Q Consensus        10 ~~~~q~v~~SAT~~~~~~~~~~~~--~~~~~~i~~~~-----~--------------~~~~~i~~~~~~~~~~~k~~~l~   68 (140)
                      ....+++++|||+|+.+.......  ++.+....-+.     +              ...+.+.+.+.. ....|.+.+.
T Consensus       179 ~~~~~~i~lSAT~~~~~~~~l~~~~~~~~~~~~v~g~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~-~~~~~~~~l~  257 (357)
T TIGR03158       179 ECRRKFVFLSATPDPALILRLQNAKQAGVKIAPIDGEKYQFPDNPELEADNKTQSFRPVLPPVELELIP-APDFKEEELS  257 (357)
T ss_pred             hcCCcEEEEecCCCHHHHHHHHhccccCceeeeecCcccccCCChhhhccccccccceeccceEEEEEe-CCchhHHHHH
Confidence            335799999999999888777765  45543222222     0              112467776665 4444544443


Q ss_pred             HHHh-------hCCCCcEEEEeCchHHHHHHHHHHHhcC--ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCC
Q psy13287         69 TLFS-------KLQINQSIIFCNSTQRVELLAKKITELG--YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        69 ~ll~-------~~~~~~~lIF~~t~~~~~~~~~~L~~~~--~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      .+++       ..+++++||||||++.++++++.|++.+  +.+..+||.+++.+|...      ++.++|||||+++||
T Consensus       258 ~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~------~~~~iLVaTdv~~rG  331 (357)
T TIGR03158       258 ELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRERA------MQFDILLGTSTVDVG  331 (357)
T ss_pred             HHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHHHh------ccCCEEEEecHHhcc
Confidence            3332       2246789999999999999999999864  578999999999988654      478999999999999


Q ss_pred             C
Q psy13287        140 M  140 (140)
Q Consensus       140 l  140 (140)
                      +
T Consensus       332 i  332 (357)
T TIGR03158       332 V  332 (357)
T ss_pred             c
Confidence            7

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.

>TIGR01054 rgy reverse gyrase

Probab=99.77  E-value=1.3e-17  Score=135.71  Aligned_cols=126  Identities=18%  Similarity=0.269  Sum_probs=97.7

Q ss_pred             HHhhCCCCCe--EEEEEec-CchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEE
Q psy13287          5 VISILPHERQ--ILLYSAT-FPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSI   80 (140)
Q Consensus         5 il~~~~~~~q--~v~~SAT-~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~l   80 (140)
                      +++.++++.|  ++++||| .|..+.   ..+++++..+.++ ......++.|.++.++.  +...|.++++.. .+++|
T Consensus       257 ~~~~~~~~~q~~li~~SAT~~p~~~~---~~l~r~ll~~~v~~~~~~~r~I~~~~~~~~~--~~~~L~~ll~~l-~~~~I  330 (1171)
T TIGR01054       257 LLEAIPGKKRGCLIVSSATGRPRGKR---AKLFRELLGFEVGGGSDTLRNVVDVYVEDED--LKETLLEIVKKL-GTGGI  330 (1171)
T ss_pred             HHHhhhhccCcEEEEEeCCCCccccH---HHHcccccceEecCccccccceEEEEEeccc--HHHHHHHHHHHc-CCCEE
Confidence            3445555655  5678999 554433   2356666666665 34466788888875543  355677888776 46799


Q ss_pred             EEeCch---HHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEe----cccCCCC
Q psy13287         81 IFCNST---QRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS----GDSSAMM  140 (140)
Q Consensus        81 IF~~t~---~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T----~~~~rGl  140 (140)
                      |||+++   +.|+++++.|++.|+++..+||++++    .++++|++|++++||||    |+++|||
T Consensus       331 VFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~~----~~l~~Fr~G~~~vLVata~~tdv~aRGI  393 (1171)
T TIGR01054       331 VYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKPK----EDYEKFAEGEIDVLIGVASYYGTLVRGL  393 (1171)
T ss_pred             EEEeccccHHHHHHHHHHHHhCCceEEEEeCCCCH----HHHHHHHcCCCCEEEEeccccCcccccC
Confidence            999999   99999999999999999999999973    78999999999999995    9999997

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.

>PRK13767 ATP-dependent helicase; Provisional

Probab=99.76  E-value=2.5e-17  Score=131.61  Aligned_cols=65  Identities=15%  Similarity=0.144  Sum_probs=61.2

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc------CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL------GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~------~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++||||||++.|+.++..|++.      +..+.++||++++++|..++++|++|++++||||+.+++|+
T Consensus       284 ~~~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls~~~R~~ve~~fk~G~i~vLVaTs~Le~GI  354 (876)
T PRK13767        284 HRTTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLSREVRLEVEEKLKRGELKVVVSSTSLELGI  354 (876)
T ss_pred             CCCEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCCHHHHHHHHHHHHcCCCeEEEECChHHhcC
Confidence            578999999999999999999873      46799999999999999999999999999999999999996

>PRK14701 reverse gyrase; Provisional

Probab=99.76  E-value=1.4e-17  Score=138.27  Aligned_cols=124  Identities=18%  Similarity=0.195  Sum_probs=99.5

Q ss_pred             hCCCCCe-EEEEEecCchhHHHHHHHhccCCcEEEcCC-cccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCc
Q psy13287          8 ILPHERQ-ILLYSATFPLTVKNFMEKHLKDPYEINLME-ELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNS   85 (140)
Q Consensus         8 ~~~~~~q-~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t   85 (140)
                      .+++.+| .+++|||+++.  .....+++++..+.++. .....++.|.++.++...+ ..+..+++.. ..++||||+|
T Consensus       264 ~~~~~~~~ll~~SAT~~~r--~~~~~l~~~~l~f~v~~~~~~lr~i~~~yi~~~~~~k-~~L~~ll~~~-g~~gIVF~~t  339 (1638)
T PRK14701        264 KIGNKIGCLIVASATGKAK--GDRVKLYRELLGFEVGSGRSALRNIVDVYLNPEKIIK-EHVRELLKKL-GKGGLIFVPI  339 (1638)
T ss_pred             hcCCCccEEEEEecCCCch--hHHHHHhhcCeEEEecCCCCCCCCcEEEEEECCHHHH-HHHHHHHHhC-CCCeEEEEec
Confidence            3455566 57799999975  22234567777777763 4466789999887766655 5677888776 4689999999


Q ss_pred             hHH---HHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEe----cccCCCC
Q psy13287         86 TQR---VELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS----GDSSAMM  140 (140)
Q Consensus        86 ~~~---~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T----~~~~rGl  140 (140)
                      ++.   |+++++.|++.|+++..+||+     |...+++|++|+++|||||    |+++|||
T Consensus       340 ~~~~e~ae~la~~L~~~Gi~a~~~h~~-----R~~~l~~F~~G~~~VLVaT~s~~gvaaRGI  396 (1638)
T PRK14701        340 DEGAEKAEEIEKYLLEDGFKIELVSAK-----NKKGFDLFEEGEIDYLIGVATYYGTLVRGL  396 (1638)
T ss_pred             cccchHHHHHHHHHHHCCCeEEEecch-----HHHHHHHHHcCCCCEEEEecCCCCeeEecC
Confidence            876   589999999999999999995     8899999999999999999    5899997

>KOG0347|consensus

Probab=99.76  E-value=4.1e-19  Score=131.82  Aligned_cols=138  Identities=23%  Similarity=0.342  Sum_probs=102.5

Q ss_pred             HHHHHhhCC-----CCCeEEEEEecCchh---------------------HHHHHHH--hccCCcEEEcCCc-ccCCCeE
Q psy13287          2 LDHVISILP-----HERQILLYSATFPLT---------------------VKNFMEK--HLKDPYEINLMEE-LTLKGVT   52 (140)
Q Consensus         2 l~~il~~~~-----~~~q~v~~SAT~~~~---------------------~~~~~~~--~~~~~~~i~~~~~-~~~~~i~   52 (140)
                      +..|++.+.     ..+|++.||||++-.                     ++.+++.  +.+.|.+|.+.+. .....+.
T Consensus       361 ls~lL~~L~e~~~~~qrQTlVFSATlt~~~~~~~~~~~k~~~k~~~~~~kiq~Lmk~ig~~~kpkiiD~t~q~~ta~~l~  440 (731)
T KOG0347|consen  361 LSKLLKHLNEEQKNRQRQTLVFSATLTLVLQQPLSSSRKKKDKEDELNAKIQHLMKKIGFRGKPKIIDLTPQSATASTLT  440 (731)
T ss_pred             HHHHHHHhhhhhcccccceEEEEEEeehhhcChhHHhhhccchhhhhhHHHHHHHHHhCccCCCeeEecCcchhHHHHHH
Confidence            455666665     358999999999722                     1112211  2235666666532 3444455


Q ss_pred             EEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEE
Q psy13287         53 QYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVC  132 (140)
Q Consensus        53 ~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~  132 (140)
                      ...+.|+..+|--.|..+|-.+ |+++|||||+.+.+.+++-.|+..++....+|+.|.+.+|...+++|++....||||
T Consensus       441 Es~I~C~~~eKD~ylyYfl~ry-PGrTlVF~NsId~vKRLt~~L~~L~i~p~~LHA~M~QKqRLknLEkF~~~~~~VLia  519 (731)
T KOG0347|consen  441 ESLIECPPLEKDLYLYYFLTRY-PGRTLVFCNSIDCVKRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFKQSPSGVLIA  519 (731)
T ss_pred             HHhhcCCccccceeEEEEEeec-CCceEEEechHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHhHHHHhcCCCeEEEe
Confidence            5555565555544344444443 889999999999999999999999999999999999999999999999999999999


Q ss_pred             ecccCCCC
Q psy13287        133 SGDSSAMM  140 (140)
Q Consensus       133 T~~~~rGl  140 (140)
                      ||++||||
T Consensus       520 TDVAARGL  527 (731)
T KOG0347|consen  520 TDVAARGL  527 (731)
T ss_pred             ehhhhccC
Confidence            99999997

>PRK00254 ski2-like helicase; Provisional

Probab=99.74  E-value=4e-17  Score=128.44  Aligned_cols=135  Identities=20%  Similarity=0.232  Sum_probs=90.4

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCe-EEEEEEcCccc--h-----HHHHHHHHh
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGV-TQYYAFVQERQ--K-----VHCLNTLFS   72 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i-~~~~~~~~~~~--k-----~~~l~~ll~   72 (140)
                      ++.++..++.+.|++++|||+++. .++.. +++........ +......+ .+.+...+...  +     ...+.+.+.
T Consensus       159 le~il~~l~~~~qiI~lSATl~n~-~~la~-wl~~~~~~~~~rpv~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  236 (720)
T PRK00254        159 LEMILTHMLGRAQILGLSATVGNA-EELAE-WLNAELVVSDWRPVKLRKGVFYQGFLFWEDGKIERFPNSWESLVYDAVK  236 (720)
T ss_pred             HHHHHHhcCcCCcEEEEEccCCCH-HHHHH-HhCCccccCCCCCCcceeeEecCCeeeccCcchhcchHHHHHHHHHHHH
Confidence            456778888889999999999863 54543 55543211111 11111111 11112222111  1     123334443


Q ss_pred             hCCCCcEEEEeCchHHHHHHHHHHHhc---------------------------------CceEEEEecCCCHHHHHHHH
Q psy13287         73 KLQINQSIIFCNSTQRVELLAKKITEL---------------------------------GYCCYYIHARMAQAHRNRVF  119 (140)
Q Consensus        73 ~~~~~~~lIF~~t~~~~~~~~~~L~~~---------------------------------~~~v~~~h~~~~~~~R~~~~  119 (140)
                        ..+++||||+|++.|+.++..|.+.                                 ...|+++||++++++|..++
T Consensus       237 --~~~~vLVF~~sr~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~hHagl~~~eR~~ve  314 (720)
T PRK00254        237 --KGKGALVFVNTRRSAEKEALELAKKIKRFLTKPELRALKELADSLEENPTNEKLKKALRGGVAFHHAGLGRTERVLIE  314 (720)
T ss_pred             --hCCCEEEEEcChHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhcCCCcHHHHHHHhhCEEEeCCCCCHHHHHHHH
Confidence              3678999999999999888766321                                 23599999999999999999


Q ss_pred             HHhhcCCccEEEEecccCCCC
Q psy13287        120 HDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       120 ~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.|++|.++|||||+.+++|+
T Consensus       315 ~~F~~G~i~VLvaT~tLa~Gv  335 (720)
T PRK00254        315 DAFREGLIKVITATPTLSAGI  335 (720)
T ss_pred             HHHHCCCCeEEEeCcHHhhhc
Confidence            999999999999999999996

>KOG0348|consensus

Probab=99.71  E-value=2.6e-17  Score=122.06  Aligned_cols=129  Identities=25%  Similarity=0.350  Sum_probs=107.3

Q ss_pred             CCeEEEEEecCchhHHHHHHHhccCCcEEEcCC--------------------------cccCCCeEEEEEEcCccchHH
Q psy13287         12 ERQILLYSATFPLTVKNFMEKHLKDPYEINLME--------------------------ELTLKGVTQYYAFVQERQKVH   65 (140)
Q Consensus        12 ~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~--------------------------~~~~~~i~~~~~~~~~~~k~~   65 (140)
                      ..|.+++|||++..|..+....+++|..|..+.                          -..++++.|.|..|+.--++-
T Consensus       331 q~q~mLlSATLtd~V~rLa~~sLkDpv~I~ld~s~~~~~p~~~a~~ev~~~~~~~~l~~~~iPeqL~qry~vVPpKLRLV  410 (708)
T KOG0348|consen  331 QLQNMLLSATLTDGVNRLADLSLKDPVYISLDKSHSQLNPKDKAVQEVDDGPAGDKLDSFAIPEQLLQRYTVVPPKLRLV  410 (708)
T ss_pred             HHHhHhhhhhhHHHHHHHhhccccCceeeeccchhhhcCcchhhhhhcCCcccccccccccCcHHhhhceEecCCchhHH
Confidence            368899999999999999999999999888321                          013557778888888877776


Q ss_pred             HHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhc----------------------CceEEEEecCCCHHHHHHHH
Q psy13287         66 CLNTLFSKL----QINQSIIFCNSTQRVELLAKKITEL----------------------GYCCYYIHARMAQAHRNRVF  119 (140)
Q Consensus        66 ~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~----------------------~~~v~~~h~~~~~~~R~~~~  119 (140)
                      .|..+|.+.    ...++|||+.+.+.++.-+..|+..                      +.++.-+||+|++++|..++
T Consensus       411 ~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f  490 (708)
T KOG0348|consen  411 ALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVF  490 (708)
T ss_pred             HHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHHHHHH
Confidence            666666443    4568999999999999998888641                      44689999999999999999


Q ss_pred             HHhhcCCccEEEEecccCCCC
Q psy13287        120 HDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       120 ~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.|+..+-.||.|||+++|||
T Consensus       491 ~~Fs~~~~~VLLcTDVAaRGL  511 (708)
T KOG0348|consen  491 QEFSHSRRAVLLCTDVAARGL  511 (708)
T ss_pred             HhhccccceEEEehhhhhccC
Confidence            999998888999999999997

>PRK10917 ATP-dependent DNA helicase RecG; Provisional

Probab=99.71  E-value=4.9e-16  Score=121.58  Aligned_cols=132  Identities=16%  Similarity=0.144  Sum_probs=88.6

Q ss_pred             HhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhC-CCCcEEEEeC
Q psy13287          6 ISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKL-QINQSIIFCN   84 (140)
Q Consensus         6 l~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~-~~~~~lIF~~   84 (140)
                      +...+.+++++++|||+.+....+......+...+...+. ....+...+..  ...+...+..+.+.. ...+++|||+
T Consensus       403 l~~~~~~~~iL~~SATp~prtl~~~~~g~~~~s~i~~~p~-~r~~i~~~~~~--~~~~~~~~~~i~~~~~~g~q~~v~~~  479 (681)
T PRK10917        403 LREKGENPHVLVMTATPIPRTLAMTAYGDLDVSVIDELPP-GRKPITTVVIP--DSRRDEVYERIREEIAKGRQAYVVCP  479 (681)
T ss_pred             HHhcCCCCCEEEEeCCCCHHHHHHHHcCCCceEEEecCCC-CCCCcEEEEeC--cccHHHHHHHHHHHHHcCCcEEEEEc
Confidence            3444557899999999887765544322112222221122 12335544433  222222222222222 4678999999


Q ss_pred             ch--------HHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         85 ST--------QRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        85 t~--------~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ..        ..++++++.|.+.  ++++..+||+|++++|..++++|++|+++|||||+++++|+
T Consensus       480 ~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~Gi  545 (681)
T PRK10917        480 LIEESEKLDLQSAEETYEELQEAFPELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATTVIEVGV  545 (681)
T ss_pred             ccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECcceeeCc
Confidence            54        4567888888776  57899999999999999999999999999999999999996

>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]

Probab=99.71  E-value=1.6e-16  Score=118.96  Aligned_cols=130  Identities=20%  Similarity=0.163  Sum_probs=103.4

Q ss_pred             HhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcC-ccchHHHHHHHHhhC--------CC
Q psy13287          6 ISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKL--------QI   76 (140)
Q Consensus         6 l~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~-~~~k~~~l~~ll~~~--------~~   76 (140)
                      ++++.+..|++++|||.-++ .++++.+--......-   . +-.+....+++. +.+|.+.+..+.+..        -.
T Consensus       366 Lr~l~~~AQ~i~LSATVgNp-~elA~~l~a~lV~y~~---R-PVplErHlvf~~~e~eK~~ii~~L~k~E~~~~sskg~r  440 (830)
T COG1202         366 LRYLFPGAQFIYLSATVGNP-EELAKKLGAKLVLYDE---R-PVPLERHLVFARNESEKWDIIARLVKREFSTESSKGYR  440 (830)
T ss_pred             HHHhCCCCeEEEEEeecCCh-HHHHHHhCCeeEeecC---C-CCChhHeeeeecCchHHHHHHHHHHHHHHhhhhccCcC
Confidence            44556789999999999866 6676665434333222   1 122333445554 678998888888655        14


Q ss_pred             CcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         77 NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +|+|||++|++.|..+|..|+..|++..+||++++..+|..+...|.++++.++|+|-+++.|+
T Consensus       441 GQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~q~l~~VVTTAAL~AGV  504 (830)
T COG1202         441 GQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAALAAGV  504 (830)
T ss_pred             CceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhcCCcceEeehhhhhcCC
Confidence            7999999999999999999999999999999999999999999999999999999999999885

>PRK02362 ski2-like helicase; Provisional

Probab=99.71  E-value=1.3e-16  Score=125.81  Aligned_cols=66  Identities=23%  Similarity=0.319  Sum_probs=59.8

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc------------------------------------CceEEEEecCCCHHHHHHH
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL------------------------------------GYCCYYIHARMAQAHRNRV  118 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~------------------------------------~~~v~~~h~~~~~~~R~~~  118 (140)
                      ..+++||||+|++.|+.+++.|.+.                                    ...++++||++++.+|..+
T Consensus       242 ~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~L~~~l~~gva~hHagl~~~eR~~v  321 (737)
T PRK02362        242 EGGQCLVFVSSRRNAEGFAKRAASALKKTLTAAERAELAELAEEIREVSDTETSKDLADCVAKGAAFHHAGLSREHRELV  321 (737)
T ss_pred             cCCCeEEEEeCHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhccCccccHHHHHHHHhCEEeecCCCCHHHHHHH
Confidence            4689999999999999999888643                                    1368999999999999999


Q ss_pred             HHHhhcCCccEEEEecccCCCC
Q psy13287        119 FHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       119 ~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++.|++|+++|||||+.+++|+
T Consensus       322 e~~Fr~G~i~VLvaT~tla~Gv  343 (737)
T PRK02362        322 EDAFRDRLIKVISSTPTLAAGL  343 (737)
T ss_pred             HHHHHcCCCeEEEechhhhhhc
Confidence            9999999999999999999996

>PRK01172 ski2-like helicase; Provisional

Probab=99.68  E-value=7e-16  Score=120.78  Aligned_cols=129  Identities=16%  Similarity=0.178  Sum_probs=85.5

Q ss_pred             hhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEE-----EcCccch-HHHHHHHHhh--CCCCc
Q psy13287          7 SILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYA-----FVQERQK-VHCLNTLFSK--LQINQ   78 (140)
Q Consensus         7 ~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~-----~~~~~~k-~~~l~~ll~~--~~~~~   78 (140)
                      +.++++.|++++|||+++. .++. .+++.+. +...  ..+..+...+.     .+....+ ...+..++..  .+.++
T Consensus       164 ~~~~~~~riI~lSATl~n~-~~la-~wl~~~~-~~~~--~r~vpl~~~i~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~  238 (674)
T PRK01172        164 RYVNPDARILALSATVSNA-NELA-QWLNASL-IKSN--FRPVPLKLGILYRKRLILDGYERSQVDINSLIKETVNDGGQ  238 (674)
T ss_pred             HhcCcCCcEEEEeCccCCH-HHHH-HHhCCCc-cCCC--CCCCCeEEEEEecCeeeecccccccccHHHHHHHHHhCCCc
Confidence            3455688999999999853 4444 3554322 1111  11111111111     1111111 1112333332  14689


Q ss_pred             EEEEeCchHHHHHHHHHHHhc-------------------------CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEe
Q psy13287         79 SIIFCNSTQRVELLAKKITEL-------------------------GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS  133 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~-------------------------~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T  133 (140)
                      +||||++++.++.+++.|.+.                         ...++++||++++++|..+++.|++|.++|||||
T Consensus       239 vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f~~g~i~VLvaT  318 (674)
T PRK01172        239 VLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRNRYIKVIVAT  318 (674)
T ss_pred             EEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHHHcCCCeEEEec
Confidence            999999999999999988653                         1248899999999999999999999999999999


Q ss_pred             cccCCCC
Q psy13287        134 GDSSAMM  140 (140)
Q Consensus       134 ~~~~rGl  140 (140)
                      +++++|+
T Consensus       319 ~~la~Gv  325 (674)
T PRK01172        319 PTLAAGV  325 (674)
T ss_pred             chhhccC
Confidence            9999996

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

Probab=99.67  E-value=2.9e-15  Score=117.36  Aligned_cols=132  Identities=17%  Similarity=0.146  Sum_probs=96.3

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccC--CcEEEcCCcccCCCeEEEEEEcCcc---------chHHHHHHHH
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKD--PYEINLMEELTLKGVTQYYAFVQER---------QKVHCLNTLF   71 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~--~~~i~~~~~~~~~~i~~~~~~~~~~---------~k~~~l~~ll   71 (140)
                      +++....+ +.|.+.+|||..+. ....+-+.+.  +..|.--....  .....++.....         .-+..+.+++
T Consensus       175 eRL~~l~~-~~qRIGLSATV~~~-~~varfL~g~~~~~~Iv~~~~~k--~~~i~v~~p~~~~~~~~~~~~~~~~~i~~~v  250 (814)
T COG1201         175 ERLRELAG-DFQRIGLSATVGPP-EEVAKFLVGFGDPCEIVDVSAAK--KLEIKVISPVEDLIYDEELWAALYERIAELV  250 (814)
T ss_pred             HHHHhhCc-ccEEEeehhccCCH-HHHHHHhcCCCCceEEEEcccCC--cceEEEEecCCccccccchhHHHHHHHHHHH
Confidence            44444444 89999999999854 5555555554  33332222222  233333332211         1345566665


Q ss_pred             hhCCCCcEEEEeCchHHHHHHHHHHHhcC-ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         72 SKLQINQSIIFCNSTQRVELLAKKITELG-YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        72 ~~~~~~~~lIF~~t~~~~~~~~~~L~~~~-~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++  ...+|||+||+..+|.++..|++.+ ..+..+||+++.++|..+.++|++|+++++|||+-++.|+
T Consensus       251 ~~--~~ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~lravV~TSSLELGI  318 (814)
T COG1201         251 KK--HRTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLELGI  318 (814)
T ss_pred             hh--cCcEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhcCCceEEEEccchhhcc
Confidence            55  3489999999999999999999986 8999999999999999999999999999999999999986

>KOG0351|consensus

Probab=99.66  E-value=2.8e-15  Score=119.25  Aligned_cols=135  Identities=14%  Similarity=0.116  Sum_probs=109.9

Q ss_pred             HHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhC-CCCcEEEEe
Q psy13287          5 VISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKL-QINQSIIFC   83 (140)
Q Consensus         5 il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~-~~~~~lIF~   83 (140)
                      +....+ ..+++.++||.++.+++.+-..++-...........++|+...+..-...+....+...++.. +...+||||
T Consensus       414 l~~~~~-~vP~iALTATAT~~v~~DIi~~L~l~~~~~~~~sfnR~NL~yeV~~k~~~~~~~~~~~~~~~~~~~~s~IIYC  492 (941)
T KOG0351|consen  414 LRIRFP-GVPFIALTATATERVREDVIRSLGLRNPELFKSSFNRPNLKYEVSPKTDKDALLDILEESKLRHPDQSGIIYC  492 (941)
T ss_pred             HHhhCC-CCCeEEeehhccHHHHHHHHHHhCCCCcceecccCCCCCceEEEEeccCccchHHHHHHhhhcCCCCCeEEEe
Confidence            344444 488999999999999999999887433334455667778887776544344454555555544 567899999


Q ss_pred             CchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         84 NSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        84 ~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .++.+|+.++..|++.|++.++||++|++.+|..+-++|..++++|+|||=++++|+
T Consensus       493 ~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~~~~~VivATVAFGMGI  549 (941)
T KOG0351|consen  493 LSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDKIRVIVATVAFGMGI  549 (941)
T ss_pred             CCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHHHhcCCCeEEEEEeeccCCC
Confidence            999999999999999999999999999999999999999999999999999999996

>PRK12898 secA preprotein translocase subunit SecA; Reviewed

Probab=99.65  E-value=1.6e-15  Score=116.76  Aligned_cols=124  Identities=11%  Similarity=-0.015  Sum_probs=96.0

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVEL   91 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~   91 (140)
                      ....||||.+....++.+.+.-++..|....+.. ....+.++.+...+|...|.+++...  ...++||||+|++.++.
T Consensus       410 kl~GmTGTa~~~~~El~~~y~l~vv~IPt~kp~~-r~~~~~~v~~t~~~K~~aL~~~i~~~~~~~~pvLIft~t~~~se~  488 (656)
T PRK12898        410 RLAGMTGTAREVAGELWSVYGLPVVRIPTNRPSQ-RRHLPDEVFLTAAAKWAAVAARVRELHAQGRPVLVGTRSVAASER  488 (656)
T ss_pred             HHhcccCcChHHHHHHHHHHCCCeEEeCCCCCcc-ceecCCEEEeCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHH
Confidence            4578999999887777777766765555543322 22344556677788999999988765  35789999999999999


Q ss_pred             HHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         92 LAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        92 ~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +++.|++.|+++..+||++++  |+..+..|+.++..|+||||+++||+
T Consensus       489 L~~~L~~~gi~~~~Lhg~~~~--rE~~ii~~ag~~g~VlVATdmAgRGt  535 (656)
T PRK12898        489 LSALLREAGLPHQVLNAKQDA--EEAAIVARAGQRGRITVATNMAGRGT  535 (656)
T ss_pred             HHHHHHHCCCCEEEeeCCcHH--HHHHHHHHcCCCCcEEEEccchhccc
Confidence            999999999999999999654  44555556666668999999999996

>TIGR00643 recG ATP-dependent DNA helicase RecG

Probab=99.65  E-value=6.5e-15  Score=114.50  Aligned_cols=125  Identities=17%  Similarity=0.145  Sum_probs=84.9

Q ss_pred             CCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhC-CCCcEEEEeCch---
Q psy13287         12 ERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKL-QINQSIIFCNST---   86 (140)
Q Consensus        12 ~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~-~~~~~lIF~~t~---   86 (140)
                      +++++++|||+++....+..  .++.....+. .......+...+.  ....+...+..+.+.. ...+++|||+..   
T Consensus       386 ~~~~l~~SATp~prtl~l~~--~~~l~~~~i~~~p~~r~~i~~~~~--~~~~~~~~~~~i~~~l~~g~q~~v~~~~i~~s  461 (630)
T TIGR00643       386 TPHVLVMSATPIPRTLALTV--YGDLDTSIIDELPPGRKPITTVLI--KHDEKDIVYEFIEEEIAKGRQAYVVYPLIEES  461 (630)
T ss_pred             CCCEEEEeCCCCcHHHHHHh--cCCcceeeeccCCCCCCceEEEEe--CcchHHHHHHHHHHHHHhCCcEEEEEcccccc
Confidence            68999999998776544432  2221111111 1111233444433  3333333333333332 467899999875   


Q ss_pred             -----HHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         87 -----QRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        87 -----~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                           ..++.+++.|.+.  +++|..+||+|++++|..++++|++|+.+|||||+++++|+
T Consensus       462 ~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~Gv  522 (630)
T TIGR00643       462 EKLDLKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEVGV  522 (630)
T ss_pred             ccchHHHHHHHHHHHHhhCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECceeecCc
Confidence                 4577888888764  78899999999999999999999999999999999999996

>PRK11131 ATP-dependent RNA helicase HrpA; Provisional

Probab=99.64  E-value=6.2e-15  Score=119.95  Aligned_cols=123  Identities=16%  Similarity=0.252  Sum_probs=89.5

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccc------hHHHHHHHHh---hCCCCcEEE
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQ------KVHCLNTLFS---KLQINQSII   81 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~------k~~~l~~ll~---~~~~~~~lI   81 (140)
                      ++.|++++|||++..  .+. .++.+...+.+....  ..+.++|......+      .+..+...+.   ..+++++||
T Consensus       217 pdlKvILmSATid~e--~fs-~~F~~apvI~V~Gr~--~pVei~y~p~~~~~~~~~~d~l~~ll~~V~~l~~~~~GdILV  291 (1294)
T PRK11131        217 PDLKVIITSATIDPE--RFS-RHFNNAPIIEVSGRT--YPVEVRYRPIVEEADDTERDQLQAIFDAVDELGREGPGDILI  291 (1294)
T ss_pred             CCceEEEeeCCCCHH--HHH-HHcCCCCEEEEcCcc--ccceEEEeecccccchhhHHHHHHHHHHHHHHhcCCCCCEEE
Confidence            368999999999843  444 445544456665322  23566666553321      2233333222   235688999


Q ss_pred             EeCchHHHHHHHHHHHhcCce---EEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITELGYC---CYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~~~~---v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||++.++++.+++.|++.+++   +..+||++++++|..+++.  .|+.+|+||||++++|+
T Consensus       292 FLpg~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~--~g~rkIIVATNIAEtSI  351 (1294)
T PRK11131        292 FMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQS--HSGRRIVLATNVAETSL  351 (1294)
T ss_pred             EcCCHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhcc--cCCeeEEEeccHHhhcc
Confidence            999999999999999987654   7899999999999999986  58899999999999996

>KOG0350|consensus

Probab=99.63  E-value=8.1e-16  Score=113.32  Aligned_cols=130  Identities=15%  Similarity=0.217  Sum_probs=114.2

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-----CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCc
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLM-----EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNS   85 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-----~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t   85 (140)
                      +..+.+++|||++.....+..--++.|....+.     .-..++.+.|+.+.++..-|+-.+..++...+..++|+|+++
T Consensus       359 ~~l~kL~~satLsqdP~Kl~~l~l~~Prl~~v~~~~~~ryslp~~l~~~~vv~~~~~kpl~~~~lI~~~k~~r~lcf~~S  438 (620)
T KOG0350|consen  359 PPLWKLVFSATLSQDPSKLKDLTLHIPRLFHVSKPLIGRYSLPSSLSHRLVVTEPKFKPLAVYALITSNKLNRTLCFVNS  438 (620)
T ss_pred             chhHhhhcchhhhcChHHHhhhhcCCCceEEeecccceeeecChhhhhceeecccccchHhHHHHHHHhhcceEEEEecc
Confidence            345689999999988888888888888665554     235788899999999988999999999988888999999999


Q ss_pred             hHHHHHHHHHHH----hcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         86 TQRVELLAKKIT----ELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        86 ~~~~~~~~~~L~----~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+.+.+++..|.    +.+.++..|.|.++...|.+.+++|..|++++|||||+++|||
T Consensus       439 ~~sa~Rl~~~L~v~~~~~~~~~s~~t~~l~~k~r~k~l~~f~~g~i~vLIcSD~laRGi  497 (620)
T KOG0350|consen  439 VSSANRLAHVLKVEFCSDNFKVSEFTGQLNGKRRYKMLEKFAKGDINVLICSDALARGI  497 (620)
T ss_pred             hHHHHHHHHHHHHHhccccchhhhhhhhhhHHHHHHHHHHHhcCCceEEEehhhhhcCC
Confidence            999999999886    3466788899999999999999999999999999999999997

>KOG0349|consensus

Probab=99.62  E-value=3.1e-15  Score=109.22  Aligned_cols=129  Identities=20%  Similarity=0.351  Sum_probs=103.5

Q ss_pred             CCeEEEEEecCch-hHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCcc----------------------------
Q psy13287         12 ERQILLYSATFPL-TVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER----------------------------   61 (140)
Q Consensus        12 ~~q~v~~SAT~~~-~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~----------------------------   61 (140)
                      ..|.++.|||+.. ++..+.++.|+=|.++.+. .+..++.++|.+..+.+.                            
T Consensus       400 rlq~~vCsatlh~feVkk~~ervmhfptwVdLkgeD~vpetvHhvv~lv~p~~d~sw~~lr~~i~td~vh~kdn~~pg~~  479 (725)
T KOG0349|consen  400 RLQSPVCSATLHIFEVKKVGERVMHFPTWVDLKGEDLVPETVHHVVKLVCPSVDGSWCDLRQFIETDKVHTKDNLLPGQV  479 (725)
T ss_pred             ccccceeeeEEeEEEeeehhhhhccCceeEecccccccchhhccceeecCCccCccHHHHhhhhccCCcccccccccccC
Confidence            4789999999974 3677888889999999997 556777788777765421                            


Q ss_pred             --chHHHHHHHH---------hhCCCCcEEEEeCchHHHHHHHHHHHhc---CceEEEEecCCCHHHHHHHHHHhhcCCc
Q psy13287         62 --QKVHCLNTLF---------SKLQINQSIIFCNSTQRVELLAKKITEL---GYCCYYIHARMAQAHRNRVFHDFRSGLC  127 (140)
Q Consensus        62 --~k~~~l~~ll---------~~~~~~~~lIF~~t~~~~~~~~~~L~~~---~~~v~~~h~~~~~~~R~~~~~~f~~g~~  127 (140)
                        +....-.+++         ++...+++||||-|+.+|+.+.+.+++.   .++|.++||+..+++|.+.+++|+.+++
T Consensus       480 Spe~~s~a~kilkgEy~v~ai~~h~mdkaiifcrtk~dcDnLer~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk~dv  559 (725)
T KOG0349|consen  480 SPENPSSATKILKGEYGVVAIRRHAMDKAIIFCRTKQDCDNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKKFDV  559 (725)
T ss_pred             CCCChhhhhHHhcCchhhhhhhhhccCceEEEEeccccchHHHHHHHHcCCccceeEEEecCCChhHHHHHHHhhhhcCe
Confidence              0111122222         2225678999999999999999999887   4689999999999999999999999999


Q ss_pred             cEEEEecccCCCC
Q psy13287        128 RNLVCSGDSSAMM  140 (140)
Q Consensus       128 ~vlv~T~~~~rGl  140 (140)
                      +.|||||+++||+
T Consensus       560 kflictdvaargl  572 (725)
T KOG0349|consen  560 KFLICTDVAARGL  572 (725)
T ss_pred             EEEEEehhhhccc
Confidence            9999999999996

>PRK09694 helicase Cas3; Provisional

Probab=99.56  E-value=2.1e-13  Score=108.53  Aligned_cols=76  Identities=24%  Similarity=0.354  Sum_probs=61.9

Q ss_pred             HHHHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcC---ceEEEEecCCCHHHH----HHHHHHh-hcCC---ccEEEE
Q psy13287         65 HCLNTLFSKL-QINQSIIFCNSTQRVELLAKKITELG---YCCYYIHARMAQAHR----NRVFHDF-RSGL---CRNLVC  132 (140)
Q Consensus        65 ~~l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~---~~v~~~h~~~~~~~R----~~~~~~f-~~g~---~~vlv~  132 (140)
                      ..+..+++.. ..++++|||||++.|+++++.|++.+   .++..+||.+++.+|    ..+++.| ++|+   ..||||
T Consensus       548 ~~l~~i~~~~~~g~~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVa  627 (878)
T PRK09694        548 TLLQRMIAAANAGAQVCLICNLVDDAQKLYQRLKELNNTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVA  627 (878)
T ss_pred             HHHHHHHHHHhcCCEEEEEECCHHHHHHHHHHHHhhCCCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEE
Confidence            4444444443 45789999999999999999999764   689999999999999    4567788 6676   479999


Q ss_pred             ecccCCCC
Q psy13287        133 SGDSSAMM  140 (140)
Q Consensus       133 T~~~~rGl  140 (140)
                      |+++++|+
T Consensus       628 TQViE~GL  635 (878)
T PRK09694        628 TQVVEQSL  635 (878)
T ss_pred             Ccchhhee
Confidence            99999996

>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=99.55  E-value=2.4e-13  Score=85.48  Aligned_cols=89  Identities=26%  Similarity=0.361  Sum_probs=78.1

Q ss_pred             eEEEEEEcCccchHHHHHHHHhhCC--CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCcc
Q psy13287         51 VTQYYAFVQERQKVHCLNTLFSKLQ--INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCR  128 (140)
Q Consensus        51 i~~~~~~~~~~~k~~~l~~ll~~~~--~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~  128 (140)
                      +.+.+...+ +.|...+.+++.+..  .+++||||++.+.++.+++.|.+.+..+..+||+++..+|..+++.|++|...
T Consensus         2 i~~~~~~~~-~~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~   80 (131)
T cd00079           2 IKQYVLPVE-DEKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEIV   80 (131)
T ss_pred             cEEEEEECC-HHHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCCCc
Confidence            344444433 378888888888764  68899999999999999999999889999999999999999999999999999


Q ss_pred             EEEEecccCCCC
Q psy13287        129 NLVCSGDSSAMM  140 (140)
Q Consensus       129 vlv~T~~~~rGl  140 (140)
                      +|+||+.+++|+
T Consensus        81 ili~t~~~~~G~   92 (131)
T cd00079          81 VLVATDVIARGI   92 (131)
T ss_pred             EEEEcChhhcCc
Confidence            999999999996

>PHA02558 uvsW UvsW helicase; Provisional

Probab=99.54  E-value=1.1e-13  Score=105.27  Aligned_cols=78  Identities=17%  Similarity=0.182  Sum_probs=67.3

Q ss_pred             hHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEe-cccCCC
Q psy13287         63 KVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS-GDSSAM  139 (140)
Q Consensus        63 k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T-~~~~rG  139 (140)
                      +...+.+++...  .+.+++|||++.+.++.+++.|++.+.++..+||++++++|..+++.|++|+..+|||| +++++|
T Consensus       329 Rn~~I~~~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~~~vLvaT~~~l~eG  408 (501)
T PHA02558        329 RNKWIANLALKLAKKGENTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGKGIIIVASYGVFSTG  408 (501)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCCCeEEEEEcceeccc
Confidence            444455544333  35678999999999999999999999999999999999999999999999999999999 899999


Q ss_pred             C
Q psy13287        140 M  140 (140)
Q Consensus       140 l  140 (140)
                      +
T Consensus       409 ~  409 (501)
T PHA02558        409 I  409 (501)
T ss_pred             c
Confidence            6

>COG1204 Superfamily II helicase [General function prediction only]

Probab=99.54  E-value=1.1e-13  Score=108.91  Aligned_cols=129  Identities=21%  Similarity=0.166  Sum_probs=88.3

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCccc--CCCeEEEEEEcCccch-------HHHHHHHHhhC-CCCcEE
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELT--LKGVTQYYAFVQERQK-------VHCLNTLFSKL-QINQSI   80 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~--~~~i~~~~~~~~~~~k-------~~~l~~ll~~~-~~~~~l   80 (140)
                      ...|++.+|||+|+. .+++..+-.++......+...  .-...+.+.......|       ...+...+... .++|+|
T Consensus       179 ~~~rivgLSATlpN~-~evA~wL~a~~~~~~~rp~~l~~~v~~~~~~~~~~~~~k~~~~~~~~~~~~~v~~~~~~~~qvL  257 (766)
T COG1204         179 ELIRIVGLSATLPNA-EEVADWLNAKLVESDWRPVPLRRGVPYVGAFLGADGKKKTWPLLIDNLALELVLESLAEGGQVL  257 (766)
T ss_pred             cceEEEEEeeecCCH-HHHHHHhCCcccccCCCCcccccCCccceEEEEecCccccccccchHHHHHHHHHHHhcCCeEE
Confidence            347999999999965 555544433444222222221  1122223333332222       33344444444 478999


Q ss_pred             EEeCchHHHHHHHHHHHh---------------------c----------------CceEEEEecCCCHHHHHHHHHHhh
Q psy13287         81 IFCNSTQRVELLAKKITE---------------------L----------------GYCCYYIHARMAQAHRNRVFHDFR  123 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~---------------------~----------------~~~v~~~h~~~~~~~R~~~~~~f~  123 (140)
                      |||+|++.++..|+.|++                     .                ...++++|++++.++|..+.+.|+
T Consensus       258 vFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHhAGL~~~~R~~vE~~Fr  337 (766)
T COG1204         258 VFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPREDRQLVEDAFR  337 (766)
T ss_pred             EEEecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccccCCCHHHHHHHHHHHh
Confidence            999999999999999983                     0                113789999999999999999999


Q ss_pred             cCCccEEEEecccCCCC
Q psy13287        124 SGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       124 ~g~~~vlv~T~~~~rGl  140 (140)
                      +|+++|||||+.+|+|+
T Consensus       338 ~g~ikVlv~TpTLA~GV  354 (766)
T COG1204         338 KGKIKVLVSTPTLAAGV  354 (766)
T ss_pred             cCCceEEEechHHhhhc
Confidence            99999999999999995

>PRK04914 ATP-dependent helicase HepA; Validated

Probab=99.53  E-value=5.8e-14  Score=112.41  Aligned_cols=81  Identities=17%  Similarity=0.227  Sum_probs=73.9

Q ss_pred             ccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHH-hcCceEEEEecCCCHHHHHHHHHHhhcC--CccEEEEeccc
Q psy13287         60 ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKIT-ELGYCCYYIHARMAQAHRNRVFHDFRSG--LCRNLVCSGDS  136 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~-~~~~~v~~~h~~~~~~~R~~~~~~f~~g--~~~vlv~T~~~  136 (140)
                      .+.|.+.|.++++...+.++||||+++..+..+++.|+ ..|+++..+||+|++.+|..+++.|+++  ..+|||||+++
T Consensus       477 ~d~Ki~~L~~~L~~~~~~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~VLIsTdvg  556 (956)
T PRK04914        477 FDPRVEWLIDFLKSHRSEKVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDGAQVLLCSEIG  556 (956)
T ss_pred             cCHHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCCCCccEEEechhh
Confidence            34578889999988778899999999999999999995 5699999999999999999999999984  69999999999


Q ss_pred             CCCC
Q psy13287        137 SAMM  140 (140)
Q Consensus       137 ~rGl  140 (140)
                      ++|+
T Consensus       557 seGl  560 (956)
T PRK04914        557 SEGR  560 (956)
T ss_pred             ccCC
Confidence            9996

>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]

Probab=99.53  E-value=2.1e-13  Score=96.98  Aligned_cols=126  Identities=17%  Similarity=0.158  Sum_probs=87.8

Q ss_pred             CCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC--CcccCCCeEEEEEEcCc-cchH------HHHHHHHhhC--CCCc
Q psy13287         10 PHERQILLYSATFPLTVKNFMEKHLKDPYEINLM--EELTLKGVTQYYAFVQE-RQKV------HCLNTLFSKL--QINQ   78 (140)
Q Consensus        10 ~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~--~~~~~~~i~~~~~~~~~-~~k~------~~l~~ll~~~--~~~~   78 (140)
                      ..+..++++|||.|..++..+...-..  .+.+.  -+..+-.+. .++|+.+ ..++      ..|..++++.  ...+
T Consensus       231 k~~g~~IylTATp~k~l~r~~~~g~~~--~~klp~RfH~~pLpvP-kf~w~~~~~k~l~r~kl~~kl~~~lekq~~~~~P  307 (441)
T COG4098         231 KKEGATIYLTATPTKKLERKILKGNLR--ILKLPARFHGKPLPVP-KFVWIGNWNKKLQRNKLPLKLKRWLEKQRKTGRP  307 (441)
T ss_pred             cccCceEEEecCChHHHHHHhhhCCee--EeecchhhcCCCCCCC-ceEEeccHHHHhhhccCCHHHHHHHHHHHhcCCc
Confidence            345679999999997766554333222  22222  111111122 3344432 2222      3577777655  3578


Q ss_pred             EEEEeCchHHHHHHHHHHHh-cC-ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         79 SIIFCNSTQRVELLAKKITE-LG-YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~-~~-~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++||+++.+..+.+++.|.+ .. ..++++|+.  .+.|.+..+.||+|++++||+|++++||.
T Consensus       308 ~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~--d~~R~EkV~~fR~G~~~lLiTTTILERGV  369 (441)
T COG4098         308 VLIFFPEIETMEQVAAALKKKLPKETIASVHSE--DQHRKEKVEAFRDGKITLLITTTILERGV  369 (441)
T ss_pred             EEEEecchHHHHHHHHHHHhhCCccceeeeecc--CccHHHHHHHHHcCceEEEEEeehhhccc
Confidence            99999999999999999954 43 467999998  77899999999999999999999999995

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA

Probab=99.52  E-value=3e-13  Score=110.54  Aligned_cols=130  Identities=15%  Similarity=0.194  Sum_probs=89.6

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCc------cchHHHHHHHHhh---
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE------RQKVHCLNTLFSK---   73 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~------~~k~~~l~~ll~~---   73 (140)
                      ++++... ++.|++++|||++.  ..+ ..++.+...+.+.....  .+..+|.....      .++.+.+...+..   
T Consensus       203 k~il~~r-pdLKlIlmSATld~--~~f-a~~F~~apvI~V~Gr~~--PVev~Y~~~~~~~~~~~~~~~~~i~~~I~~l~~  276 (1283)
T TIGR01967       203 KQLLPRR-PDLKIIITSATIDP--ERF-SRHFNNAPIIEVSGRTY--PVEVRYRPLVEEQEDDDLDQLEAILDAVDELFA  276 (1283)
T ss_pred             HHHHhhC-CCCeEEEEeCCcCH--HHH-HHHhcCCCEEEECCCcc--cceeEEecccccccchhhhHHHHHHHHHHHHHh
Confidence            4444433 47899999999974  334 44455444565543222  24444444321      1233444443432   


Q ss_pred             CCCCcEEEEeCchHHHHHHHHHHHhcC---ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         74 LQINQSIIFCNSTQRVELLAKKITELG---YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        74 ~~~~~~lIF~~t~~~~~~~~~~L~~~~---~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ..++++|||+++.++++.+++.|++.+   +.+..+||++++++|..+++.+  +..+|+||||++++|+
T Consensus       277 ~~~GdILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~--~~rkIVLATNIAEtSL  344 (1283)
T TIGR01967       277 EGPGDILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH--SGRRIVLATNVAETSL  344 (1283)
T ss_pred             hCCCCEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC--CCceEEEeccHHHhcc
Confidence            256889999999999999999998764   4689999999999999997764  3469999999999996

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.

>KOG0353|consensus

Probab=99.52  E-value=4.6e-14  Score=101.83  Aligned_cols=137  Identities=13%  Similarity=0.086  Sum_probs=113.0

Q ss_pred             HHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCc--cchHHHHHHHHhhC-CCCcEE
Q psy13287          4 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE--RQKVHCLNTLFSKL-QINQSI   80 (140)
Q Consensus         4 ~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~--~~k~~~l~~ll~~~-~~~~~l   80 (140)
                      .|+++--++.+++.++||.++++...++..+.-..-+....+..++++...+..-+.  ++-.+-+.++++.. ....+|
T Consensus       242 ~ilkrqf~~~~iigltatatn~vl~d~k~il~ie~~~tf~a~fnr~nl~yev~qkp~n~dd~~edi~k~i~~~f~gqsgi  321 (695)
T KOG0353|consen  242 GILKRQFKGAPIIGLTATATNHVLDDAKDILCIEAAFTFRAGFNRPNLKYEVRQKPGNEDDCIEDIAKLIKGDFAGQSGI  321 (695)
T ss_pred             HHHHHhCCCCceeeeehhhhcchhhHHHHHHhHHhhheeecccCCCCceeEeeeCCCChHHHHHHHHHHhccccCCCcce
Confidence            356666678899999999999999999998874434444445566777777766543  34466677777543 456689


Q ss_pred             EEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||-+++++|.++..|...|+....||+.|.+++|..+-+.|..|++.|+|+|-.+++|+
T Consensus       322 iyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq~w~a~eiqvivatvafgmgi  381 (695)
T KOG0353|consen  322 IYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIAGEIQVIVATVAFGMGI  381 (695)
T ss_pred             EEEeccccHHHHHHHHHhcCccccccccccCccccccccccccccceEEEEEEeeecccC
Confidence            999999999999999999999999999999999999999999999999999999999986

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

Probab=99.52  E-value=4.5e-13  Score=102.42  Aligned_cols=131  Identities=16%  Similarity=0.253  Sum_probs=92.4

Q ss_pred             HHhhCCC-CCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccC--CCeEEEEEEcCccchHHHHHHHHhhC-CCCcEE
Q psy13287          5 VISILPH-ERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTL--KGVTQYYAFVQERQKVHCLNTLFSKL-QINQSI   80 (140)
Q Consensus         5 il~~~~~-~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~--~~i~~~~~~~~~~~k~~~l~~ll~~~-~~~~~l   80 (140)
                      .+..... .+..+.||||+-|+...+.  .+++- .+++-++.++  ..|.-++  ++.+.+.+++..+-+.. +..|+.
T Consensus       403 ~L~~KG~~~Ph~LvMTATPIPRTLAlt--~fgDl-dvS~IdElP~GRkpI~T~~--i~~~~~~~v~e~i~~ei~~GrQaY  477 (677)
T COG1200         403 ALREKGEQNPHVLVMTATPIPRTLALT--AFGDL-DVSIIDELPPGRKPITTVV--IPHERRPEVYERIREEIAKGRQAY  477 (677)
T ss_pred             HHHHhCCCCCcEEEEeCCCchHHHHHH--Hhccc-cchhhccCCCCCCceEEEE--eccccHHHHHHHHHHHHHcCCEEE
Confidence            3455555 6889999999988876654  44442 2333233222  3344433  34445555555444443 567899


Q ss_pred             EEeCchH--------HHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQ--------RVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~--------~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +-|+-.+        .|+++++.|+..  ++++..+||.|+.+++.+++++|++|+++|||||++.+.|+
T Consensus       478 ~VcPLIeESE~l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTVIEVGV  547 (677)
T COG1200         478 VVCPLIEESEKLELQAAEELYEELKSFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVGV  547 (677)
T ss_pred             EEeccccccccchhhhHHHHHHHHHHHcccceeEEEecCCChHHHHHHHHHHHcCCCcEEEEeeEEEecc
Confidence            9997654        466778888754  67899999999999999999999999999999999999885

>TIGR00631 uvrb excinuclease ABC, B subunit

Probab=99.52  E-value=4.9e-13  Score=104.10  Aligned_cols=79  Identities=19%  Similarity=0.217  Sum_probs=69.9

Q ss_pred             chHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCC
Q psy13287         62 QKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        62 ~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      .+++.+.+.+...  +..++||||+|++.++.+++.|.+.|+++..+||++++.+|.+++++|+.|++++||||+++++|
T Consensus       426 ~qi~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~G~i~VLV~t~~L~rG  505 (655)
T TIGR00631       426 GQVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGINLLREG  505 (655)
T ss_pred             chHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhcCCceEEEEcChhcCC
Confidence            3455555555432  46789999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C
Q psy13287        140 M  140 (140)
Q Consensus       140 l  140 (140)
                      +
T Consensus       506 f  506 (655)
T TIGR00631       506 L  506 (655)
T ss_pred             e
Confidence            5

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

>TIGR03714 secA2 accessory Sec system translocase SecA2

Probab=99.48  E-value=6.5e-13  Score=103.84  Aligned_cols=123  Identities=10%  Similarity=0.045  Sum_probs=91.3

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhh--CCCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSK--LQINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~--~~~~~~lIF~~t~~~~~   90 (140)
                      ....+|.|......++.+.+  +-..+.+.+..+.....+ -.+++...+|...+.+.+..  ....|+||||+|++.++
T Consensus       361 kl~GmTGTa~~~~~Ef~~iY--~l~v~~IPt~kp~~r~d~~d~i~~~~~~K~~ai~~~i~~~~~~~~pvLIft~s~~~se  438 (762)
T TIGR03714       361 KLSGMTGTGKVAEKEFIETY--SLSVVKIPTNKPIIRIDYPDKIYATLPEKLMATLEDVKEYHETGQPVLLITGSVEMSE  438 (762)
T ss_pred             hhcccCCCChhHHHHHHHHh--CCCEEEcCCCCCeeeeeCCCeEEECHHHHHHHHHHHHHHHhhCCCCEEEEECcHHHHH
Confidence            46778888765544443322  222344433222211111 23556677899888888865  35778999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|.+.|+++..+||++++.+|..+.++++.|  .|+||||+++||+
T Consensus       439 ~ls~~L~~~gi~~~~L~a~~~~~E~~ii~~ag~~g--~VlIATdmAgRGt  486 (762)
T TIGR03714       439 IYSELLLREGIPHNLLNAQNAAKEAQIIAEAGQKG--AVTVATSMAGRGT  486 (762)
T ss_pred             HHHHHHHHCCCCEEEecCCChHHHHHHHHHcCCCC--eEEEEcccccccc
Confidence            99999999999999999999999998888888777  7999999999995

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.

>PRK09200 preprotein translocase subunit SecA; Reviewed

Probab=99.47  E-value=7.2e-13  Score=104.23  Aligned_cols=123  Identities=13%  Similarity=0.077  Sum_probs=90.3

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      .+..+|.|....-.++. ... +-..+.+.+..+.....+ -.+++...+|...+...+...  ...++||||+|++.++
T Consensus       365 kl~GmTGTa~t~~~e~~-~~Y-~l~v~~IPt~kp~~r~d~~~~i~~~~~~K~~al~~~i~~~~~~~~pvLIf~~t~~~se  442 (790)
T PRK09200        365 KLSGMTGTAKTEEKEFF-EVY-NMEVVQIPTNRPIIRIDYPDKVFVTLDEKYKAVIEEVKERHETGRPVLIGTGSIEQSE  442 (790)
T ss_pred             HHhccCCCChHHHHHHH-HHh-CCcEEECCCCCCcccccCCCeEEcCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHH
Confidence            46778889865433332 222 223344433222111111 234456678999888888653  5788999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|.+.|+++..+||+++++++..+...++.|  +|+||||+++||+
T Consensus       443 ~l~~~L~~~gi~~~~L~~~~~~~e~~~i~~ag~~g--~VlIATdmAgRG~  490 (790)
T PRK09200        443 TFSKLLDEAGIPHNLLNAKNAAKEAQIIAEAGQKG--AVTVATNMAGRGT  490 (790)
T ss_pred             HHHHHHHHCCCCEEEecCCccHHHHHHHHHcCCCC--eEEEEccchhcCc
Confidence            99999999999999999999999998888888777  8999999999996

>PRK05298 excinuclease ABC subunit B; Provisional

Probab=99.47  E-value=1.3e-12  Score=102.02  Aligned_cols=79  Identities=20%  Similarity=0.214  Sum_probs=70.0

Q ss_pred             chHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCC
Q psy13287         62 QKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        62 ~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      .+++.+.+.+...  ...++||||+|++.++.+++.|.+.|+++..+||++++.+|..++++|+.|++.++|||+++++|
T Consensus       430 ~q~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~g~i~vlV~t~~L~rG  509 (652)
T PRK05298        430 GQVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREG  509 (652)
T ss_pred             ccHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHcCCceEEEEeCHHhCC
Confidence            3455555555433  46789999999999999999999999999999999999999999999999999999999999999


Q ss_pred             C
Q psy13287        140 M  140 (140)
Q Consensus       140 l  140 (140)
                      +
T Consensus       510 f  510 (652)
T PRK05298        510 L  510 (652)
T ss_pred             c
Confidence            6

>PRK12904 preprotein translocase subunit SecA; Reviewed

Probab=99.45  E-value=1.7e-12  Score=102.24  Aligned_cols=123  Identities=11%  Similarity=0.072  Sum_probs=91.3

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhh--CCCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSK--LQINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~--~~~~~~lIF~~t~~~~~   90 (140)
                      ....+|.|......++.+.+  +-..+.+.++.+.....+ -.++....+|...+.+.+..  ....|+||||+|++.++
T Consensus       367 kl~GmTGTa~te~~E~~~iY--~l~vv~IPtnkp~~r~d~~d~i~~t~~~K~~aI~~~I~~~~~~grpVLIft~Si~~se  444 (830)
T PRK12904        367 KLAGMTGTADTEAEEFREIY--NLDVVVIPTNRPMIRIDHPDLIYKTEKEKFDAVVEDIKERHKKGQPVLVGTVSIEKSE  444 (830)
T ss_pred             hhcccCCCcHHHHHHHHHHh--CCCEEEcCCCCCeeeeeCCCeEEECHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHH
Confidence            45678888865544333332  222343433221111111 12334566789899888865  46778999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|.+.|+++..+||+  +.+|+..+.+|+.|...|+||||+|+||+
T Consensus       445 ~Ls~~L~~~gi~~~vLnak--q~eREa~Iia~Ag~~g~VtIATNmAGRGt  492 (830)
T PRK12904        445 LLSKLLKKAGIPHNVLNAK--NHEREAEIIAQAGRPGAVTIATNMAGRGT  492 (830)
T ss_pred             HHHHHHHHCCCceEeccCc--hHHHHHHHHHhcCCCceEEEecccccCCc
Confidence            9999999999999999996  88999999999999999999999999995

>KOG0951|consensus

Probab=99.44  E-value=1.5e-12  Score=104.58  Aligned_cols=128  Identities=21%  Similarity=0.274  Sum_probs=98.8

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhcc-CCcEEEcC-CcccCCCeEEEEEEcC--ccchH------HHHHHHHhhCCCCcEE
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLK-DPYEINLM-EELTLKGVTQYYAFVQ--ERQKV------HCLNTLFSKLQINQSI   80 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~-~~~~i~~~-~~~~~~~i~~~~~~~~--~~~k~------~~l~~ll~~~~~~~~l   80 (140)
                      .++..+.+|||+|+. .+. ..|++ ++.-+... +.-.+-.+.|.++-+.  ++.|.      ....++++.....|+|
T Consensus       473 e~~RlVGLSATLPNy-~DV-~~Fl~v~~~glf~fd~syRpvPL~qq~Igi~ek~~~~~~qamNe~~yeKVm~~agk~qVL  550 (1674)
T KOG0951|consen  473 EGSRLVGLSATLPNY-EDV-ASFLRVDPEGLFYFDSSYRPVPLKQQYIGITEKKPLKRFQAMNEACYEKVLEHAGKNQVL  550 (1674)
T ss_pred             cCceeeeecccCCch-hhh-HHHhccCcccccccCcccCcCCccceEeccccCCchHHHHHHHHHHHHHHHHhCCCCcEE
Confidence            368899999999977 333 33444 44333333 3445556888888764  33333      4466777777789999


Q ss_pred             EEeCchHHHHHHHHHHHh-------------------------------------cCceEEEEecCCCHHHHHHHHHHhh
Q psy13287         81 IFCNSTQRVELLAKKITE-------------------------------------LGYCCYYIHARMAQAHRNRVFHDFR  123 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~-------------------------------------~~~~v~~~h~~~~~~~R~~~~~~f~  123 (140)
                      ||+.+|+++-+.|+++|+                                     ..+.++.+|+||+..+|..+.+-|+
T Consensus       551 VFVHsRkET~ktA~aIRd~~le~dtls~fmre~s~s~eilrtea~~~kn~dLkdLLpygfaIHhAGl~R~dR~~~EdLf~  630 (1674)
T KOG0951|consen  551 VFVHSRKETAKTARAIRDKALEEDTLSRFMREDSASREILRTEAGQAKNPDLKDLLPYGFAIHHAGLNRKDRELVEDLFA  630 (1674)
T ss_pred             EEEEechHHHHHHHHHHHHHhhhhHHHHHHhcccchhhhhhhhhhcccChhHHHHhhccceeeccCCCcchHHHHHHHHh
Confidence            999999999999998883                                     1456899999999999999999999


Q ss_pred             cCCccEEEEecccCCCC
Q psy13287        124 SGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       124 ~g~~~vlv~T~~~~rGl  140 (140)
                      +|.+++||+|-.+++|+
T Consensus       631 ~g~iqvlvstatlawgv  647 (1674)
T KOG0951|consen  631 DGHIQVLVSTATLAWGV  647 (1674)
T ss_pred             cCceeEEEeehhhhhhc
Confidence            99999999999999995

>PRK13104 secA preprotein translocase subunit SecA; Reviewed

Probab=99.41  E-value=3.2e-12  Score=101.04  Aligned_cols=123  Identities=7%  Similarity=0.037  Sum_probs=89.0

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      ..-.+|.|......++.+.+-  -..+.+.++.+.....+ -.++....+|...+.+-+...  ...|+||||+|++.++
T Consensus       381 kLsGMTGTa~te~~Ef~~iY~--l~Vv~IPtnkp~~R~d~~d~v~~t~~~k~~av~~~i~~~~~~g~PVLVgt~Sie~sE  458 (896)
T PRK13104        381 KLSGMTGTADTEAYEFQQIYN--LEVVVIPTNRSMIRKDEADLVYLTQADKFQAIIEDVRECGVRKQPVLVGTVSIEASE  458 (896)
T ss_pred             hhccCCCCChhHHHHHHHHhC--CCEEECCCCCCcceecCCCeEEcCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHH
Confidence            345678887655444433332  22333432221111111 123445667877777766433  5678999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|.+.|+++..+||++.+.+|..+.+.|+.|  .|+||||+|+||+
T Consensus       459 ~ls~~L~~~gi~h~vLnak~~q~Ea~iia~Ag~~G--~VtIATNmAGRGt  506 (896)
T PRK13104        459 FLSQLLKKENIKHQVLNAKFHEKEAQIIAEAGRPG--AVTIATNMAGRGT  506 (896)
T ss_pred             HHHHHHHHcCCCeEeecCCCChHHHHHHHhCCCCC--cEEEeccCccCCc
Confidence            99999999999999999999999999999999999  5999999999995

>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]

Probab=99.40  E-value=5.9e-12  Score=94.08  Aligned_cols=125  Identities=16%  Similarity=0.046  Sum_probs=89.2

Q ss_pred             CCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHH
Q psy13287         12 ERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVEL   91 (140)
Q Consensus        12 ~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~   91 (140)
                      .+|++++|||+.+.-.+.....  -...+....+..-|.+.-+-..-.-++-+..+.+-++  .+.++||-+-|++.||.
T Consensus       386 ~~q~i~VSATPg~~E~e~s~~~--vveQiIRPTGLlDP~ievRp~~~QvdDL~~EI~~r~~--~~eRvLVTtLTKkmAEd  461 (663)
T COG0556         386 IPQTIYVSATPGDYELEQSGGN--VVEQIIRPTGLLDPEIEVRPTKGQVDDLLSEIRKRVA--KNERVLVTTLTKKMAED  461 (663)
T ss_pred             cCCEEEEECCCChHHHHhccCc--eeEEeecCCCCCCCceeeecCCCcHHHHHHHHHHHHh--cCCeEEEEeehHHHHHH
Confidence            4799999999876643332211  1112323344455544443222111222222222222  46899999999999999


Q ss_pred             HHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         92 LAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        92 ~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.++|...|+++.++|++++.-+|.++++++|.|..+|||.-|++-.||
T Consensus       462 LT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G~~DvLVGINLLREGL  510 (663)
T COG0556         462 LTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGL  510 (663)
T ss_pred             HHHHHHhcCceEEeeeccchHHHHHHHHHHHhcCCccEEEeehhhhccC
Confidence            9999999999999999999999999999999999999999999998886

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

Probab=99.40  E-value=1.1e-11  Score=99.02  Aligned_cols=138  Identities=21%  Similarity=0.270  Sum_probs=106.2

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcC---------ccchHHHHHHHHh
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQ---------ERQKVHCLNTLFS   72 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~---------~~~k~~~l~~ll~   72 (140)
                      |.++++..+.+.|+++.|||+.+. .+..+.+++......+..+..+....+.+.+-+         ..++...+..+..
T Consensus       222 L~~~~~~~~~~~q~i~~SAT~~np-~e~~~~l~~~~f~~~v~~~g~~~~~~~~~~~~p~~~~~~~~~r~s~~~~~~~~~~  300 (851)
T COG1205         222 LLRRLRRYGSPLQIICTSATLANP-GEFAEELFGRDFEVPVDEDGSPRGLRYFVRREPPIRELAESIRRSALAELATLAA  300 (851)
T ss_pred             HHHHHhccCCCceEEEEeccccCh-HHHHHHhcCCcceeeccCCCCCCCceEEEEeCCcchhhhhhcccchHHHHHHHHH
Confidence            455666677789999999999866 678888888766664555445555555555544         2255555555554


Q ss_pred             hC--CCCcEEEEeCchHHHHHHH----HHHHhcC----ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         73 KL--QINQSIIFCNSTQRVELLA----KKITELG----YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        73 ~~--~~~~~lIF~~t~~~~~~~~----~~L~~~~----~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ..  +.-++|+|+.++..++.++    +.+...+    ..+..++|++..++|..+...|++|++.++++|+.+..|+
T Consensus       301 ~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~g~~~~~~st~Alelgi  378 (851)
T COG1205         301 LLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELLGVIATNALELGI  378 (851)
T ss_pred             HHHHcCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCHHHHHHHHHHHhcCCccEEecchhhhhce
Confidence            44  5789999999999999997    4444445    5799999999999999999999999999999999998885

>TIGR00963 secA preprotein translocase, SecA subunit

Probab=99.38  E-value=6.6e-12  Score=97.91  Aligned_cols=123  Identities=10%  Similarity=0.027  Sum_probs=87.8

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      ....+|.|......++.+.+ + -..+.+.+..+.....+ -.++....+|...+.+.+...  ...|+||||+|.+.++
T Consensus       342 kl~GmTGTa~te~~E~~~iY-~-l~vv~IPtnkp~~R~d~~d~i~~t~~~k~~ai~~~i~~~~~~grpvLV~t~si~~se  419 (745)
T TIGR00963       342 KLSGMTGTAKTEEEEFEKIY-N-LEVVVVPTNRPVIRKDLSDLVYKTEEEKWKAVVDEIKERHAKGQPVLVGTTSVEKSE  419 (745)
T ss_pred             hhhccCCCcHHHHHHHHHHh-C-CCEEEeCCCCCeeeeeCCCeEEcCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHH
Confidence            45678888865544333332 2 22333432221111111 122334556777776655332  5778999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|.+.|+++..+||+  +.+|+..+..|+.+...|+||||+++||.
T Consensus       420 ~ls~~L~~~gi~~~~Lna~--q~~rEa~ii~~ag~~g~VtIATnmAgRGt  467 (745)
T TIGR00963       420 LLSNLLKERGIPHNVLNAK--NHEREAEIIAQAGRKGAVTIATNMAGRGT  467 (745)
T ss_pred             HHHHHHHHcCCCeEEeeCC--hHHHHHHHHHhcCCCceEEEEeccccCCc
Confidence            9999999999999999999  88999999999999999999999999995

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.

>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]

Probab=99.37  E-value=1.8e-11  Score=98.32  Aligned_cols=135  Identities=19%  Similarity=0.148  Sum_probs=105.8

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEE
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIF   82 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF   82 (140)
                      ++-++.+..+..++-+|||+-|+..++....+++-..|...+....+ |.-++...++.--.+.+..-+.  ..+|+..-
T Consensus       733 KEkLK~Lr~~VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP~~R~p-V~T~V~~~d~~~ireAI~REl~--RgGQvfYv  809 (1139)
T COG1197         733 KEKLKELRANVDVLTLSATPIPRTLNMSLSGIRDLSVIATPPEDRLP-VKTFVSEYDDLLIREAILRELL--RGGQVFYV  809 (1139)
T ss_pred             HHHHHHHhccCcEEEeeCCCCcchHHHHHhcchhhhhccCCCCCCcc-eEEEEecCChHHHHHHHHHHHh--cCCEEEEE
Confidence            34567777888999999999999999999888886666554443333 4444443333222233333222  47888888


Q ss_pred             eCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         83 CNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        83 ~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +|.+++.+++++.|++.  ..++++-||.|+..+-+.++.+|-+|+.+|||||++.+-|+
T Consensus       810 ~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGI  869 (1139)
T COG1197         810 HNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGI  869 (1139)
T ss_pred             ecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcCCCCEEEEeeeeecCc
Confidence            89999999999999998  77899999999999999999999999999999999999886

>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]

Probab=99.37  E-value=4.7e-12  Score=93.88  Aligned_cols=79  Identities=16%  Similarity=0.270  Sum_probs=68.1

Q ss_pred             chHHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhcCceEE-EEec--------CCCHHHHHHHHHHhhcCCcc
Q psy13287         62 QKVHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITELGYCCY-YIHA--------RMAQAHRNRVFHDFRSGLCR  128 (140)
Q Consensus        62 ~k~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~-~~h~--------~~~~~~R~~~~~~f~~g~~~  128 (140)
                      .|++.+.+++++.    +..++|||++.+++|+.+.++|.+.+..+. .+-|        ||++.++.+++++|++|+.+
T Consensus       348 PKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~Ge~n  427 (542)
T COG1111         348 PKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKARVRFIGQASREGDKGMSQKEQKEIIDQFRKGEYN  427 (542)
T ss_pred             ccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCcceeEEeeccccccccccCHHHHHHHHHHHhcCCce
Confidence            5777777776543    567899999999999999999999987663 4444        69999999999999999999


Q ss_pred             EEEEecccCCCC
Q psy13287        129 NLVCSGDSSAMM  140 (140)
Q Consensus       129 vlv~T~~~~rGl  140 (140)
                      |||||++++.||
T Consensus       428 VLVaTSVgEEGL  439 (542)
T COG1111         428 VLVATSVGEEGL  439 (542)
T ss_pred             EEEEcccccccC
Confidence            999999999997

>PRK13107 preprotein translocase subunit SecA; Reviewed

Probab=99.35  E-value=1.4e-11  Score=97.33  Aligned_cols=123  Identities=10%  Similarity=0.038  Sum_probs=88.0

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEE-EEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQY-YAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~-~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      ..-.+|.|......++.+.+  +-..+.+.++.+.....+- .++.....|...+.+-+...  ...|+||||+|.+.++
T Consensus       386 kL~GMTGTa~te~~Ef~~iY--~l~Vv~IPTnkp~~R~d~~d~iy~t~~~K~~Aii~ei~~~~~~GrpVLV~t~sv~~se  463 (908)
T PRK13107        386 KLAGMTGTADTEAFEFQHIY--GLDTVVVPTNRPMVRKDMADLVYLTADEKYQAIIKDIKDCRERGQPVLVGTVSIEQSE  463 (908)
T ss_pred             HhhcccCCChHHHHHHHHHh--CCCEEECCCCCCccceeCCCcEEeCHHHHHHHHHHHHHHHHHcCCCEEEEeCcHHHHH
Confidence            34567888776544433333  2223434332221111111 22334566776666655543  4678999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .++..|.+.|+++..+|++.++.+|..+.+.|+.|.  |+||||+++||.
T Consensus       464 ~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~G~--VtIATnmAGRGT  511 (908)
T PRK13107        464 LLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRTGA--VTIATNMAGRGT  511 (908)
T ss_pred             HHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCCCc--EEEecCCcCCCc
Confidence            999999999999999999999999999999999996  999999999994

>PRK12900 secA preprotein translocase subunit SecA; Reviewed

Probab=99.34  E-value=1.9e-11  Score=97.30  Aligned_cols=122  Identities=11%  Similarity=0.045  Sum_probs=90.4

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCccc--CCCeEEEEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELT--LKGVTQYYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRV   89 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~--~~~i~~~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~   89 (140)
                      +.-.+|.|......++...+  +-..+.+.++.+  ..... -.++....+|...|.+.+...  ...|+||||+|++.+
T Consensus       535 kLaGMTGTA~te~~Ef~~iY--~L~Vv~IPTnrP~~R~D~~-d~vy~t~~eK~~Ali~~I~~~~~~grpVLIft~Sve~s  611 (1025)
T PRK12900        535 KLAGMTGTAETEASEFFEIY--KLDVVVIPTNKPIVRKDMD-DLVYKTRREKYNAIVLKVEELQKKGQPVLVGTASVEVS  611 (1025)
T ss_pred             hhcccCCCChhHHHHHHHHh--CCcEEECCCCCCcceecCC-CeEecCHHHHHHHHHHHHHHHhhCCCCEEEEeCcHHHH
Confidence            34567778765544443332  222333432221  11111 133445667999999988654  678999999999999


Q ss_pred             HHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         90 ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        90 ~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.+++.|++.|+++..+|+  .+.+|+..+-.|+.+...|+||||+|+||+
T Consensus       612 E~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG~~g~VtIATNMAGRGt  660 (1025)
T PRK12900        612 ETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAGQKGAVTIATNMAGRGT  660 (1025)
T ss_pred             HHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCCCCeEEEeccCcCCCC
Confidence            9999999999999999998  488999999999999999999999999995

>PRK12906 secA preprotein translocase subunit SecA; Reviewed

Probab=99.33  E-value=1.7e-11  Score=96.39  Aligned_cols=123  Identities=9%  Similarity=0.023  Sum_probs=88.6

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      +...+|.|......++.+.+  +-..+.+.+..+.....+ -.++.....|...+.+.+...  ...|+||||+|+..++
T Consensus       377 kl~GmTGTa~~e~~Ef~~iY--~l~vv~IPtnkp~~r~d~~d~i~~t~~~K~~al~~~i~~~~~~g~pvLI~t~si~~se  454 (796)
T PRK12906        377 KLSGMTGTAKTEEEEFREIY--NMEVITIPTNRPVIRKDSPDLLYPTLDSKFNAVVKEIKERHAKGQPVLVGTVAIESSE  454 (796)
T ss_pred             hhhccCCCCHHHHHHHHHHh--CCCEEEcCCCCCeeeeeCCCeEEcCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHH
Confidence            46678888865433333222  222343433221111111 123335567888888888544  6789999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|.+.|+++..+||++...++..+.+.++.|.  |+||||+++||.
T Consensus       455 ~ls~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~g~--VtIATnmAGRGt  502 (796)
T PRK12906        455 RLSHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQRGA--VTIATNMAGRGT  502 (796)
T ss_pred             HHHHHHHHCCCCeeEecCCcHHHHHHHHHhcCCCce--EEEEeccccCCC
Confidence            999999999999999999999888999988888885  999999999995

>PRK13766 Hef nuclease; Provisional

Probab=99.31  E-value=2e-11  Score=97.23  Aligned_cols=80  Identities=16%  Similarity=0.243  Sum_probs=72.6

Q ss_pred             cchHHHHHHHHhh----CCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecC--------CCHHHHHHHHHHhhcCCcc
Q psy13287         61 RQKVHCLNTLFSK----LQINQSIIFCNSTQRVELLAKKITELGYCCYYIHAR--------MAQAHRNRVFHDFRSGLCR  128 (140)
Q Consensus        61 ~~k~~~l~~ll~~----~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~--------~~~~~R~~~~~~f~~g~~~  128 (140)
                      ..|...|.++|+.    .++.++||||++++.|+.+++.|...++++..+||.        +++.+|..++++|++|+.+
T Consensus       346 ~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~g~~~  425 (773)
T PRK13766        346 HPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQIEILDKFRAGEFN  425 (773)
T ss_pred             ChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhCCCceEEEEccccccccCCCCHHHHHHHHHHHHcCCCC
Confidence            4577788888865    467899999999999999999999999999999986        9999999999999999999


Q ss_pred             EEEEecccCCCC
Q psy13287        129 NLVCSGDSSAMM  140 (140)
Q Consensus       129 vlv~T~~~~rGl  140 (140)
                      +||||+++++|+
T Consensus       426 vLvaT~~~~eGl  437 (773)
T PRK13766        426 VLVSTSVAEEGL  437 (773)
T ss_pred             EEEECChhhcCC
Confidence            999999999996

>KOG0329|consensus

Probab=99.30  E-value=7.7e-13  Score=90.99  Aligned_cols=88  Identities=38%  Similarity=0.660  Sum_probs=80.0

Q ss_pred             CHHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCc--ccCCCeEEEEEEcCccchHHHHHHHHhhCCCCc
Q psy13287          1 MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE--LTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQ   78 (140)
Q Consensus         1 ~l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~--~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~   78 (140)
                      |+.+|.+..|...|.+.||||++.+++-.+++++.+|..+.++++  ...-++.|+|+..++.+|-..+.++|+.+...|
T Consensus       206 DvQEifr~tp~~KQvmmfsatlskeiRpvC~kFmQdPmEi~vDdE~KLtLHGLqQ~YvkLke~eKNrkl~dLLd~LeFNQ  285 (387)
T KOG0329|consen  206 DVQEIFRMTPHEKQVMMFSATLSKEIRPVCHKFMQDPMEIFVDDEAKLTLHGLQQYYVKLKENEKNRKLNDLLDVLEFNQ  285 (387)
T ss_pred             HHHHHhhcCcccceeeeeeeecchhhHHHHHhhhcCchhhhccchhhhhhhhHHHHHHhhhhhhhhhhhhhhhhhhhhcc
Confidence            467889999999999999999999999999999999999988855  467789999999999999999999999999999


Q ss_pred             EEEEeCchHH
Q psy13287         79 SIIFCNSTQR   88 (140)
Q Consensus        79 ~lIF~~t~~~   88 (140)
                      ++||+-|...
T Consensus       286 VvIFvKsv~R  295 (387)
T KOG0329|consen  286 VVIFVKSVQR  295 (387)
T ss_pred             eeEeeehhhh
Confidence            9999988766

>TIGR00595 priA primosomal protein N'

Probab=99.22  E-value=1.7e-10  Score=87.92  Aligned_cols=52  Identities=13%  Similarity=0.184  Sum_probs=47.4

Q ss_pred             HHHHHHHHHhc--CceEEEEecCCCHHHH--HHHHHHhhcCCccEEEEecccCCCC
Q psy13287         89 VELLAKKITEL--GYCCYYIHARMAQAHR--NRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        89 ~~~~~~~L~~~--~~~v~~~h~~~~~~~R--~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +++++++|.+.  +.++..+|++++...+  ..++++|++|+.+|||+|+++++|+
T Consensus       271 te~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~i~kG~  326 (505)
T TIGR00595       271 TEQVEEELAKLFPGARIARIDSDTTSRKGAHEALLNQFANGKADILIGTQMIAKGH  326 (505)
T ss_pred             HHHHHHHHHhhCCCCcEEEEecccccCccHHHHHHHHHhcCCCCEEEeCcccccCC
Confidence            68999999887  7899999999987665  8999999999999999999999995

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).

>KOG0952|consensus

Probab=99.21  E-value=2.6e-10  Score=90.75  Aligned_cols=128  Identities=20%  Similarity=0.227  Sum_probs=90.3

Q ss_pred             CCCCCeEEEEEecCchhHHHHHHHhccCC-c-E-EEcCCcccCCCeEEEEEEcCcc---c--------hHHHHHHHHhhC
Q psy13287          9 LPHERQILLYSATFPLTVKNFMEKHLKDP-Y-E-INLMEELTLKGVTQYYAFVQER---Q--------KVHCLNTLFSKL   74 (140)
Q Consensus         9 ~~~~~q~v~~SAT~~~~~~~~~~~~~~~~-~-~-i~~~~~~~~~~i~~~~~~~~~~---~--------k~~~l~~ll~~~   74 (140)
                      .....+++++|||+|+. .+ +-.|++-+ . - ...+..-.+-.+.+.++=.+..   .        ..+.+.+.+.+ 
T Consensus       272 sqs~IRivgLSATlPN~-eD-vA~fL~vn~~~glfsFd~~yRPvpL~~~~iG~k~~~~~~~~~~~d~~~~~kv~e~~~~-  348 (1230)
T KOG0952|consen  272 SQSMIRIVGLSATLPNY-ED-VARFLRVNPYAGLFSFDQRYRPVPLTQGFIGIKGKKNRQQKKNIDEVCYDKVVEFLQE-  348 (1230)
T ss_pred             hhhheEEEEeeccCCCH-HH-HHHHhcCCCccceeeecccccccceeeeEEeeecccchhhhhhHHHHHHHHHHHHHHc-
Confidence            34567899999999976 33 34566632 2 1 2222233444555555544322   1        23333343333 


Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----------------C-------ceEEEEecCCCHHHHHHHHHHhhcCCccEEE
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----------------G-------YCCYYIHARMAQAHRNRVFHDFRSGLCRNLV  131 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----------------~-------~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv  131 (140)
                       +.|++|||.+++.+.+.|+.|.+.                +       ...+.+|++|..++|..+.+.|++|-++||+
T Consensus       349 -g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~E~~F~~G~i~vL~  427 (1230)
T KOG0952|consen  349 -GHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVEKEFKEGHIKVLC  427 (1230)
T ss_pred             -CCeEEEEEecChHHHHHHHHHHHHHHhcCcccccCCChhhHHHHHHHHhhhhhcccccchhhHHHHHHHHhcCCceEEE
Confidence             678999999999999999999752                1       2368999999999999999999999999999


Q ss_pred             EecccCCCC
Q psy13287        132 CSGDSSAMM  140 (140)
Q Consensus       132 ~T~~~~rGl  140 (140)
                      ||..+++|.
T Consensus       428 cTaTLAwGV  436 (1230)
T KOG0952|consen  428 CTATLAWGV  436 (1230)
T ss_pred             ecceeeecc
Confidence            999999995

>KOG0354|consensus

Probab=99.21  E-value=9.3e-11  Score=91.03  Aligned_cols=80  Identities=21%  Similarity=0.287  Sum_probs=66.7

Q ss_pred             cchHHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhc---CceEEEEec--------CCCHHHHHHHHHHhhcC
Q psy13287         61 RQKVHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITEL---GYCCYYIHA--------RMAQAHRNRVFHDFRSG  125 (140)
Q Consensus        61 ~~k~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~---~~~v~~~h~--------~~~~~~R~~~~~~f~~g  125 (140)
                      ..|++.+.+++.+.    +..++||||.+|+.|+.+..+|.+.   +++...+-|        +|++.++.+++++|++|
T Consensus       394 npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~~~~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G  473 (746)
T KOG0354|consen  394 NPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLHELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRDG  473 (746)
T ss_pred             ChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhhhhcccccceeeeccccccccccCHHHHHHHHHHHhCC
Confidence            46777777776443    4678999999999999999999842   445444444        79999999999999999


Q ss_pred             CccEEEEecccCCCC
Q psy13287        126 LCRNLVCSGDSSAMM  140 (140)
Q Consensus       126 ~~~vlv~T~~~~rGl  140 (140)
                      ++++||||++++.||
T Consensus       474 ~~NvLVATSV~EEGL  488 (746)
T KOG0354|consen  474 EINVLVATSVAEEGL  488 (746)
T ss_pred             CccEEEEecchhccC
Confidence            999999999999997

>KOG0352|consensus

Probab=99.17  E-value=5.7e-11  Score=87.03  Aligned_cols=129  Identities=15%  Similarity=0.123  Sum_probs=92.5

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhcc--CCcEEEcCCcccCCCeEEEEEEcC-ccchHHHHHHHHh-hC---------C--
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLK--DPYEINLMEELTLKGVTQYYAFVQ-ERQKVHCLNTLFS-KL---------Q--   75 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~--~~~~i~~~~~~~~~~i~~~~~~~~-~~~k~~~l~~ll~-~~---------~--   75 (140)
                      ++.+-+.++||.++.|++.+..-++  +|.-+.- .+.-..|+.+-..+-+ -++-+..|.+.-. .+         +  
T Consensus       175 ~~vpwvALTATA~~~VqEDi~~qL~L~~PVAiFk-TP~FR~NLFYD~~~K~~I~D~~~~LaDF~~~~LG~~~~~~~~~K~  253 (641)
T KOG0352|consen  175 PGVPWVALTATANAKVQEDIAFQLKLRNPVAIFK-TPTFRDNLFYDNHMKSFITDCLTVLADFSSSNLGKHEKASQNKKT  253 (641)
T ss_pred             CCCceEEeecccChhHHHHHHHHHhhcCcHHhcc-CcchhhhhhHHHHHHHHhhhHhHhHHHHHHHhcCChhhhhcCCCC
Confidence            3667899999999999998877654  5543322 2222222222111111 1233344444321 22         1  


Q ss_pred             -CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         76 -INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        76 -~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                       .+=+||||-|++.||.+|=.|...|+....||+++...+|-++-++|-+|++.|+++|.-+++|+
T Consensus       254 ~~GCGIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~PvI~AT~SFGMGV  319 (641)
T KOG0352|consen  254 FTGCGIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNNEIPVIAATVSFGMGV  319 (641)
T ss_pred             cCcceEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHHHhcCCCCEEEEEecccccc
Confidence             12379999999999999999999999999999999999999999999999999999999888874

>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]

Probab=99.17  E-value=4.3e-10  Score=89.10  Aligned_cols=129  Identities=18%  Similarity=0.193  Sum_probs=88.9

Q ss_pred             CCeEEEEEecCchhHHHHHHHhccCCcEEEcCCc----ccCCCeEEE-EEEcCccchHHHHHHHHhhC-CCCcEEEEeCc
Q psy13287         12 ERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE----LTLKGVTQY-YAFVQERQKVHCLNTLFSKL-QINQSIIFCNS   85 (140)
Q Consensus        12 ~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~----~~~~~i~~~-~~~~~~~~k~~~l~~ll~~~-~~~~~lIF~~t   85 (140)
                      +..++++|||+|+...+..+..+.....+.....    ...+.+... ...+................ ..++++|-|||
T Consensus       370 g~~ill~SATlP~~~~~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kvlvI~NT  449 (733)
T COG1203         370 GVPVLLMSATLPPFLKEKLKKALGKGREVVENAKFCPKEDEPGLKRKERVDVEDGPQEELIELISEEVKEGKKVLVIVNT  449 (733)
T ss_pred             CCCEEEEecCCCHHHHHHHHHHHhcccceeccccccccccccccccccchhhhhhhhHhhhhcchhhhccCCcEEEEEec
Confidence            5789999999999999988888775444433211    011111111 01111110011222222222 46789999999


Q ss_pred             hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhh----cCCccEEEEecccCCCC
Q psy13287         86 TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFR----SGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        86 ~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~----~g~~~vlv~T~~~~rGl  140 (140)
                      +..|.++++.|+..+..+..+||.+....|.+.++.++    .+...|+|||.+.+.|+
T Consensus       450 V~~Aie~Y~~Lk~~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQVIEagv  508 (733)
T COG1203         450 VDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQVIEAGV  508 (733)
T ss_pred             HHHHHHHHHHHHhcCCCEEEEecccchhhHHHHHHHHHHHHhccCCeEEEEeeEEEEEe
Confidence            99999999999998778999999999999999998665    46789999999998875

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]

Probab=99.14  E-value=1.2e-09  Score=86.73  Aligned_cols=134  Identities=10%  Similarity=0.120  Sum_probs=100.0

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcC-ccc-hHHHHHHHHh---hCCC
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQ-ERQ-KVHCLNTLFS---KLQI   76 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~-~~~-k~~~l~~ll~---~~~~   76 (140)
                      +++++...+++..+|.+|||+.   -+....+|+++..+++..-..+  |..+|.... .++ -.+.+...+.   ....
T Consensus       185 lk~~~~~rr~DLKiIimSATld---~~rfs~~f~~apvi~i~GR~fP--Vei~Y~~~~~~d~~l~~ai~~~v~~~~~~~~  259 (845)
T COG1643         185 LKDLLARRRDDLKLIIMSATLD---AERFSAYFGNAPVIEIEGRTYP--VEIRYLPEAEADYILLDAIVAAVDIHLREGS  259 (845)
T ss_pred             HHHHHhhcCCCceEEEEecccC---HHHHHHHcCCCCEEEecCCccc--eEEEecCCCCcchhHHHHHHHHHHHhccCCC
Confidence            4567777777899999999998   4467778888777777643333  333443222 223 2333333332   2257


Q ss_pred             CcEEEEeCchHHHHHHHHHHHh----cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         77 NQSIIFCNSTQRVELLAKKITE----LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~----~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.+|||.+-.++.+..++.|++    ....+..+||.++.+++..+++.-..|+-+|+++||+++-+|
T Consensus       260 GdILvFLpG~~EI~~~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~rvF~p~~~~~RKVVlATNIAETSL  327 (845)
T COG1643         260 GSILVFLPGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSL  327 (845)
T ss_pred             CCEEEECCcHHHHHHHHHHHHhccccCCcEEeeccccCCHHHHHhhcCCCCCCcceEEEEccccccce
Confidence            8899999999999999999998    247899999999999999999988888888999999997553

>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=99.13  E-value=1.6e-10  Score=66.63  Aligned_cols=47  Identities=26%  Similarity=0.353  Sum_probs=44.6

Q ss_pred             HHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         94 KKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        94 ~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.|++.++++..+||++++++|..++++|++|+.++||||+++++|+
T Consensus         1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gi   47 (78)
T PF00271_consen    1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGEIRVLIATDILGEGI   47 (78)
T ss_dssp             HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESCGGTTSS
T ss_pred             CChHHCCCcEEEEECCCCHHHHHHHHHHhhccCceEEEeeccccccc
Confidence            46788899999999999999999999999999999999999999996

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 ....

>PRK05580 primosome assembly protein PriA; Validated

Probab=99.11  E-value=2.7e-09  Score=83.98  Aligned_cols=53  Identities=15%  Similarity=0.142  Sum_probs=48.0

Q ss_pred             HHHHHHHHHHhc--CceEEEEecCCC--HHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         88 RVELLAKKITEL--GYCCYYIHARMA--QAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        88 ~~~~~~~~L~~~--~~~v~~~h~~~~--~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .++++++.|++.  +.++..+|+++.  ++++..++++|++|+.+|||+|+++++|+
T Consensus       438 G~e~~~e~l~~~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~iakG~  494 (679)
T PRK05580        438 GTERLEEELAELFPEARILRIDRDTTRRKGALEQLLAQFARGEADILIGTQMLAKGH  494 (679)
T ss_pred             cHHHHHHHHHHhCCCCcEEEEeccccccchhHHHHHHHHhcCCCCEEEEChhhccCC
Confidence            477899999887  889999999986  56799999999999999999999999996

>TIGR00603 rad25 DNA repair helicase rad25

Probab=99.07  E-value=8.4e-10  Score=86.57  Aligned_cols=76  Identities=14%  Similarity=0.201  Sum_probs=64.4

Q ss_pred             ccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC-CccEEEEeccc
Q psy13287         60 ERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG-LCRNLVCSGDS  136 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~vlv~T~~~  136 (140)
                      ++.|+..+..+++..  ...++||||++...++.+++.|     .+.++||++++.+|..++++|++| ++++||+|+++
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 NPNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKL-----GKPFIYGPTSQQERMQILQNFQHNPKVNTIFLSKVG  552 (732)
T ss_pred             ChHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHc-----CCceEECCCCHHHHHHHHHHHHhCCCccEEEEeccc
Confidence            344666666677644  5679999999999999999988     356799999999999999999975 88999999999


Q ss_pred             CCCC
Q psy13287        137 SAMM  140 (140)
Q Consensus       137 ~rGl  140 (140)
                      .+|+
T Consensus       553 deGI  556 (732)
T TIGR00603       553 DTSI  556 (732)
T ss_pred             cccc
Confidence            9996

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).

>KOG0950|consensus

Probab=99.01  E-value=1.9e-09  Score=85.16  Aligned_cols=65  Identities=26%  Similarity=0.377  Sum_probs=55.5

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHh--------------------------------------cCceEEEEecCCCHHHHHH
Q psy13287         76 INQSIIFCNSTQRVELLAKKITE--------------------------------------LGYCCYYIHARMAQAHRNR  117 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~--------------------------------------~~~~v~~~h~~~~~~~R~~  117 (140)
                      +.++||||+++..||.+|..+-+                                      .-+.|+++|+++..++|..
T Consensus       460 ~~~~lvfc~sk~~ce~~a~~~~~~vpk~~~~e~~~~~~~~~s~s~~lr~~~~~ld~Vl~~ti~~GvAyHhaGLT~eER~~  539 (1008)
T KOG0950|consen  460 GSSVLVFCPSKKNCENVASLIAKKVPKHIKSEKRLGLWELLSISNLLRRIPGILDPVLAKTIPYGVAYHHAGLTSEEREI  539 (1008)
T ss_pred             CCeEEEEcCcccchHHHHHHHHHHhhHhhhhhhhhhHHHHHHHHhHhhcCCcccchHHheeccccceecccccccchHHH
Confidence            44699999999999988765532                                      0234899999999999999


Q ss_pred             HHHHhhcCCccEEEEecccCCCC
Q psy13287        118 VFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       118 ~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +...|++|.+.+++||+.++.|.
T Consensus       540 iE~afr~g~i~vl~aTSTlaaGV  562 (1008)
T KOG0950|consen  540 IEAAFREGNIFVLVATSTLAAGV  562 (1008)
T ss_pred             HHHHHHhcCeEEEEecchhhccC
Confidence            99999999999999999998884

>smart00490 HELICc helicase superfamily c-terminal domain

Probab=98.92  E-value=4.6e-09  Score=60.46  Aligned_cols=50  Identities=24%  Similarity=0.390  Sum_probs=46.9

Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|++.++.+..+||++++.+|..+++.|++|...+||+|+.++.|+
T Consensus         2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gi   51 (82)
T smart00490        2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGL   51 (82)
T ss_pred             HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECChhhCCc
Confidence            57788888899999999999999999999999999999999999999985

>KOG0922|consensus

Probab=98.87  E-value=3.8e-08  Score=75.51  Aligned_cols=129  Identities=10%  Similarity=0.155  Sum_probs=94.7

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccc----hHHHHHHHHhhCCCCc
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQ----KVHCLNTLFSKLQINQ   78 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~----k~~~l~~ll~~~~~~~   78 (140)
                      ++|++.-+ +...+++|||+.   .+....+|.+...+.+.....+  ++..|..-+..+    -+..+.++-...+++-
T Consensus       187 Kki~~~R~-~LklIimSATld---a~kfS~yF~~a~i~~i~GR~fP--Vei~y~~~p~~dYv~a~~~tv~~Ih~~E~~GD  260 (674)
T KOG0922|consen  187 KKILKKRP-DLKLIIMSATLD---AEKFSEYFNNAPILTIPGRTFP--VEILYLKEPTADYVDAALITVIQIHLTEPPGD  260 (674)
T ss_pred             HHHHhcCC-CceEEEEeeeec---HHHHHHHhcCCceEeecCCCCc--eeEEeccCCchhhHHHHHHHHHHHHccCCCCC
Confidence            44444433 568999999998   5677788888777766533222  344444322222    2344555555567889


Q ss_pred             EEEEeCchHHHHHHHHHHHhc----C--c--eEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccC
Q psy13287         79 SIIFCNSTQRVELLAKKITEL----G--Y--CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSS  137 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~----~--~--~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~  137 (140)
                      +|||.+..++.+.+++.|.+.    +  +  -+..+||.++.+++..+++.-..|.-+|+++||+++
T Consensus       261 ILvFLtGqeEIe~~~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rvF~p~p~g~RKvIlsTNIAE  327 (674)
T KOG0922|consen  261 ILVFLTGQEEIEAACELLRERAKSLPEDCPELILPLYGALPSEEQSRVFDPAPPGKRKVILSTNIAE  327 (674)
T ss_pred             EEEEeCCHHHHHHHHHHHHHHhhhccccCcceeeeecccCCHHHhhccccCCCCCcceEEEEcceee
Confidence            999999999999999999875    1  1  257899999999999999999999999999999986

>KOG0948|consensus

Probab=98.80  E-value=2.5e-08  Score=77.68  Aligned_cols=66  Identities=18%  Similarity=0.174  Sum_probs=57.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc---------------------------------------CceEEEEecCCCHHHH
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL---------------------------------------GYCCYYIHARMAQAHR  115 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~---------------------------------------~~~v~~~h~~~~~~~R  115 (140)
                      +..|+|||+-|+++||..|..+.+.                                       .-.++.+|||+-+.-+
T Consensus       382 ~~~PVIvFSFSkkeCE~~Alqm~kldfN~deEk~~V~~iF~nAi~~LseeDr~LPqie~iLPLL~RGIGIHHsGLLPIlK  461 (1041)
T KOG0948|consen  382 NYLPVIVFSFSKKECEAYALQMSKLDFNTDEEKELVETIFNNAIDQLSEEDRELPQIENILPLLRRGIGIHHSGLLPILK  461 (1041)
T ss_pred             cCCceEEEEecHhHHHHHHHhhccCcCCChhHHHHHHHHHHHHHHhcChhhccchHHHHHHHHHHhccccccccchHHHH
Confidence            4568999999999999998877541                                       1137899999999999


Q ss_pred             HHHHHHhhcCCccEEEEecccCCCC
Q psy13287        116 NRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       116 ~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.+.=-|++|=+++|+||..+|.||
T Consensus       462 E~IEILFqEGLvKvLFATETFsiGL  486 (1041)
T KOG0948|consen  462 EVIEILFQEGLVKVLFATETFSIGL  486 (1041)
T ss_pred             HHHHHHHhccHHHHHHhhhhhhhcc
Confidence            9999999999999999999999996

>KOG0947|consensus

Probab=98.73  E-value=1.7e-07  Score=74.71  Aligned_cols=72  Identities=18%  Similarity=0.165  Sum_probs=61.0

Q ss_pred             HHHhhCCCCcEEEEeCchHHHHHHHHHHHhc---------------------------------------CceEEEEecC
Q psy13287         69 TLFSKLQINQSIIFCNSTQRVELLAKKITEL---------------------------------------GYCCYYIHAR  109 (140)
Q Consensus        69 ~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~---------------------------------------~~~v~~~h~~  109 (140)
                      ..|+..+.-|++|||=|++.|++-+++|+..                                       .-.++.+||+
T Consensus       560 n~L~k~~lLP~VvFvFSkkrCde~a~~L~~~nL~~~~EKseV~lfl~k~~~rLk~~DR~LPQvl~m~~ll~RGiaVHH~G  639 (1248)
T KOG0947|consen  560 NHLRKKNLLPVVVFVFSKKRCDEYADYLTNLNLTDSKEKSEVHLFLSKAVARLKGEDRNLPQVLSMRSLLLRGIAVHHGG  639 (1248)
T ss_pred             HHHhhcccCceEEEEEccccHHHHHHHHhccCcccchhHHHHHHHHHHHHHhcChhhccchHHHHHHHHHhhcchhhccc
Confidence            3334445568999999999999999999641                                       1137899999


Q ss_pred             CCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287        110 MAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       110 ~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +-+..++-+.--|+.|=++||+||..+|+|+
T Consensus       640 lLPivKE~VE~LFqrGlVKVLFATETFAMGV  670 (1248)
T KOG0947|consen  640 LLPIVKEVVELLFQRGLVKVLFATETFAMGV  670 (1248)
T ss_pred             chHHHHHHHHHHHhcCceEEEeehhhhhhhc
Confidence            9999999999999999999999999999996

>COG1110 Reverse gyrase [DNA replication, recombination, and repair]

Probab=98.73  E-value=7e-08  Score=77.26  Aligned_cols=118  Identities=19%  Similarity=0.179  Sum_probs=86.9

Q ss_pred             CCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCc---hH
Q psy13287         12 ERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNS---TQ   87 (140)
Q Consensus        12 ~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t---~~   87 (140)
                      ..+.+..|||..+.-.  .-.++++-.-+.++ ......||.+.++..   .-.+.+.++++.+..+ +|||++.   ++
T Consensus       276 ~g~LvvsSATg~~rg~--R~~LfReLlgFevG~~~~~LRNIvD~y~~~---~~~e~~~elvk~lG~G-gLIfV~~d~G~e  349 (1187)
T COG1110         276 LGILVVSSATGKPRGS--RLKLFRELLGFEVGSGGEGLRNIVDIYVES---ESLEKVVELVKKLGDG-GLIFVPIDYGRE  349 (1187)
T ss_pred             CceEEEeeccCCCCCc--hHHHHHHHhCCccCccchhhhheeeeeccC---ccHHHHHHHHHHhCCC-eEEEEEcHHhHH
Confidence            4678999999987632  11123332334444 345667787777654   5556667777776554 8999999   99


Q ss_pred             HHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec----ccCCCC
Q psy13287         88 RVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG----DSSAMM  140 (140)
Q Consensus        88 ~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~----~~~rGl  140 (140)
                      .+++++++|+..|+++..+|++-     .+.+++|..|++++||...    .+-||+
T Consensus       350 ~aeel~e~Lr~~Gi~a~~~~a~~-----~~~le~F~~GeidvLVGvAsyYG~lVRGl  401 (1187)
T COG1110         350 KAEELAEYLRSHGINAELIHAEK-----EEALEDFEEGEVDVLVGVASYYGVLVRGL  401 (1187)
T ss_pred             HHHHHHHHHHhcCceEEEeeccc-----hhhhhhhccCceeEEEEecccccceeecC
Confidence            99999999999999999999952     5789999999999999864    445554

>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative

Probab=98.71  E-value=2.9e-07  Score=74.43  Aligned_cols=63  Identities=14%  Similarity=0.236  Sum_probs=52.1

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .++++||||+|.+..+.+++.|...    ++.  .+..+.+ ..|..++++|++|+..+|+||+.+++|+
T Consensus       673 ~~g~~LVlftS~~~l~~v~~~L~~~~~~~~~~--~l~q~~~-~~r~~ll~~F~~~~~~iLlgt~sf~EGV  739 (850)
T TIGR01407       673 TSPKILVLFTSYEMLHMVYDMLNELPEFEGYE--VLAQGIN-GSRAKIKKRFNNGEKAILLGTSSFWEGV  739 (850)
T ss_pred             cCCCEEEEeCCHHHHHHHHHHHhhhccccCce--EEecCCC-ccHHHHHHHHHhCCCeEEEEcceeeccc
Confidence            4689999999999999999999752    333  3334433 5789999999999999999999999996

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.

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

Probab=98.63  E-value=3.2e-07  Score=69.21  Aligned_cols=76  Identities=18%  Similarity=0.256  Sum_probs=65.8

Q ss_pred             HHHHHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         64 VHCLNTLFSKL-QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        64 ~~~l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ...+..++... ...+++|||.+...++.++..|...+. +..+.|+.+.++|..+++.|+.|++++||++.++..|+
T Consensus       270 ~~~~~~~~~~~~~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr~g~~~~lv~~~vl~EGv  346 (442)
T COG1061         270 IAAVRGLLLKHARGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFRTGGIKVLVTVKVLDEGV  346 (442)
T ss_pred             HHHHHHHHHHhcCCCcEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHHHHHHHHHHcCCCCEEEEeeecccee
Confidence            34444444433 367899999999999999999998887 99999999999999999999999999999999998884

>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional

Probab=98.57  E-value=3.8e-07  Score=74.41  Aligned_cols=82  Identities=18%  Similarity=0.271  Sum_probs=71.6

Q ss_pred             CccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC---CccEEEEe
Q psy13287         59 QERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG---LCRNLVCS  133 (140)
Q Consensus        59 ~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g---~~~vlv~T  133 (140)
                      ..+.|+..|.++|..+  ...++|||++.......+..+|...|+++..++|+++..+|..+++.|...   ..-+|++|
T Consensus       468 e~SgKl~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLST  547 (1033)
T PLN03142        468 ENSGKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLST  547 (1033)
T ss_pred             hhhhHHHHHHHHHHHHHhcCCeEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEec
Confidence            3567888899988776  456899999999999999999999999999999999999999999999753   23568999


Q ss_pred             cccCCCC
Q psy13287        134 GDSSAMM  140 (140)
Q Consensus       134 ~~~~rGl  140 (140)
                      .+++.||
T Consensus       548 rAGGlGI  554 (1033)
T PLN03142        548 RAGGLGI  554 (1033)
T ss_pred             cccccCC
Confidence            9999996

>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]

Probab=98.55  E-value=1.9e-06  Score=69.90  Aligned_cols=66  Identities=18%  Similarity=0.177  Sum_probs=56.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHh----------------------------cCc-------------eEEEEecCCCHH
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITE----------------------------LGY-------------CCYYIHARMAQA  113 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~----------------------------~~~-------------~v~~~h~~~~~~  113 (140)
                      +..++|+|+=|++.|+..+..+..                            .++             .++++|+++=+.
T Consensus       378 ~~lP~I~F~FSr~~Ce~~a~~~~~ldl~~~~~~e~~i~~ii~~~i~~L~~ed~~lp~~~~~~~~~L~RGiavHH~GlLP~  457 (1041)
T COG4581         378 NLLPAIVFSFSRRGCEEAAQILSTLDLVLTEEKERAIREIIDHAIGDLAEEDRELPLQILEISALLLRGIAVHHAGLLPA  457 (1041)
T ss_pred             cCCceEEEEEchhhHHHHHHHhcccccccCCcHHHHHHHHHHHHHhhcChhhhcCcccHHHHHHHHhhhhhhhccccchH
Confidence            456899999999999988887752                            011             157899999999


Q ss_pred             HHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287        114 HRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       114 ~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .|..+.+-|..|-++++++|..+|.|+
T Consensus       458 ~K~~vE~Lfq~GLvkvvFaTeT~s~Gi  484 (1041)
T COG4581         458 IKELVEELFQEGLVKVVFATETFAIGI  484 (1041)
T ss_pred             HHHHHHHHHhccceeEEeehhhhhhhc
Confidence            999999999999999999999999985

>KOG4150|consensus

Probab=98.48  E-value=1.3e-06  Score=66.87  Aligned_cols=127  Identities=11%  Similarity=0.118  Sum_probs=90.4

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhcc-CCc-EEEcCCcccCCCeEEEEEEcCcc---------chHHHHHHHHhhC--CCC
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLK-DPY-EINLMEELTLKGVTQYYAFVQER---------QKVHCLNTLFSKL--QIN   77 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~-~~~-~i~~~~~~~~~~i~~~~~~~~~~---------~k~~~l~~ll~~~--~~~   77 (140)
                      .+-|++--|||+...++.. +.+++ +.. .++.  +..+..-.+.++|.++.         .++.....++...  .+-
T Consensus       450 ~~~~~~~~~~~~K~~~~~~-~~~~~~~E~~Li~~--DGSPs~~K~~V~WNP~~~P~~~~~~~~~i~E~s~~~~~~i~~~~  526 (1034)
T KOG4150|consen  450 INMGVYDGDTPYKDRTRLR-SELANLSELELVTI--DGSPSSEKLFVLWNPSAPPTSKSEKSSKVVEVSHLFAEMVQHGL  526 (1034)
T ss_pred             cCcceEeCCCCcCCHHHHH-HHhcCCcceEEEEe--cCCCCccceEEEeCCCCCCcchhhhhhHHHHHHHHHHHHHHcCC
Confidence            3678999999998887644 44444 322 3333  23344557777776521         2233333333332  467


Q ss_pred             cEEEEeCchHHHHHHHHHHHhc----C----ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         78 QSIIFCNSTQRVELLAKKITEL----G----YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~~----~----~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++|-||.+++-||-+...-++.    +    -.+..|.|+-..++|.++..++-.|++..+|+|++++.|+
T Consensus       527 R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G~L~giIaTNALELGI  597 (1034)
T KOG4150|consen  527 RCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALELGI  597 (1034)
T ss_pred             cEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhCCeeeEEEecchhhhcc
Confidence            9999999999999876665543    2    2478899999999999999999999999999999999986

>KOG0953|consensus

Probab=98.46  E-value=1e-06  Score=66.89  Aligned_cols=76  Identities=20%  Similarity=0.201  Sum_probs=66.0

Q ss_pred             HHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCCHHHHHHHHHHhhc--CCccEEEEecccCCCC
Q psy13287         64 VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMAQAHRNRVFHDFRS--GLCRNLVCSGDSSAMM  140 (140)
Q Consensus        64 ~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~~~~R~~~~~~f~~--g~~~vlv~T~~~~rGl  140 (140)
                      .+.+..-++++.++.++|-+ |+++.-.+...+.+.+. +|+.++|+++++.|..--..|.+  ++++||||||+.+|||
T Consensus       345 ~~~~~~sl~nlk~GDCvV~F-Skk~I~~~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~dvlVAsDAIGMGL  423 (700)
T KOG0953|consen  345 EETALGSLSNLKPGDCVVAF-SKKDIFTVKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSNECDVLVASDAIGMGL  423 (700)
T ss_pred             hhhhhhhhccCCCCCeEEEe-ehhhHHHHHHHHHHhcCcceEEEecCCCCchhHHHHHHhCCCCCccceEEeeccccccc
Confidence            34566667777888888844 79999999999988865 59999999999999999999987  8999999999999996

>KOG0923|consensus

Probab=98.34  E-value=1.3e-05  Score=62.24  Aligned_cols=131  Identities=13%  Similarity=0.217  Sum_probs=94.2

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHH-HHH---hhCCCC
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLN-TLF---SKLQIN   77 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~-~ll---~~~~~~   77 (140)
                      +++|.+.- ++...++.|||+.   .+....+|.+...+.+.. . .-.+..+|...++.+=++.-. .++   -..+.+
T Consensus       401 vKDIar~R-pdLKllIsSAT~D---AekFS~fFDdapIF~iPG-R-RyPVdi~Yt~~PEAdYldAai~tVlqIH~tqp~G  474 (902)
T KOG0923|consen  401 VKDIARFR-PDLKLLISSATMD---AEKFSAFFDDAPIFRIPG-R-RYPVDIFYTKAPEADYLDAAIVTVLQIHLTQPLG  474 (902)
T ss_pred             HHHHHhhC-CcceEEeeccccC---HHHHHHhccCCcEEeccC-c-ccceeeecccCCchhHHHHHHhhheeeEeccCCc
Confidence            34555544 4788999999997   556777888766665532 2 223566666665554443322 222   222568


Q ss_pred             cEEEEeCchHHHHHHHHHHHhc----C-----ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCC
Q psy13287         78 QSIIFCNSTQRVELLAKKITEL----G-----YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSA  138 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~~----~-----~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~r  138 (140)
                      .+|||..-.++.+...+.|.+.    |     +-+..+|+.++.+.+..+++---.|--+|++|||+++-
T Consensus       475 DILVFltGQeEIEt~~e~l~~~~~~LGski~eliv~PiYaNLPselQakIFePtP~gaRKVVLATNIAET  544 (902)
T KOG0923|consen  475 DILVFLTGQEEIETVKENLKERCRRLGSKIRELIVLPIYANLPSELQAKIFEPTPPGARKVVLATNIAET  544 (902)
T ss_pred             cEEEEeccHHHHHHHHHHHHHHHHHhccccceEEEeeccccCChHHHHhhcCCCCCCceeEEEeecchhh
Confidence            8999999999988888877553    2     23889999999999999999999999999999999863

>KOG0920|consensus

Probab=98.34  E-value=6.2e-06  Score=66.37  Aligned_cols=126  Identities=10%  Similarity=0.134  Sum_probs=90.2

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcc-----------------cCCCeEEE------------EEEcCcc
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEEL-----------------TLKGVTQY------------YAFVQER   61 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~-----------------~~~~i~~~------------~~~~~~~   61 (140)
                      ++.+++++|||+.   .+....+|+.+..+++....                 ......++            ....+.+
T Consensus       318 p~LkvILMSAT~d---ae~fs~YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  394 (924)
T KOG0920|consen  318 PDLKVILMSATLD---AELFSDYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRLARLKLWEPE  394 (924)
T ss_pred             CCceEEEeeeecc---hHHHHHHhCCCceEeecCCCcchHHHHHHHHHHHhcccccccccccccccCccccccchhcccc
Confidence            5789999999998   55677788876666554210                 01111111            0001122


Q ss_pred             chHHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhc-------CceEEEEecCCCHHHHHHHHHHhhcCCccEE
Q psy13287         62 QKVHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITEL-------GYCCYYIHARMAQAHRNRVFHDFRSGLCRNL  130 (140)
Q Consensus        62 ~k~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~-------~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vl  130 (140)
                      -..+.+..++...    .++.+|||.+.-.+...+++.|...       ++-+..+|+.|+..++..++..--.|.-+|+
T Consensus       395 id~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~VF~~pp~g~RKII  474 (924)
T KOG0920|consen  395 IDYDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAVFKRPPKGTRKII  474 (924)
T ss_pred             ccHHHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHhcCCCCCCcchhh
Confidence            3455555555444    3678999999999999999999643       3568999999999999999999999999999


Q ss_pred             EEecccCCC
Q psy13287        131 VCSGDSSAM  139 (140)
Q Consensus       131 v~T~~~~rG  139 (140)
                      ++|++|+-.
T Consensus       475 laTNIAETS  483 (924)
T KOG0920|consen  475 LATNIAETS  483 (924)
T ss_pred             hhhhhHhhc
Confidence            999998754

>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional

Probab=98.33  E-value=4.3e-06  Score=69.24  Aligned_cols=64  Identities=9%  Similarity=0.209  Sum_probs=53.4

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc------Cc---eEEEEecCCCHHHHHHHHHHhhcCCc-cEEEEecccCCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL------GY---CCYYIHARMAQAHRNRVFHDFRSGLC-RNLVCSGDSSAMM  140 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~------~~---~v~~~h~~~~~~~R~~~~~~f~~g~~-~vlv~T~~~~rGl  140 (140)
                      .++++||||.+++.|+.+++.|++.      ++   .+..+||+.+  ++..++++|++++. +|+|++|+++.|+
T Consensus       697 ~~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~~~~~~v~~itg~~~--~~~~li~~Fk~~~~p~IlVsvdmL~TG~  770 (1123)
T PRK11448        697 GEGKTLIFAATDAHADMVVRLLKEAFKKKYGQVEDDAVIKITGSID--KPDQLIRRFKNERLPNIVVTVDLLTTGI  770 (1123)
T ss_pred             CCCcEEEEEcCHHHHHHHHHHHHHHHHhhcCCcCccceEEEeCCcc--chHHHHHHHhCCCCCeEEEEecccccCC
Confidence            4579999999999999999888653      22   4667999975  56789999999987 6899999999995

>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=98.24  E-value=0.00014  Score=54.63  Aligned_cols=122  Identities=13%  Similarity=0.180  Sum_probs=93.7

Q ss_pred             CeEEEEEecCchhHHHHHHHhccCCc---EEEcC-C-----cccCCCeEEEEEEcCcc-------chHHHHHH-HH---h
Q psy13287         13 RQILLYSATFPLTVKNFMEKHLKDPY---EINLM-E-----ELTLKGVTQYYAFVQER-------QKVHCLNT-LF---S   72 (140)
Q Consensus        13 ~q~v~~SAT~~~~~~~~~~~~~~~~~---~i~~~-~-----~~~~~~i~~~~~~~~~~-------~k~~~l~~-ll---~   72 (140)
                      +|++++|+...+.+..+....+.|..   .+... .     ......+.|.+..++.+       .+.+...+ ++   .
T Consensus       216 RQtii~S~~~~pe~~slf~~~~~N~~G~v~~~~~~~~~g~i~~v~~~v~Q~F~r~~~~s~~~~~d~Rf~yF~~~iLP~l~  295 (442)
T PF06862_consen  216 RQTIIFSSFQTPEINSLFNRHCQNYAGKVRLKPPYEASGVISQVVVQVRQVFQRFDCSSPADDPDARFKYFTKKILPQLK  295 (442)
T ss_pred             eEeEEecCCCCHHHHHHHHhhCcCccceEEEeeccccceeeeccccCCceEEEEecCCCcchhhhHHHHHHHHHHHHHhh
Confidence            79999999999999999988776532   22111 2     24567788888876522       23222222 22   2


Q ss_pred             -hCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         73 -KLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        73 -~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                       ....+.+|||++|--+=-.+-++|++.++.++.+|--.+..+-...-..|.+|+.++|+.|.
T Consensus       296 ~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G~~~iLL~TE  358 (442)
T PF06862_consen  296 RDSKMSGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFHGRKPILLYTE  358 (442)
T ss_pred             hccCCCcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcCCceEEEEEh
Confidence             33457899999999999999999999999999999999999989999999999999999995

; GO: 0005634 nucleus

>PRK12903 secA preprotein translocase subunit SecA; Reviewed

Probab=98.22  E-value=2e-05  Score=63.15  Aligned_cols=121  Identities=8%  Similarity=0.009  Sum_probs=76.3

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEE-EEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQY-YAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~-~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      ....+|.|.-....++.+.+  +-..+.+.++.+.....+- .++.....|...+.+-+...  ...|+||.|.|.+..|
T Consensus       363 kLsGMTGTA~te~~Ef~~iY--~l~Vv~IPTnkP~~R~D~~d~iy~t~~~K~~Aii~ei~~~~~~gqPVLVgT~SIe~SE  440 (925)
T PRK12903        363 KLSGMTGTAKTEEQEFIDIY--NMRVNVVPTNKPVIRKDEPDSIFGTKHAKWKAVVKEVKRVHKKGQPILIGTAQVEDSE  440 (925)
T ss_pred             hhhccCCCCHHHHHHHHHHh--CCCEEECCCCCCeeeeeCCCcEEEcHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHH
Confidence            35667888765444433322  2223434322211111111 23345566776666655433  4678999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC-CccEEEEecccCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG-LCRNLVCSGDSSAM  139 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~vlv~T~~~~rG  139 (140)
                      .+++.|.+.|++...+++.....+-..+-   +.| .-.|.|||+.|+||
T Consensus       441 ~ls~~L~~~gi~h~vLNAk~~e~EA~IIa---~AG~~GaVTIATNMAGRG  487 (925)
T PRK12903        441 TLHELLLEANIPHTVLNAKQNAREAEIIA---KAGQKGAITIATNMAGRG  487 (925)
T ss_pred             HHHHHHHHCCCCceeecccchhhHHHHHH---hCCCCCeEEEecccccCC
Confidence            99999999999999999974433333222   345 34799999999999

>KOG0924|consensus

Probab=98.16  E-value=9.9e-06  Score=63.21  Aligned_cols=123  Identities=12%  Similarity=0.193  Sum_probs=86.4

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchH-HHHHHHHhhC---CCCcEEEEeCch
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKV-HCLNTLFSKL---QINQSIIFCNST   86 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~-~~l~~ll~~~---~~~~~lIF~~t~   86 (140)
                      .+..++..|||+.   .+....+|++...+.+....-+-.+  .+...+-++=+ ..+.+.+.-.   +++..|||..-.
T Consensus       499 rdlKliVtSATm~---a~kf~nfFgn~p~f~IpGRTyPV~~--~~~k~p~eDYVeaavkq~v~Ihl~~~~GdilIfmtGq  573 (1042)
T KOG0924|consen  499 RDLKLIVTSATMD---AQKFSNFFGNCPQFTIPGRTYPVEI--MYTKTPVEDYVEAAVKQAVQIHLSGPPGDILIFMTGQ  573 (1042)
T ss_pred             ccceEEEeecccc---HHHHHHHhCCCceeeecCCccceEE--EeccCchHHHHHHHHhhheEeeccCCCCCEEEecCCC
Confidence            3678999999998   4566778887777766543333333  33333333322 2233333211   457899999888


Q ss_pred             HHHHHHHHHHHh----c------CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCC
Q psy13287         87 QRVELLAKKITE----L------GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSA  138 (140)
Q Consensus        87 ~~~~~~~~~L~~----~------~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~r  138 (140)
                      ++.|..+..+..    .      +..|..+++.++.+-+.+++++-..|.-+++|+|++++-
T Consensus       574 ediE~t~~~i~~~l~ql~~~~~~~L~vlpiYSQLp~dlQ~kiFq~a~~~vRK~IvATNIAET  635 (1042)
T KOG0924|consen  574 EDIECTCDIIKEKLEQLDSAPTTDLAVLPIYSQLPADLQAKIFQKAEGGVRKCIVATNIAET  635 (1042)
T ss_pred             cchhHHHHHHHHHHHhhhcCCCCceEEEeehhhCchhhhhhhcccCCCCceeEEEeccchhh
Confidence            877766665543    2      567999999999999999999999999999999999863

>PRK12326 preprotein translocase subunit SecA; Reviewed

Probab=98.14  E-value=3.4e-05  Score=60.94  Aligned_cols=121  Identities=7%  Similarity=-0.002  Sum_probs=77.7

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCccc--CCCeEEEEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELT--LKGVTQYYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRV   89 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~--~~~i~~~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~   89 (140)
                      ..-.+|.|......++.+.+--+  .+.+.+..+  ...... .++....+|...+.+-+...  ...|+||.|.|.+..
T Consensus       364 kLsGMTGTa~t~~~Ef~~iY~l~--Vv~IPtnkp~~R~d~~d-~iy~t~~~k~~Aii~ei~~~~~~GrPVLVgt~sI~~S  440 (764)
T PRK12326        364 TVCGMTGTAVAAGEQLRQFYDLG--VSVIPPNKPNIREDEAD-RVYATAAEKNDAIVEHIAEVHETGQPVLVGTHDVAES  440 (764)
T ss_pred             hheeecCCChhHHHHHHHHhCCc--EEECCCCCCceeecCCC-ceEeCHHHHHHHHHHHHHHHHHcCCCEEEEeCCHHHH
Confidence            46778999876655444333222  333332211  111111 23334556776666655433  567899999999999


Q ss_pred             HHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCC
Q psy13287         90 ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        90 ~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      |.+++.|.+.|+++..+++.-..++-..+-+.=+.|  .|-|||+.|+||
T Consensus       441 E~ls~~L~~~gI~h~vLNAk~~~~EA~IIa~AG~~g--aVTIATNMAGRG  488 (764)
T PRK12326        441 EELAERLRAAGVPAVVLNAKNDAEEARIIAEAGKYG--AVTVSTQMAGRG  488 (764)
T ss_pred             HHHHHHHHhCCCcceeeccCchHhHHHHHHhcCCCC--cEEEEecCCCCc
Confidence            999999999999999999985544433333322333  789999999999

>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated

Probab=98.00  E-value=0.00011  Score=59.62  Aligned_cols=63  Identities=10%  Similarity=0.092  Sum_probs=50.3

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++++|+++|.+..+.+++.|+...+.+ ...|.-.  .|..++++|++++-.||++|+-+..|+
T Consensus       646 ~~g~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~~~vLlG~~sFwEGV  708 (820)
T PRK07246        646 LQQPILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGEQQILLGLGSFWEGV  708 (820)
T ss_pred             cCCCEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCCCeEEEecchhhCCC
Confidence            47899999999999999999998765555 4445322  356789999998889999998888775

>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated

Probab=97.95  E-value=0.00015  Score=59.56  Aligned_cols=66  Identities=8%  Similarity=0.017  Sum_probs=51.5

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc--eEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY--CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~--~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .++++|||++|.+..+.+++.|.....  ....+.-+++...|..++++|+.++-.||++|.-+..|+
T Consensus       751 ~~g~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~~~iLlG~~sFwEGV  818 (928)
T PRK08074        751 TKGRMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFDKAILLGTSSFWEGI  818 (928)
T ss_pred             CCCCEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcCCeEEEecCcccCcc
Confidence            467999999999999999999976422  122333344445688999999998888999999888885

>PRK13103 secA preprotein translocase subunit SecA; Reviewed

Probab=97.89  E-value=7e-05  Score=60.42  Aligned_cols=121  Identities=8%  Similarity=0.017  Sum_probs=77.9

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcc--cCCCeEEEEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEEL--TLKGVTQYYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRV   89 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~--~~~~i~~~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~   89 (140)
                      ..-.+|.|......++.+.+--+  .+.+.++.  ........ ++....+|...+.+-+...  ...|+||-|.|.+..
T Consensus       386 kLsGMTGTa~te~~Ef~~iY~l~--Vv~IPTnkP~~R~D~~d~-vy~t~~eK~~Ai~~ei~~~~~~GrPVLVGT~SVe~S  462 (913)
T PRK13103        386 KLSGMTGTADTEAFEFRQIYGLD--VVVIPPNKPLARKDFNDL-VYLTAEEKYAAIITDIKECMALGRPVLVGTATIETS  462 (913)
T ss_pred             hhccCCCCCHHHHHHHHHHhCCC--EEECCCCCCcccccCCCe-EEcCHHHHHHHHHHHHHHHHhCCCCEEEEeCCHHHH
Confidence            35668888865544433333222  33343222  12222222 3445567777776666544  467899999999999


Q ss_pred             HHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCC
Q psy13287         90 ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        90 ~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      |.+++.|.+.|++...+++.....+-..+-+.=+  .-.|-|||+.|+||
T Consensus       463 E~ls~~L~~~gi~h~VLNAk~~~~EA~IIa~AG~--~GaVTIATNMAGRG  510 (913)
T PRK13103        463 EHMSNLLKKEGIEHKVLNAKYHEKEAEIIAQAGR--PGALTIATNMAGRG  510 (913)
T ss_pred             HHHHHHHHHcCCcHHHhccccchhHHHHHHcCCC--CCcEEEeccCCCCC
Confidence            9999999999999888888755444333333222  34799999999999

>CHL00122 secA preprotein translocase subunit SecA; Validated

Probab=97.85  E-value=0.00033  Score=56.44  Aligned_cols=122  Identities=11%  Similarity=0.030  Sum_probs=75.1

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      .+..+|.|....-.++. ... +-..+.+.+..+.....+ -.++....+|...+.+-+...  ...|+||-|.|.+..|
T Consensus       361 kL~GMTGTa~te~~Ef~-~iY-~l~vv~IPtnkp~~R~d~~d~v~~t~~~K~~AI~~ei~~~~~~grPVLIgT~SIe~SE  438 (870)
T CHL00122        361 KLSGMTGTAKTEELEFE-KIY-NLEVVCIPTHRPMLRKDLPDLIYKDELSKWRAIADECLQMHQTGRPILIGTTTIEKSE  438 (870)
T ss_pred             hhcccCCCCHHHHHHHH-HHh-CCCEEECCCCCCccceeCCCeEEeCHHHHHHHHHHHHHHHHhcCCCEEEeeCCHHHHH
Confidence            46778888865433332 222 222343433322222222 123334556666555544322  4678999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCC--CHHHHHHHHHHhhcCCccEEEEecccCCC
Q psy13287         91 LLAKKITELGYCCYYIHARM--AQAHRNRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~--~~~~R~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      .+++.|.+.|++...+++.-  ...|-..+-+.=+.  -.|-|||+.|+||
T Consensus       439 ~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIA~AG~~--G~VTIATNMAGRG  487 (870)
T CHL00122        439 LLSQLLKEYRLPHQLLNAKPENVRRESEIVAQAGRK--GSITIATNMAGRG  487 (870)
T ss_pred             HHHHHHHHcCCccceeeCCCccchhHHHHHHhcCCC--CcEEEeccccCCC
Confidence            99999999999999999973  23333333332222  4799999999999

>PRK12899 secA preprotein translocase subunit SecA; Reviewed

Probab=97.84  E-value=0.00015  Score=58.82  Aligned_cols=122  Identities=12%  Similarity=0.062  Sum_probs=77.3

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      ....+|.|.-....++.+ ..+ -..+.+.+..+.....+ -.++.....|...+.+-+...  ...|+||-|.|.+..|
T Consensus       505 kl~GmTGTa~~e~~Ef~~-iY~-l~v~~iPt~kp~~r~d~~d~iy~t~~~k~~ai~~ei~~~~~~grPvLigt~si~~se  582 (970)
T PRK12899        505 KLAGMTGTAITESREFKE-IYN-LYVLQVPTFKPCLRIDHNDEFYMTEREKYHAIVAEIASIHRKGNPILIGTESVEVSE  582 (970)
T ss_pred             hhcccCCCCHHHHHHHHH-HhC-CCEEECCCCCCceeeeCCCcEecCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHH
Confidence            567788888655443322 222 22333432221111111 123444556766666555433  4568999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      .++..|.+.|++...+++.-...+-..+-+.=+.  -.|.|||+.++||
T Consensus       583 ~ls~~L~~~gi~h~vLNak~~~~Ea~iia~AG~~--g~VTIATNmAGRG  629 (970)
T PRK12899        583 KLSRILRQNRIEHTVLNAKNHAQEAEIIAGAGKL--GAVTVATNMAGRG  629 (970)
T ss_pred             HHHHHHHHcCCcceecccchhhhHHHHHHhcCCC--CcEEEeeccccCC
Confidence            9999999999999999998554444444333333  4799999999999

>PRK14873 primosome assembly protein PriA; Provisional

Probab=97.83  E-value=0.00018  Score=56.91  Aligned_cols=75  Identities=16%  Similarity=0.156  Sum_probs=65.9

Q ss_pred             ccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhc-C-ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         60 ERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITEL-G-YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~-~-~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ++.|.+.+.+++...  ..+++||-++..+.+..+.+.|+.. + ..++.+|+++++.+|...+.+.++|+.+|+|.|=
T Consensus       170 GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtR  248 (665)
T PRK14873        170 GEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTR  248 (665)
T ss_pred             CCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcc
Confidence            567888887777654  4678999999999999999999876 5 6799999999999999999999999999999985

>PRK12902 secA preprotein translocase subunit SecA; Reviewed

Probab=97.76  E-value=0.00029  Score=56.93  Aligned_cols=122  Identities=11%  Similarity=0.028  Sum_probs=75.2

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      ..-.+|.|.-....++.+.+  +-..+.+.++.+.....+ -.++.....|...+.+-+...  ...|+||-|.|.+..|
T Consensus       376 kLsGMTGTa~te~~Ef~~iY--~l~Vv~IPTnkP~~R~d~~d~vy~t~~~K~~Ai~~ei~~~~~~GrPVLIgT~SVe~SE  453 (939)
T PRK12902        376 KLAGMTGTAKTEEVEFEKTY--KLEVTVIPTNRPRRRQDWPDQVYKTEIAKWRAVANETAEMHKQGRPVLVGTTSVEKSE  453 (939)
T ss_pred             hhcccCCCCHHHHHHHHHHh--CCcEEEcCCCCCeeeecCCCeEEcCHHHHHHHHHHHHHHHHhCCCCEEEeeCCHHHHH
Confidence            45668888765444333333  222333332221111111 112334456766666555433  4678999999999999


Q ss_pred             HHHHHHHhcCceEEEEecC-CC-HHHHHHHHHHhhcCCccEEEEecccCCC
Q psy13287         91 LLAKKITELGYCCYYIHAR-MA-QAHRNRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~-~~-~~~R~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      .+++.|.+.|+++..+++. .. ..+-..+-+.=+.  -.|-|||+.|+||
T Consensus       454 ~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIa~AG~~--GaVTIATNMAGRG  502 (939)
T PRK12902        454 LLSALLQEQGIPHNLLNAKPENVEREAEIVAQAGRK--GAVTIATNMAGRG  502 (939)
T ss_pred             HHHHHHHHcCCchheeeCCCcchHhHHHHHHhcCCC--CcEEEeccCCCCC
Confidence            9999999999999999997 22 3333333332223  3789999999999

>PRK12901 secA preprotein translocase subunit SecA; Reviewed

Probab=97.76  E-value=0.00023  Score=58.19  Aligned_cols=121  Identities=12%  Similarity=0.083  Sum_probs=79.3

Q ss_pred             EEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHHH
Q psy13287         15 ILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVEL   91 (140)
Q Consensus        15 ~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~   91 (140)
                      .-.+|.|......++...+--+  .+.+.++.+.....+ -.++....+|...+.+-+...  ...|+||-|.|.+..|.
T Consensus       566 LsGMTGTA~tea~Ef~~IY~L~--Vv~IPTnrP~~R~D~~D~vy~t~~eK~~Aii~ei~~~~~~GrPVLVGT~SVe~SE~  643 (1112)
T PRK12901        566 LAGMTGTAETEAGEFWDIYKLD--VVVIPTNRPIARKDKEDLVYKTKREKYNAVIEEITELSEAGRPVLVGTTSVEISEL  643 (1112)
T ss_pred             hcccCCCCHHHHHHHHHHhCCC--EEECCCCCCcceecCCCeEecCHHHHHHHHHHHHHHHHHCCCCEEEEeCcHHHHHH
Confidence            4567788765544443333222  343433222111111 123345567777776666544  56789999999999999


Q ss_pred             HHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCC
Q psy13287         92 LAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        92 ~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      +++.|+..|++...+++.....+-..+-+.=+.|  .|-|||+.|+||
T Consensus       644 lS~~L~~~gI~H~VLNAK~h~~EAeIVA~AG~~G--aVTIATNMAGRG  689 (1112)
T PRK12901        644 LSRMLKMRKIPHNVLNAKLHQKEAEIVAEAGQPG--TVTIATNMAGRG  689 (1112)
T ss_pred             HHHHHHHcCCcHHHhhccchhhHHHHHHhcCCCC--cEEEeccCcCCC
Confidence            9999999999988888886655555554544444  789999999999

>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]

Probab=97.76  E-value=0.00043  Score=54.81  Aligned_cols=63  Identities=11%  Similarity=0.105  Sum_probs=49.5

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCCHHHHHHHHHHhhcCCc-cEEEEecccCCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMAQAHRNRVFHDFRSGLC-RNLVCSGDSSAMM  140 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~~~~R~~~~~~f~~g~~-~vlv~T~~~~rGl  140 (140)
                      .++.+|||++|.+.++.+++.+...... ....+|..+   +...++.|+.+.- -++|+|.-++.|+
T Consensus       478 ~~~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~~---~~~~l~~f~~~~~~~~lv~~gsf~EGV  542 (654)
T COG1199         478 SPGGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGEDE---REELLEKFKASGEGLILVGGGSFWEGV  542 (654)
T ss_pred             cCCCEEEEeccHHHHHHHHHHHhhcCccceeeecCCCc---HHHHHHHHHHhcCCeEEEeeccccCcc
Confidence            4668999999999999999999887653 344455444   4488888987544 8999999999985

>TIGR00595 priA primosomal protein N'

Probab=97.74  E-value=0.00031  Score=54.06  Aligned_cols=73  Identities=7%  Similarity=0.133  Sum_probs=60.2

Q ss_pred             chHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhc-CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         62 QKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITEL-GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        62 ~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~-~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      -|......++...  ..+++|+-++++.-+..+++.|++. +.++..+||+++..+|...+.+..+|+.+|+|+|.
T Consensus         9 GKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVGTr   84 (505)
T TIGR00595         9 GKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEILVVIGTR   84 (505)
T ss_pred             CHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCCEEECCh
Confidence            4544444433322  3568999999999999999999875 77899999999999999999999999999999996

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).

>KOG0925|consensus

Probab=97.73  E-value=0.00097  Score=50.68  Aligned_cols=124  Identities=15%  Similarity=0.200  Sum_probs=82.7

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHH----HHHHHhhCCCCc
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHC----LNTLFSKLQINQ   78 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~----l~~ll~~~~~~~   78 (140)
                      ++++..-| +..++.+|||+-   ....+.+++++..+++.. ..+  ++.+|..-.+.+-++.    +.++-....++.
T Consensus       183 k~v~~~rp-dLk~vvmSatl~---a~Kfq~yf~n~Pll~vpg-~~P--vEi~Yt~e~erDylEaairtV~qih~~ee~GD  255 (699)
T KOG0925|consen  183 KEVVRNRP-DLKLVVMSATLD---AEKFQRYFGNAPLLAVPG-THP--VEIFYTPEPERDYLEAAIRTVLQIHMCEEPGD  255 (699)
T ss_pred             HHHHhhCC-CceEEEeecccc---hHHHHHHhCCCCeeecCC-CCc--eEEEecCCCChhHHHHHHHHHHHHHhccCCCC
Confidence            44444443 788999999986   557788999988888854 222  3334433334444433    333334446889


Q ss_pred             EEEEeCchHHHHHHHHHHHhc---------CceEEEEecCCCHHHHHHHHHHhhc---C--CccEEEEecccC
Q psy13287         79 SIIFCNSTQRVELLAKKITEL---------GYCCYYIHARMAQAHRNRVFHDFRS---G--LCRNLVCSGDSS  137 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~---------~~~v~~~h~~~~~~~R~~~~~~f~~---g--~~~vlv~T~~~~  137 (140)
                      +++|....++.++.++.+...         ..+|..+|    +.+++.+++-...   |  .-+|+|+|+++.
T Consensus       256 ilvFLtgeeeIe~aC~~i~re~~~L~~~~g~l~v~PLy----P~~qq~iFep~p~~~~~~~~RkvVvstniae  324 (699)
T KOG0925|consen  256 ILVFLTGEEEIEDACRKISREVDNLGPQVGPLKVVPLY----PAQQQRIFEPAPEKRNGAYGRKVVVSTNIAE  324 (699)
T ss_pred             EEEEecCHHHHHHHHHHHHHHHHhhccccCCceEEecC----chhhccccCCCCcccCCCccceEEEEecchh
Confidence            999999999999999988743         24688888    4445555554432   2  247999999875

>PRK05580 primosome assembly protein PriA; Validated

Probab=97.69  E-value=0.00042  Score=55.19  Aligned_cols=75  Identities=9%  Similarity=0.156  Sum_probs=61.6

Q ss_pred             ccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhc-CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         60 ERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITEL-GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~-~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ++-|......++...  ...++||.+++++-+..+++.|++. +.++..+||+++..+|...+.+..+|+.+|+|+|.
T Consensus       172 GSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTr  249 (679)
T PRK05580        172 GSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEAKVVIGAR  249 (679)
T ss_pred             CChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCCCEEEecc
Confidence            344655444433221  3568999999999999999999875 88999999999999999999999999999999996

>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]

Probab=97.67  E-value=0.00019  Score=57.09  Aligned_cols=77  Identities=18%  Similarity=0.236  Sum_probs=67.8

Q ss_pred             cCccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhc-CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         58 VQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITEL-GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        58 ~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~-~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +-++-|.+.+.+++.+.  ..+++||-++..+....+.+.|+.. |.+++.+|+++++.+|...+.+.+.|+.+|+|.|=
T Consensus       225 vTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtR  304 (730)
T COG1198         225 VTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRGEARVVIGTR  304 (730)
T ss_pred             CCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcCCceEEEEec
Confidence            35677888888877655  4678999999999999999999876 88999999999999999999999999999999884

>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional

Probab=97.64  E-value=0.002  Score=51.60  Aligned_cols=62  Identities=11%  Similarity=0.163  Sum_probs=46.6

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc-CceEEEEecCCCHHHHHHHHHHhhc----CCccEEEEecccCCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL-GYCCYYIHARMAQAHRNRVFHDFRS----GLCRNLVCSGDSSAMM  140 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~-~~~v~~~h~~~~~~~R~~~~~~f~~----g~~~vlv~T~~~~rGl  140 (140)
                      .++.+|||++|.+..+.+++.|... +..+ ..+|.   ..|..+++.|++    |+-.||++|.-+..|+
T Consensus       533 ~~gg~LVlFtSy~~l~~v~~~l~~~~~~~l-l~Q~~---~~~~~ll~~f~~~~~~~~~~VL~g~~sf~EGV  599 (697)
T PRK11747        533 KHKGSLVLFASRRQMQKVADLLPRDLRLML-LVQGD---QPRQRLLEKHKKRVDEGEGSVLFGLQSFAEGL  599 (697)
T ss_pred             cCCCEEEEeCcHHHHHHHHHHHHHhcCCcE-EEeCC---chHHHHHHHHHHHhccCCCeEEEEeccccccc
Confidence            3556899999999999999999743 4443 44554   356788877774    6678999998888875

>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4

Probab=97.61  E-value=0.0022  Score=50.60  Aligned_cols=71  Identities=8%  Similarity=0.123  Sum_probs=51.7

Q ss_pred             HHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc----CCccEEEEecccCCCC
Q psy13287         67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS----GLCRNLVCSGDSSAMM  140 (140)
Q Consensus        67 l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~----g~~~vlv~T~~~~rGl  140 (140)
                      +..++.. ..++++|-+.|.+.++.+++.|+..---...+.|+.+  .|...+++|+.    |.-.||++|+-+-.|+
T Consensus       462 ~~~~~~~-~~G~~lvLfTS~~~~~~~~~~l~~~l~~~~l~qg~~~--~~~~l~~~f~~~~~~~~~~vL~gt~sfweGv  536 (636)
T TIGR03117       462 TAAILRK-AQGGTLVLTTAFSHISAIGQLVELGIPAEIVIQSEKN--RLASAEQQFLALYANGIQPVLIAAGGAWTGI  536 (636)
T ss_pred             HHHHHHH-cCCCEEEEechHHHHHHHHHHHHhhcCCCEEEeCCCc--cHHHHHHHHHHhhcCCCCcEEEeCCcccccc
Confidence            3344333 4778999999999999999999764212345666532  45678999987    4789999999887774

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.

>COG1110 Reverse gyrase [DNA replication, recombination, and repair]

Probab=97.56  E-value=0.00064  Score=55.48  Aligned_cols=73  Identities=14%  Similarity=0.215  Sum_probs=58.3

Q ss_pred             HHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhc----C-ceEEE-EecCCCHHHHHHHHHHhhcCCccEEEEeccc
Q psy13287         64 VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITEL----G-YCCYY-IHARMAQAHRNRVFHDFRSGLCRNLVCSGDS  136 (140)
Q Consensus        64 ~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~----~-~~v~~-~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~  136 (140)
                      ...+..+.-....+++++-++|..-+..+++.|.+.    + ..+.. |||.++.+++.+.+++|.+|..+|||+|+.+
T Consensus       113 fg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~F  191 (1187)
T COG1110         113 FGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQF  191 (1187)
T ss_pred             HHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeeeeccccchHHHHHHHHHHhcCCccEEEEeHHH
Confidence            444555554445688999999999999999988765    2 33322 9999999999999999999999999999843

>PRK10917 ATP-dependent DNA helicase RecG; Provisional

Probab=97.50  E-value=0.00059  Score=54.37  Aligned_cols=61  Identities=11%  Similarity=0.161  Sum_probs=55.1

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecc
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                      ...+++|-++|+.-|...++.+++.    ++++..+||+++..+|..+++.+.+|+.+|+|+|..
T Consensus       309 ~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~  373 (681)
T PRK10917        309 AGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVIGTHA  373 (681)
T ss_pred             cCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHH
Confidence            4568999999999999888887764    689999999999999999999999999999999973

>TIGR00604 rad3 DNA repair helicase (rad3)

Probab=97.49  E-value=0.0037  Score=50.17  Aligned_cols=66  Identities=14%  Similarity=0.176  Sum_probs=46.8

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc------eEEEEecCCCHHHHHHHHHHhhc----CCccEEEEe--cccCCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY------CCYYIHARMAQAHRNRVFHDFRS----GLCRNLVCS--GDSSAMM  140 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~------~v~~~h~~~~~~~R~~~~~~f~~----g~~~vlv~T--~~~~rGl  140 (140)
                      .++.+|||++|-...+.+++.+++.+.      ....+.-+-+..++..++++|+.    |+--+|+|+  .-++.|+
T Consensus       521 ~pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~~~~~~~~~l~~f~~~~~~~~gavL~av~gGk~sEGI  598 (705)
T TIGR00604       521 IPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQETSDALERYKQAVSEGRGAVLLSVAGGKVSEGI  598 (705)
T ss_pred             CCCcEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCCCcchHHHHHHHHHHHHhcCCceEEEEecCCcccCcc
Confidence            467899999999999999998876532      11222222223678899999964    455699998  6677775

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).

>KOG0392|consensus

Probab=97.45  E-value=0.0012  Score=54.95  Aligned_cols=82  Identities=16%  Similarity=0.290  Sum_probs=65.1

Q ss_pred             CccchHHHHHHHHhhC----------------CCCcEEEEeCchHHHHHHHHHHHhcCc-eE--EEEecCCCHHHHHHHH
Q psy13287         59 QERQKVHCLNTLFSKL----------------QINQSIIFCNSTQRVELLAKKITELGY-CC--YYIHARMAQAHRNRVF  119 (140)
Q Consensus        59 ~~~~k~~~l~~ll~~~----------------~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v--~~~h~~~~~~~R~~~~  119 (140)
                      ....|+..|.++|..=                ...++||||+-+...+-+.+-|.+... .|  .-+-|+.++..|.++.
T Consensus      1307 ~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekDL~k~~mpsVtymRLDGSVpp~~R~kiV 1386 (1549)
T KOG0392|consen 1307 QHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKDLFKKYMPSVTYMRLDGSVPPGDRQKIV 1386 (1549)
T ss_pred             hhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHHHHHHHHHHHhhhhcCceeEEEecCCCCcHHHHHHH
Confidence            4567999999998643                123789999999999999888866532 34  4789999999999999


Q ss_pred             HHhhcC-CccEEEEec-ccCCCC
Q psy13287        120 HDFRSG-LCRNLVCSG-DSSAMM  140 (140)
Q Consensus       120 ~~f~~g-~~~vlv~T~-~~~rGl  140 (140)
                      ++|.++ .+++|+-|+ +++.|+
T Consensus      1387 ~~FN~DptIDvLlLTThVGGLGL 1409 (1549)
T KOG0392|consen 1387 ERFNEDPTIDVLLLTTHVGGLGL 1409 (1549)
T ss_pred             HHhcCCCceeEEEEeeecccccc
Confidence            999998 899876665 666664

>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]

Probab=97.45  E-value=0.0036  Score=50.09  Aligned_cols=52  Identities=13%  Similarity=0.179  Sum_probs=43.2

Q ss_pred             HHHHHHHHHhc--CceEEEEecCCCH--HHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         89 VELLAKKITEL--GYCCYYIHARMAQ--AHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        89 ~~~~~~~L~~~--~~~v~~~h~~~~~--~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +|++++.|.+.  +.++..+-++...  ..=...++.|.+|+.+|||.|..++-|+
T Consensus       493 terieeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~  548 (730)
T COG1198         493 TERIEEELKRLFPGARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGH  548 (730)
T ss_pred             HHHHHHHHHHHCCCCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcCC
Confidence            78888888876  7888888888654  3356789999999999999999998884

>TIGR00643 recG ATP-dependent DNA helicase RecG

Probab=97.33  E-value=0.0013  Score=52.10  Aligned_cols=61  Identities=13%  Similarity=0.138  Sum_probs=55.2

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecc
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                      ...++++-++|+.-|+.+++.+++.    |+++..+||+++..+|...++...+|+.+++|+|..
T Consensus       283 ~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~  347 (630)
T TIGR00643       283 AGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHA  347 (630)
T ss_pred             cCCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHH
Confidence            3568999999999999998888764    789999999999999999999999999999999974

>PRK14701 reverse gyrase; Provisional

Probab=97.28  E-value=0.0025  Score=55.17  Aligned_cols=60  Identities=17%  Similarity=0.237  Sum_probs=54.3

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc------CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL------GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~------~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..+++|.++|++-+..+++.|+..      ++++.++||+++.+++...++.+++|+.+|+|+|+
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            4568999999999999999999873      56789999999999999999999999999999998

>KOG1000|consensus

Probab=97.23  E-value=0.0014  Score=49.83  Aligned_cols=81  Identities=7%  Similarity=0.117  Sum_probs=67.0

Q ss_pred             ccchHHHHHHHHhh------CCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC-CccE-EE
Q psy13287         60 ERQKVHCLNTLFSK------LQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG-LCRN-LV  131 (140)
Q Consensus        60 ~~~k~~~l~~ll~~------~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~v-lv  131 (140)
                      ...|...+.+++..      .++.+.+|||......+.+..++.+.++...-+-|..+...|....++|+.. +++| ++
T Consensus       470 giaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvl  549 (689)
T KOG1000|consen  470 GIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVL  549 (689)
T ss_pred             cccccHHHHHHHHhCcccccCCCceEEEEehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHHHHHhccccceEEEEE
Confidence            34577778777755      1467899999999999999999999999999999999999999999999964 5665 55


Q ss_pred             EecccCCCC
Q psy13287        132 CSGDSSAMM  140 (140)
Q Consensus       132 ~T~~~~rGl  140 (140)
                      +-++++.||
T Consensus       550 sItA~gvGL  558 (689)
T KOG1000|consen  550 SITAAGVGL  558 (689)
T ss_pred             EEeecccce
Confidence            666677775

>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A

Probab=97.18  E-value=0.0012  Score=43.44  Aligned_cols=69  Identities=17%  Similarity=0.200  Sum_probs=51.1

Q ss_pred             HHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCc--eEEEEecCCCHHHHHHHHHHhhcCCccEEEEec--ccCCCC
Q psy13287         69 TLFSKLQINQSIIFCNSTQRVELLAKKITELGY--CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG--DSSAMM  140 (140)
Q Consensus        69 ~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~--~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~--~~~rGl  140 (140)
                      ++++. .++.+|||++|.+..+.+.+.++....  ....+..  +...+..+++.|+.++--+|+++.  -++.|+
T Consensus         3 ~l~~~-~~g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~~q--~~~~~~~~l~~~~~~~~~il~~v~~g~~~EGi   75 (167)
T PF13307_consen    3 ELISA-VPGGVLVFFPSYRRLEKVYERLKERLEEKGIPVFVQ--GSKSRDELLEEFKRGEGAILLAVAGGSFSEGI   75 (167)
T ss_dssp             HHHHC-CSSEEEEEESSHHHHHHHHTT-TSS-E-ETSCEEES--TCCHHHHHHHHHCCSSSEEEEEETTSCCGSSS
T ss_pred             HHHhc-CCCCEEEEeCCHHHHHHHHHHHHhhcccccceeeec--CcchHHHHHHHHHhccCeEEEEEecccEEEee
Confidence            44444 468899999999999999999987642  2223333  366788999999999999999997  666664

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

Probab=97.12  E-value=0.0026  Score=49.20  Aligned_cols=52  Identities=12%  Similarity=0.241  Sum_probs=43.9

Q ss_pred             EEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         79 SIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +||.++|++-|..+++.++..     ++++..++|+++...+...   ++.| .+|+|+|+
T Consensus       102 aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~~~---l~~~-~~ivVaTP  158 (513)
T COG0513         102 ALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEA---LKRG-VDIVVATP  158 (513)
T ss_pred             eEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHHHH---HhcC-CCEEEECc
Confidence            899999999999999988764     4678999999988776644   4446 99999999

>KOG0387|consensus

Probab=97.12  E-value=0.0034  Score=50.14  Aligned_cols=81  Identities=17%  Similarity=0.272  Sum_probs=68.3

Q ss_pred             ccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHH-hcCceEEEEecCCCHHHHHHHHHHhhcCC-ccE-EEEec
Q psy13287         60 ERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKIT-ELGYCCYYIHARMAQAHRNRVFHDFRSGL-CRN-LVCSG  134 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~-~~~~~v~~~h~~~~~~~R~~~~~~f~~g~-~~v-lv~T~  134 (140)
                      ..-|+..+.+++..-  .+.++|+|..++....-+...|. ..||.+.-+-|..+...|..++++|.++. +.| |++|-
T Consensus       528 ~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTTr  607 (923)
T KOG0387|consen  528 RSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTTR  607 (923)
T ss_pred             hcchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhhcCCCceEEEEEEec
Confidence            345889999988644  46689999999999999988888 46999999999999999999999999765 455 77888


Q ss_pred             ccCCCC
Q psy13287        135 DSSAMM  140 (140)
Q Consensus       135 ~~~rGl  140 (140)
                      +++.|+
T Consensus       608 vGGLGl  613 (923)
T KOG0387|consen  608 VGGLGL  613 (923)
T ss_pred             cccccc
Confidence            888875

>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family

Probab=97.04  E-value=0.0067  Score=46.39  Aligned_cols=59  Identities=10%  Similarity=0.201  Sum_probs=55.7

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+.+||.+++++-+++..+.|+..|+.+..++|+.+..++..++..+..|+.+++++|+
T Consensus        51 ~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TP  109 (470)
T TIGR00614        51 DGITLVISPLISLMEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTP  109 (470)
T ss_pred             CCcEEEEecHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECH
Confidence            57799999999999999999999999999999999999999999999999999999997

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

>TIGR00580 mfd transcription-repair coupling factor (mfd)

Probab=96.99  E-value=0.004  Score=51.31  Aligned_cols=60  Identities=12%  Similarity=0.094  Sum_probs=54.5

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...+++|.++|+.-|+..++.+++.    ++++..++|..+..++..+++.+++|+.+++|+|.
T Consensus       499 ~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp  562 (926)
T TIGR00580       499 DGKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKIDILIGTH  562 (926)
T ss_pred             hCCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchH
Confidence            3578999999999999999988764    67899999999999999999999999999999997

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.

>TIGR01054 rgy reverse gyrase

Probab=96.91  E-value=0.0043  Score=52.33  Aligned_cols=60  Identities=20%  Similarity=0.241  Sum_probs=52.0

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----Cce---EEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYC---CYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~---v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...+++|.++|++-|..+++.+++.    ++.   +..+||+++..+|...++++++|..+|+|+|+
T Consensus       120 ~g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp  186 (1171)
T TIGR01054       120 KGKRCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTT  186 (1171)
T ss_pred             cCCeEEEEeCHHHHHHHHHHHHHHHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECH
Confidence            3578999999999999999988765    333   34689999999999999999999999999998

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.

>TIGR01389 recQ ATP-dependent DNA helicase RecQ

Probab=96.82  E-value=0.0087  Score=47.07  Aligned_cols=60  Identities=7%  Similarity=0.149  Sum_probs=55.9

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..+.++|.+++++-++...+.|+..|+.+..+||+++..++..+++.+..|..+++++|+
T Consensus        52 ~~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tp  111 (591)
T TIGR01389        52 LKGLTVVISPLISLMKDQVDQLRAAGVAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAP  111 (591)
T ss_pred             cCCcEEEEcCCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEECh
Confidence            357789999999999999999999999999999999999999999999999999999986

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.

>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]

Probab=96.81  E-value=0.014  Score=47.43  Aligned_cols=79  Identities=19%  Similarity=0.295  Sum_probs=65.5

Q ss_pred             chHHHHHHHH-hhC--CCC--cEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC-Ccc-EEEEec
Q psy13287         62 QKVHCLNTLF-SKL--QIN--QSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG-LCR-NLVCSG  134 (140)
Q Consensus        62 ~k~~~l~~ll-~~~--~~~--~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~-vlv~T~  134 (140)
                      .|...+.+++ ...  ...  ++++|++.....+-+...++..++....++|+++...|...+++|.++ ... .+++|-
T Consensus       692 ~k~~~l~~ll~~~~~~~~~~~kvlifsq~t~~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~v~lls~k  771 (866)
T COG0553         692 GKLQALDELLLDKLLEEGHYHKVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLK  771 (866)
T ss_pred             hHHHHHHHHHHHHHHhhcccccEEEEeCcHHHHHHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHhhcCCCCceEEEEec
Confidence            6777887777 333  334  899999999999999999999999999999999999999999999986 344 466666


Q ss_pred             ccCCCC
Q psy13287        135 DSSAMM  140 (140)
Q Consensus       135 ~~~rGl  140 (140)
                      .++.|+
T Consensus       772 agg~gl  777 (866)
T COG0553         772 AGGLGL  777 (866)
T ss_pred             ccccce
Confidence            777775

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

Probab=96.79  E-value=0.014  Score=46.07  Aligned_cols=62  Identities=13%  Similarity=0.134  Sum_probs=53.3

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHH----hcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEeccc
Q psy13287         75 QINQSIIFCNSTQRVELLAKKIT----ELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDS  136 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~----~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~  136 (140)
                      ...|+.+-++|-=-|+..++.+.    ..|++|+.+.|.+...+|.+++++..+|+++++|.|-++
T Consensus       310 ~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHAL  375 (677)
T COG1200         310 AGYQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHAL  375 (677)
T ss_pred             cCCeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchh
Confidence            56799999999777766665554    459999999999999999999999999999999999743

>cd00268 DEADc DEAD-box helicases

Probab=96.77  E-value=0.022  Score=38.25  Aligned_cols=56  Identities=13%  Similarity=0.049  Sum_probs=44.1

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..++||.|+++.-+...++.++..    ++.+..++|+.+..++...++    +..+++|||.
T Consensus        68 ~~~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~iiv~T~  127 (203)
T cd00268          68 DGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLK----RGPHIVVATP  127 (203)
T ss_pred             CCceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhc----CCCCEEEECh
Confidence            3457999999999999888877665    678899999988766544333    6789999996

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.

>PRK10689 transcription-repair coupling factor; Provisional

Probab=96.75  E-value=0.0098  Score=50.15  Aligned_cols=60  Identities=7%  Similarity=0.034  Sum_probs=54.1

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...+++|-++|+.-|..+++.+++.    ++++..++|..+..++..+++.+++|+.+|+|+|.
T Consensus       648 ~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp  711 (1147)
T PRK10689        648 NHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTH  711 (1147)
T ss_pred             cCCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECH
Confidence            4678999999999999999988753    56889999999999999999999999999999996

>KOG0385|consensus

Probab=96.72  E-value=0.014  Score=46.72  Aligned_cols=106  Identities=19%  Similarity=0.247  Sum_probs=77.2

Q ss_pred             HhccCCcEEEcCC-cccCCCeEEEEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEec
Q psy13287         32 KHLKDPYEINLME-ELTLKGVTQYYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHA  108 (140)
Q Consensus        32 ~~~~~~~~i~~~~-~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~  108 (140)
                      +.+..|..+...+ +.....-.|.   +.++-|+.+|.++|..+  ...++|||-+=.+..+-+..+..-.++...-+-|
T Consensus       443 KccnHPYLF~g~ePg~pyttdehL---v~nSGKm~vLDkLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~R~y~ycRiDG  519 (971)
T KOG0385|consen  443 KCCNHPYLFDGAEPGPPYTTDEHL---VTNSGKMLVLDKLLPKLKEQGHRVLIFSQMTRMLDILEDYCMLRGYEYCRLDG  519 (971)
T ss_pred             HhcCCccccCCCCCCCCCCcchHH---HhcCcceehHHHHHHHHHhCCCeEEEeHHHHHHHHHHHHHHHhcCceeEeecC
Confidence            3444565554432 2333333332   45667898999999877  4678999988777777666666666999999999


Q ss_pred             CCCHHHHHHHHHHhhcCC---ccEEEEecccCCCC
Q psy13287        109 RMAQAHRNRVFHDFRSGL---CRNLVCSGDSSAMM  140 (140)
Q Consensus       109 ~~~~~~R~~~~~~f~~g~---~~vlv~T~~~~rGl  140 (140)
                      .++-++|...++.|....   .=.|++|=+++.||
T Consensus       520 St~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGI  554 (971)
T KOG0385|consen  520 STSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGI  554 (971)
T ss_pred             CCCcHHHHHHHHhcCCCCcceEEEEEecccccccc
Confidence            999999999999998643   23488999888886

>KOG0389|consensus

Probab=96.65  E-value=0.016  Score=46.50  Aligned_cols=81  Identities=19%  Similarity=0.301  Sum_probs=69.6

Q ss_pred             ccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC-CccE-EEEecc
Q psy13287         60 ERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG-LCRN-LVCSGD  135 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~v-lv~T~~  135 (140)
                      .+-|...|..+|.+.  +..++|||-.-....+-+...|+..+++..-+-|...-.+|+.+++.|... .+.| |.+|-+
T Consensus       759 dSgK~r~L~~LLp~~k~~G~RVLiFSQFTqmLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKA  838 (941)
T KOG0389|consen  759 DSGKCRKLKELLPKIKKKGDRVLIFSQFTQMLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKA  838 (941)
T ss_pred             hhhhHhHHHHHHHHHhhcCCEEEEeeHHHHHHHHHHHHHHhcCceEEeecCCccchHHHHHHHhhccCCceEEEEEeecc
Confidence            345888999999877  357999999988888888899999999999999999999999999999864 4555 888998


Q ss_pred             cCCCC
Q psy13287        136 SSAMM  140 (140)
Q Consensus       136 ~~rGl  140 (140)
                      ++.||
T Consensus       839 GG~GI  843 (941)
T KOG0389|consen  839 GGFGI  843 (941)
T ss_pred             Cccee
Confidence            88885

>KOG0384|consensus

Probab=96.61  E-value=0.0036  Score=52.08  Aligned_cols=81  Identities=16%  Similarity=0.260  Sum_probs=69.4

Q ss_pred             ccchHHHHHHHHhhCC--CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC---CccEEEEec
Q psy13287         60 ERQKVHCLNTLFSKLQ--INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG---LCRNLVCSG  134 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~~--~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g---~~~vlv~T~  134 (140)
                      .+-|+-.|-+||.++.  ..++|||-+=++..+-++++|...+++.--+-|++..+.|+..++.|..-   ..-.|.||=
T Consensus       681 sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTR  760 (1373)
T KOG0384|consen  681 SSGKLVLLDKLLPRLKEGGHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTR  760 (1373)
T ss_pred             hcCcEEeHHHHHHHHhcCCceEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCCCceEEEEecc
Confidence            4456666777777763  46899999999999999999999999999999999999999999999863   355799999


Q ss_pred             ccCCCC
Q psy13287        135 DSSAMM  140 (140)
Q Consensus       135 ~~~rGl  140 (140)
                      +++.||
T Consensus       761 AGGLGI  766 (1373)
T KOG0384|consen  761 AGGLGI  766 (1373)
T ss_pred             cCcccc
Confidence            888886

>KOG0347|consensus

Probab=96.61  E-value=0.0071  Score=46.76  Aligned_cols=52  Identities=8%  Similarity=0.155  Sum_probs=46.9

Q ss_pred             EEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         79 SIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +|||++|++-|-.+.+.|...    +++++.+.||+..+.++.+++.    .-+|+|||+
T Consensus       266 ~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~----~p~IVVATP  321 (731)
T KOG0347|consen  266 ALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQRLLNQ----RPDIVVATP  321 (731)
T ss_pred             eEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHHHHHHHHhc----CCCEEEecc
Confidence            899999999999999999764    8999999999999888888886    558999998

>KOG0926|consensus

Probab=96.43  E-value=0.021  Score=46.18  Aligned_cols=83  Identities=17%  Similarity=0.253  Sum_probs=50.4

Q ss_pred             CeEEEEEecCchhHHHHH--HHhccC-CcEEEcCCcccCCCeEEEEEEcCccc---hHHHHHHHHhhCCCCcEEEEeCch
Q psy13287         13 RQILLYSATFPLTVKNFM--EKHLKD-PYEINLMEELTLKGVTQYYAFVQERQ---KVHCLNTLFSKLQINQSIIFCNST   86 (140)
Q Consensus        13 ~q~v~~SAT~~~~~~~~~--~~~~~~-~~~i~~~~~~~~~~i~~~~~~~~~~~---k~~~l~~ll~~~~~~~~lIF~~t~   86 (140)
                      ...|++|||+.  +.++.  +++|.. |..+.+...+-+-.|+ +-...+.+.   -+.....+-++++++-+|||+.-.
T Consensus       415 LKLIIMSATLR--VsDFtenk~LFpi~pPlikVdARQfPVsIH-F~krT~~DYi~eAfrKtc~IH~kLP~G~ILVFvTGQ  491 (1172)
T KOG0926|consen  415 LKLIIMSATLR--VSDFTENKRLFPIPPPLIKVDARQFPVSIH-FNKRTPDDYIAEAFRKTCKIHKKLPPGGILVFVTGQ  491 (1172)
T ss_pred             eeEEEEeeeEE--ecccccCceecCCCCceeeeecccCceEEE-eccCCCchHHHHHHHHHHHHhhcCCCCcEEEEEeCh
Confidence            45799999986  33333  335543 3444443322222221 111122221   244455666777999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy13287         87 QRVELLAKKITE   98 (140)
Q Consensus        87 ~~~~~~~~~L~~   98 (140)
                      .+++.+++.|++
T Consensus       492 qEV~qL~~kLRK  503 (1172)
T KOG0926|consen  492 QEVDQLCEKLRK  503 (1172)
T ss_pred             HHHHHHHHHHHh
Confidence            999999999987

>KOG0388|consensus

Probab=96.43  E-value=0.01  Score=47.39  Aligned_cols=81  Identities=16%  Similarity=0.298  Sum_probs=70.2

Q ss_pred             ccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccE-EEEeccc
Q psy13287         60 ERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRN-LVCSGDS  136 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~v-lv~T~~~  136 (140)
                      ++.|+..|..+|.++  .+.++|+|++-.+...-+.++|.-.++...-+-|+....+|..++.+|+..++-| |.+|-++
T Consensus      1026 dSgKL~~LDeLL~kLkaegHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~sdiFvFLLSTRAG 1105 (1185)
T KOG0388|consen 1026 DSGKLVVLDELLPKLKAEGHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQASDIFVFLLSTRAG 1105 (1185)
T ss_pred             cccceeeHHHHHHHhhcCCceEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccCCceEEEEEecccC
Confidence            446778888888877  3568999999999999999999999999999999999999999999999977665 7888888


Q ss_pred             CCCC
Q psy13287        137 SAMM  140 (140)
Q Consensus       137 ~rGl  140 (140)
                      +.|+
T Consensus      1106 GLGI 1109 (1185)
T KOG0388|consen 1106 GLGI 1109 (1185)
T ss_pred             cccc
Confidence            8775

>KOG0389|consensus

Probab=96.38  E-value=0.037  Score=44.60  Aligned_cols=69  Identities=12%  Similarity=0.040  Sum_probs=53.6

Q ss_pred             HHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcC--CccEEEEecccCC
Q psy13287         67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSG--LCRNLVCSGDSSA  138 (140)
Q Consensus        67 l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g--~~~vlv~T~~~~r  138 (140)
                      |.-+.+...++|=||.|++ ++.+.|-.+|.++  ..+|..|||.  +++|.++-..+..+  ..+|||+|--++-
T Consensus       439 layLkq~g~~gpHLVVvPs-STleNWlrEf~kwCPsl~Ve~YyGS--q~ER~~lR~~i~~~~~~ydVllTTY~la~  511 (941)
T KOG0389|consen  439 LAYLKQIGNPGPHLVVVPS-STLENWLREFAKWCPSLKVEPYYGS--QDERRELRERIKKNKDDYDVLLTTYNLAA  511 (941)
T ss_pred             HHHHHHcCCCCCcEEEecc-hhHHHHHHHHHHhCCceEEEeccCc--HHHHHHHHHHHhccCCCccEEEEEeeccc
Confidence            3333334467888999984 5677777778777  7799999999  79999999999987  7899999975443

>PRK11057 ATP-dependent DNA helicase RecQ; Provisional

Probab=96.32  E-value=0.041  Score=43.54  Aligned_cols=59  Identities=8%  Similarity=0.111  Sum_probs=55.3

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+.+||.+++++-+.+..+.|+..|+.+..++++.+.+++..+++.++.|+++++++|+
T Consensus        65 ~g~tlVisPl~sL~~dqv~~l~~~gi~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tP  123 (607)
T PRK11057         65 DGLTLVVSPLISLMKDQVDQLLANGVAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAP  123 (607)
T ss_pred             CCCEEEEecHHHHHHHHHHHHHHcCCcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEECh
Confidence            56899999999999999999999999999999999999999999999999999999986

>KOG1002|consensus

Probab=96.30  E-value=0.013  Score=44.89  Aligned_cols=71  Identities=23%  Similarity=0.434  Sum_probs=58.4

Q ss_pred             ccchHHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC-CccEE
Q psy13287         60 ERQKVHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG-LCRNL  130 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~vl  130 (140)
                      .+.|++.|.+-+...    ..-+.|||.+-.+..+-+...|.+.|.+|.-+-|+|++..|...++.|++. .++|+
T Consensus       618 sSTKIEAL~EEl~~l~~rd~t~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~vf  693 (791)
T KOG1002|consen  618 SSTKIEALVEELYFLRERDRTAKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCRVF  693 (791)
T ss_pred             chhHHHHHHHHHHHHHHcccchhhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeEEE
Confidence            345777777655433    345789999999999999999999999999999999999999999999975 56664

>PRK11776 ATP-dependent RNA helicase DbpA; Provisional

Probab=96.28  E-value=0.039  Score=42.06  Aligned_cols=54  Identities=13%  Similarity=0.197  Sum_probs=44.0

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++||.|+|++-|..+++.++..     ++++..++|+.+...+...++    +..+|+|+|+
T Consensus        73 ~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~~~~l~----~~~~IvV~Tp  131 (460)
T PRK11776         73 VQALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLE----HGAHIIVGTP  131 (460)
T ss_pred             ceEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCChHHHHHHhc----CCCCEEEECh
Confidence            36899999999999999888754     578999999998876554443    5689999996

>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family

Probab=96.26  E-value=0.041  Score=44.02  Aligned_cols=64  Identities=6%  Similarity=-0.035  Sum_probs=49.2

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHH---------------------HHHHHHHHhhc-CCcc
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQA---------------------HRNRVFHDFRS-GLCR  128 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~---------------------~R~~~~~~f~~-g~~~  128 (140)
                      .++++|||.++..|..+++.|.+.     +.....++++.+.+                     ....++++|++ +.++
T Consensus       514 ~~kamvv~~sr~~a~~~~~~l~~~~~~~~~~~~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~~~~~  593 (667)
T TIGR00348       514 KFKAMVVAISRYACVEEKNALDEELNEKFEASAIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKEENPK  593 (667)
T ss_pred             cCceeEEEecHHHHHHHHHHHHhhcccccCCeeEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCCCCce
Confidence            478999999999999999998765     23445666654332                     23478899986 6899


Q ss_pred             EEEEecccCCC
Q psy13287        129 NLVCSGDSSAM  139 (140)
Q Consensus       129 vlv~T~~~~rG  139 (140)
                      +||++|.+.-|
T Consensus       594 ilIVvdmllTG  604 (667)
T TIGR00348       594 LLIVVDMLLTG  604 (667)
T ss_pred             EEEEEcccccc
Confidence            99999988877

Members of this family are assumed to differ from each other in DNA site specificity.

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

Probab=96.13  E-value=0.063  Score=45.21  Aligned_cols=59  Identities=8%  Similarity=0.075  Sum_probs=54.0

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc--CCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS--GLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~--g~~~vlv~T~  134 (140)
                      .+.+||.+++++-+.+....|...|+++..++|+++..++..+++.+..  |+.++|++|+
T Consensus       500 ~GiTLVISPLiSLmqDQV~~L~~~GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTP  560 (1195)
T PLN03137        500 PGITLVISPLVSLIQDQIMNLLQANIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTP  560 (1195)
T ss_pred             CCcEEEEeCHHHHHHHHHHHHHhCCCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEECh
Confidence            5679999999999988778888889999999999999999999999987  8999999998

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional

Probab=96.11  E-value=0.054  Score=43.08  Aligned_cols=56  Identities=13%  Similarity=0.112  Sum_probs=43.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.|+|++-|..+++.+...     ++.+..+||+.+.+.+...+   + +..+|+|+|+
T Consensus        73 ~~~~~LIL~PTreLa~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~q~~~l---~-~~~~IVVgTP  133 (629)
T PRK11634         73 KAPQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRAL---R-QGPQIVVGTP  133 (629)
T ss_pred             CCCeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEECCcCHHHHHHHh---c-CCCCEEEECH
Confidence            3457999999999999998887653     67899999998876554433   2 4578999996

>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases

Probab=96.10  E-value=0.11  Score=33.63  Aligned_cols=56  Identities=13%  Similarity=0.171  Sum_probs=44.0

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHH-HHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQA-HRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~-~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..++++.++++.-++..++.+++.    +.++..+||+.+.. +....+    .++.+++|+|.
T Consensus        43 ~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~ilv~T~  103 (169)
T PF00270_consen   43 KDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLHGGQSISEDQREVL----SNQADILVTTP  103 (169)
T ss_dssp             SSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEESTTSCHHHHHHHHH----HTTSSEEEEEH
T ss_pred             CCceEEEEeecccccccccccccccccccccccccccccccccccccccc----cccccccccCc
Confidence            4458999999999999999988776    45789999998854 332333    67889999996

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 ....

>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]

Probab=96.03  E-value=0.016  Score=46.83  Aligned_cols=79  Identities=13%  Similarity=0.112  Sum_probs=58.9

Q ss_pred             CccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEeccc
Q psy13287         59 QERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDS  136 (140)
Q Consensus        59 ~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~  136 (140)
                      ....|...+.+-+...  .+.|+||-+.+.+..|.+.+.|++.|++...+.+.-..++=..+-+.=+.|  -|-|||+.|
T Consensus       410 t~~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h~~EA~Iia~AG~~g--aVTiATNMA  487 (822)
T COG0653         410 TEEEKFKAIVEDIKERHEKGQPVLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNHAREAEIIAQAGQPG--AVTIATNMA  487 (822)
T ss_pred             chHHHHHHHHHHHHHHHhcCCCEEEcCcceecchhHHHHHHhcCCCceeeccccHHHHHHHHhhcCCCC--ccccccccc
Confidence            3445665555544333  578899999999999999999999999988888886655444444433334  678999999


Q ss_pred             CCC
Q psy13287        137 SAM  139 (140)
Q Consensus       137 ~rG  139 (140)
                      +||
T Consensus       488 GRG  490 (822)
T COG0653         488 GRG  490 (822)
T ss_pred             cCC
Confidence            998

>KOG0390|consensus

Probab=95.90  E-value=0.096  Score=42.40  Aligned_cols=79  Identities=13%  Similarity=0.170  Sum_probs=52.0

Q ss_pred             cchHHHHHHHHhhCCCCcEE---EEeCchHHHHHHHHHH-HhcCceEEEEecCCCHHHHHHHHHHhhcC--CccE-EEEe
Q psy13287         61 RQKVHCLNTLFSKLQINQSI---IFCNSTQRVELLAKKI-TELGYCCYYIHARMAQAHRNRVFHDFRSG--LCRN-LVCS  133 (140)
Q Consensus        61 ~~k~~~l~~ll~~~~~~~~l---IF~~t~~~~~~~~~~L-~~~~~~v~~~h~~~~~~~R~~~~~~f~~g--~~~v-lv~T  133 (140)
                      .-|+..|..++... ..+++   ++...-....++.+.+ +-.|+.+..+||+++..+|+.+++.|.+-  ...| |.+|
T Consensus       577 s~kl~~L~~ll~~~-~ek~~~~~v~Isny~~tldl~e~~~~~~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSs  655 (776)
T KOG0390|consen  577 SGKLLVLVFLLEVI-REKLLVKSVLISNYTQTLDLFEQLCRWRGYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLSS  655 (776)
T ss_pred             hhHHHHHHHHHHHH-hhhcceEEEEeccHHHHHHHHHHHHhhcCceEEEEcCCCchHHHHHHHHhccCCCCCceEEEEec
Confidence            34566666666332 22333   3334444444454444 44499999999999999999999999863  3355 5666


Q ss_pred             cccCCCC
Q psy13287        134 GDSSAMM  140 (140)
Q Consensus       134 ~~~~rGl  140 (140)
                      -+.+.||
T Consensus       656 KAgg~Gi  662 (776)
T KOG0390|consen  656 KAGGEGL  662 (776)
T ss_pred             ccccCce
Confidence            6777775

>PRK04537 ATP-dependent RNA helicase RhlB; Provisional

Probab=95.78  E-value=0.053  Score=42.64  Aligned_cols=54  Identities=6%  Similarity=0.138  Sum_probs=44.0

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++||.++|++-|..+++.+.+.    ++++..+||+.+.+.+...++    +..+|+|+|+
T Consensus        85 ~raLIl~PTreLa~Qi~~~~~~l~~~~~i~v~~l~Gg~~~~~q~~~l~----~~~dIiV~TP  142 (572)
T PRK04537         85 PRALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELLQ----QGVDVIIATP  142 (572)
T ss_pred             ceEEEEeCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHHh----CCCCEEEECH
Confidence            57999999999999998887664    678999999998776554443    4679999996

>PRK09401 reverse gyrase; Reviewed

Probab=95.71  E-value=0.053  Score=46.05  Aligned_cols=60  Identities=18%  Similarity=0.322  Sum_probs=49.3

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEE--EEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCY--YIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~--~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..+++|.++|+.-+..+++.++..    +..+.  ..|++++..++....+.++.|..+|+|+|+
T Consensus       122 ~g~~alIL~PTreLa~Qi~~~l~~l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp  187 (1176)
T PRK09401        122 KGKKSYIIFPTRLLVEQVVEKLEKFGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTS  187 (1176)
T ss_pred             cCCeEEEEeccHHHHHHHHHHHHHHhhhcCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECH
Confidence            4678999999999999999999876    33443  445566778888889999999999999997

>KOG1123|consensus

Probab=95.66  E-value=0.096  Score=40.51  Aligned_cols=73  Identities=16%  Similarity=0.280  Sum_probs=51.7

Q ss_pred             EEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC-CccEEEE
Q psy13287         56 AFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG-LCRNLVC  132 (140)
Q Consensus        56 ~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~vlv~  132 (140)
                      .++-++.|...-.-+++..  .++++|||..+.=...+.|-.|.+     -+++|..++.+|..+++.|+-+ +++.++-
T Consensus       521 LyvMNP~KFraCqfLI~~HE~RgDKiIVFsDnvfALk~YAikl~K-----pfIYG~Tsq~ERm~ILqnFq~n~~vNTIFl  595 (776)
T KOG1123|consen  521 LYVMNPNKFRACQFLIKFHERRGDKIIVFSDNVFALKEYAIKLGK-----PFIYGPTSQNERMKILQNFQTNPKVNTIFL  595 (776)
T ss_pred             eeecCcchhHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHcCC-----ceEECCCchhHHHHHHHhcccCCccceEEE
Confidence            3444556665544444332  578899999887777777666644     7899999999999999999854 4554444


Q ss_pred             e
Q psy13287        133 S  133 (140)
Q Consensus       133 T  133 (140)
                      +
T Consensus       596 S  596 (776)
T KOG1123|consen  596 S  596 (776)
T ss_pred             e
Confidence            3

>KOG0330|consensus

Probab=95.64  E-value=0.14  Score=38.34  Aligned_cols=67  Identities=12%  Similarity=0.149  Sum_probs=51.0

Q ss_pred             HHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         64 VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        64 ~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..|..++.+-+...++|-++|++-|..+++.+...    |.+|..+-|+++......-+  +  .+-.|+|||+
T Consensus       117 LPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~q~~~L--~--kkPhilVaTP  187 (476)
T KOG0330|consen  117 LPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQL--S--KKPHILVATP  187 (476)
T ss_pred             HHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHhccccCeEEEEEecCchHHHHHHHh--h--cCCCEEEeCc
Confidence            455666666545677999999999999999988766    77899999999865433222  2  4678999998

>KOG0391|consensus

Probab=95.64  E-value=0.082  Score=44.74  Aligned_cols=78  Identities=15%  Similarity=0.277  Sum_probs=61.6

Q ss_pred             chHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC-Ccc-EEEEecccC
Q psy13287         62 QKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG-LCR-NLVCSGDSS  137 (140)
Q Consensus        62 ~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~-vlv~T~~~~  137 (140)
                      -|+..|+=+|+.+  ...++|||+.-.+..+-+.+.|+..|+...-+-|..+-++|+..+++|... ++- .+.+|--.+
T Consensus      1260 GKLQtLAiLLqQLk~eghRvLIfTQMtkmLDVLeqFLnyHgylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSgg 1339 (1958)
T KOG0391|consen 1260 GKLQTLAILLQQLKSEGHRVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSGG 1339 (1958)
T ss_pred             chHHHHHHHHHHHHhcCceEEehhHHHHHHHHHHHHHhhcceEEEEecCCccHHHHHHHHHHhcCCCceEEEEEeccCCc
Confidence            4677777777666  367899999999999999999999999999999999999999999999753 343 355565333


Q ss_pred             CC
Q psy13287        138 AM  139 (140)
Q Consensus       138 rG  139 (140)
                      .|
T Consensus      1340 vG 1341 (1958)
T KOG0391|consen 1340 VG 1341 (1958)
T ss_pred             cc
Confidence            33

>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]

Probab=95.57  E-value=0.054  Score=42.52  Aligned_cols=59  Identities=14%  Similarity=0.263  Sum_probs=55.9

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+-+||-.+=..-.++-.+.|+..|++++++|+.++.++|..+++.+..|++++|.-++
T Consensus        57 ~G~TLVVSPLiSLM~DQV~~l~~~Gi~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisP  115 (590)
T COG0514          57 EGLTLVVSPLISLMKDQVDQLEAAGIRAAYLNSTLSREERQQVLNQLKSGQLKLLYISP  115 (590)
T ss_pred             CCCEEEECchHHHHHHHHHHHHHcCceeehhhcccCHHHHHHHHHHHhcCceeEEEECc
Confidence            67899999999999999999999999999999999999999999999999999988776

>PRK11192 ATP-dependent RNA helicase SrmB; Provisional

Probab=95.52  E-value=0.075  Score=40.17  Aligned_cols=55  Identities=16%  Similarity=0.106  Sum_probs=44.0

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +.++||.++|++-++.+++.++..    ++++..++|+.+...+...+.    +..+|+|+|+
T Consensus        73 ~~~~lil~Pt~eLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l~----~~~~IlV~Tp  131 (434)
T PRK11192         73 PPRILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFS----ENQDIVVATP  131 (434)
T ss_pred             CceEEEECCcHHHHHHHHHHHHHHHccCCcEEEEEECCCCHHHHHHHhc----CCCCEEEECh
Confidence            357899999999999888776654    778999999998876654443    5678999997

>KOG0949|consensus

Probab=95.51  E-value=0.014  Score=48.00  Aligned_cols=38  Identities=24%  Similarity=0.133  Sum_probs=36.5

Q ss_pred             EEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287        103 CYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       103 v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++++|++++...|..+.=-||.|...||++|..+|.|+
T Consensus       965 iG~HHaglNr~yR~~VEvLFR~g~L~VlfaT~TLsLGi 1002 (1330)
T KOG0949|consen  965 IGVHHAGLNRKYRSLVEVLFRQGHLQVLFATETLSLGI 1002 (1330)
T ss_pred             ccccccccchHHHHHHHHHhhcCceEEEEEeeehhccc
Confidence            68899999999999999999999999999999999996

>PRK01297 ATP-dependent RNA helicase RhlB; Provisional

Probab=95.46  E-value=0.17  Score=38.76  Aligned_cols=55  Identities=18%  Similarity=0.311  Sum_probs=44.4

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++||.++|++-+..+++.++..    ++.+..++|+.+....   .+.+..+..+|+|+|+
T Consensus       163 ~~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~---~~~~~~~~~~Iiv~TP  221 (475)
T PRK01297        163 PRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQ---LKQLEARFCDILVATP  221 (475)
T ss_pred             ceEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEEEccCChHHH---HHHHhCCCCCEEEECH
Confidence            47899999999999998887754    6789999999876543   3455667889999997

>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]

Probab=95.40  E-value=0.1  Score=43.83  Aligned_cols=60  Identities=7%  Similarity=0.031  Sum_probs=54.0

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +.+|+.|.++|.=-|+.-++-|++.    .++|..+..=.+..+...+++.+++|+++|+|.|=
T Consensus       642 ~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTH  705 (1139)
T COG1197         642 DGKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTH  705 (1139)
T ss_pred             CCCeEEEEcccHHhHHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEEEech
Confidence            4678999999999999888888664    66899999999999999999999999999999995

>PRK04837 ATP-dependent RNA helicase RhlB; Provisional

Probab=95.36  E-value=0.093  Score=39.59  Aligned_cols=54  Identities=9%  Similarity=0.051  Sum_probs=42.0

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++||.++|++-|..+++.++..    ++++..++|+.+.+.....+    .+..+|+|+|+
T Consensus        84 ~~~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l----~~~~~IlV~TP  141 (423)
T PRK04837         84 PRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVL----ESGVDILIGTT  141 (423)
T ss_pred             ceEEEECCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHh----cCCCCEEEECH
Confidence            57999999999999987766543    78899999998766544333    24579999997

>cd01524 RHOD_Pyr_redox Member of the Rhodanese Homology Domain superfamily

Probab=95.34  E-value=0.04  Score=32.15  Aligned_cols=36  Identities=17%  Similarity=0.292  Sum_probs=31.4

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      ..++++||.+-..+...+..|+..|+++..+.|+++
T Consensus        51 ~~~vvl~c~~g~~a~~~a~~L~~~G~~v~~l~GG~~   86 (90)
T cd01524          51 DKEIIVYCAVGLRGYIAARILTQNGFKVKNLDGGYK   86 (90)
T ss_pred             CCcEEEEcCCChhHHHHHHHHHHCCCCEEEecCCHH
Confidence            467899999878888999999999999999999964

Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar rhodanese-like domains found C-terminal of the pyridine nucleotide-disulphide oxidoreductase (Pyr-redox) domain and the Pyr-redox dimerization domain.

>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein

Probab=95.17  E-value=0.39  Score=39.20  Aligned_cols=124  Identities=6%  Similarity=0.100  Sum_probs=79.3

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCC-cEEEcCCcccCC-------------------------CeEEEEE--------
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDP-YEINLMEELTLK-------------------------GVTQYYA--------   56 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~-~~i~~~~~~~~~-------------------------~i~~~~~--------   56 (140)
                      ....+|++-|++....-++.+.+-++. ..+..++-..+.                         +-.+...        
T Consensus       179 ~ak~VI~~DA~ln~~tvdFl~~~Rp~~~i~vI~n~y~~~~fs~R~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~  258 (824)
T PF02399_consen  179 NAKTVIVMDADLNDQTVDFLASCRPDENIHVIVNTYASPGFSNRRCTFLRSLGTDTLAAALNPEDENADTSPTPKHSPDP  258 (824)
T ss_pred             hCCeEEEecCCCCHHHHHHHHHhCCCCcEEEEEeeeecCCcccceEEEecccCcHHHHHHhCCcccccccCCCcCCCCcc
Confidence            456789999999999998888865532 222222210000                         0000000        


Q ss_pred             ---EcCccchHHHHHHHHhhCCCC-cEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEE
Q psy13287         57 ---FVQERQKVHCLNTLFSKLQIN-QSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVC  132 (140)
Q Consensus        57 ---~~~~~~k~~~l~~ll~~~~~~-~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~  132 (140)
                         .....+.......++.++..+ .+-||+.|...++.+++.......+|..++|+-+..+    ++.|  ++.+|++=
T Consensus       259 ~~~~~~~~~~~tF~~~L~~~L~~gknIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~d----v~~W--~~~~VviY  332 (824)
T PF02399_consen  259 TATAAISNDETTFFSELLARLNAGKNICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLED----VESW--KKYDVVIY  332 (824)
T ss_pred             ccccccccchhhHHHHHHHHHhCCCcEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCccc----cccc--cceeEEEE
Confidence               000012234455555666544 4558999999999999999988889999999877652    2445  67899999


Q ss_pred             ecccCCCC
Q psy13287        133 SGDSSAMM  140 (140)
Q Consensus       133 T~~~~rGl  140 (140)
                      |+....|+
T Consensus       333 T~~itvG~  340 (824)
T PF02399_consen  333 TPVITVGL  340 (824)
T ss_pred             eceEEEEe
Confidence            99888775

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

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

Probab=94.94  E-value=0.2  Score=40.76  Aligned_cols=55  Identities=11%  Similarity=0.093  Sum_probs=44.5

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc---CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL---GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~---~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..++|+.++|++-+.+..+.|+..   ++++..++|+.+.++|..+    + .+.+++|+|+
T Consensus        80 ~~~~aL~l~PtraLa~q~~~~l~~l~~~~i~v~~~~Gdt~~~~r~~i----~-~~~~IivtTP  137 (742)
T TIGR03817        80 PRATALYLAPTKALAADQLRAVRELTLRGVRPATYDGDTPTEERRWA----R-EHARYVLTNP  137 (742)
T ss_pred             CCcEEEEEcChHHHHHHHHHHHHHhccCCeEEEEEeCCCCHHHHHHH----h-cCCCEEEECh
Confidence            4468999999999999999988876   5789999999998776433    2 2468999996

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.

>KOG0331|consensus

Probab=94.90  E-value=0.13  Score=39.89  Aligned_cols=55  Identities=4%  Similarity=0.002  Sum_probs=44.3

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...+||-++||+-|..+.+.+++.    ++++.+++|+.+...+..-++   . -++|+|+|+
T Consensus       165 ~P~vLVL~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~~Q~~~l~---~-gvdiviaTP  223 (519)
T KOG0331|consen  165 GPIVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQLRDLE---R-GVDVVIATP  223 (519)
T ss_pred             CCeEEEEcCcHHHHHHHHHHHHHHcCCCCccEEEEeCCCCccHHHHHHh---c-CCcEEEeCC
Confidence            345899999999999999988876    456899999998876655444   3 389999997

>PRK10590 ATP-dependent RNA helicase RhlE; Provisional

Probab=94.83  E-value=0.19  Score=38.41  Aligned_cols=54  Identities=7%  Similarity=0.135  Sum_probs=42.8

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++||.++|++-|..+++.++..    ++.+..++|+.+.+.+...   + .+..+|+|||+
T Consensus        76 ~~aLil~PtreLa~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~---l-~~~~~IiV~TP  133 (456)
T PRK10590         76 VRALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMK---L-RGGVDVLVATP  133 (456)
T ss_pred             ceEEEEeCcHHHHHHHHHHHHHHhccCCCEEEEEECCcCHHHHHHH---H-cCCCcEEEECh
Confidence            36899999999999998888764    6788899999887654332   2 36789999996

>cd01523 RHOD_Lact_B Member of the Rhodanese Homology Domain superfamily

Probab=94.81  E-value=0.06  Score=31.99  Aligned_cols=37  Identities=19%  Similarity=0.401  Sum_probs=32.1

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      +..+++++|.+-..+...+..|++.|+.+..+.|++.
T Consensus        60 ~~~~ivv~C~~G~rs~~aa~~L~~~G~~~~~l~GG~~   96 (100)
T cd01523          60 DDQEVTVICAKEGSSQFVAELLAERGYDVDYLAGGMK   96 (100)
T ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHcCceeEEeCCcHH
Confidence            3467899999888889999999999999988999864

This CD includes predicted proteins with rhodanese-like domains found N-terminal of the metallo-beta-lactamase domain.

>KOG0338|consensus

Probab=94.77  E-value=0.27  Score=38.15  Aligned_cols=66  Identities=6%  Similarity=0.061  Sum_probs=51.8

Q ss_pred             HHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         65 HCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        65 ~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..|..+|.+=   .-.++||.|+|++-+..++...++.    .+.|...-|+++...++.++.    ..-+|+|+|+
T Consensus       238 PiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~qlaqFt~I~~~L~vGGL~lk~QE~~LR----s~PDIVIATP  310 (691)
T KOG0338|consen  238 PILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLR----SRPDIVIATP  310 (691)
T ss_pred             HHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHHHhhccceeeeeecCccHHHHHHHHh----hCCCEEEecc
Confidence            4455555432   2357899999999999888877765    788999999999998888877    3478999998

>smart00450 RHOD Rhodanese Homology Domain

Probab=94.65  E-value=0.11  Score=30.14  Aligned_cols=37  Identities=22%  Similarity=0.437  Sum_probs=32.3

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +..++++||.+...+..++..|++.|+. +..+.|++.
T Consensus        55 ~~~~iv~~c~~g~~a~~~~~~l~~~G~~~v~~l~GG~~   92 (100)
T smart00450       55 KDKPVVVYCRSGNRSAKAAWLLRELGFKNVYLLDGGYK   92 (100)
T ss_pred             CCCeEEEEeCCCcHHHHHHHHHHHcCCCceEEecCCHH
Confidence            4567899999999999999999999986 999999964

An alpha beta fold found duplicated in the Rhodanese protein. The the Cysteine containing enzymatically active version of the domain is also found in the CDC25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and stress proteins such as Senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions with a loss of the cysteine are also seen in Dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases. These are likely to play a role in protein interactions.

>PRK12898 secA preprotein translocase subunit SecA; Reviewed

Probab=94.59  E-value=0.34  Score=38.80  Aligned_cols=57  Identities=12%  Similarity=0.077  Sum_probs=45.5

Q ss_pred             hhCCCCcEEEEeCchHHHHHHHHHHHh----cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         72 SKLQINQSIIFCNSTQRVELLAKKITE----LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        72 ~~~~~~~~lIF~~t~~~~~~~~~~L~~----~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ......+++|.++|+.-|...++.+..    .|++|..+.|++++++|....      .++|+++|+
T Consensus       140 ~al~G~~v~VvTptreLA~qdae~~~~l~~~lGlsv~~i~gg~~~~~r~~~y------~~dIvygT~  200 (656)
T PRK12898        140 AALAGLPVHVITVNDYLAERDAELMRPLYEALGLTVGCVVEDQSPDERRAAY------GADITYCTN  200 (656)
T ss_pred             HhhcCCeEEEEcCcHHHHHHHHHHHHHHHhhcCCEEEEEeCCCCHHHHHHHc------CCCEEEECC
Confidence            334567899999999998888777765    489999999999987766543      468999997

>KOG0334|consensus

Probab=94.52  E-value=0.16  Score=42.01  Aligned_cols=52  Identities=10%  Similarity=0.311  Sum_probs=44.1

Q ss_pred             EEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         79 SIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +||-|+|++.+..+.+++++.    ++++.+.+|+....   .-+...+.| ..|+|||.
T Consensus       441 ~li~aPtrela~QI~r~~~kf~k~l~ir~v~vygg~~~~---~qiaelkRg-~eIvV~tp  496 (997)
T KOG0334|consen  441 ALILAPTRELAMQIHREVRKFLKLLGIRVVCVYGGSGIS---QQIAELKRG-AEIVVCTP  496 (997)
T ss_pred             EEEEcCCHHHHHHHHHHHHHHHhhcCceEEEecCCccHH---HHHHHHhcC-CceEEecc
Confidence            689999999999998888764    88999999998765   446677888 99999998

>PRK13766 Hef nuclease; Provisional

Probab=94.44  E-value=0.31  Score=39.71  Aligned_cols=55  Identities=11%  Similarity=0.170  Sum_probs=44.8

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc-Cc---eEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL-GY---CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~-~~---~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..+++||.|+|+.-++.+++.+++. +.   .+..++|+.+..+|...+.     +.+|+|+|+
T Consensus        57 ~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~r~~~~~-----~~~iiv~T~  115 (773)
T PRK13766         57 KGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEVSPEKRAELWE-----KAKVIVATP  115 (773)
T ss_pred             CCCeEEEEeCcHHHHHHHHHHHHHHhCCCCceEEEEeCCCCHHHHHHHHh-----CCCEEEECH
Confidence            4678999999999999998888765 43   7899999999988876554     347999996

>TIGR00963 secA preprotein translocase, SecA subunit

Probab=94.43  E-value=0.31  Score=39.49  Aligned_cols=63  Identities=14%  Similarity=0.166  Sum_probs=49.8

Q ss_pred             HHHHHhhCCCCcEEEEeCchHHHHHHHHHHHh----cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecc
Q psy13287         67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITE----LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus        67 l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~----~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                      +.-++..+...++.|.++|..-|...++++..    .|+++..+.|+++.++|...+.      .+|+++|+.
T Consensus        88 lpa~l~aL~G~~V~VvTpt~~LA~qdae~~~~l~~~LGLsv~~i~g~~~~~~r~~~y~------~dIvyGT~~  154 (745)
T TIGR00963        88 LPAYLNALTGKGVHVVTVNDYLAQRDAEWMGQVYRFLGLSVGLILSGMSPEERREAYA------CDITYGTNN  154 (745)
T ss_pred             HHHHHHHHhCCCEEEEcCCHHHHHHHHHHHHHHhccCCCeEEEEeCCCCHHHHHHhcC------CCEEEECCC
Confidence            33345566677899999998888888887765    3899999999999988776663      699999983

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.

>cd01529 4RHOD_Repeats Member of the Rhodanese Homology Domain superfamily

Probab=94.42  E-value=0.11  Score=30.52  Aligned_cols=37  Identities=11%  Similarity=0.260  Sum_probs=31.5

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      +..++++||++...+...+..|+..|+ ++..+.|++.
T Consensus        55 ~~~~ivv~c~~g~~s~~~~~~l~~~G~~~v~~l~GG~~   92 (96)
T cd01529          55 RATRYVLTCDGSLLARFAAQELLALGGKPVALLDGGTS   92 (96)
T ss_pred             CCCCEEEEeCChHHHHHHHHHHHHcCCCCEEEeCCCHH
Confidence            356799999998888999999999998 6999999863

This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. Only the second and most of the fourth repeats contain the putative catalytic Cys residue. This CD aligns the 1st , 2nd, 3rd, and 4th repeats.

>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues

Probab=94.40  E-value=0.6  Score=32.66  Aligned_cols=63  Identities=17%  Similarity=0.217  Sum_probs=47.5

Q ss_pred             CCCcEEEEeCc-----------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC----CccEEEEecccCCC
Q psy13287         75 QINQSIIFCNS-----------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG----LCRNLVCSGDSSAM  139 (140)
Q Consensus        75 ~~~~~lIF~~t-----------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g----~~~vlv~T~~~~rG  139 (140)
                      +.+-+||+.|.           ..+++.+++.|++.|+.|. .+-+++..+=...+++|.+.    ..+++|+- +++-|
T Consensus         7 p~g~alII~n~~f~~~~~r~g~~~D~~~l~~~f~~lgF~V~-~~~dlt~~em~~~l~~~~~~~~~~~~d~~v~~-~~sHG   84 (241)
T smart00115        7 PRGLALIINNENFHSLPRRNGTDVDAENLTELFQSLGYEVH-VKNNLTAEEMLEELKEFAERPEHSDSDSFVCV-LLSHG   84 (241)
T ss_pred             CCcEEEEEECccCCCCcCCCCcHHHHHHHHHHHHHCCCEEE-EecCCCHHHHHHHHHHHHhccccCCCCEEEEE-EcCCC
Confidence            34567888875           4689999999999999984 57789999988999999763    34555554 45544

Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.

>KOG0385|consensus

Probab=94.39  E-value=0.41  Score=38.90  Aligned_cols=57  Identities=9%  Similarity=0.085  Sum_probs=47.4

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhc-CCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRS-GLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~-g~~~vlv~T~  134 (140)
                      .++|-||-|+ .++...|.+++++.  ++++..|||+  +++|....+++.. |..+|+|+|-
T Consensus       216 ~~GPfLVi~P-~StL~NW~~Ef~rf~P~l~~~~~~Gd--k~eR~~~~r~~~~~~~fdV~iTsY  275 (971)
T KOG0385|consen  216 IPGPFLVIAP-KSTLDNWMNEFKRFTPSLNVVVYHGD--KEERAALRRDIMLPGRFDVCITSY  275 (971)
T ss_pred             CCCCeEEEee-HhhHHHHHHHHHHhCCCcceEEEeCC--HHHHHHHHHHhhccCCCceEeehH
Confidence            3789999998 66777777777776  8899999999  8999999988875 6888888874

>KOG0339|consensus

Probab=94.36  E-value=0.27  Score=38.18  Aligned_cols=55  Identities=5%  Similarity=0.064  Sum_probs=41.8

Q ss_pred             CCc-EEEEeCchHHHHHHHHH---H-HhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQ-SIIFCNSTQRVELLAKK---I-TELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~-~lIF~~t~~~~~~~~~~---L-~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+| .+|.|+|++-|..+...   | +-+|+++.++||+.+.-++..-++    -...++|||+
T Consensus       295 ~gPi~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~k~Lk----~g~EivVaTP  354 (731)
T KOG0339|consen  295 EGPIGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELK----EGAEIVVATP  354 (731)
T ss_pred             CCCeEEEEeccHHHHHHHHHHHHHhhhhccceEEEeecCCcHHHHHHhhh----cCCeEEEech
Confidence            345 45777999998877554   4 345899999999999987665555    4578999998

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=94.30  E-value=0.69  Score=28.18  Aligned_cols=57  Identities=14%  Similarity=0.172  Sum_probs=43.0

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcC---ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecc
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELG---YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~---~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                      ..++++++|++...++++.+.+....   ..+..+++......+.    ....+...++++|.-
T Consensus        29 ~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~i~i~t~~   88 (144)
T cd00046          29 KGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGTSIKQQE----KLLSGKTDIVVGTPG   88 (144)
T ss_pred             cCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCcchhHHH----HHhcCCCCEEEECcH
Confidence            45789999999999999888886653   7888999886655544    233456788888863

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

>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]

Probab=94.09  E-value=0.47  Score=38.77  Aligned_cols=73  Identities=11%  Similarity=0.147  Sum_probs=50.8

Q ss_pred             HHHHHHhhC--C--CCcEEEEeCchHHHHHHHHHHHhc----C-ceEEEEecCCCHHHHHHHHHHhhcCC--ccEEEEec
Q psy13287         66 CLNTLFSKL--Q--INQSIIFCNSTQRVELLAKKITEL----G-YCCYYIHARMAQAHRNRVFHDFRSGL--CRNLVCSG  134 (140)
Q Consensus        66 ~l~~ll~~~--~--~~~~lIF~~t~~~~~~~~~~L~~~----~-~~v~~~h~~~~~~~R~~~~~~f~~g~--~~vlv~T~  134 (140)
                      .+.+++...  .  .++|||||.+...|+.+.+.|++.    + --+..+.|+  .++-+..++.|...+  -+|.|+.|
T Consensus       412 ~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~a~~IT~d--~~~~q~~Id~f~~ke~~P~Iaitvd  489 (875)
T COG4096         412 ELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPEYNGRYAMKITGD--AEQAQALIDNFIDKEKYPRIAITVD  489 (875)
T ss_pred             HHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCccccCceEEEEecc--chhhHHHHHHHHhcCCCCceEEehh
Confidence            344455442  2  578999999999999999999875    2 236677777  444456778887633  35777777


Q ss_pred             ccCCCC
Q psy13287        135 DSSAMM  140 (140)
Q Consensus       135 ~~~rGl  140 (140)
                      ++.-|+
T Consensus       490 lL~TGi  495 (875)
T COG4096         490 LLTTGV  495 (875)
T ss_pred             hhhcCC
Confidence            777664

>cd01518 RHOD_YceA Member of the Rhodanese Homology Domain superfamily

Probab=94.01  E-value=0.16  Score=30.15  Aligned_cols=37  Identities=16%  Similarity=0.408  Sum_probs=30.8

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +..+++|||.+-..+...+..|...|+. +..+.|++.
T Consensus        60 ~~~~ivvyC~~G~rs~~a~~~L~~~G~~~v~~l~GG~~   97 (101)
T cd01518          60 KGKKVLMYCTGGIRCEKASAYLKERGFKNVYQLKGGIL   97 (101)
T ss_pred             CCCEEEEECCCchhHHHHHHHHHHhCCcceeeechhHH
Confidence            4567899999887888888999999984 888999864

This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins.

>PRK13104 secA preprotein translocase subunit SecA; Reviewed

Probab=93.93  E-value=0.62  Score=38.58  Aligned_cols=57  Identities=9%  Similarity=0.050  Sum_probs=46.6

Q ss_pred             hhCCCCcEEEEeCchHHHHHHHHHHHh----cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         72 SKLQINQSIIFCNSTQRVELLAKKITE----LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        72 ~~~~~~~~lIF~~t~~~~~~~~~~L~~----~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .......+.|.++|+.-|...++++..    .|+.|.+++|+++..+|...+      +.+|+++|+
T Consensus       119 ~al~G~~V~VvTpn~yLA~qd~e~m~~l~~~lGLtv~~i~gg~~~~~r~~~y------~~dIvygT~  179 (896)
T PRK13104        119 NAISGRGVHIVTVNDYLAKRDSQWMKPIYEFLGLTVGVIYPDMSHKEKQEAY------KADIVYGTN  179 (896)
T ss_pred             HHhcCCCEEEEcCCHHHHHHHHHHHHHHhcccCceEEEEeCCCCHHHHHHHh------CCCEEEECC
Confidence            444556789999999888888887765    388999999999999886665      479999998

>cd01534 4RHOD_Repeat_3 Member of the Rhodanese Homology Domain superfamily, repeat 3

Probab=93.77  E-value=0.14  Score=30.08  Aligned_cols=36  Identities=14%  Similarity=0.313  Sum_probs=30.6

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      ..++++||.+-..+...+..|+..|+.+..+.|++.
T Consensus        56 ~~~iv~~c~~G~rs~~aa~~L~~~G~~v~~l~GG~~   91 (95)
T cd01534          56 GARIVLADDDGVRADMTASWLAQMGWEVYVLEGGLA   91 (95)
T ss_pred             CCeEEEECCCCChHHHHHHHHHHcCCEEEEecCcHH
Confidence            567999999877788889999999999888888864

This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative catalytic Cys residue.

>PTZ00110 helicase; Provisional

Probab=93.68  E-value=0.41  Score=37.57  Aligned_cols=54  Identities=6%  Similarity=0.039  Sum_probs=41.8

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..+||.++|++-|..+.+.+++.    ++++..++|+.+.......   ++. ..+|+|+|+
T Consensus       204 p~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~gg~~~~~q~~~---l~~-~~~IlVaTP  261 (545)
T PTZ00110        204 PIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYA---LRR-GVEILIACP  261 (545)
T ss_pred             cEEEEECChHHHHHHHHHHHHHHhcccCccEEEEeCCCCHHHHHHH---HHc-CCCEEEECH
Confidence            45899999999999998888775    5678889999876654333   333 479999997

>PRK09751 putative ATP-dependent helicase Lhr; Provisional

Probab=93.56  E-value=0.71  Score=40.43  Aligned_cols=54  Identities=4%  Similarity=-0.022  Sum_probs=44.0

Q ss_pred             CcEEEEeCchHHHHHHHHHHHh----------------cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITE----------------LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~----------------~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++|+.++++.-+.++.+.|+.                .++++...||+.+.++|...++    +..+|||+|+
T Consensus        38 ~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V~vrtGDt~~~eR~rll~----~ppdILVTTP  107 (1490)
T PRK09751         38 SRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRVGIRTGDTPAQERSKLTR----NPPDILITTP  107 (1490)
T ss_pred             CEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEEEEEECCCCHHHHHHHhc----CCCCEEEecH
Confidence            5689999999999888887753                2678999999999998876544    4678999997

>cd01526 RHOD_ThiF Member of the Rhodanese Homology Domain superfamily

Probab=93.52  E-value=0.1  Score=32.31  Aligned_cols=37  Identities=16%  Similarity=0.268  Sum_probs=32.2

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc--eEEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY--CCYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~--~v~~~h~~~~  111 (140)
                      +..++++||++-..+...+..|+..|+  ++..+.|++.
T Consensus        71 ~~~~ivv~C~~G~rs~~aa~~L~~~G~~~~v~~l~GG~~  109 (122)
T cd01526          71 KDSPIYVVCRRGNDSQTAVRKLKELGLERFVRDIIGGLK  109 (122)
T ss_pred             CCCcEEEECCCCCcHHHHHHHHHHcCCccceeeecchHH
Confidence            456789999998889999999999999  6999999964

This CD includes several putative molybdopterin synthase sulfurylases including the molybdenum cofactor biosynthetic protein (CnxF) of Aspergillus nidulans and the molybdenum cofactor synthesis protein 3 (MOCS3) of Homo sapiens. These rhodanese-like domains are found C-terminal of the ThiF and MoeZ_MoeB domains.

>cd01527 RHOD_YgaP Member of the Rhodanese Homology Domain superfamily

Probab=93.22  E-value=0.22  Score=29.42  Aligned_cols=36  Identities=19%  Similarity=0.369  Sum_probs=30.4

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      ..++++||++-..+...+..|.+.|+ ++..+.|++.
T Consensus        54 ~~~iv~~c~~g~~s~~~~~~L~~~g~~~v~~l~gG~~   90 (99)
T cd01527          54 ANAIIFHCRSGMRTQQNAERLAAISAGEAYVLEGGLD   90 (99)
T ss_pred             CCcEEEEeCCCchHHHHHHHHHHcCCccEEEeeCCHH
Confidence            56789999998888899999998887 6888999853

This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases.

>PRK09200 preprotein translocase subunit SecA; Reviewed

Probab=93.19  E-value=0.7  Score=37.89  Aligned_cols=62  Identities=6%  Similarity=0.101  Sum_probs=47.4

Q ss_pred             HHHHHhhCCCCcEEEEeCchHHHHHHHHHHHh----cCceEEEEecCCC-HHHHHHHHHHhhcCCccEEEEec
Q psy13287         67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITE----LGYCCYYIHARMA-QAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        67 l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~----~~~~v~~~h~~~~-~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +.-++......++.|.++|..-|..-++.+..    .|++|+.+.|+++ .++|....      ..+|+++|+
T Consensus       110 lp~~l~al~G~~v~VvTpt~~LA~qd~e~~~~l~~~lGl~v~~i~g~~~~~~~r~~~y------~~dIvygT~  176 (790)
T PRK09200        110 MPLYLNALEGKGVHLITVNDYLAKRDAEEMGQVYEFLGLTVGLNFSDIDDASEKKAIY------EADIIYTTN  176 (790)
T ss_pred             HHHHHHHHcCCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCcHHHHHHhc------CCCEEEECC
Confidence            33344556678899999998887777666654    5999999999999 88877543      379999996

>cd01521 RHOD_PspE2 Member of the Rhodanese Homology Domain superfamily

Probab=93.14  E-value=0.22  Score=30.20  Aligned_cols=37  Identities=16%  Similarity=0.341  Sum_probs=30.5

Q ss_pred             CCCcEEEEeCch--HHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         75 QINQSIIFCNST--QRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~--~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      +..++++||++.  ..+..++..|+..|+++..+.|++.
T Consensus        63 ~~~~vvvyc~~g~~~~s~~~a~~l~~~G~~v~~l~GG~~  101 (110)
T cd01521          63 KEKLFVVYCDGPGCNGATKAALKLAELGFPVKEMIGGLD  101 (110)
T ss_pred             CCCeEEEEECCCCCchHHHHHHHHHHcCCeEEEecCCHH
Confidence            356789999875  4788899999999999999999853

This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins.

>cd01444 GlpE_ST GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily

Probab=93.07  E-value=0.44  Score=27.76  Aligned_cols=45  Identities=16%  Similarity=0.354  Sum_probs=34.8

Q ss_pred             HHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         67 LNTLFSKL-QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        67 l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      +.+.+... +..+++++|++-..+...+..|+..|+ ++..+.|++.
T Consensus        46 ~~~~~~~~~~~~~ivv~c~~g~~s~~a~~~l~~~G~~~v~~l~gG~~   92 (96)
T cd01444          46 LDDWLGDLDRDRPVVVYCYHGNSSAQLAQALREAGFTDVRSLAGGFE   92 (96)
T ss_pred             HHHHHhhcCCCCCEEEEeCCCChHHHHHHHHHHcCCceEEEcCCCHH
Confidence            33444444 356789999999999999999999998 5888888853

Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a catalytically active cysteine.

>cd00158 RHOD Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein

Probab=93.05  E-value=0.28  Score=27.92  Aligned_cols=37  Identities=22%  Similarity=0.369  Sum_probs=31.2

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      +..++++||++...+..++..|+..|+ ++..+-|++.
T Consensus        49 ~~~~vv~~c~~~~~a~~~~~~l~~~G~~~v~~l~gG~~   86 (89)
T cd00158          49 KDKPIVVYCRSGNRSARAAKLLRKAGGTNVYNLEGGML   86 (89)
T ss_pred             CCCeEEEEeCCCchHHHHHHHHHHhCcccEEEecCChh
Confidence            456789999998899999999999975 5888888864

The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.

>PRK05320 rhodanese superfamily protein; Provisional

Probab=92.95  E-value=0.31  Score=34.52  Aligned_cols=39  Identities=23%  Similarity=0.385  Sum_probs=34.2

Q ss_pred             CCCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCCH
Q psy13287         74 LQINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMAQ  112 (140)
Q Consensus        74 ~~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~~  112 (140)
                      .+..++++||.+-..++..+..|++.|+. |..+.|++..
T Consensus       173 ~kdk~IvvyC~~G~Rs~~Aa~~L~~~Gf~~V~~L~GGi~~  212 (257)
T PRK05320        173 LAGKTVVSFCTGGIRCEKAAIHMQEVGIDNVYQLEGGILK  212 (257)
T ss_pred             cCCCeEEEECCCCHHHHHHHHHHHHcCCcceEEeccCHHH
Confidence            35678999999999999999999999995 8999999854

>cd01449 TST_Repeat_2 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain

Probab=92.91  E-value=0.38  Score=29.30  Aligned_cols=46  Identities=24%  Similarity=0.364  Sum_probs=35.3

Q ss_pred             HHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         65 HCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        65 ~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      +.+...+...   +..++++||++-..+...+..|+..|+ ++..+-|++
T Consensus        64 ~~~~~~~~~~~~~~~~~iv~yc~~g~~s~~~~~~l~~~G~~~v~~l~GG~  113 (118)
T cd01449          64 EELRALFAALGITPDKPVIVYCGSGVTACVLLLALELLGYKNVRLYDGSW  113 (118)
T ss_pred             HHHHHHHHHcCCCCCCCEEEECCcHHHHHHHHHHHHHcCCCCeeeeCChH
Confidence            4455555543   356789999998888899999999998 488888875

TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue.

>cd01520 RHOD_YbbB Member of the Rhodanese Homology Domain superfamily

Probab=92.85  E-value=0.18  Score=31.51  Aligned_cols=38  Identities=18%  Similarity=0.266  Sum_probs=30.6

Q ss_pred             CCCcEEEEeC-chHHHHHHHHHHHhcCceEEEEecCCCH
Q psy13287         75 QINQSIIFCN-STQRVELLAKKITELGYCCYYIHARMAQ  112 (140)
Q Consensus        75 ~~~~~lIF~~-t~~~~~~~~~~L~~~~~~v~~~h~~~~~  112 (140)
                      +..+++|||+ +-..+...+..|+..|+++..+.|+++.
T Consensus        85 ~~~~vvvyC~~~G~rs~~a~~~L~~~G~~v~~L~GG~~a  123 (128)
T cd01520          85 RDPKLLIYCARGGMRSQSLAWLLESLGIDVPLLEGGYKA  123 (128)
T ss_pred             CCCeEEEEeCCCCccHHHHHHHHHHcCCceeEeCCcHHH
Confidence            3567899997 4566778888888889999999999653

This CD includes several putative ATP /GTP binding proteins including E. coli YbbB.

>KOG0343|consensus

Probab=92.83  E-value=0.28  Score=38.44  Aligned_cols=51  Identities=14%  Similarity=0.152  Sum_probs=41.6

Q ss_pred             EEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         79 SIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +||..+|++-|....+-|++-    +++++.+-|+.+..     .+.-|-.+++|||||+
T Consensus       144 alIISPTRELA~QtFevL~kvgk~h~fSaGLiiGG~~~k-----~E~eRi~~mNILVCTP  198 (758)
T KOG0343|consen  144 ALIISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDVK-----FELERISQMNILVCTP  198 (758)
T ss_pred             eEEecchHHHHHHHHHHHHHHhhccccccceeecCchhH-----HHHHhhhcCCeEEech
Confidence            799999999999999999875    55788888886643     4445557789999998

>cd01528 RHOD_2 Member of the Rhodanese Homology Domain superfamily, subgroup 2

Probab=92.82  E-value=0.21  Score=29.68  Aligned_cols=37  Identities=14%  Similarity=0.354  Sum_probs=31.5

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCCH
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMAQ  112 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~~  112 (140)
                      ..++++||++-..+...+..|.+.|+ ++..+.|++..
T Consensus        58 ~~~vv~~c~~g~rs~~~~~~l~~~G~~~v~~l~GG~~~   95 (101)
T cd01528          58 DKDIVVLCHHGGRSMQVAQWLLRQGFENVYNLQGGIDA   95 (101)
T ss_pred             CCeEEEEeCCCchHHHHHHHHHHcCCccEEEecCCHHH
Confidence            56789999998888999999999998 58899998543

Subgroup 2 includes uncharacterized putative rhodanese-related domains.

>PRK13103 secA preprotein translocase subunit SecA; Reviewed

Probab=92.80  E-value=0.97  Score=37.53  Aligned_cols=66  Identities=8%  Similarity=0.057  Sum_probs=51.9

Q ss_pred             HHHHHHHHhhCCCCcEEEEeCc----hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecc
Q psy13287         64 VHCLNTLFSKLQINQSIIFCNS----TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus        64 ~~~l~~ll~~~~~~~~lIF~~t----~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                      ...+..++......++-|.+.+    +++++++...+...|+.|.++.+++++++|...++      ++|+.+|+.
T Consensus       111 vA~l~a~l~al~G~~VhvvT~ndyLA~RD~e~m~~l~~~lGl~v~~i~~~~~~~err~~Y~------~dI~YGT~~  180 (913)
T PRK13103        111 VGTLAVYLNALSGKGVHVVTVNDYLARRDANWMRPLYEFLGLSVGIVTPFQPPEEKRAAYA------ADITYGTNN  180 (913)
T ss_pred             HHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHHHhcccCCEEEEECCCCCHHHHHHHhc------CCEEEEccc
Confidence            4556666677777777777776    55566666666677999999999999999998887      799999984

>cd01532 4RHOD_Repeat_1 Member of the Rhodanese Homology Domain superfamily, repeat 1

Probab=92.77  E-value=0.27  Score=28.78  Aligned_cols=36  Identities=14%  Similarity=0.317  Sum_probs=29.1

Q ss_pred             CCcEEEEeCc--hHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         76 INQSIIFCNS--TQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        76 ~~~~lIF~~t--~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      ..++++||.+  +..+...++.|+..|+ ++..+.|++.
T Consensus        50 ~~~ivl~c~~G~~~~s~~aa~~L~~~G~~~v~~l~GG~~   88 (92)
T cd01532          50 DTPIVVYGEGGGEDLAPRAARRLSELGYTDVALLEGGLQ   88 (92)
T ss_pred             CCeEEEEeCCCCchHHHHHHHHHHHcCccCEEEccCCHH
Confidence            5678999998  4557888899999987 5888988864

This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative catalytic Cys residue.

>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis)

Probab=92.71  E-value=1.5  Score=30.70  Aligned_cols=49  Identities=20%  Similarity=0.285  Sum_probs=39.8

Q ss_pred             CCCcEEEEeCc------------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         75 QINQSIIFCNS------------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        75 ~~~~~lIF~~t------------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      +.+.+||+.|.            .++++.+++.|++.|+.| ..+.+++.++=.+.+++|.+
T Consensus         8 ~~g~aLII~n~~f~~~~~~r~g~~~D~~~l~~~f~~lgF~V-~~~~nlt~~~~~~~l~~f~~   68 (243)
T cd00032           8 RRGLALIINNENFDKGLKDRDGTDVDAENLTKLFESLGYEV-EVKNNLTAEEILEELKEFAS   68 (243)
T ss_pred             CCCEEEEEechhcCCCCCCCCChHHHHHHHHHHHHHCCCEE-EEeCCCCHHHHHHHHHHHHh
Confidence            44567777763            577999999999999998 56888899888888888974

Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.

>cd01533 4RHOD_Repeat_2 Member of the Rhodanese Homology Domain superfamily, repeat 2

Probab=92.59  E-value=0.22  Score=30.04  Aligned_cols=37  Identities=11%  Similarity=0.140  Sum_probs=30.7

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCce--EEEEecCCCH
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYC--CYYIHARMAQ  112 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~--v~~~h~~~~~  112 (140)
                      ..++++||.+-..+...+..|+..|+.  +..+.|+++.
T Consensus        66 ~~~ivv~C~~G~rs~~a~~~L~~~G~~~~v~~l~gG~~~  104 (109)
T cd01533          66 RTPIVVNCAGRTRSIIGAQSLINAGLPNPVAALRNGTQG  104 (109)
T ss_pred             CCeEEEECCCCchHHHHHHHHHHCCCCcceeEecCCHHH
Confidence            457899999887778889999999984  8899999743

This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic Cys residue.

>cd01525 RHOD_Kc Member of the Rhodanese Homology Domain superfamily

Probab=92.44  E-value=0.39  Score=28.57  Aligned_cols=36  Identities=14%  Similarity=0.173  Sum_probs=30.5

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      ..++++||.+-..+...+..|+..|+. +..+.|+++
T Consensus        65 ~~~vv~~c~~g~~s~~~a~~L~~~G~~~v~~l~GG~~  101 (105)
T cd01525          65 GKIIVIVSHSHKHAALFAAFLVKCGVPRVCILDGGIN  101 (105)
T ss_pred             CCeEEEEeCCCccHHHHHHHHHHcCCCCEEEEeCcHH
Confidence            567899998888888899999999985 888999864

Included in this CD are the rhodanese-like domains found C-terminal of the serine/threonine protein kinases catalytic (S_TKc) domain and the Tre-2, BUB2p, Cdc16p (TBC) domain. The putative active site Cys residue is not present in this CD.

>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]

Probab=92.29  E-value=0.95  Score=35.06  Aligned_cols=59  Identities=8%  Similarity=0.091  Sum_probs=46.4

Q ss_pred             HHhhCCCCcEEEEeCchHHHHHHHHHHHhc-Cc---eEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         70 LFSKLQINQSIIFCNSTQRVELLAKKITEL-GY---CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        70 ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~-~~---~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+...+ +++|+-.+|+--+..-++.+++. |+   .+..+.|..++++|...+.     +.+|.|+|+
T Consensus        53 ~l~~~~-~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~ltGev~p~~R~~~w~-----~~kVfvaTP  115 (542)
T COG1111          53 RLRWFG-GKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELWA-----KKKVFVATP  115 (542)
T ss_pred             HHHhcC-CeEEEecCCchHHHHHHHHHHHHhCCChhheeeecCCCChHHHHHHHh-----hCCEEEecc
Confidence            444433 36788889999999999988775 55   5889999999999987765     348889887

>cd01519 RHOD_HSP67B2 Member of the Rhodanese Homology Domain superfamily

Probab=92.08  E-value=0.24  Score=29.55  Aligned_cols=36  Identities=19%  Similarity=0.252  Sum_probs=30.4

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      ..++++||.+-..+...+..|...|++ +..+.|++.
T Consensus        66 ~~~ivv~c~~g~~s~~~~~~l~~~G~~~v~~~~Gg~~  102 (106)
T cd01519          66 DKELIFYCKAGVRSKAAAELARSLGYENVGNYPGSWL  102 (106)
T ss_pred             CCeEEEECCCcHHHHHHHHHHHHcCCccceecCCcHH
Confidence            567899999988888999999999984 888888863

This CD includes the heat shock protein 67B2 of Drosophila melanogaster and other similar proteins, many of which are uncharacterized.

>cd01447 Polysulfide_ST Polysulfide-sulfurtransferase - Rhodanese Homology Domain

Probab=91.90  E-value=0.18  Score=29.86  Aligned_cols=37  Identities=22%  Similarity=0.437  Sum_probs=30.4

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +..+++|||.+-..+...+..|+..|+. +..+-|++.
T Consensus        60 ~~~~ivv~c~~g~~s~~~~~~l~~~G~~~v~~l~Gg~~   97 (103)
T cd01447          60 EDKPFVFYCASGWRSALAGKTLQDMGLKPVYNIEGGFK   97 (103)
T ss_pred             CCCeEEEEcCCCCcHHHHHHHHHHcChHHhEeecCcHH
Confidence            3567899998877788889999999986 888888854

This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a terminal electron acceptor. The active site contains the same conserved cysteine that is the catalytic residue in other Rhodanese Homology Domain proteins.

>KOG0329|consensus

Probab=91.75  E-value=0.53  Score=33.48  Aligned_cols=53  Identities=6%  Similarity=0.123  Sum_probs=40.6

Q ss_pred             cEEEEeCchHHHHHHHHHHHh---c--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         78 QSIIFCNSTQRVELLAKKITE---L--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~---~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++|.|+|++-|-.+.++...   +  +.+++.+.|+++-..-.+++..    .-.|+|+|+
T Consensus       112 svlvmchtrelafqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~----~PhivVgTP  169 (387)
T KOG0329|consen  112 SVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKN----CPHIVVGTP  169 (387)
T ss_pred             EEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEEcceeccccHHHHhC----CCeEEEcCc
Confidence            479999999999988776543   3  6789999999986654555443    567899987

>PRK12899 secA preprotein translocase subunit SecA; Reviewed

Probab=91.50  E-value=1.6  Score=36.45  Aligned_cols=53  Identities=6%  Similarity=0.062  Sum_probs=43.4

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..+++|-++|+.-|...++++...    |+++.++.|+++.+++...+      ..+|+++|+
T Consensus       135 g~~v~IVTpTrELA~Qdae~m~~L~k~lGLsV~~i~GG~~~~eq~~~y------~~DIVygTP  191 (970)
T PRK12899        135 GKPVHLVTVNDYLAQRDCEWVGSVLRWLGLTTGVLVSGSPLEKRKEIY------QCDVVYGTA  191 (970)
T ss_pred             cCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHHc------CCCEEEECC
Confidence            345788899999999888888654    78999999999998876443      379999998

>PRK12904 preprotein translocase subunit SecA; Reviewed

Probab=91.41  E-value=1.7  Score=35.95  Aligned_cols=64  Identities=13%  Similarity=0.051  Sum_probs=47.8

Q ss_pred             HHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHH----hcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         65 HCLNTLFSKLQINQSIIFCNSTQRVELLAKKIT----ELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        65 ~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~----~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..+.-++..+...++-|.++|.--|..-++.+.    ..|++|+.+.|+++.++|...++      .+|+++|+
T Consensus       111 a~lpa~l~aL~G~~V~IvTpn~yLA~rd~e~~~~l~~~LGlsv~~i~~~~~~~er~~~y~------~dI~ygT~  178 (830)
T PRK12904        111 ATLPAYLNALTGKGVHVVTVNDYLAKRDAEWMGPLYEFLGLSVGVILSGMSPEERREAYA------ADITYGTN  178 (830)
T ss_pred             HHHHHHHHHHcCCCEEEEecCHHHHHHHHHHHHHHHhhcCCeEEEEcCCCCHHHHHHhcC------CCeEEECC
Confidence            334444556566667788988766666655554    45999999999999999888864      78999998

>cd01448 TST_Repeat_1 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain

Probab=91.33  E-value=0.5  Score=29.02  Aligned_cols=37  Identities=3%  Similarity=-0.022  Sum_probs=30.6

Q ss_pred             CCCcEEEEeCc-hHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         75 QINQSIIFCNS-TQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t-~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +..++++||++ -..+...+..|+..|++ +..+-|++.
T Consensus        78 ~~~~vv~~c~~g~~~a~~~~~~l~~~G~~~v~~l~GG~~  116 (122)
T cd01448          78 NDDTVVVYDDGGGFFAARAWWTLRYFGHENVRVLDGGLQ  116 (122)
T ss_pred             CCCEEEEECCCCCccHHHHHHHHHHcCCCCEEEecCCHH
Confidence            45678999988 58888889999999975 888989864

TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it is believed to be involved in protein interaction.

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=91.07  E-value=0.74  Score=29.94  Aligned_cols=43  Identities=37%  Similarity=0.604  Sum_probs=33.4

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCC
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME   44 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~   44 (140)
                      +..++..+++..+++++|||+++........++.+...+....
T Consensus       150 ~~~~~~~~~~~~~~v~~saT~~~~~~~~~~~~~~~~~~~~~~~  192 (201)
T smart00487      150 LEKLLKLLPKNVQLLLLSATPPEEIENLLELFLNDPVFIDVGP  192 (201)
T ss_pred             HHHHHHhCCccceEEEEecCCchhHHHHHHHhcCCCEEEeCCc
Confidence            3456666667899999999999999998888888666665543

>KOG0342|consensus

Probab=91.06  E-value=1  Score=34.70  Aligned_cols=53  Identities=11%  Similarity=0.140  Sum_probs=39.4

Q ss_pred             cEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         78 QSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++|.|+|++-|...+..+++.     ++.|..+-|+.+...-   .+++.. .+.+||||+
T Consensus       156 ~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~~~~~e---~~kl~k-~~niliATP  213 (543)
T KOG0342|consen  156 GVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNFSVE---ADKLVK-GCNILIATP  213 (543)
T ss_pred             eEEEecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCccchHH---HHHhhc-cccEEEeCC
Confidence            4789999999988776666543     6788888898765433   344444 689999998

>PRK02362 ski2-like helicase; Provisional

Probab=90.73  E-value=0.64  Score=37.82  Aligned_cols=53  Identities=6%  Similarity=-0.048  Sum_probs=42.4

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc---CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL---GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~---~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +.+++++.+++++-|.+.++.++..   |+++..++|+.+...+     .  .++.+|+|||+
T Consensus        66 ~~~kal~i~P~raLa~q~~~~~~~~~~~g~~v~~~tGd~~~~~~-----~--l~~~~IiV~Tp  121 (737)
T PRK02362         66 RGGKALYIVPLRALASEKFEEFERFEELGVRVGISTGDYDSRDE-----W--LGDNDIIVATS  121 (737)
T ss_pred             cCCcEEEEeChHHHHHHHHHHHHHhhcCCCEEEEEeCCcCcccc-----c--cCCCCEEEECH
Confidence            4678999999999999999988765   7899999999765431     1  24578999996

>KOG0350|consensus

Probab=90.66  E-value=0.7  Score=35.84  Aligned_cols=68  Identities=10%  Similarity=0.097  Sum_probs=48.4

Q ss_pred             HHHHHhhCC--CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHH-HHHHHHHhhcCCccEEEEec
Q psy13287         67 LNTLFSKLQ--INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAH-RNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        67 l~~ll~~~~--~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~-R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +.++|...+  --+++|.++++.-+-.++..|..+    |..|....|.-+.+. -......-....++|||+|+
T Consensus       204 IVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTP  278 (620)
T KOG0350|consen  204 IVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATP  278 (620)
T ss_pred             HHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHhccCCceEEEecccccchHHHHHHHhcCCCccccceEEcCc
Confidence            444444432  347899999999999999999876    677888888766543 33333444456789999998

>cd01535 4RHOD_Repeat_4 Member of the Rhodanese Homology Domain superfamily, repeat 4

Probab=90.64  E-value=1.2  Score=28.61  Aligned_cols=46  Identities=17%  Similarity=0.283  Sum_probs=35.5

Q ss_pred             HHHHHHhhCC-CCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         66 CLNTLFSKLQ-INQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        66 ~l~~ll~~~~-~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      .+.+.+...+ ..+++|+|.+-..+..++..|+..|+ ++..+.|++.
T Consensus        38 ~l~~~l~~l~~~~~vVv~c~~g~~a~~aa~~L~~~G~~~v~~L~GG~~   85 (145)
T cd01535          38 QLAQALEKLPAAERYVLTCGSSLLARFAAADLAALTVKPVFVLEGGTA   85 (145)
T ss_pred             HHHHHHHhcCCCCCEEEEeCCChHHHHHHHHHHHcCCcCeEEecCcHH
Confidence            3444454443 46799999998888888999998887 7999999943

This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative catalytic Cys residue.

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

Probab=90.58  E-value=1.6  Score=36.23  Aligned_cols=56  Identities=7%  Similarity=0.038  Sum_probs=42.8

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHH----hcC--ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKIT----ELG--YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~----~~~--~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..++|++.+++.-+.+-.+.|+    +.+  +.+..|+|+.++++|.    .+..+.-+||++++
T Consensus       114 ~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~----~~~~~pp~IllTNp  175 (851)
T COG1205         114 PSARALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEERR----AIIRNPPDILLTNP  175 (851)
T ss_pred             cCccEEEEechhhhHhhHHHHHHHHHHhCCCcceeeeecCCCChHHHH----HHHhCCCCEEEeCH
Confidence            44578999999766665555554    445  7899999999999987    44558899999886

>TIGR00631 uvrb excinuclease ABC, B subunit

Probab=90.35  E-value=3.3  Score=33.48  Aligned_cols=79  Identities=10%  Similarity=0.064  Sum_probs=56.9

Q ss_pred             EEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhc-Cce-EEEE-------------------------e
Q psy13287         55 YAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITEL-GYC-CYYI-------------------------H  107 (140)
Q Consensus        55 ~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~-~~~-v~~~-------------------------h  107 (140)
                      +.-+.++.|.-.++.++.+. +.++||.+++...|..+++.|+.. +-+ |.++                         .
T Consensus        34 l~Gvtgs~kt~~~a~~~~~~-~~p~Lvi~~n~~~A~ql~~el~~f~p~~~V~~f~sy~d~y~pe~y~P~~d~~~~k~~~~  112 (655)
T TIGR00631        34 LLGVTGSGKTFTMANVIAQV-NRPTLVIAHNKTLAAQLYNEFKEFFPENAVEYFVSYYDYYQPEAYVPSKDTYIEKDASI  112 (655)
T ss_pred             EECCCCcHHHHHHHHHHHHh-CCCEEEEECCHHHHHHHHHHHHHhCCCCeEEEEeeecccCCccccCCCccccccccCCC
Confidence            33456777888888887764 568999999999999999999876 223 6555                         1


Q ss_pred             cCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287        108 ARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus       108 ~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +.--...|..++.++..++-.|+|+|-
T Consensus       113 ~~~i~~~R~~al~~L~~~~~~ivVasv  139 (655)
T TIGR00631       113 NDEIERLRHSATRSLLERRDVIVVASV  139 (655)
T ss_pred             ChHHHHHHHHHHHHHHhCCCeEEEEcH
Confidence            111234688999999887666666664

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

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=90.31  E-value=3.5  Score=26.69  Aligned_cols=55  Identities=15%  Similarity=0.186  Sum_probs=39.0

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcC-----ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELG-----YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~-----~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++++.+++...+..+++.+.+..     .....+++...    ...++.+.++..+++++|.
T Consensus        54 ~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~v~~~t~  113 (201)
T smart00487       54 GKRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSK----REQLRKLESGKTDILVTTP  113 (201)
T ss_pred             CCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCCcch----HHHHHHHhcCCCCEEEeCh
Confidence            4789999999999999988887664     34555555433    3445566666668888883

>PRK01415 hypothetical protein; Validated

Probab=90.10  E-value=0.78  Score=32.32  Aligned_cols=39  Identities=18%  Similarity=0.333  Sum_probs=34.0

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCCHH
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMAQA  113 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~~~  113 (140)
                      +++++++||.+-..++..+..|++.|+. |..+.|++..-
T Consensus       170 k~k~Iv~yCtgGiRs~kAa~~L~~~Gf~~Vy~L~GGi~~w  209 (247)
T PRK01415        170 KGKKIAMVCTGGIRCEKSTSLLKSIGYDEVYHLKGGILQY  209 (247)
T ss_pred             CCCeEEEECCCChHHHHHHHHHHHcCCCcEEEechHHHHH
Confidence            4678999999999999999999999995 99999997543

>PRK13767 ATP-dependent helicase; Provisional

Probab=90.03  E-value=1.6  Score=36.44  Aligned_cols=54  Identities=6%  Similarity=0.010  Sum_probs=41.4

Q ss_pred             CcEEEEeCchHHHHHHHHHHHh---------------c-CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITE---------------L-GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~---------------~-~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++|+.+++++-+.++++.|..               . ++++...||+.+..+|...+.    ...+|+|||+
T Consensus        85 ~~~LyIsPtraLa~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~l~----~~p~IlVtTP  154 (876)
T PRK13767         85 VYCLYVSPLRALNNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQKMLK----KPPHILITTP  154 (876)
T ss_pred             eEEEEEcCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHHHHHh----CCCCEEEecH
Confidence            3589999999998887764431               1 567899999999988766554    3568999997

>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]

Probab=89.91  E-value=3.7  Score=29.05  Aligned_cols=67  Identities=12%  Similarity=0.236  Sum_probs=45.5

Q ss_pred             hccCCcEEEcCC---cccCCCeEEEEEEcCccch-HHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCc
Q psy13287         33 HLKDPYEINLME---ELTLKGVTQYYAFVQERQK-VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGY  101 (140)
Q Consensus        33 ~~~~~~~i~~~~---~~~~~~i~~~~~~~~~~~k-~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~  101 (140)
                      .+.+...+..++   ......+...+.-.++++. ++.+.++|+.  .+...+|+++.+++++..+.|++.|+
T Consensus       143 ~l~d~v~~~~~Dv~~~~~~~~vDav~LDmp~PW~~le~~~~~Lkp--gg~~~~y~P~veQv~kt~~~l~~~g~  213 (256)
T COG2519         143 GLGDRVTLKLGDVREGIDEEDVDAVFLDLPDPWNVLEHVSDALKP--GGVVVVYSPTVEQVEKTVEALRERGF  213 (256)
T ss_pred             ccccceEEEeccccccccccccCEEEEcCCChHHHHHHHHHHhCC--CcEEEEEcCCHHHHHHHHHHHHhcCc
Confidence            344544444432   2334477777777777765 4555555543  47889999999999999999999854

>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []

Probab=89.91  E-value=0.59  Score=32.00  Aligned_cols=73  Identities=14%  Similarity=0.133  Sum_probs=52.3

Q ss_pred             cchHHHHHHHHhh-CCCCcEEEEeCchHHHHHHHHHHHhcCce---EEEEecCCCHHHHHHHHHHhhcCCccEEEEecc
Q psy13287         61 RQKVHCLNTLFSK-LQINQSIIFCNSTQRVELLAKKITELGYC---CYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus        61 ~~k~~~l~~ll~~-~~~~~~lIF~~t~~~~~~~~~~L~~~~~~---v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                      ....+.|.+.+.. ..++++++++.. ..-..+.+.|++.|+.   +..|.. .+...+....+.|..+++++++-|+.
T Consensus       101 ~~~s~~L~~~l~~~~~~~~vl~~~g~-~~~~~l~~~L~~~g~~v~~~~vY~~-~~~~~~~~~~~~l~~~~~~~v~ftS~  177 (231)
T PF02602_consen  101 EGSSEGLAELLKEQLRGKRVLILRGE-GGRPDLPEKLREAGIEVTEVIVYET-PPEELSPELKEALDRGEIDAVVFTSP  177 (231)
T ss_dssp             SSSHHHHHGGHHHCCTTEEEEEEESS-SSCHHHHHHHHHTTEEEEEEECEEE-EEHHHHHHHHHHHHHTTTSEEEESSH
T ss_pred             CCCHHHHHHHHHhhCCCCeEEEEcCC-CccHHHHHHHHHCCCeEEEEEEeec-ccccchHHHHHHHHcCCCCEEEECCH
Confidence            3444556666664 445566666643 3356688999998865   455666 77788999999999999999988873

The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....

>KOG0340|consensus

Probab=89.89  E-value=1.5  Score=32.62  Aligned_cols=52  Identities=8%  Similarity=0.084  Sum_probs=41.5

Q ss_pred             EEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         79 SIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ++||++|++-+-.+++.|...    +.++..+.|+++.......+.    .+-+++|+|+
T Consensus        78 alvlTPTrELA~QiaEQF~alGk~l~lK~~vivGG~d~i~qa~~L~----~rPHvVvatP  133 (442)
T KOG0340|consen   78 ALVLTPTRELALQIAEQFIALGKLLNLKVSVIVGGTDMIMQAAILS----DRPHVVVATP  133 (442)
T ss_pred             EEEecchHHHHHHHHHHHHHhcccccceEEEEEccHHHhhhhhhcc----cCCCeEecCc
Confidence            799999999999999999866    568999999988654443332    4567888887

>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase

Probab=89.87  E-value=0.9  Score=27.04  Aligned_cols=57  Identities=7%  Similarity=0.135  Sum_probs=40.1

Q ss_pred             EEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHH------------HHHHHHHHhhcCCccEEEEecc
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQA------------HRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~------------~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                      .||.+...+.+..+++.|...++.+....|.+-..            .+...+.+...+--.|++|||.
T Consensus         1 ~liIvE~ps~a~~i~~~l~~~~~~v~~~~Ghl~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~iiiatD~   69 (100)
T PF01751_consen    1 ELIIVEKPSDAKAIAKALGGEEYIVIATSGHLLELAKPEDYDPKDKKKQIKNLKKLLKKADEIIIATDP   69 (100)
T ss_dssp             EEEEESSHHHHHHHHHHSSTTTEEEEEESSSSEESTTSSHHHCHTTHHHHHHHHHHHHSCSEEEEEC-S
T ss_pred             CEEEEeCHHHHHHHHHHcCCCCEEEEEeCCcccccccccccccccccccchhhHHHhhhccEeeecCCC
Confidence            47788889999999999976667888888865211            2244555554566789999994

This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....

>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3

Probab=89.71  E-value=1.6  Score=37.01  Aligned_cols=62  Identities=11%  Similarity=0.012  Sum_probs=48.8

Q ss_pred             EEEEeCchHHHHHHHHHHHhc----C--ceEEEEecCCCHHHHHHHHHHh----------------------hc----CC
Q psy13287         79 SIIFCNSTQRVELLAKKITEL----G--YCCYYIHARMAQAHRNRVFHDF----------------------RS----GL  126 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~----~--~~v~~~h~~~~~~~R~~~~~~f----------------------~~----g~  126 (140)
                      ++|=.++.+.+-.+|+.|-..    +  +.+.+||+..+...|..+++.+                      ++    +.
T Consensus       759 GliR~anI~p~V~~A~~L~~~~~~~~~~i~~~~yHSr~~l~~Rs~~E~~Ld~~L~R~~~~~~~~~~~i~~~l~~~~~~~~  838 (1110)
T TIGR02562       759 GLIRVANIDPLIRLAQFLYALLAEEKYQIHLCCYHAQDPLLLRSYIERRLDQLLTRHKPEQLFQDDEIIDLMQNSPALNH  838 (1110)
T ss_pred             EEEEEcCchHHHHHHHHHHhhccccCCceeEEEecccChHHHHHHHHHHHHHHhcccChhhhhchHHHHHHHhcccccCC
Confidence            578888899999999988654    3  3578899999888888877664                      12    46


Q ss_pred             ccEEEEecccCCCC
Q psy13287        127 CRNLVCSGDSSAMM  140 (140)
Q Consensus       127 ~~vlv~T~~~~rGl  140 (140)
                      ..++|+|.+.+.|+
T Consensus       839 ~~i~v~Tqv~E~g~  852 (1110)
T TIGR02562       839 LFIVLATPVEEVGR  852 (1110)
T ss_pred             CeEEEEeeeEEEEe
Confidence            78999999988774

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.

>KOG4439|consensus

Probab=89.63  E-value=2.8  Score=34.12  Aligned_cols=85  Identities=13%  Similarity=0.203  Sum_probs=55.5

Q ss_pred             EEEcCccchHHHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc--CCccE
Q psy13287         55 YAFVQERQKVHCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS--GLCRN  129 (140)
Q Consensus        55 ~~~~~~~~k~~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~--g~~~v  129 (140)
                      |-....+.|+..+.+.+...   ...+++|...=.+...-+...|.+.|.....+||.....+|+.++++|..  |..+|
T Consensus       722 Fe~~r~S~Ki~~~l~~le~i~~~skeK~viVSQwtsvLniv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rV  801 (901)
T KOG4439|consen  722 FEPDRPSCKIAMVLEILETILTSSKEKVVIVSQWTSVLNIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARV  801 (901)
T ss_pred             cccccchhHHHHHHHHHHHHhhcccceeeehhHHHHHHHHHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceE
Confidence            33334556776666666554   34455554443444455566777779999999999999999999999974  54666


Q ss_pred             EE-EecccCCC
Q psy13287        130 LV-CSGDSSAM  139 (140)
Q Consensus       130 lv-~T~~~~rG  139 (140)
                      ++ +=...+.|
T Consensus       802 mLlSLtAGGVG  812 (901)
T KOG4439|consen  802 MLLSLTAGGVG  812 (901)
T ss_pred             EEEEEccCcce
Confidence            44 33333333

>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine

Probab=89.29  E-value=0.31  Score=28.84  Aligned_cols=43  Identities=14%  Similarity=0.108  Sum_probs=27.1

Q ss_pred             HHHHHHhcCceEEEEec----CCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         92 LAKKITELGYCCYYIHA----RMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        92 ~~~~L~~~~~~v~~~h~----~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      -+++|++.|+.+..+..    +-.+.-+..+++.+++|+++.+|.|.
T Consensus        22 Ta~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~   68 (95)
T PF02142_consen   22 TAKFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTP   68 (95)
T ss_dssp             HHHHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE-
T ss_pred             HHHHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeC
Confidence            35667788888433322    21333455799999999999999986

The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....

>cd01445 TST_Repeats Thiosulfate sulfurtransferases (TST) contain 2 copies of the Rhodanese Homology Domain

Probab=89.27  E-value=1.7  Score=27.68  Aligned_cols=47  Identities=9%  Similarity=-0.080  Sum_probs=34.1

Q ss_pred             HHHHHHHhhC---CCCcEEEEeCc---hHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         65 HCLNTLFSKL---QINQSIIFCNS---TQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        65 ~~l~~ll~~~---~~~~~lIF~~t---~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +.+.+++...   +..++|+||.+   -..+-.++-.|+..|+. +..|.|+++
T Consensus        81 ~~~~~~~~~~GI~~~~~vVvY~~~~~~g~~A~r~~~~l~~~G~~~v~ildGG~~  134 (138)
T cd01445          81 AEFAAMFEAKGIDLDKHLIATDGDDLGGFTACHIALAARLCGHPDVAILDGGFF  134 (138)
T ss_pred             HHHHHHHHHcCCCCCCeEEEECCCCCcchHHHHHHHHHHHcCCCCeEEeCCCHH
Confidence            4566667665   35679999976   45566777788888874 889999854

Only the second repeat contains the catalytically active Cys residue. The role of the 1st repeat is uncertain, but believed to be involved in protein interaction. This CD aligns the 1st and 2nd repeats.

>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme

Probab=88.85  E-value=5.6  Score=27.02  Aligned_cols=75  Identities=13%  Similarity=0.082  Sum_probs=44.8

Q ss_pred             CccchHHHHHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcCceE---EEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         59 QERQKVHCLNTLFSKL-QINQSIIFCNSTQRVELLAKKITELGYCC---YYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        59 ~~~~k~~~l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~~~v---~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+....+.|.+++... ..+..+++.........+.+.|++.|..+   ..|.-.-.... ....+.|.++..++++-|+
T Consensus       103 ~~~~~~~~L~~~i~~~~~~~~~il~~~g~~~~~~l~~~L~~~g~~v~~~~~Y~~~~~~~~-~~~~~~l~~~~~~~iiftS  181 (239)
T cd06578         103 PEEGDSEGLLELLELQDGKGKRILRPRGGRAREDLAEALRERGAEVDEVEVYRTVPPDLD-AELLELLEEGAIDAVLFTS  181 (239)
T ss_pred             CCccCHHHHHHHHHhcCCCCCEEEEEcCcchhHHHHHHHHHCCCEEEEEEEEEEECCCCc-HHHHHHHHcCCCcEEEEeC
Confidence            3444456677767664 34445555555666678999999887654   33332211111 3455667777777888776

This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.

>PRK10287 thiosulfate:cyanide sulfurtransferase; Provisional

Probab=88.66  E-value=2  Score=25.95  Aligned_cols=36  Identities=14%  Similarity=0.310  Sum_probs=28.7

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      ..++++||.+-..+...+..|.+.|+......|++.
T Consensus        60 ~~~IVlyC~~G~rS~~aa~~L~~~G~~~v~~~GG~~   95 (104)
T PRK10287         60 NDTVKLYCNAGRQSGQAKEILSEMGYTHAENAGGLK   95 (104)
T ss_pred             CCeEEEEeCCChHHHHHHHHHHHcCCCeEEecCCHH
Confidence            456899999988888899999999987555567743

>PRK00254 ski2-like helicase; Provisional

Probab=88.58  E-value=1.7  Score=35.27  Aligned_cols=53  Identities=8%  Similarity=0.133  Sum_probs=41.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHh---cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITE---LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~---~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +.+++|+-++++.-+.+.++.++.   .|+++..++|+.+...+      + .++.+|+|+|+
T Consensus        67 ~~~~~l~l~P~~aLa~q~~~~~~~~~~~g~~v~~~~Gd~~~~~~------~-~~~~~IiV~Tp  122 (720)
T PRK00254         67 EGGKAVYLVPLKALAEEKYREFKDWEKLGLRVAMTTGDYDSTDE------W-LGKYDIIIATA  122 (720)
T ss_pred             cCCeEEEEeChHHHHHHHHHHHHHHhhcCCEEEEEeCCCCCchh------h-hccCCEEEEcH
Confidence            356899999999999999887764   47899999999876432      1 25678999995

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

Probab=88.43  E-value=2.9  Score=32.66  Aligned_cols=55  Identities=5%  Similarity=-0.005  Sum_probs=38.8

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.++|++-|..+.+.++..    ++++..+.|+.+...+.   .+++. ..+++|+|+
T Consensus       196 ~~~aLIL~PTreLa~Qi~~~~~~l~~~~~~~~~~~~gG~~~~~q~---~~l~~-~~~IiV~TP  254 (518)
T PLN00206        196 NPLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQL---YRIQQ-GVELIVGTP  254 (518)
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHHhCCCCceEEEEECCcchHHHH---HHhcC-CCCEEEECH
Confidence            356899999999998887776654    55677777776654432   23333 479999996

>smart00851 MGS MGS-like domain

Probab=88.26  E-value=0.83  Score=26.64  Aligned_cols=41  Identities=15%  Similarity=0.138  Sum_probs=29.8

Q ss_pred             HHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         93 AKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        93 ~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +++|++.|+.|...+..... .+..+.+.+++|+++.+|.|.
T Consensus        23 a~~L~~~Gi~~~~~~~ki~~-~~~~i~~~i~~g~id~VIn~~   63 (90)
T smart00851       23 AKFLREAGLPVKTLHPKVHG-GILAILDLIKNGEIDLVINTL   63 (90)
T ss_pred             HHHHHHCCCcceeccCCCCC-CCHHHHHHhcCCCeEEEEECC
Confidence            56677788887545544432 234689999999999999986

This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.

>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed

Probab=88.24  E-value=4.4  Score=27.86  Aligned_cols=76  Identities=12%  Similarity=0.146  Sum_probs=43.3

Q ss_pred             CccchHHHHHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcCceE---EEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         59 QERQKVHCLNTLFSKL-QINQSIIFCNSTQRVELLAKKITELGYCC---YYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        59 ~~~~k~~~l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~~~v---~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +.....+.+...+... ..++-++++-.....+.+.+.|++.|..+   ..|.-......-......+..+..++++-|+
T Consensus       106 ~~~~~~~~l~~~l~~~~~~~~~ili~~~~~~~~~l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~~~~~~d~ivftS  185 (249)
T PRK05928        106 PEDGESSELLLELPELLLKGKRVLYLRGNGGREVLGDTLEERGAEVDECEVYERVPPKLDGAELLARLQSGEVDAVIFTS  185 (249)
T ss_pred             CCCCcChHHHHhChhhhcCCCEEEEECCCCCHHHHHHHHHHCCCEEeEEEEEEeeCCCCChHHHHHHHHhCCCCEEEECC
Confidence            3333444444444433 23344555555667889999999988753   3333322222223445566678899988887

>cd01522 RHOD_1 Member of the Rhodanese Homology Domain superfamily, subgroup 1

Probab=88.15  E-value=0.93  Score=27.81  Aligned_cols=38  Identities=16%  Similarity=0.328  Sum_probs=31.5

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCCH
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMAQ  112 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~~  112 (140)
                      +..++++||++-..+...+..|+..|+ ++..+.|++..
T Consensus        63 ~~~~ivv~C~~G~rs~~aa~~L~~~G~~~v~~l~gG~~~  101 (117)
T cd01522          63 KDRPVLLLCRSGNRSIAAAEAAAQAGFTNVYNVLEGFEG  101 (117)
T ss_pred             CCCeEEEEcCCCccHHHHHHHHHHCCCCeEEECcCceec
Confidence            456789999998889999999999998 47778888653

This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins.

>PRK05298 excinuclease ABC subunit B; Provisional

Probab=88.13  E-value=5.9  Score=32.02  Aligned_cols=78  Identities=12%  Similarity=0.126  Sum_probs=54.5

Q ss_pred             EEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhc-Cc-eEEEE--------------------ecC--CC
Q psy13287         56 AFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITEL-GY-CCYYI--------------------HAR--MA  111 (140)
Q Consensus        56 ~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~-~~-~v~~~--------------------h~~--~~  111 (140)
                      .-+.+..|...+..+.+.. +.++||-+++...|+.+++.|+.. +- .|..+                    +..  .+
T Consensus        38 ~Gl~gs~ka~lia~l~~~~-~r~vLIVt~~~~~A~~l~~dL~~~~~~~~v~~f~s~~~~~~~~~~~P~~d~~~~~~~~~~  116 (652)
T PRK05298         38 LGVTGSGKTFTMANVIARL-QRPTLVLAHNKTLAAQLYSEFKEFFPENAVEYFVSYYDYYQPEAYVPSSDTYIEKDSSIN  116 (652)
T ss_pred             EcCCCcHHHHHHHHHHHHh-CCCEEEEECCHHHHHHHHHHHHHhcCCCeEEEeCChhhccCccccCCCCcccccccCCCC
Confidence            3345677887888777663 567999999999999999999776 32 35555                    111  11


Q ss_pred             ---HHHHHHHHHHhhcCCccEEEEec
Q psy13287        112 ---QAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus       112 ---~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                         ...|..++.++..++-.|+|+|-
T Consensus       117 ~~~~~~R~~~l~~L~~~~~~ivv~s~  142 (652)
T PRK05298        117 EEIERLRHSATKSLLERRDVIVVASV  142 (652)
T ss_pred             hHHHHHHHHHHHHHHhCCCEEEEEcH
Confidence               34689999999887655555554

>KOG0345|consensus

Probab=88.05  E-value=2.6  Score=32.61  Aligned_cols=53  Identities=11%  Similarity=0.117  Sum_probs=41.1

Q ss_pred             EEEEeCchHHHHHHHHHH---Hhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         79 SIIFCNSTQRVELLAKKI---TEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L---~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ++|..+|++-|..+.+-+   ...  ++.+..+-|+.+.+   +-+..|++...+|||+|+
T Consensus        82 alIIsPTRELa~QI~~V~~~F~~~l~~l~~~l~vGG~~v~---~Di~~fkee~~nIlVgTP  139 (567)
T KOG0345|consen   82 ALIISPTRELARQIREVAQPFLEHLPNLNCELLVGGRSVE---EDIKTFKEEGPNILVGTP  139 (567)
T ss_pred             EEEecCcHHHHHHHHHHHHHHHHhhhccceEEEecCccHH---HHHHHHHHhCCcEEEeCc
Confidence            689999998877654433   222  67899999996654   567789988899999998

>PTZ00424 helicase 45; Provisional

Probab=87.95  E-value=5.6  Score=29.63  Aligned_cols=56  Identities=13%  Similarity=0.207  Sum_probs=40.6

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++|+.+++++-+..+.+.++..    +..+....|+....+.   ++.+.++ .+++|+|.
T Consensus        95 ~~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~---~~~~~~~-~~Ivv~Tp  154 (401)
T PTZ00424         95 NACQALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDD---INKLKAG-VHMVVGTP  154 (401)
T ss_pred             CCceEEEECCCHHHHHHHHHHHHHHhhhcCceEEEEECCcCHHHH---HHHHcCC-CCEEEECc
Confidence            3457999999999999888877665    4567788888765432   3444443 68999997

>KOG0335|consensus

Probab=87.87  E-value=1.8  Score=33.43  Aligned_cols=54  Identities=13%  Similarity=0.183  Sum_probs=41.5

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +++||..+|++-+..+++.-++.    +.++...+|+.+.    ..-..+..+.++++|||+
T Consensus       153 P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~----~~q~~~~~~gcdIlvaTp  210 (482)
T KOG0335|consen  153 PRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDL----GAQLRFIKRGCDILVATP  210 (482)
T ss_pred             CceEEEeCcHHHhhHHHHHHHhhcccccceeeeeeCCcch----hhhhhhhccCccEEEecC
Confidence            56899999999999999988775    5567788888443    223345567899999997

>KOG0348|consensus

Probab=87.81  E-value=1.1  Score=35.18  Aligned_cols=51  Identities=8%  Similarity=0.098  Sum_probs=35.5

Q ss_pred             EEEEeCchHHHHHHHHHHHhcCce------EEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYC------CYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~------v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +||.++|++-|..+++.+.+.--+      +..+=|+-.+.|    -.++|.| ++|||+|+
T Consensus       214 ALVivPTREL~~Q~y~~~qKLl~~~hWIVPg~lmGGEkkKSE----KARLRKG-iNILIgTP  270 (708)
T KOG0348|consen  214 ALVIVPTRELALQIYETVQKLLKPFHWIVPGVLMGGEKKKSE----KARLRKG-INILIGTP  270 (708)
T ss_pred             EEEEechHHHHHHHHHHHHHHhcCceEEeeceeecccccccH----HHHHhcC-ceEEEcCc
Confidence            799999999999998888776323      333333333333    4456666 89999998

>PRK00162 glpE thiosulfate sulfurtransferase; Validated

Probab=87.77  E-value=2.1  Score=25.61  Aligned_cols=45  Identities=13%  Similarity=0.298  Sum_probs=33.6

Q ss_pred             HHHHHhhCC-CCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         67 LNTLFSKLQ-INQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        67 l~~ll~~~~-~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +.+.+...+ ..+.+++|.+-..+...+..|+..|+. +..+.|++.
T Consensus        48 l~~~~~~~~~~~~ivv~c~~g~~s~~a~~~L~~~G~~~v~~l~GG~~   94 (108)
T PRK00162         48 LGAFMRQADFDTPVMVMCYHGNSSQGAAQYLLQQGFDVVYSIDGGFE   94 (108)
T ss_pred             HHHHHHhcCCCCCEEEEeCCCCCHHHHHHHHHHCCchheEEecCCHH
Confidence            333444343 466889999888888889999999985 888999853

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

Probab=87.46  E-value=2  Score=35.57  Aligned_cols=55  Identities=7%  Similarity=0.073  Sum_probs=38.4

Q ss_pred             CCcEEEEe-CchHHHHHHHHHHHhc---------------------------CceEEEEecCCCHHHHHHHHHHhhcCCc
Q psy13287         76 INQSIIFC-NSTQRVELLAKKITEL---------------------------GYCCYYIHARMAQAHRNRVFHDFRSGLC  127 (140)
Q Consensus        76 ~~~~lIF~-~t~~~~~~~~~~L~~~---------------------------~~~v~~~h~~~~~~~R~~~~~~f~~g~~  127 (140)
                      ..+.|||+ ++++-++.+++.+++.                           ++++..++|+.+.+...   +... ...
T Consensus        61 ~~~rLv~~vPtReLa~Qi~~~~~~~~k~l~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~---~~l~-~~p  136 (844)
T TIGR02621        61 VPRRLVYVVNRRTVVDQVTEEAEKIGERLPDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEW---MLDP-HRP  136 (844)
T ss_pred             ccceEEEeCchHHHHHHHHHHHHHHHHHhcccchhhhhhhhhhccccccccCCeEEEEEECCCChHHHH---HhcC-CCC
Confidence            35678877 9998888777766543                           26789999998765332   3333 346


Q ss_pred             cEEEEec
Q psy13287        128 RNLVCSG  134 (140)
Q Consensus       128 ~vlv~T~  134 (140)
                      .|+|+|-
T Consensus       137 ~IIVgT~  143 (844)
T TIGR02621       137 AVIVGTV  143 (844)
T ss_pred             cEEEECH
Confidence            8999993

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.

>PLN02160 thiosulfate sulfurtransferase

Probab=87.45  E-value=1.1  Score=28.42  Aligned_cols=37  Identities=14%  Similarity=0.166  Sum_probs=31.4

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +..++++||.+-..+...+..|.+.|+. +..+.|++.
T Consensus        80 ~~~~IivyC~sG~RS~~Aa~~L~~~G~~~v~~l~GG~~  117 (136)
T PLN02160         80 PADDILVGCQSGARSLKATTELVAAGYKKVRNKGGGYL  117 (136)
T ss_pred             CCCcEEEECCCcHHHHHHHHHHHHcCCCCeeecCCcHH
Confidence            3567999999999999999999999984 888888853

>PRK05752 uroporphyrinogen-III synthase; Validated

Probab=87.40  E-value=6  Score=27.77  Aligned_cols=59  Identities=15%  Similarity=0.205  Sum_probs=41.3

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceE---EEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCC---YYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v---~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +++-++++-....-+.+.+.|++.|+.|   ..|.-...........+.+..|.+++++-|+
T Consensus       129 ~~~~vLi~rg~~~r~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~~~~~~~d~v~ftS  190 (255)
T PRK05752        129 PDPRVLIMRGEGGRELLAERLREQGASVDYLELYRRCLPDYPAGTLLQRVEAERLNGLVVSS  190 (255)
T ss_pred             CCCEEEEEccCccHHHHHHHHHHCCCEEeEEEEEeecCCCCCHHHHHHHHHhCCCCEEEECC
Confidence            4444555555667778999999998864   3444333444456778888899999888886

>TIGR03714 secA2 accessory Sec system translocase SecA2

Probab=87.21  E-value=4.8  Score=33.11  Aligned_cols=61  Identities=7%  Similarity=0.018  Sum_probs=43.1

Q ss_pred             HHHHhhCCCCcEEEEeCchHHHHHHHHHH----HhcCceEEEEecC-----CCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         68 NTLFSKLQINQSIIFCNSTQRVELLAKKI----TELGYCCYYIHAR-----MAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        68 ~~ll~~~~~~~~lIF~~t~~~~~~~~~~L----~~~~~~v~~~h~~-----~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .-++.......++|.++++.-|...++++    +..|..|....++     +.+++|...      ...+|+++|+
T Consensus       103 pa~l~aL~g~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~~~~~s~~~~~~~~~rr~~------y~~dIvygTp  172 (762)
T TIGR03714       103 PLYLNALTGKGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSLGVVDDPDEEYDANEKRKI------YNSDIVYTTN  172 (762)
T ss_pred             HHHHHhhcCCceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEEEECCCCccccCHHHHHHh------CCCCEEEECc
Confidence            33444545667899999999888888877    4458888887665     555555443      2479999998

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.

>PRK00142 putative rhodanese-related sulfurtransferase; Provisional

Probab=87.15  E-value=1.4  Score=32.14  Aligned_cols=38  Identities=13%  Similarity=0.358  Sum_probs=33.4

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCCH
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMAQ  112 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~~  112 (140)
                      +.+++++||.+-..++..+.+|++.|+ +|..+.|++..
T Consensus       170 kdk~IvvyC~~G~Rs~~aa~~L~~~Gf~~V~~L~GGi~~  208 (314)
T PRK00142        170 KDKKVVMYCTGGIRCEKASAWMKHEGFKEVYQLEGGIIT  208 (314)
T ss_pred             CcCeEEEECCCCcHHHHHHHHHHHcCCCcEEEecchHHH
Confidence            567899999999999999999999999 49999999764

>KOG4284|consensus

Probab=87.14  E-value=1.3  Score=35.65  Aligned_cols=58  Identities=14%  Similarity=0.166  Sum_probs=46.7

Q ss_pred             hhCCCCcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         72 SKLQINQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        72 ~~~~~~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+....+.+|.++|++-+-.+.+-+++.     |.+|..|-||.+..     .+.-+..+++|+|.|+
T Consensus        89 ~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~sf~g~~csvfIGGT~~~-----~d~~rlk~~rIvIGtP  151 (980)
T KOG4284|consen   89 SRSSHIQKVIVTPTREIAVQIKETVRKVAPSFTGARCSVFIGGTAHK-----LDLIRLKQTRIVIGTP  151 (980)
T ss_pred             cccCcceeEEEecchhhhhHHHHHHHHhcccccCcceEEEecCchhh-----hhhhhhhhceEEecCc
Confidence            3334567899999999999999988875     66899999998744     5566667889999998

>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family

Probab=87.14  E-value=6.9  Score=26.11  Aligned_cols=55  Identities=5%  Similarity=0.033  Sum_probs=38.3

Q ss_pred             cEEEEeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEE
Q psy13287         78 QSIIFCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVC  132 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~  132 (140)
                      ++-++-.+...+++.++.|++.  ++++..+||-.++++...+.++.+...-++|+.
T Consensus        50 ~vfllG~~~~v~~~~~~~l~~~yP~l~i~g~~g~f~~~~~~~i~~~I~~s~~dil~V  106 (177)
T TIGR00696        50 PIFLYGGKPDVLQQLKVKLIKEYPKLKIVGAFGPLEPEERKAALAKIARSGAGIVFV  106 (177)
T ss_pred             eEEEECCCHHHHHHHHHHHHHHCCCCEEEEECCCCChHHHHHHHHHHHHcCCCEEEE
Confidence            4444456677778888888765  666656688887777777788887776776553

The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.

>cd01530 Cdc25 Cdc25 phosphatases are members of the Rhodanese Homology Domain superfamily

Probab=87.06  E-value=1.1  Score=27.69  Aligned_cols=37  Identities=22%  Similarity=0.379  Sum_probs=29.0

Q ss_pred             CCCcEEEEeC-chHHHHHHHHHHHhc------------Cc-eEEEEecCCC
Q psy13287         75 QINQSIIFCN-STQRVELLAKKITEL------------GY-CCYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~-t~~~~~~~~~~L~~~------------~~-~v~~~h~~~~  111 (140)
                      +..++++||. +-..+...+..|+..            |+ ++..+.|++.
T Consensus        67 ~~~~vv~yC~~sg~rs~~aa~~L~~~~~~~~~~~~~~~g~~~v~~L~GG~~  117 (121)
T cd01530          67 KRRVLIFHCEFSSKRGPRMARHLRNLDRELNSNRYPLLYYPEIYILEGGYK  117 (121)
T ss_pred             CCCEEEEECCCccccHHHHHHHHHHHhhhhccccCCCCCCCeEEEEcChhH
Confidence            3567889996 877888888888874            65 6999999864

They activate the cell division kinases throughout the cell cycle progression. Cdc25 phosphatases dephosphorylate phosphotyrosine and phosphothreonine residues, in order to activate their Cdk/cyclin substrates. Cdc25A phosphatase functions to regulate S phase entry and Cdc25B is required for G2/M phase transition of the cell cycle. The Cdc25 domain binds oxyanions at the catalytic site and has the signature motif (H/YCxxxxxR).

>TIGR02981 phageshock_pspE phage shock operon rhodanese PspE

Probab=86.88  E-value=1.5  Score=26.32  Aligned_cols=35  Identities=11%  Similarity=0.320  Sum_probs=27.4

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARM  110 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~  110 (140)
                      ..++++||++-..+...+..|++.|+.....-|++
T Consensus        58 ~~~vvlyC~~G~rS~~aa~~L~~~G~~~v~~~GG~   92 (101)
T TIGR02981        58 NDTVKLYCNAGRQSGMAKDILLDMGYTHAENAGGI   92 (101)
T ss_pred             CCeEEEEeCCCHHHHHHHHHHHHcCCCeEEecCCH
Confidence            45688999998889899999999998643334774

Members of this very narrowly defined protein family are proteins active as rhodanese (EC 2.8.1.1) and found in the extended variants of the phage shock protein (psp operon) in Escherichia coli and a few closely related species. Note that the designation phage shock protein PspE has been applied, incorrectly, in many instances where the genome lacks the phage shock regulon entirely.

>KOG0386|consensus

Probab=86.51  E-value=2.5  Score=35.61  Aligned_cols=81  Identities=14%  Similarity=0.208  Sum_probs=67.1

Q ss_pred             ccchHHHHHHHHhhCC--CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCc---cEEEEec
Q psy13287         60 ERQKVHCLNTLFSKLQ--INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLC---RNLVCSG  134 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~~--~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~---~vlv~T~  134 (140)
                      .+-|.+.|..+|.+++  +.+++.||.-.+-..-+..+|.-.++...-+-|....++|-..++.|..-..   ..|.+|-
T Consensus       708 ~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~Fllstr  787 (1157)
T KOG0386|consen  708 VSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTR  787 (1157)
T ss_pred             hccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeeec
Confidence            4458888999988874  6789999988777778888887778889999999999999999999987443   3578888


Q ss_pred             ccCCCC
Q psy13287        135 DSSAMM  140 (140)
Q Consensus       135 ~~~rGl  140 (140)
                      ..+.||
T Consensus       788 agglgl  793 (1157)
T KOG0386|consen  788 AGGLGL  793 (1157)
T ss_pred             cccccc
Confidence            888876

>TIGR00596 rad1 DNA repair protein (rad1)

Probab=86.49  E-value=1.8  Score=35.84  Aligned_cols=40  Identities=18%  Similarity=0.350  Sum_probs=31.3

Q ss_pred             CccchHHHHHHHHhhC-----------CCCcEEEEeCchHHHHHHHHHHHh
Q psy13287         59 QERQKVHCLNTLFSKL-----------QINQSIIFCNSTQRVELLAKKITE   98 (140)
Q Consensus        59 ~~~~k~~~l~~ll~~~-----------~~~~~lIF~~t~~~~~~~~~~L~~   98 (140)
                      ++..|...|.++|++.           +++++||||+.+++|..+.++|..
T Consensus       267 Ee~PKw~~L~eiL~eI~~~~~~~~~~~~~~~iLI~~~d~~T~~qL~~~L~~  317 (814)
T TIGR00596       267 EENPKWEVLTDVLKEISHEMRMTNRLQGPGKVLIMCSDNRTCLQLRDYLTT  317 (814)
T ss_pred             ccCCCHHHHHHHHHHHHhHHhhhcccCCCCcEEEEEcchHHHHHHHHHHHh
Confidence            4567877777777442           356799999999999999999965

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

>KOG0951|consensus

Probab=86.48  E-value=12  Score=32.94  Aligned_cols=127  Identities=12%  Similarity=0.121  Sum_probs=72.9

Q ss_pred             HHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcC---ccchHHH-----HHHHHhhC-C
Q psy13287          5 VISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQ---ERQKVHC-----LNTLFSKL-Q   75 (140)
Q Consensus         5 il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~---~~~k~~~-----l~~ll~~~-~   75 (140)
                      |-.++-++.+++.+|..+.+. ++.  ..+...-.+...+...+..+...+..+.   .+..+..     +..+.+.. .
T Consensus      1282 ia~q~~k~ir~v~ls~~lana-~d~--ig~s~~~v~Nf~p~~R~~Pl~i~i~~~~~~~~~~~~~am~~~~~~ai~~~a~~ 1358 (1674)
T KOG0951|consen 1282 IASQLEKKIRVVALSSSLANA-RDL--IGASSSGVFNFSPSVRPVPLEIHIQSVDISHFESRMLAMTKPTYTAIVRHAGN 1358 (1674)
T ss_pred             HHHHHHhheeEEEeehhhccc-hhh--ccccccceeecCcccCCCceeEEEEEeccchhHHHHHHhhhhHHHHHHHHhcC
Confidence            334444567788888877643 333  2333444555554433332332222222   2222211     22222222 5


Q ss_pred             CCcEEEEeCchHHHHHHHHHHHh----------------------cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEe
Q psy13287         76 INQSIIFCNSTQRVELLAKKITE----------------------LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS  133 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~----------------------~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T  133 (140)
                      .++++||+++++.|..++-.|-.                      ...+++.=|-+++......+-.-|..|.+.++|..
T Consensus      1359 ~k~~~vf~p~rk~~~~~a~~~~~~s~~~~~~~l~~~~e~~~~~l~e~l~~gvg~e~~s~~d~~iv~~l~e~g~i~v~v~s 1438 (1674)
T KOG0951|consen 1359 RKPAIVFLPTRKHARLVAVDLVTFSHADEPDYLLSELEECDETLRESLKHGVGHEGLSSNDQEIVQQLFEAGAIQVCVMS 1438 (1674)
T ss_pred             CCCeEEEeccchhhhhhhhccchhhccCcHHHHHHHHhcchHhhhhcccccccccccCcchHHHHHHHHhcCcEEEEEEE
Confidence            67899999999998877654421                      01122222889999999999999999999988765


Q ss_pred             c
Q psy13287        134 G  134 (140)
Q Consensus       134 ~  134 (140)
                      .
T Consensus      1439 ~ 1439 (1674)
T KOG0951|consen 1439 R 1439 (1674)
T ss_pred             c
Confidence            4

>PF11019 DUF2608: Protein of unknown function (DUF2608); InterPro: IPR022565 This family is conserved in Bacteria

Probab=86.43  E-value=9.4  Score=26.98  Aligned_cols=106  Identities=16%  Similarity=0.203  Sum_probs=67.5

Q ss_pred             HHHHhhCC-CCCeEEEEEecCchhHHHHHHHhccC-------Cc-----EEE-c---CCcccCCCeEEEEEEcCccchHH
Q psy13287          3 DHVISILP-HERQILLYSATFPLTVKNFMEKHLKD-------PY-----EIN-L---MEELTLKGVTQYYAFVQERQKVH   65 (140)
Q Consensus         3 ~~il~~~~-~~~q~v~~SAT~~~~~~~~~~~~~~~-------~~-----~i~-~---~~~~~~~~i~~~~~~~~~~~k~~   65 (140)
                      -.+++.+. .+..++++|+=.| ..+.-..+.+..       ..     .+. .   ......+-...-+..+.+.+|-.
T Consensus        87 ~~~i~~lq~~~~~v~alT~~~~-~~~~~t~~~Lk~~gi~fs~~~~~~~~~~~~~~~~~~~~~~~~~~~GIlft~~~~KG~  165 (252)
T PF11019_consen   87 PNIINSLQNKGIPVIALTARGP-NMEDWTLRELKSLGIDFSSSSFPEDGIISFPVFDSALSRAPSFYDGILFTGGQDKGE  165 (252)
T ss_pred             HHHHHHHHHCCCcEEEEcCCCh-hhHHHHHHHHHHCCCCccccccccCcceecccccCCCCCCceeecCeEEeCCCccHH
Confidence            34555555 3578899999654 333333332221       11     110 0   01223445555666778889999


Q ss_pred             HHHHHHhhCCC-CcEEEEe-CchHHHHHHHHHHHhcCceEEEEecC
Q psy13287         66 CLNTLFSKLQI-NQSIIFC-NSTQRVELLAKKITELGYCCYYIHAR  109 (140)
Q Consensus        66 ~l~~ll~~~~~-~~~lIF~-~t~~~~~~~~~~L~~~~~~v~~~h~~  109 (140)
                      .|..++...+. .+.|||. ++.+..+.+.+.+.+.++.+.-+|-.
T Consensus       166 ~L~~fL~~~~~~pk~IIfIDD~~~nl~sv~~a~k~~~I~f~G~~Yt  211 (252)
T PF11019_consen  166 VLKYFLDKINQSPKKIIFIDDNKENLKSVEKACKKSGIDFIGFHYT  211 (252)
T ss_pred             HHHHHHHHcCCCCCeEEEEeCCHHHHHHHHHHHhhCCCcEEEEEEc
Confidence            99999998853 4467777 77888999999999999987666654

The function is not known.

>PRK11493 sseA 3-mercaptopyruvate sulfurtransferase; Provisional

Probab=86.22  E-value=2.4  Score=30.25  Aligned_cols=47  Identities=13%  Similarity=0.099  Sum_probs=36.1

Q ss_pred             HHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         65 HCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        65 ~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +.|..++...   +..++++||++-..+..++..|+..|++ +..|.|++.
T Consensus       217 ~~l~~~~~~~g~~~~~~ii~yC~~G~~A~~~~~~l~~~G~~~v~~y~Gs~~  267 (281)
T PRK11493        217 DELDAIFFGRGVSFDRPIIASCGSGVTAAVVVLALATLDVPNVKLYDGAWS  267 (281)
T ss_pred             HHHHHHHHhcCCCCCCCEEEECCcHHHHHHHHHHHHHcCCCCceeeCCCHH
Confidence            4455555443   3457999999999999999999988984 899999843

>TIGR03865 PQQ_CXXCW PQQ-dependent catabolism-associated CXXCW motif protein

Probab=86.16  E-value=1.5  Score=28.70  Aligned_cols=37  Identities=16%  Similarity=0.267  Sum_probs=29.2

Q ss_pred             CCCcEEEEeCchH-HHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         75 QINQSIIFCNSTQ-RVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~-~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +..++++||.+-. .+...+..|+..|+. |..+.|++.
T Consensus       115 ~d~~IVvYC~~G~~~S~~aa~~L~~~G~~~V~~l~GG~~  153 (162)
T TIGR03865       115 KDRPLVFYCLADCWMSWNAAKRALAYGYSNVYWYPDGTD  153 (162)
T ss_pred             CCCEEEEEECCCCHHHHHHHHHHHhcCCcceEEecCCHH
Confidence            4578999998753 566788888999985 888999853

Members of this protein family have a CXXXCW motif, consistent with a possible role in redox cofactor binding. This protein family shows strong relationships by phylogenetic profiling and conserved gene neighborhoods with a transport system for alcohols metabolized by PQQ-dependent enzymes.

>PRK06827 phosphoribosylpyrophosphate synthetase; Provisional

Probab=86.14  E-value=3.4  Score=31.08  Aligned_cols=59  Identities=10%  Similarity=0.076  Sum_probs=46.5

Q ss_pred             CcEEEE---eCchHHHHHHHHHHHhcCc---eEEEEecCCCHHHHHHHHHHhhcCCccEEEEeccc
Q psy13287         77 NQSIIF---CNSTQRVELLAKKITELGY---CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDS  136 (140)
Q Consensus        77 ~~~lIF---~~t~~~~~~~~~~L~~~~~---~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~  136 (140)
                      ..+||+   +.|-.+....++.|++.|.   .+.+.||-++ +....+.+.|.+|-++-+|+||..
T Consensus       265 r~vIIVDDII~TG~Tl~~aa~~Lk~~GA~~V~~~~tH~vf~-~a~~~l~~~~~~g~i~~iv~TdTi  329 (382)
T PRK06827        265 KDVLIVDDMIASGGSMIDAAKELKSRGAKKIIVAATFGFFT-NGLEKFDKAYEEGYFDRIIGTNLV  329 (382)
T ss_pred             CEEEEEeCCcCcHHHHHHHHHHHHHcCCCEEEEEEEeecCh-HHHHHHHhhcccCCCCEEEEeCCC
Confidence            345554   3677888889999998854   5788899988 777777788888989999999953

>KOG0352|consensus

Probab=86.12  E-value=1.6  Score=33.51  Aligned_cols=59  Identities=12%  Similarity=0.209  Sum_probs=52.0

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC--CccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG--LCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g--~~~vlv~T~  134 (140)
                      .+=+|||-+-..-..+--..|.+++.++..+++.|+..+|.+++-++..-  .+++|--|+
T Consensus        61 ~gITIV~SPLiALIkDQiDHL~~LKVp~~SLNSKlSt~ER~ri~~DL~~ekp~~K~LYITP  121 (641)
T KOG0352|consen   61 GGITIVISPLIALIKDQIDHLKRLKVPCESLNSKLSTVERSRIMGDLAKEKPTIKMLYITP  121 (641)
T ss_pred             CCeEEEehHHHHHHHHHHHHHHhcCCchhHhcchhhHHHHHHHHHHHHhcCCceeEEEEch
Confidence            45689999999999988999999999999999999999999999999864  467777776

>KOG1015|consensus

Probab=85.82  E-value=5  Score=34.08  Aligned_cols=81  Identities=15%  Similarity=0.193  Sum_probs=61.4

Q ss_pred             ccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHh----------------------cCceEEEEecCCCHHHH
Q psy13287         60 ERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITE----------------------LGYCCYYIHARMAQAHR  115 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~----------------------~~~~v~~~h~~~~~~~R  115 (140)
                      .+.|+-.|.++|+.-  -..+.|||-+|.....-+..+|.-                      .|..-+-+-|......|
T Consensus      1124 ~SgKmiLLleIL~mceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R 1203 (1567)
T KOG1015|consen 1124 HSGKMILLLEILRMCEEIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSR 1203 (1567)
T ss_pred             cCcceehHHHHHHHHHHhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHH
Confidence            345777888888643  467899999998888877777742                      13346778889999999


Q ss_pred             HHHHHHhhcC-C--cc-EEEEecccCCCC
Q psy13287        116 NRVFHDFRSG-L--CR-NLVCSGDSSAMM  140 (140)
Q Consensus       116 ~~~~~~f~~g-~--~~-vlv~T~~~~rGl  140 (140)
                      ..+-++|.+- .  .+ .||+|-+++.|+
T Consensus      1204 ~k~~~~FNdp~NlRaRl~LISTRAGsLGi 1232 (1567)
T KOG1015|consen 1204 KKWAEEFNDPTNLRARLFLISTRAGSLGI 1232 (1567)
T ss_pred             HHHHHHhcCcccceeEEEEEeeccCcccc
Confidence            9999999752 2  22 599999999886

>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit

Probab=85.39  E-value=2.3  Score=30.08  Aligned_cols=55  Identities=9%  Similarity=0.129  Sum_probs=42.0

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc---CceEEEEecC-CCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL---GYCCYYIHAR-MAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~---~~~v~~~h~~-~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +.+||.|.+.-.|-++...|+..   +..|+-+-+. +.-++....++   .+.+++.|+|+
T Consensus       127 P~~lvvs~SalRa~dl~R~l~~~~~k~~~v~KLFaKH~Kl~eqv~~L~---~~~~~i~vGTP  185 (252)
T PF14617_consen  127 PHVLVVSSSALRAADLIRALRSFKGKDCKVAKLFAKHIKLEEQVKLLK---KTRVHIAVGTP  185 (252)
T ss_pred             CEEEEEcchHHHHHHHHHHHHhhccCCchHHHHHHhhccHHHHHHHHH---hCCceEEEeCh
Confidence            45899999999999999999876   2566655555 46666666654   46789999998

>KOG0346|consensus

Probab=84.82  E-value=3.8  Score=31.52  Aligned_cols=54  Identities=13%  Similarity=0.102  Sum_probs=42.6

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc------CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL------GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~------~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++|-++|++-|..++..+.+.      .+++.-+.++++..+    ..-+-.+.-+|+|+|+
T Consensus        94 ~sa~iLvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv----~~~~L~d~pdIvV~TP  153 (569)
T KOG0346|consen   94 PSAVILVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSV----NSVALMDLPDIVVATP  153 (569)
T ss_pred             ceeEEEechHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccchHH----HHHHHccCCCeEEeCh
Confidence            35899999999999999888765      456777888888754    3355567889999998

>PLN02723 3-mercaptopyruvate sulfurtransferase

Probab=84.64  E-value=3.6  Score=30.09  Aligned_cols=47  Identities=15%  Similarity=0.137  Sum_probs=36.3

Q ss_pred             HHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         65 HCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        65 ~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +.|.+++...   +..++++||++-..+-.++-.|+..|+. +..|.|++.
T Consensus       255 ~el~~~~~~~gi~~~~~iv~yC~sG~~A~~~~~~L~~~G~~~v~~YdGs~~  305 (320)
T PLN02723        255 EELKKRFEQEGISLDSPIVASCGTGVTACILALGLHRLGKTDVPVYDGSWT  305 (320)
T ss_pred             HHHHHHHHhcCCCCCCCEEEECCcHHHHHHHHHHHHHcCCCCeeEeCCCHH
Confidence            4566666543   4568999999988888888888888985 889999843

>PRK12326 preprotein translocase subunit SecA; Reviewed

Probab=84.46  E-value=8.2  Score=31.70  Aligned_cols=65  Identities=14%  Similarity=0.151  Sum_probs=48.1

Q ss_pred             HHHHHHHHhhCCCCcEEEEeCc----hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         64 VHCLNTLFSKLQINQSIIFCNS----TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        64 ~~~l~~ll~~~~~~~~lIF~~t----~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...+..++..+...++-|.+.+    +++++++...+...|++|+.+.+++++++|...++      ++|.-+|+
T Consensus       107 vA~l~a~l~AL~G~~VhvvT~NdyLA~RDae~m~~ly~~LGLsvg~i~~~~~~~err~aY~------~DItYgTn  175 (764)
T PRK12326        107 AGAIAAAGYALQGRRVHVITVNDYLARRDAEWMGPLYEALGLTVGWITEESTPEERRAAYA------CDVTYASV  175 (764)
T ss_pred             HHHHHHHHHHHcCCCeEEEcCCHHHHHHHHHHHHHHHHhcCCEEEEECCCCCHHHHHHHHc------CCCEEcCC
Confidence            3445556666667777777766    56677777777778999999999999999988875      35655554

>smart00492 HELICc3 helicase superfamily c-terminal domain

Probab=84.43  E-value=5.8  Score=25.34  Aligned_cols=52  Identities=10%  Similarity=0.083  Sum_probs=31.2

Q ss_pred             HHHHHHHHHhcCc------eEEEEecCCCHHHHHHHHHHhhcCC-ccEEEEecccCCCC
Q psy13287         89 VELLAKKITELGY------CCYYIHARMAQAHRNRVFHDFRSGL-CRNLVCSGDSSAMM  140 (140)
Q Consensus        89 ~~~~~~~L~~~~~------~v~~~h~~~~~~~R~~~~~~f~~g~-~~vlv~T~~~~rGl  140 (140)
                      .+.+++.+++.+.      ....+.-+.+..+...++++|++.. ..||++|.-++.|+
T Consensus         4 m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~iL~~~~~~~EGi   62 (141)
T smart00492        4 MESFVQYWKENGILENINKNLLLLVQGEDGKETGKLLEKYVEACENAILLATARFSEGV   62 (141)
T ss_pred             HHHHHHHHHHcCchhhHhcCCeEEEeCCChhHHHHHHHHHHHcCCCEEEEEccceecce
Confidence            4455555555432      2334444455556788888888643 36888886666664

>PF00581 Rhodanese: Rhodanese-like domain This Prosite entry represents a subset of this family

Probab=84.15  E-value=1.2  Score=26.44  Aligned_cols=36  Identities=19%  Similarity=0.433  Sum_probs=26.1

Q ss_pred             CCcEEEEeCchHHHHHHHHH-----HHhcCc-eEEEEecCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKK-----ITELGY-CCYYIHARMA  111 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~-----L~~~~~-~v~~~h~~~~  111 (140)
                      ...+++||.+.......+..     |++.|+ ++..+.|++.
T Consensus        67 ~~~iv~yc~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~GG~~  108 (113)
T PF00581_consen   67 DKDIVFYCSSGWRSGSAAAARVAWILKKLGFKNVYILDGGFE  108 (113)
T ss_dssp             TSEEEEEESSSCHHHHHHHHHHHHHHHHTTTSSEEEETTHHH
T ss_pred             cccceeeeecccccchhHHHHHHHHHHHcCCCCEEEecChHH
Confidence            45688899666665555554     888888 8999999854

; InterPro: IPR001763 Rhodanese, a sulphurtransferase involved in cyanide detoxification (see IPR001307 from INTERPRO) shares evolutionary relationship with a large family of proteins [], including Cdc25 phosphatase catalytic domain. non-catalytic domains of eukaryotic dual-specificity MAPK-phosphatases. non-catalytic domains of yeast PTP-type MAPK-phosphatases. non-catalytic domains of yeast Ubp4, Ubp5, Ubp7. non-catalytic domains of mammalian Ubp-Y. Drosophila heat shock protein HSP-67BB. several bacterial cold-shock and phage shock proteins. plant senescence associated proteins. catalytic and non-catalytic domains of rhodanese (see IPR001307 from INTERPRO). Rhodanese has an internal duplication. This domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases [].; PDB: 2J6P_D 2FSX_A 1UAR_A 1OKG_A 1GMX_A 1GN0_A 3NTD_B 3NTA_B 3NT6_A 1C25_A ....

>PRK09189 uroporphyrinogen-III synthase; Validated

Probab=84.09  E-value=7.5  Score=26.92  Aligned_cols=72  Identities=6%  Similarity=-0.010  Sum_probs=45.1

Q ss_pred             chHHHHHHHHhh-C-CCCcEEEEeCchHHHHHHHHHHHhcCceE---EEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         62 QKVHCLNTLFSK-L-QINQSIIFCNSTQRVELLAKKITELGYCC---YYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        62 ~k~~~l~~ll~~-~-~~~~~lIF~~t~~~~~~~~~~L~~~~~~v---~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...+.|.+++.. . +.+++++++.. ...+.+.+.|++.|+.+   ..|.............+.++++++++++-|+
T Consensus       102 ~~~e~L~~~~~~~~~~~~~vL~~rg~-~~r~~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~~~d~i~f~S  178 (240)
T PRK09189        102 GDGVRLAETVAAALAPTARLLYLAGR-PRAPVFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAILGGAPFDAVLLYS  178 (240)
T ss_pred             CCHHHHHHHHHHhcCCCCcEEEeccC-cccchhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHHhcCCCCEEEEeC
Confidence            344555555543 2 34566666654 44489999999998764   3443332333334667888889999887776

>KOG0351|consensus

Probab=84.02  E-value=3.7  Score=34.59  Aligned_cols=58  Identities=9%  Similarity=0.212  Sum_probs=51.6

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC--CccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG--LCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g--~~~vlv~T~  134 (140)
                      +-++|--+-..-++.....|...++...+++|++...+|..+++.+.+|  .++++-.|+
T Consensus       305 gitvVISPL~SLm~DQv~~L~~~~I~a~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtP  364 (941)
T KOG0351|consen  305 GVTVVISPLISLMQDQVTHLSKKGIPACFLSSIQTAAERLAILQKLANGNPIIKILYVTP  364 (941)
T ss_pred             CceEEeccHHHHHHHHHHhhhhcCcceeeccccccHHHHHHHHHHHhCCCCeEEEEEeCH
Confidence            3467777778888999999988899999999999999999999999999  889988776

>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins

Probab=83.89  E-value=10  Score=25.06  Aligned_cols=57  Identities=9%  Similarity=0.081  Sum_probs=40.7

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc--CceEEE-EecCCCHHHHHHHHHHhhcCCccEEEE
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL--GYCCYY-IHARMAQAHRNRVFHDFRSGLCRNLVC  132 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~--~~~v~~-~h~~~~~~~R~~~~~~f~~g~~~vlv~  132 (140)
                      ..++-++-.+.+.++.+++.|++.  ++++.. +||-+..++...+++..+...-++++.
T Consensus        46 ~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~pdiv~v  105 (171)
T cd06533          46 GLRVFLLGAKPEVLEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINASGADILFV  105 (171)
T ss_pred             CCeEEEECCCHHHHHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcCCCEEEE
Confidence            345556667778888888888765  666544 677777777777888888777777654

E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.

>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins

Probab=83.49  E-value=5.7  Score=21.94  Aligned_cols=55  Identities=7%  Similarity=0.085  Sum_probs=35.4

Q ss_pred             EEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecc
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                      .++.|....++..+.+..- .+..+....|.....+....+.++..+ .+|++++|-
T Consensus         2 ~l~ivEg~~da~~~~~~~~-~~~~~~~~~G~~~~~~~~~~l~~~~~~-~~Iii~~D~   56 (76)
T smart00493        2 VLIIVEGPADAIALEKAGG-FGGNVVALGGHLLKKEIIKLLKRLAKK-KEVILATDP   56 (76)
T ss_pred             EEEEEcCHHHHHHHHHhcC-CCEEEEEEeeeecHHHHHHHHHHHhcC-CEEEEEcCC
Confidence            4677777777777776653 233555666665555566666666544 578998884

>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli

Probab=83.47  E-value=10  Score=24.97  Aligned_cols=56  Identities=11%  Similarity=0.168  Sum_probs=35.9

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc--CceEE-EEecCCCHHHHHHHHHHhhcCCccEEEE
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL--GYCCY-YIHARMAQAHRNRVFHDFRSGLCRNLVC  132 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~--~~~v~-~~h~~~~~~~R~~~~~~f~~g~~~vlv~  132 (140)
                      .++-++-.+.+.++.+++.|++.  ++++. .+||-++..+-..+++..+...-++++.
T Consensus        49 ~~ifllG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~pdiv~v  107 (172)
T PF03808_consen   49 KRIFLLGGSEEVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASGPDIVFV  107 (172)
T ss_pred             CeEEEEeCCHHHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcCCCEEEE
Confidence            34445556667777777777665  55544 4555566677777777777766666554

Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process

>cd01446 DSP_MapKP N-terminal regulatory rhodanese domain of dual specificity phosphatases (DSP), such as Mapk Phosphatase

Probab=83.32  E-value=4  Score=25.43  Aligned_cols=37  Identities=14%  Similarity=0.274  Sum_probs=29.4

Q ss_pred             CCCcEEEEeCchHH---------HHHHHHHHHh---cCceEEEEecCCC
Q psy13287         75 QINQSIIFCNSTQR---------VELLAKKITE---LGYCCYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~---------~~~~~~~L~~---~~~~v~~~h~~~~  111 (140)
                      +..+++|||.+...         +..+++.|.+   .+.+|..+.||+.
T Consensus        74 ~~~~VVvYd~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~~L~GG~~  122 (132)
T cd01446          74 ESLAVVVYDESSSDRERLREDSTAESVLGKLLRKLQEGCSVYLLKGGFE  122 (132)
T ss_pred             CCCeEEEEeCCCcchhhccccchHHHHHHHHHHhcCCCceEEEEcchHH
Confidence            56789999977665         7788888887   4568999999953

This domain is believed to determine substrate specificity by binding the substrate, such as ERK2, and activating the C-terminal catalytic domain by inducing a conformational change. This domain has homology to the Rhodanese Homology Domain.

>KOG0341|consensus

Probab=82.83  E-value=2.3  Score=32.18  Aligned_cols=52  Identities=17%  Similarity=0.204  Sum_probs=39.0

Q ss_pred             EEEEeCchHHHHHHHHHHH-------hcCc---eEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         79 SIIFCNSTQRVELLAKKIT-------ELGY---CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~-------~~~~---~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +||.|+|++-|...+..+.       +.|+   ++...-|+++-.++..++.   . .+.++|+|+
T Consensus       249 gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~eql~~v~---~-GvHivVATP  310 (610)
T KOG0341|consen  249 GLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQLDVVR---R-GVHIVVATP  310 (610)
T ss_pred             eEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHHHHHHHh---c-CeeEEEcCc
Confidence            7999999998876655544       3354   5777889999887766655   3 489999998

>COG0607 PspE Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]

Probab=82.26  E-value=1.7  Score=25.81  Aligned_cols=37  Identities=14%  Similarity=0.299  Sum_probs=30.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEE-EEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCY-YIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~-~~h~~~~  111 (140)
                      ..++.+|+|.+-......++.|++.|+... .+.|++.
T Consensus        60 ~~~~ivv~C~~G~rS~~aa~~L~~~G~~~~~~l~gG~~   97 (110)
T COG0607          60 DDDPIVVYCASGVRSAAAAAALKLAGFTNVYNLDGGID   97 (110)
T ss_pred             CCCeEEEEeCCCCChHHHHHHHHHcCCccccccCCcHH
Confidence            357789999999999999999999998775 6777743

>COG1204 Superfamily II helicase [General function prediction only]

Probab=82.17  E-value=8  Score=31.96  Aligned_cols=61  Identities=15%  Similarity=0.077  Sum_probs=44.8

Q ss_pred             HHHHHhhCC--CCcEEEEeCchHHHHHHHHHHH---hcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         67 LNTLFSKLQ--INQSIIFCNSTQRVELLAKKIT---ELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        67 l~~ll~~~~--~~~~lIF~~t~~~~~~~~~~L~---~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..+++...  +++++--|+++.-|++.++.++   ..|++|..++|+.+...     +  +-++.+|+|+|.
T Consensus        65 ~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~~TgD~~~~~-----~--~l~~~~ViVtT~  130 (766)
T COG1204          65 LLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRVGISTGDYDLDD-----E--RLARYDVIVTTP  130 (766)
T ss_pred             HHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEEecCCcccch-----h--hhccCCEEEEch
Confidence            333444443  4678888899999999999998   56999999999987432     1  124568888885

>PRK05597 molybdopterin biosynthesis protein MoeB; Validated

Probab=81.95  E-value=2.3  Score=31.55  Aligned_cols=37  Identities=11%  Similarity=0.308  Sum_probs=31.6

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      ++.++++||++-..+...+..|+..|+. +..+.|++.
T Consensus       313 ~~~~IvvyC~~G~rS~~Aa~~L~~~G~~nV~~L~GGi~  350 (355)
T PRK05597        313 AGDEVVVYCAAGVRSAQAVAILERAGYTGMSSLDGGIE  350 (355)
T ss_pred             CCCeEEEEcCCCHHHHHHHHHHHHcCCCCEEEecCcHH
Confidence            3467899999988999999999999985 888999863

>PRK15327 type III secretion system needle complex protein PrgH; Provisional

Probab=81.91  E-value=17  Score=27.62  Aligned_cols=64  Identities=9%  Similarity=0.077  Sum_probs=48.8

Q ss_pred             CccchHHHHHHHHhhC---------CCCcEEEEeCchHHHHHHHHHHHhcCc--eEEEEecCCCHHHHHHHHHHhhcC
Q psy13287         59 QERQKVHCLNTLFSKL---------QINQSIIFCNSTQRVELLAKKITELGY--CCYYIHARMAQAHRNRVFHDFRSG  125 (140)
Q Consensus        59 ~~~~k~~~l~~ll~~~---------~~~~~lIF~~t~~~~~~~~~~L~~~~~--~v~~~h~~~~~~~R~~~~~~f~~g  125 (140)
                      +++.+...|..+|...         ..+.+.|.+++.+++++..+.|.+.++  ++...   ...+++.++.+.+..+
T Consensus       167 s~~~~v~tL~~~L~g~~~p~~Il~grD~~iyVLa~~qrd~~W~~Q~L~k~~~~~~v~v~---~~~~~~~~ie~~L~~~  241 (393)
T PRK15327        167 SPQRQAAELDSLLGQEKERFQVLPGRDKMLYVAAQNERDTLWARQSLARGDYDKNARVI---NENEENKRVSTWLDTY  241 (393)
T ss_pred             chHHHHHHHHHHhcCCCCceEEEeCCCCcEEEEEccccHhHHHHHHHhhCCCcCceEEe---chHHHHHHHHHHHHhc
Confidence            3445899999999765         256789999999999999999988755  45443   2567788888877766

>PRK09860 putative alcohol dehydrogenase; Provisional

Probab=81.84  E-value=20  Score=26.99  Aligned_cols=71  Identities=6%  Similarity=0.115  Sum_probs=45.7

Q ss_pred             chHHHHHHHHhhCCCCcEEEEeCc-h---HHHHHHHHHHHhcCceEEEEec---CCCHHHHHHHHHHhhcCCccEEEE
Q psy13287         62 QKVHCLNTLFSKLQINQSIIFCNS-T---QRVELLAKKITELGYCCYYIHA---RMAQAHRNRVFHDFRSGLCRNLVC  132 (140)
Q Consensus        62 ~k~~~l~~ll~~~~~~~~lIF~~t-~---~~~~~~~~~L~~~~~~v~~~h~---~~~~~~R~~~~~~f~~g~~~vlv~  132 (140)
                      .....+.+.++.+..++++|.+.. .   ...+++.+.|.+.++.+..|.+   +-+.+.=.+..+.++..+.+++|+
T Consensus        17 g~~~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~Iia   94 (383)
T PRK09860         17 DSLTDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVIS   94 (383)
T ss_pred             CHHHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEE
Confidence            455666666776655666666532 1   2356777888777877666655   234455666777788888888875

>PRK12906 secA preprotein translocase subunit SecA; Reviewed

Probab=81.63  E-value=12  Score=31.14  Aligned_cols=65  Identities=9%  Similarity=0.114  Sum_probs=49.4

Q ss_pred             HHHHHHHHhhCCCCcEEEEeCc----hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         64 VHCLNTLFSKLQINQSIIFCNS----TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        64 ~~~l~~ll~~~~~~~~lIF~~t----~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...+..++......++-|.+.|    +++++++...+...|++|+.+.|++++++|...+.      ++|.-+|+
T Consensus       109 vA~l~a~l~al~G~~v~vvT~neyLA~Rd~e~~~~~~~~LGl~vg~i~~~~~~~~r~~~y~------~dI~Y~t~  177 (796)
T PRK12906        109 TATLPVYLNALTGKGVHVVTVNEYLSSRDATEMGELYRWLGLTVGLNLNSMSPDEKRAAYN------CDITYSTN  177 (796)
T ss_pred             HHHHHHHHHHHcCCCeEEEeccHHHHHhhHHHHHHHHHhcCCeEEEeCCCCCHHHHHHHhc------CCCeecCC
Confidence            5556666777777777777766    66777777888888999999999999999987664      35655554

>PRK13958 N-(5'-phosphoribosyl)anthranilate isomerase; Provisional

Probab=81.18  E-value=15  Score=25.15  Aligned_cols=49  Identities=8%  Similarity=0.149  Sum_probs=34.2

Q ss_pred             HHHHHHHHhhCCC--CcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHH
Q psy13287         64 VHCLNTLFSKLQI--NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAH  114 (140)
Q Consensus        64 ~~~l~~ll~~~~~--~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~  114 (140)
                      .+...++.+..++  .++-||+|.  +.+.+.+.++..+..+..+||+.+++.
T Consensus        39 ~~~a~~i~~~~~~~~~~VgVf~~~--~~~~i~~~~~~~~~d~vQLHG~e~~~~   89 (207)
T PRK13958         39 ITQIKKLASAVPNHIDKVCVVVNP--DLTTIEHILSNTSINTIQLHGTESIDF   89 (207)
T ss_pred             HHHHHHHHHhCCCCCCEEEEEeCC--CHHHHHHHHHhCCCCEEEECCCCCHHH
Confidence            4445555554543  457799865  566677777778999999999988765

>PF08704 GCD14: tRNA methyltransferase complex GCD14 subunit; InterPro: IPR014816 GCD14 is a subunit of the tRNA methyltransferase complex and is required for 1-methyladenosine modification and maturation of initiator methionyl-tRNA []

Probab=80.98  E-value=6.6  Score=27.74  Aligned_cols=52  Identities=10%  Similarity=0.150  Sum_probs=41.7

Q ss_pred             CCeEEEEEEcCccch-HHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCc
Q psy13287         49 KGVTQYYAFVQERQK-VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGY  101 (140)
Q Consensus        49 ~~i~~~~~~~~~~~k-~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~  101 (140)
                      ..+.-.++-++.++. +..+.+.| +.+.+...+|+++.+++++.++.|++.|+
T Consensus       112 ~~~DavfLDlp~Pw~~i~~~~~~L-~~~gG~i~~fsP~ieQv~~~~~~L~~~gf  164 (247)
T PF08704_consen  112 SDFDAVFLDLPDPWEAIPHAKRAL-KKPGGRICCFSPCIEQVQKTVEALREHGF  164 (247)
T ss_dssp             TSEEEEEEESSSGGGGHHHHHHHE--EEEEEEEEEESSHHHHHHHHHHHHHTTE
T ss_pred             CcccEEEEeCCCHHHHHHHHHHHH-hcCCceEEEECCCHHHHHHHHHHHHHCCC
Confidence            567888888887775 56677777 33467889999999999999999999765

; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity, 0030488 tRNA methylation; PDB: 2YVL_C 1YB2_A 2B25_B 1O54_A 2PWY_B 1I9G_A 3LGA_B 3LHD_C 3MB5_A.

>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain

Probab=80.78  E-value=7.3  Score=21.33  Aligned_cols=53  Identities=9%  Similarity=0.001  Sum_probs=37.7

Q ss_pred             EEEEe-CchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC-CccEEE
Q psy13287         79 SIIFC-NSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG-LCRNLV  131 (140)
Q Consensus        79 ~lIF~-~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~vlv  131 (140)
                      +.+|. +....|..+...|++.++.+..+.-+.+++.+.+..+..... .+..++
T Consensus         2 i~ly~~~~Cp~C~~ak~~L~~~~i~~~~i~i~~~~~~~~~~~~~~~~~~~vP~v~   56 (75)
T cd03418           2 VEIYTKPNCPYCVRAKALLDKKGVDYEEIDVDGDPALREEMINRSGGRRTVPQIF   56 (75)
T ss_pred             EEEEeCCCChHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCCCCccCEEE
Confidence            44565 567888899999999999988888887777777666554332 455554

GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i

>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions

Probab=80.65  E-value=7.5  Score=21.37  Aligned_cols=57  Identities=9%  Similarity=0.083  Sum_probs=39.9

Q ss_pred             cEEEEe-CchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         78 QSIIFC-NSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        78 ~~lIF~-~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ++.+|. ++...|..+.++|.+.++....+.=...++.+.+..+.--.+.+..++.-+
T Consensus         2 ~v~ly~~~~C~~C~ka~~~L~~~gi~~~~~di~~~~~~~~el~~~~g~~~vP~v~i~~   59 (73)
T cd03027           2 RVTIYSRLGCEDCTAVRLFLREKGLPYVEINIDIFPERKAELEERTGSSVVPQIFFNE   59 (73)
T ss_pred             EEEEEecCCChhHHHHHHHHHHCCCceEEEECCCCHHHHHHHHHHhCCCCcCEEEECC
Confidence            455666 558889999999999999888877766666666665554445566665443

GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.

>KOG0384|consensus

Probab=80.15  E-value=8.2  Score=33.42  Aligned_cols=70  Identities=11%  Similarity=0.171  Sum_probs=50.2

Q ss_pred             HHHHHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhc-CceEEEEecCCCHHHHHHHHHHhhcC-----CccEEEEec
Q psy13287         64 VHCLNTLFSKL-QINQSIIFCNSTQRVELLAKKITEL-GYCCYYIHARMAQAHRNRVFHDFRSG-----LCRNLVCSG  134 (140)
Q Consensus        64 ~~~l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~-~~~v~~~h~~~~~~~R~~~~~~f~~g-----~~~vlv~T~  134 (140)
                      +..|..+.... -.+|.||.++ -.++..+...|..+ .+++..|||++...+-..-.+-+..+     +.++|++|=
T Consensus       407 i~fl~~l~~~~~~~gpflvvvp-lst~~~W~~ef~~w~~mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTy  483 (1373)
T KOG0384|consen  407 ITFLSYLFHSLQIHGPFLVVVP-LSTITAWEREFETWTDMNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTY  483 (1373)
T ss_pred             HHHHHHHHHhhhccCCeEEEee-hhhhHHHHHHHHHHhhhceeeeecchhHHHHHHHHHheecCCccccccceeehhh
Confidence            34455555544 4678888776 56777788888766 88999999998777655666666665     578888884

>TIGR03167 tRNA_sel_U_synt tRNA 2-selenouridine synthase

Probab=80.13  E-value=6.3  Score=28.82  Aligned_cols=46  Identities=17%  Similarity=0.312  Sum_probs=33.7

Q ss_pred             CcEEEEeC-chHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhh
Q psy13287         77 NQSIIFCN-STQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFR  123 (140)
Q Consensus        77 ~~~lIF~~-t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~  123 (140)
                      .+++|||. +-..+...+..|+..|+++..+.|++..= |......+.
T Consensus        75 ~~vvvyC~~gG~RS~~aa~~L~~~G~~v~~L~GG~~aw-~~~~~~~~~  121 (311)
T TIGR03167        75 PQPLLYCWRGGMRSGSLAWLLAQIGFRVPRLEGGYKAY-RRFVIDQLE  121 (311)
T ss_pred             CcEEEEECCCChHHHHHHHHHHHcCCCEEEecChHHHH-HHhhhhhhh
Confidence            35999995 56778888999999999999999996432 333334443

The Escherichia coli YbbB protein was shown to encode a selenophosphate-dependent tRNA 2-selenouridine synthase, essential for modification of some tRNAs to replace a sulfur atom with selenium. This enzyme works with SelD, the selenium donor protein, which also acts in selenocysteine incorporation. Although the members of this protein family show a fairly deep split, sequences from both sides of the split are supported by co-occurence with, and often proximity to, the selD gene.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	140
1s2m_A	400	Crystal Structure Of The Dead Box Protein Dhh1p Len		4e-57
2wax_A	193	Structure Of The Human Ddx6 C-Terminal Domain In Co		1e-48
2vso_A	395	Crystal Structure Of A Translation Initiation Compl		1e-18
2j0u_B	374	The Crystal Structure Of Eif4aiii-Barentsz Complex		3e-18
2hyi_C	413	Structure Of The Human Exon Junction Complex With A		4e-18
2j0q_A	410	The Crystal Structure Of The Exon Junction Complex		4e-18
2xb2_A	411	Crystal Structure Of The Core Mago-Y14-Eif4aiii-Bar		4e-18
2hxy_A	391	Crystal Structure Of Human Apo-Eif4aiii Length = 39		4e-18
2j0u_A	374	The Crystal Structure Of Eif4aiii-Barentsz Complex		5e-18
1fuu_A	394	Yeast Initiation Factor 4a Length = 394		7e-18
3eiq_A	414	Crystal Structure Of Pdcd4-eif4a Length = 414		3e-16
2zu6_A	388	Crystal Structure Of The Eif4a-Pdcd4 Complex Length		4e-16
3fho_B	508	Structure Of S. Pombe Dbp5 Length = 508		1e-14
1xtk_A	390	Structure Of Decd To Dead Mutation Of Human Uap56 L		2e-14
1xtj_A	386	Structure Of Human Uap56 In Complex With Adp Length		2e-14
1xti_A	391	Structure Of Wildtype Human Uap56 Length = 391		2e-14
3fmp_B	479	Crystal Structure Of The Nucleoporin Nup214 In Comp		8e-13
3g0h_A	424	Human Dead-box Rna Helicase Ddx19, In Complex With		9e-13
3ews_A	445	Human Dead-Box Rna-Helicase Ddx19 In Complex With A		9e-13
3fht_A	412	Crystal Structure Of Human Dbp5 In Complex With Amp		9e-13
1fuk_A	165	Crystal Structure Of The Carboxy Terminal Domain Of		2e-11
3pew_A	395	S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3		7e-10
3pey_A	395	S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3 Length		9e-10
1vec_A	206	Crystal Structure Of The N-Terminal Domain Of RckP5		1e-09
1hv8_A	367	Crystal Structure Of A Dead Box Protein From The Hy		9e-07
2hjv_A	163	Structure Of The Second Domain (Residues 207-368) O		2e-06
2i4i_A	417	Crystal Structure Of Human Dead-Box Rna Helicase Dd		5e-06
1t5i_A	172	Crystal Structure Of The C-Terminal Domain Of Uap56		7e-06
3i32_A	300	Dimeric Structure Of A Hera Helicase Fragment Inclu		9e-06
3eaq_A	212	Novel Dimerization Motif In The Dead Box Rna Helica		3e-05
2kbf_A	187	Solution Structure Of Carboxyl-Terminal Domain Of D		6e-05
3peu_A	188	S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To		1e-04
2rb4_A	175	Crystal Structure Of The Helicase Domain Of Human D		1e-04
3gfp_A	189	Structure Of The C-Terminal Domain Of The Dead-Box		1e-04
2db3_A	434	Structural Basis For Rna Unwinding By The Dead-Box		3e-04
2jgn_A	185	Ddx3 Helicase Domain Length = 185		3e-04
2gxq_A	207	Hera N-Terminal Domain In Complex With Amp, Crystal		7e-04
3mwj_A	207	Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Ap		7e-04

>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p Length = 400

Iteration: 1
 Score =  216 bits (550), Expect = 4e-57,   Method: Compositional matrix adjust.
 Identities = 100/133 (75%), Positives = 113/133 (84%)
Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE 60
           +++ ++S LP   Q LL+SATFPLTVK FM KHL  PYEINLMEELTLKG+TQYYAFV+E
Sbjct: 183 IIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGITQYYAFVEE 242
Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           RQK+HCLNTLFSKLQINQ+IIFCNST RVELLAKKIT+LGY CYY HARM Q  RN+VFH
Sbjct: 243 RQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFH 302
Query: 121 DFRSGLCRNLVCS 133
           +FR G  R LVCS
Sbjct: 303 EFRQGKVRTLVCS 315

>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 =  187 bits (476), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 85/99 (85%), Positives = 95/99 (95%)
Query: 35  KDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAK 94
           +DPYEINLMEELTLKGVTQYYA+V ERQKVHCLNTLFS+LQINQSIIFCNS+QRVELLAK
Sbjct: 3   QDPYEINLMEELTLKGVTQYYAYVTERQKVHCLNTLFSRLQINQSIIFCNSSQRVELLAK 62
Query: 95  KITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
           KI++LGY C+YIHA+M Q HRNRVFHDFR+GLCRNLVC+
Sbjct: 63  KISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCT 101

>pdb|2VSO|A Chain A, Crystal Structure Of A Translation Initiation Complex Length = 395

Iteration: 1
 Score = 88.2 bits (217), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 43/132 (32%), Positives = 76/132 (57%), Gaps = 2/132 (1%)
Query: 4   HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQ 62
            + ++LP   Q++L SAT P  V     K +++P  I +  +ELTL+G+ Q+Y  V+E +
Sbjct: 186 QIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEE 245
Query: 63  -KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
            K  CL  L+  + + Q++IFCN+ ++VE L  K+    +    I++ + Q  R+ +  +
Sbjct: 246 YKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKE 305
Query: 122 FRSGLCRNLVCS 133
           FRSG  R L+ +
Sbjct: 306 FRSGSSRILIST 317

>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0 A Resolution Length = 374

Iteration: 1
 Score = 87.0 bits (214), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 45/127 (35%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9   LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
           LP   Q++L SAT P  V     K + DP  I +  +ELTL+G+ Q++  V+ E  K   
Sbjct: 171 LPPATQVVLISATLPHEVLEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 230
Query: 67  LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
           L  L+  L I Q++IFCN+ ++V+ L +K+ E  +    +H  M Q  R  +  +FRSG 
Sbjct: 231 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 290
Query: 127 CRNLVCS 133
            R L+ +
Sbjct: 291 SRVLIST 297

>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 = 86.7 bits (213), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 44/127 (34%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9   LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
           LP   Q++L SAT P  +     K + DP  I +  +ELTL+G+ Q++  V+ E  K   
Sbjct: 208 LPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 267
Query: 67  LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
           L  L+  L I Q++IFCN+ ++V+ L +K+ E  +    +H  M Q  R  +  +FRSG 
Sbjct: 268 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 327
Query: 127 CRNLVCS 133
            R L+ +
Sbjct: 328 SRVLIST 334

>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2 A Resolution Length = 410

Iteration: 1
 Score = 86.7 bits (213), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 44/127 (34%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9   LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
           LP   Q++L SAT P  +     K + DP  I +  +ELTL+G+ Q++  V+ E  K   
Sbjct: 207 LPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 266
Query: 67  LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
           L  L+  L I Q++IFCN+ ++V+ L +K+ E  +    +H  M Q  R  +  +FRSG 
Sbjct: 267 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 326
Query: 127 CRNLVCS 133
            R L+ +
Sbjct: 327 SRVLIST 333

>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 = 86.7 bits (213), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 44/127 (34%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9   LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
           LP   Q++L SAT P  +     K + DP  I +  +ELTL+G+ Q++  V+ E  K   
Sbjct: 208 LPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 267
Query: 67  LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
           L  L+  L I Q++IFCN+ ++V+ L +K+ E  +    +H  M Q  R  +  +FRSG 
Sbjct: 268 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 327
Query: 127 CRNLVCS 133
            R L+ +
Sbjct: 328 SRVLIST 334

>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii Length = 391

Iteration: 1
 Score = 86.7 bits (213), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 44/127 (34%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9   LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
           LP   Q++L SAT P  +     K + DP  I +  +ELTL+G+ Q++  V+ E  K   
Sbjct: 186 LPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 245
Query: 67  LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
           L  L+  L I Q++IFCN+ ++V+ L +K+ E  +    +H  M Q  R  +  +FRSG 
Sbjct: 246 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 305
Query: 127 CRNLVCS 133
            R L+ +
Sbjct: 306 SRVLIST 312

>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0 A Resolution Length = 374

Iteration: 1
 Score = 86.3 bits (212), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 44/127 (34%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 9   LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHC 66
           LP   Q++L SAT P  +     K + DP  I +  +ELTL+G+ Q++  V+ E  K   
Sbjct: 171 LPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDT 230
Query: 67  LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
           L  L+  L I Q++IFCN+ ++V+ L +K+ E  +    +H  M Q  R  +  +FRSG 
Sbjct: 231 LCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGA 290
Query: 127 CRNLVCS 133
            R L+ +
Sbjct: 291 SRVLIST 297

>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a Length = 394

Iteration: 1
 Score = 85.9 bits (211), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 43/132 (32%), Positives = 75/132 (56%), Gaps = 2/132 (1%)
Query: 4   HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQ 62
            + ++LP   Q++L SAT P  V     K  ++P  I +  +ELTL+G+ Q+Y  V+E +
Sbjct: 185 QIFTLLPPTTQVVLLSATXPNDVLEVTTKFXRNPVRILVKKDELTLEGIKQFYVNVEEEE 244
Query: 63  -KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
            K  CL  L+  + + Q++IFCN+ ++VE L  K+    +    I++ + Q  R+ +  +
Sbjct: 245 YKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKE 304
Query: 122 FRSGLCRNLVCS 133
           FRSG  R L+ +
Sbjct: 305 FRSGSSRILIST 316

>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a Length = 414

Iteration: 1
 Score = 80.5 bits (197), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 43/122 (35%), Positives = 70/122 (57%), Gaps = 2/122 (1%)
Query: 14  QILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQ-ERQKVHCLNTLF 71
           Q++L SAT P  V    +K ++DP  I +  EELTL+G+ Q+Y  V+ E  K+  L  L+
Sbjct: 216 QVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLY 275
Query: 72  SKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLV 131
             L I Q++IF N+ ++V+ L +K+    +    +H  M Q  R+ +  +FRSG  R L+
Sbjct: 276 ETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLI 335
Query: 132 CS 133
            +
Sbjct: 336 TT 337

>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex Length = 388

Iteration: 1
 Score = 80.1 bits (196), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 43/122 (35%), Positives = 70/122 (57%), Gaps = 2/122 (1%)
Query: 14  QILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQ-ERQKVHCLNTLF 71
           Q++L SAT P  V    +K ++DP  I +  EELTL+G+ Q+Y  V+ E  K+  L  L+
Sbjct: 190 QVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLY 249
Query: 72  SKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLV 131
             L I Q++IF N+ ++V+ L +K+    +    +H  M Q  R+ +  +FRSG  R L+
Sbjct: 250 ETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLI 309
Query: 132 CS 133
            +
Sbjct: 310 TT 311

>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56 Length = 390

Iteration: 1
 Score = 74.7 bits (182), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 43/132 (32%), Positives = 69/132 (52%), Gaps = 2/132 (1%)
Query: 4   HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE--LTLKGVTQYYAFVQER 61
            +  + PHE+Q++++SAT    ++    K ++DP EI + +E  LTL G+ QYY  +++ 
Sbjct: 175 EIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDN 234
Query: 62  QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
           +K   L  L   L+ NQ +IF  S QR   LA+ + E  +    IH  M Q  R   +  
Sbjct: 235 EKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQ 294
Query: 122 FRSGLCRNLVCS 133
           F+    R LV +
Sbjct: 295 FKDFQRRILVAT 306

>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp Length = 386

Iteration: 1
 Score = 74.3 bits (181), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 43/132 (32%), Positives = 69/132 (52%), Gaps = 2/132 (1%)
Query: 4   HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE--LTLKGVTQYYAFVQER 61
            +  + PHE+Q++++SAT    ++    K ++DP EI + +E  LTL G+ QYY  +++ 
Sbjct: 176 EIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDN 235
Query: 62  QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
           +K   L  L   L+ NQ +IF  S QR   LA+ + E  +    IH  M Q  R   +  
Sbjct: 236 EKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQ 295
Query: 122 FRSGLCRNLVCS 133
           F+    R LV +
Sbjct: 296 FKDFQRRILVAT 307

>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56 Length = 391

Iteration: 1
 Score = 74.3 bits (181), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 43/132 (32%), Positives = 69/132 (52%), Gaps = 2/132 (1%)
Query: 4   HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE--LTLKGVTQYYAFVQER 61
            +  + PHE+Q++++SAT    ++    K ++DP EI + +E  LTL G+ QYY  +++ 
Sbjct: 176 EIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDN 235
Query: 62  QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
           +K   L  L   L+ NQ +IF  S QR   LA+ + E  +    IH  M Q  R   +  
Sbjct: 236 EKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQ 295
Query: 122 FRSGLCRNLVCS 133
           F+    R LV +
Sbjct: 296 FKDFQRRILVAT 307

>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex With The Dead- Box Helicase Ddx19 Length = 479

Iteration: 1
 Score = 68.9 bits (167), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 43/128 (33%), Positives = 66/128 (51%), Gaps = 2/128 (1%)
Query: 8   ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVH 65
           +LP   Q+LL+SATF  +V  F +K + DP  I L  EE TL  + QYY     R +K  
Sbjct: 263 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQ 322
Query: 66  CLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
            L  L+  + I Q++IFC++ +    LA ++++ G+    +   M    R  V   FR G
Sbjct: 323 ALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG 382
Query: 126 LCRNLVCS 133
             + LV +
Sbjct: 383 KEKVLVTT 390

>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An Atp-analogue And Rna Length = 424

Iteration: 1
 Score = 68.9 bits (167), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 43/128 (33%), Positives = 66/128 (51%), Gaps = 2/128 (1%)
Query: 8   ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVH 65
           +LP   Q+LL+SATF  +V  F +K + DP  I L  EE TL  + QYY     R +K  
Sbjct: 212 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQ 271
Query: 66  CLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
            L  L+  + I Q++IFC++ +    LA ++++ G+    +   M    R  V   FR G
Sbjct: 272 ALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG 331
Query: 126 LCRNLVCS 133
             + LV +
Sbjct: 332 KEKVLVTT 339

>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp Length = 445

Iteration: 1
 Score = 68.9 bits (167), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 43/128 (33%), Positives = 66/128 (51%), Gaps = 2/128 (1%)
Query: 8   ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVH 65
           +LP   Q+LL+SATF  +V  F +K + DP  I L  EE TL  + QYY     R +K  
Sbjct: 233 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQ 292
Query: 66  CLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
            L  L+  + I Q++IFC++ +    LA ++++ G+    +   M    R  V   FR G
Sbjct: 293 ALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG 352
Query: 126 LCRNLVCS 133
             + LV +
Sbjct: 353 KEKVLVTT 360

>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And Rna Length = 412

Iteration: 1
 Score = 68.9 bits (167), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 43/128 (33%), Positives = 66/128 (51%), Gaps = 2/128 (1%)
Query: 8   ILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQER-QKVH 65
           +LP   Q+LL+SATF  +V  F +K + DP  I L  EE TL  + QYY     R +K  
Sbjct: 196 MLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQ 255
Query: 66  CLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG 125
            L  L+  + I Q++IFC++ +    LA ++++ G+    +   M    R  V   FR G
Sbjct: 256 ALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREG 315
Query: 126 LCRNLVCS 133
             + LV +
Sbjct: 316 KEKVLVTT 323

>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast Eif4a Length = 165

Iteration: 1
 Score = 64.3 bits (155), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 28/88 (31%), Positives = 51/88 (57%), Gaps = 1/88 (1%)
Query: 48  LKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYI 106
           L+G+ Q+Y  V+E + K  CL  L+  + + Q++IFCN+ ++VE L  K+    +    I
Sbjct: 1   LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60
Query: 107 HARMAQAHRNRVFHDFRSGLCRNLVCSG 134
           ++ + Q  R+ +  +FRSG  R L+ + 
Sbjct: 61  YSDLPQQERDTIMKEFRSGSSRILISTD 88

>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3 Length = 395

Iteration: 1
 Score = 59.3 bits (142), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 34/127 (26%), Positives = 62/127 (48%), Gaps = 2/127 (1%)
Query: 9   LPHERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQ-ERQKVHC 66
           LP + Q++L+SATF   V+ + +K + +   + L   E+ +  + Q Y   + E  K   
Sbjct: 174 LPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDV 233
Query: 67  LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
           L  L+  + I  SIIF  + +   +L  K+   G+    +H  +    R+R+  DFR G 
Sbjct: 234 LTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGR 293
Query: 127 CRNLVCS 133
            + L+ +
Sbjct: 294 SKVLITT 300

>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3 Length = 395

Iteration: 1
 Score = 58.9 bits (141), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 34/127 (26%), Positives = 62/127 (48%), Gaps = 2/127 (1%)
Query: 9   LPHERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQ-ERQKVHC 66
           LP + Q++L+SATF   V+ + +K + +   + L   E+ +  + Q Y   + E  K   
Sbjct: 174 LPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDV 233
Query: 67  LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL 126
           L  L+  + I  SIIF  + +   +L  K+   G+    +H  +    R+R+  DFR G 
Sbjct: 234 LTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGR 293
Query: 127 CRNLVCS 133
            + L+ +
Sbjct: 294 SKVLITT 300

>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A Human Dead-Box Protein Length = 206

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 25/41 (60%), Positives = 32/41 (78%)
Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEIN 41
           +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEIN
Sbjct: 166 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEIN 206

>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The Hyperthermophile Methanococcus Jannaschii Length = 367

Iteration: 1
 Score = 48.9 bits (115), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 29/132 (21%), Positives = 64/132 (48%), Gaps = 4/132 (3%)
Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQER 61
           ++ +++    +++ILL+SAT P  + N  +K+  D    + ++      + Q Y  V E 
Sbjct: 168 VEKILNACNKDKRILLFSATXPREILNLAKKYXGD---YSFIKAKINANIEQSYVEVNEN 224
Query: 62  QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHD 121
           ++   L  L    +    ++FC + +  + LA  + ++G+    IH  ++Q+ R +V   
Sbjct: 225 ERFEALCRLLKNKEF-YGLVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRL 283
Query: 122 FRSGLCRNLVCS 133
           F+    R L+ +
Sbjct: 284 FKQKKIRILIAT 295

>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The Bacillus Subtilis Yxin Protein Length = 163

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 27/88 (30%), Positives = 41/88 (46%)
Query: 46  LTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYY 105
           LT + +      V+E  K   L  +      +  IIFC + + V  L  ++ +LGY C  
Sbjct: 5   LTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDK 64
Query: 106 IHARMAQAHRNRVFHDFRSGLCRNLVCS 133
           IH  M Q  R  V ++F+ G  R LV +
Sbjct: 65  IHGGMIQEDRFDVMNEFKRGEYRYLVAT 92

>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x Length = 417

Iteration: 1
 Score = 46.2 bits (108), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 32/124 (25%), Positives = 58/124 (46%), Gaps = 4/124 (3%)
Query: 13  RQILLYSATFPLTVKNFMEKHLKDPYEINLMEEL--TLKGVTQYYAFVQERQK-VHCLNT 69
           R  +++SATFP  ++  + +   D Y    +  +  T + +TQ   +V+E  K    L+ 
Sbjct: 211 RHTMMFSATFPKEIQ-MLARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDL 269
Query: 70  LFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRN 129
           L +  + + +++F  + +  + L   +   GY C  IH   +Q  R    H FRSG    
Sbjct: 270 LNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPI 329
Query: 130 LVCS 133
           LV +
Sbjct: 330 LVAT 333

>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56 Length = 172

Iteration: 1
 Score = 45.8 bits (107), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 28/87 (32%), Positives = 42/87 (48%)
Query: 47  TLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYI 106
           +L G+ QYY  +++ +K   L  L   L+ NQ +IF  S QR   LA+ + E  +    I
Sbjct: 2   SLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61
Query: 107 HARMAQAHRNRVFHDFRSGLCRNLVCS 133
           H  M Q  R   +  F+    R LV +
Sbjct: 62  HRGMPQEERLSRYQQFKDFQRRILVAT 88

>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 = 45.4 bits (106), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 20/73 (27%), Positives = 36/73 (49%)
Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           R ++  L+ L      +++++F  +    E +A+ +  LG+    +H  M+Q  R RV  
Sbjct: 13  RGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMG 72
Query: 121 DFRSGLCRNLVCS 133
            FR G  R LV +
Sbjct: 73  AFRQGEVRVLVAT 85

>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 = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 19/73 (26%), Positives = 36/73 (49%)
Query: 61  RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH 120
           R ++  L+ L      +++++F  +    E +A+ +  LG+    +H  ++Q  R RV  
Sbjct: 16  RGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLG 75
Query: 121 DFRSGLCRNLVCS 133
            FR G  R LV +
Sbjct: 76  AFRQGEVRVLVAT 88

>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p Length = 187

Iteration: 1
 Score = 42.7 bits (99), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 1/90 (1%)
Query: 45  ELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 103
           E+ +  + Q Y   + E  K   L  L+  + I  SIIF  + +   +L  K+   G+  
Sbjct: 3   EVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEV 62
Query: 104 YYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
             +H  +    R+R+  DFR G  + L+ +
Sbjct: 63  SILHGDLQTQERDRLIDDFREGRSKVLITT 92

>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1 H337r And Ip6 Length = 188

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/90 (25%), Positives = 40/90 (44%), Gaps = 1/90 (1%)
Query: 45  ELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 103
           E+ +  + Q Y   + E  K   L  L+    I  SIIF  + +   +L  K+   G+  
Sbjct: 4   EVNVDAIKQLYXDCKNEADKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHEV 63
Query: 104 YYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
             +H  +    R+R+  DFR G  + L+ +
Sbjct: 64  SILHGDLQTQERDRLIDDFREGRSKVLITT 93

>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25 Rna Helicase Length = 175

Iteration: 1
 Score = 42.0 bits (97), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/89 (24%), Positives = 42/89 (47%), Gaps = 1/89 (1%)
Query: 46  LTLKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCY 104
           LTL  + QYY   + R+ K   L  ++  + I Q+IIFC + +  + L  ++ + G+   
Sbjct: 3   LTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVS 62
Query: 105 YIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
            +   +    R  +   FR G  + L+ +
Sbjct: 63  LLSGELTVEQRASIIQRFRDGKEKVLITT 91

>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein Dbp5 Length = 189

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/90 (25%), Positives = 40/90 (44%), Gaps = 1/90 (1%)
Query: 45  ELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 103
           E+ +  + Q Y   + E  K   L  L+    I  SIIF  + +   +L  K+   G+  
Sbjct: 5   EVNVDAIKQLYXDCKNEADKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHEV 64
Query: 104 YYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
             +H  +    R+R+  DFR G  + L+ +
Sbjct: 65  SILHGDLQTQERDRLIDDFREGRSKVLITT 94

>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein Drosophila Vasa Length = 434

Iteration: 1
 Score = 40.8 bits (94), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 31/127 (24%), Positives = 60/127 (47%), Gaps = 2/127 (1%)
Query: 12  ERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCLNTL 70
           E Q L++SATFP  ++    + LK+   + + +       V Q    V +  K   L  +
Sbjct: 236 EHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEI 295
Query: 71  FSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNL 130
            S+ Q + +I+F  + +  + LA  ++E  +    IH    Q+ R +   DF++G  + L
Sbjct: 296 LSE-QADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVL 354
Query: 131 VCSGDSS 137
           + +  +S
Sbjct: 355 IATSVAS 361

>pdb|2JGN|A Chain A, Ddx3 Helicase Domain Length = 185

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 1/88 (1%)
Query: 47  TLKGVTQYYAFVQERQK-VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYY 105
           T + +TQ   +V+E  K    L+ L +  + + +++F  + +  + L   +   GY C  
Sbjct: 16  TSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS 75
Query: 106 IHARMAQAHRNRVFHDFRSGLCRNLVCS 133
           IH   +Q  R    H FRSG    LV +
Sbjct: 76  IHGDRSQRDREEALHQFRSGKSPILVAT 103

>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1 Length = 207

Iteration: 1
 Score = 39.3 bits (90), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 28/43 (65%)
Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME 44
           ++ ++S  P  RQ LL+SAT P   K   E+++K+P  IN+++
Sbjct: 165 VEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINVIK 207

>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form Length = 207

Iteration: 1
 Score = 39.3 bits (90), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 28/43 (65%)
Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME 44
           ++ ++S  P  RQ LL+SAT P   K   E+++K+P  IN+++
Sbjct: 165 VEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINVIK 207

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	140
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	9e-72
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	1e-63
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	1e-63
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	4e-62
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	5e-62
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	7e-54
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	6e-51
1t5i_A	172	C_terminal domain of A probable ATP-dependent RNA	4e-42
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	1e-39
2rb4_A	175	ATP-dependent RNA helicase DDX25; rossmann fold, s	6e-39
1fuk_A	165	Eukaryotic initiation factor 4A; helicase, DEAD-bo	9e-38
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	4e-35
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	5e-25
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	7e-25
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	3e-24
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	5e-24
2hjv_A	163	ATP-dependent RNA helicase DBPA; parallel alpha-be	1e-23
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	5e-20
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	4e-19
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	1e-16
2yjt_D	170	ATP-dependent RNA helicase SRMB, regulator of ribo	2e-14
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	8e-14
3eaq_A	212	Heat resistant RNA dependent ATPase; DEAD box RNA	5e-13
3i32_A	300	Heat resistant RNA dependent ATPase; RNA helicase,	1e-12
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	2e-12
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	2e-12
2p6n_A	191	ATP-dependent RNA helicase DDX41; DEAD, structural	1e-11
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	1e-10
2jgn_A	185	DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosp	5e-10
3bor_A	237	Human initiation factor 4A-II; translation initiat	2e-09
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	6e-08
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	7e-08
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	2e-07
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	3e-07
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	3e-07
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	8e-07
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	1e-06
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	5e-06
2v1x_A	591	ATP-dependent DNA helicase Q1; DNA strand annealin	1e-04
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	2e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	3e-04

>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 =  218 bits (559), Expect = 9e-72
 Identities = 102/141 (72%), Positives = 112/141 (79%), Gaps = 8/141 (5%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVT 52
           ML          ++S LP   Q LL+SATFPLTVK FM KHL  PYEINLMEELTLKG+T
Sbjct: 175 MLSRDFKTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGIT 234

Query: 53  QYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQ 112
           QYYAFV+ERQK+HCLNTLFSKLQINQ+IIFCNST RVELLAKKIT+LGY CYY HARM Q
Sbjct: 235 QYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQ 294

Query: 113 AHRNRVFHDFRSGLCRNLVCS 133
             RN+VFH+FR G  R LVCS
Sbjct: 295 QERNKVFHEFRQGKVRTLVCS 315

>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 =  198 bits (505), Expect = 1e-63
 Identities = 45/143 (31%), Positives = 78/143 (54%), Gaps = 10/143 (6%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGV 51
           ML          + ++LP   Q++L SAT P  V     K +++P  I +  +ELTL+G+
Sbjct: 174 MLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGI 233

Query: 52  TQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM 110
            Q+Y  V+E + K  CL  L+  + + Q++IFCN+ ++VE L  K+    +    I++ +
Sbjct: 234 KQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDL 293

Query: 111 AQAHRNRVFHDFRSGLCRNLVCS 133
            Q  R+ +  +FRSG  R L+ +
Sbjct: 294 PQQERDTIMKEFRSGSSRILIST 316

>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 =  198 bits (506), Expect = 1e-63
 Identities = 46/143 (32%), Positives = 74/143 (51%), Gaps = 10/143 (6%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGV 51
           ML          +   L    Q++L SAT P  V    +K ++DP  I +  EELTL+G+
Sbjct: 195 MLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGI 254

Query: 52  TQYYAFV-QERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM 110
            Q+Y  V +E  K+  L  L+  L I Q++IF N+ ++V+ L +K+    +    +H  M
Sbjct: 255 RQFYINVEREEWKLDTLCDLYETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDM 314

Query: 111 AQAHRNRVFHDFRSGLCRNLVCS 133
            Q  R+ +  +FRSG  R L+ +
Sbjct: 315 DQKERDVIMREFRSGSSRVLITT 337

>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 =  194 bits (496), Expect = 4e-62
 Identities = 47/143 (32%), Positives = 74/143 (51%), Gaps = 10/143 (6%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGV 51
           ML+         V   LP   Q++L SAT P  +     K + DP  I +  +ELTL+G+
Sbjct: 191 MLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGI 250

Query: 52  TQYYAFV-QERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM 110
            Q++  V +E  K   L  L+  L I Q++IFCN+ ++V+ L +K+ E  +    +H  M
Sbjct: 251 KQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDM 310

Query: 111 AQAHRNRVFHDFRSGLCRNLVCS 133
            Q  R  +  +FRSG  R L+ +
Sbjct: 311 PQKERESIMKEFRSGASRVLIST 333

>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 =  193 bits (494), Expect = 5e-62
 Identities = 42/131 (32%), Positives = 69/131 (52%), Gaps = 2/131 (1%)

Query: 5   VISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME--ELTLKGVTQYYAFVQERQ 62
           +  + PHE+Q++++SAT    ++    K ++DP EI + +  +LTL G+ QYY  +++ +
Sbjct: 177 IFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNE 236

Query: 63  KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDF 122
           K   L  L   L+ NQ +IF  S QR   LA+ + E  +    IH  M Q  R   +  F
Sbjct: 237 KNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQF 296

Query: 123 RSGLCRNLVCS 133
           +    R LV +
Sbjct: 297 KDFQRRILVAT 307

>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 =  175 bits (445), Expect = 7e-54
 Identities = 44/144 (30%), Positives = 69/144 (47%), Gaps = 11/144 (7%)

Query: 1   MLDH---------VISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKG 50
           M+           +  +LP   Q+LL+SATF  +V  F +K + DP  I L  EE TL  
Sbjct: 247 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDT 306

Query: 51  VTQYYAFVQER-QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHAR 109
           + QYY     R +K   L  L+  + I Q++IFC++ +    LA ++++ G+    +   
Sbjct: 307 IKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGE 366

Query: 110 MAQAHRNRVFHDFRSGLCRNLVCS 133
           M    R  V   FR G  + LV +
Sbjct: 367 MMVEQRAAVIERFREGKEKVLVTT 390

>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 =  165 bits (421), Expect = 6e-51
 Identities = 44/143 (30%), Positives = 68/143 (47%), Gaps = 11/143 (7%)

Query: 1   MLD---------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKG 50
           M+           +  +LP   Q+LL+SATF  +V  F +K + DP  I L  EE TL  
Sbjct: 180 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDT 239

Query: 51  VTQYYAFVQER-QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHAR 109
           + QYY     R +K   L  L+  + I Q++IFC++ +    LA ++++ G+    +   
Sbjct: 240 IKQYYVLCSSRDEKFQALCNLYGAITIAQAMIFCHTRKTASWLAAELSKEGHQVALLSGE 299

Query: 110 MAQAHRNRVFHDFRSGLCRNLVC 132
           M    R  V   FR G  + LV 
Sbjct: 300 MMVEQRAAVIERFREGKEKVLVT 322

>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 =  136 bits (345), Expect = 4e-42
 Identities = 28/87 (32%), Positives = 42/87 (48%)

Query: 47  TLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYI 106
           +L G+ QYY  +++ +K   L  L   L+ NQ +IF  S QR   LA+ + E  +    I
Sbjct: 2   SLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI 61

Query: 107 HARMAQAHRNRVFHDFRSGLCRNLVCS 133
           H  M Q  R   +  F+    R LV +
Sbjct: 62  HRGMPQEERLSRYQQFKDFQRRILVAT 88

>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 =  128 bits (324), Expect = 6e-39
 Identities = 22/90 (24%), Positives = 42/90 (46%), Gaps = 1/90 (1%)

Query: 45  ELTLKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 103
            LTL  + QYY   + R+ K   L  ++  + I Q+IIFC + +  + L  ++ + G+  
Sbjct: 2   MLTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQV 61

Query: 104 YYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
             +   +    R  +   FR G  + L+ +
Sbjct: 62  SLLSGELTVEQRASIIQRFRDGKEKVLITT 91

>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein, translation; 1.75A {Saccharomyces cerevisiae} SCOP: c.37.1.19 Length = 165

 Score =  124 bits (315), Expect = 9e-38
 Identities = 28/87 (32%), Positives = 51/87 (58%), Gaps = 1/87 (1%)

Query: 48  LKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYI 106
           L+G+ Q+Y  V+E + K  CL  L+  + + Q++IFCN+ ++VE L  K+    +    I
Sbjct: 1   LEGIKQFYVNVEEEEYKYECLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI 60

Query: 107 HARMAQAHRNRVFHDFRSGLCRNLVCS 133
           ++ + Q  R+ +  +FRSG  R L+ +
Sbjct: 61  YSDLPQQERDTIMKEFRSGSSRILIST 87

>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 =  124 bits (313), Expect = 4e-35
 Identities = 38/142 (26%), Positives = 65/142 (45%), Gaps = 11/142 (7%)

Query: 1   MLDH---------VISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKG 50
           MLD          V   LP + Q++L+SATF   V+ + +K + +   + L   E+ +  
Sbjct: 157 MLDQQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDA 216

Query: 51  VTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHAR 109
           + Q Y   + E  K   L  L+  + I  SIIF  + +   +L  K+   G+    +H  
Sbjct: 217 IKQLYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGD 276

Query: 110 MAQAHRNRVFHDFRSGLCRNLV 131
           +    R+R+  DFR G  + L+
Sbjct: 277 LQTQERDRLIDDFREGRSKVLI 298

>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 = 96.4 bits (241), Expect = 5e-25
 Identities = 33/139 (23%), Positives = 64/139 (46%), Gaps = 12/139 (8%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVT 52
           ML+         +++    +++ILL+SAT P  + N  +K++ D   I          + 
Sbjct: 159 MLNMGFIKDVEKILNACNKDKRILLFSATMPREILNLAKKYMGDYSFIKAK---INANIE 215

Query: 53  QYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQ 112
           Q Y  V E ++   L  L  K +    ++FC + +  + LA  + ++G+    IH  ++Q
Sbjct: 216 QSYVEVNENERFEALCRLL-KNKEFYGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQ 274

Query: 113 AHRNRVFHDFRSGLCRNLV 131
           + R +V   F+    R L+
Sbjct: 275 SQREKVIRLFKQKKIRILI 293

>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 = 97.6 bits (243), Expect = 7e-25
 Identities = 26/153 (16%), Positives = 49/153 (32%), Gaps = 21/153 (13%)

Query: 2   LDHVISILPHER-------QILLYSATFPLTVKNFMEKHLKDPYEI-----NLMEELTLK 49
           L+ +  IL  +        + LL+SAT    V+      +     +     +  E    +
Sbjct: 196 LETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHE 255

Query: 50  GVTQYYAFVQERQKVHCLNTLFSKLQI------NQSIIFCNSTQRVELLA---KKITELG 100
            + Q     ++            K QI       ++IIF  + +    L    K   +  
Sbjct: 256 RIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD 315

Query: 101 YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
                 H ++ Q  R  +   F+      LVC+
Sbjct: 316 LPILEFHGKITQNKRTSLVKRFKKDESGILVCT 348

>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 = 96.0 bits (239), Expect = 3e-24
 Identities = 26/153 (16%), Positives = 49/153 (32%), Gaps = 21/153 (13%)

Query: 2   LDHVISILPHER-------QILLYSATFPLTVKNFMEKHLKDPYEI-----NLMEELTLK 49
           L+ +  IL  +        + LL+SAT    V+      +     +     +  E    +
Sbjct: 247 LETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHE 306

Query: 50  GVTQYYAFVQERQKVHCLNTLFSKLQI------NQSIIFCNSTQRVELLA---KKITELG 100
            + Q     ++            K QI       ++IIF  + +    L    K   +  
Sbjct: 307 RIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKD 366

Query: 101 YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
                 H ++ Q  R  +   F+      LVC+
Sbjct: 367 LPILEFHGKITQNKRTSLVKRFKKDESGILVCT 399

>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 = 93.7 bits (234), Expect = 5e-24
 Identities = 24/139 (17%), Positives = 51/139 (36%), Gaps = 16/139 (11%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVT 52
           M +         +++   + +   L+SAT P  ++  ++  + +  EI     + L  V 
Sbjct: 141 MFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITNYEEIEA--CIGLANVE 198

Query: 53  QYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQ 112
             +  V++  +         + +    I+F  +  RV  L +           +   + Q
Sbjct: 199 HKFVHVKDDWRSKVQ--ALRENKDKGVIVFVRTRNRVAKLVRL----FDNAIELRGDLPQ 252

Query: 113 AHRNRVFHDFRSGLCRNLV 131
           + RNR    FR G    L+
Sbjct: 253 SVRNRNIDAFREGEYDMLI 271

>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase; 1.95A {Bacillus subtilis} Length = 163

 Score = 89.1 bits (222), Expect = 1e-23
 Identities = 27/88 (30%), Positives = 40/88 (45%)

Query: 44  EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCC 103
             LT + +      V+E  K   L  +      +  IIFC + + V  L  ++ +LGY C
Sbjct: 3   AGLTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPC 62

Query: 104 YYIHARMAQAHRNRVFHDFRSGLCRNLV 131
             IH  M Q  R  V ++F+ G  R LV
Sbjct: 63  DKIHGGMIQEDRFDVMNEFKRGEYRYLV 90

>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 = 83.4 bits (207), Expect = 5e-20
 Identities = 30/124 (24%), Positives = 58/124 (46%), Gaps = 2/124 (1%)

Query: 9   LPHERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCL 67
           +  E Q L++SATFP  ++    + LK+   + + +       V Q    V +  K   L
Sbjct: 233 MRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKL 292

Query: 68  NTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLC 127
             + S+ Q + +I+F  + +  + LA  ++E  +    IH    Q+ R +   DF++G  
Sbjct: 293 IEILSE-QADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSM 351

Query: 128 RNLV 131
           + L+
Sbjct: 352 KVLI 355

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens} Length = 417

 Score = 81.0 bits (201), Expect = 4e-19
 Identities = 31/122 (25%), Positives = 52/122 (42%), Gaps = 2/122 (1%)

Query: 12  ERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLKGVTQYYAFVQERQKVHCLNTL 70
            R  +++SATFP  ++      L +   + +     T + +TQ   +V+E  K   L  L
Sbjct: 210 VRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDL 269

Query: 71  FSKLQINQS-IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRN 129
            +    +   ++F  + +  + L   +   GY C  IH   +Q  R    H FRSG    
Sbjct: 270 LNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPI 329

Query: 130 LV 131
           LV
Sbjct: 330 LV 331

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A* Length = 414

 Score = 74.4 bits (183), Expect = 1e-16
 Identities = 18/163 (11%), Positives = 46/163 (28%), Gaps = 39/163 (23%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEIN----------- 41
           +L          ++  +P E     +S      +    +        ++           
Sbjct: 151 VLKASRNIDTLLMMVGIPEEIIRKAFSTIKQGKIYERPKNLKPGILVVSSATAKPRGIRP 210

Query: 42  -LMEEL----------TLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVE 90
            L  +L            + +T      + ++K+  L  +F        +IF  + +  +
Sbjct: 211 LLFRDLLNFTVGRLVSVARNITHVRISSRSKEKLVELLEIFRD----GILIFAQTEEEGK 266

Query: 91  LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
            L + +          +     +   + F DF+ G    L+  
Sbjct: 267 ELYEYLKRFK-----FNVGETWSEFEKNFEDFKVGKINILIGV 304

>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 = 65.7 bits (161), Expect = 2e-14
 Identities = 23/84 (27%), Positives = 33/84 (39%), Gaps = 1/84 (1%)

Query: 49  KGVTQYYAFVQER-QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIH 107
           K + Q+Y    +   K   L  L  + +  +SI+F    +RV  LA  + E G    Y+ 
Sbjct: 2   KKIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLE 61

Query: 108 ARMAQAHRNRVFHDFRSGLCRNLV 131
             M Q  RN        G    LV
Sbjct: 62  GEMVQGKRNEAIKRLTEGRVNVLV 85

>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 = 64.5 bits (158), Expect = 8e-14
 Identities = 25/40 (62%), Positives = 31/40 (77%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEIN 41
           ++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEIN
Sbjct: 167 MEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEIN 206

>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 = 62.3 bits (152), Expect = 5e-13
 Identities = 19/81 (23%), Positives = 36/81 (44%)

Query: 51  VTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM 110
             +       R ++  L+ L      +++++F  +    E +A+ +  LG+    +H  +
Sbjct: 6   YEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDL 65

Query: 111 AQAHRNRVFHDFRSGLCRNLV 131
           +Q  R RV   FR G  R LV
Sbjct: 66  SQGERERVLGAFRQGEVRVLV 86

>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 = 62.1 bits (151), Expect = 1e-12
 Identities = 20/81 (24%), Positives = 36/81 (44%)

Query: 51  VTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM 110
             +       R ++  L+ L      +++++F  +    E +A+ +  LG+    +H  M
Sbjct: 3   YEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDM 62

Query: 111 AQAHRNRVFHDFRSGLCRNLV 131
           +Q  R RV   FR G  R LV
Sbjct: 63  SQGERERVMGAFRQGEVRVLV 83

>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 = 61.7 bits (150), Expect = 2e-12
 Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 9/54 (16%)

Query: 1   MLDH---------VISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE 45
           M+           +  +LP   Q+LL+SATF  +V  F +K + DP  I L  E
Sbjct: 247 MIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKRE 300

>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 = 61.1 bits (149), Expect = 2e-12
 Identities = 14/41 (34%), Positives = 26/41 (63%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINL 42
           ++ + S LP  +Q+L  SAT+P  + N + K+++DP  + L
Sbjct: 188 INWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRL 228

>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; 2.60A {Homo sapiens} Length = 191

 Score = 58.4 bits (142), Expect = 1e-11
 Identities = 24/110 (21%), Positives = 35/110 (31%), Gaps = 9/110 (8%)

Query: 30  MEKHLKDPYEINLMEELTLKG--------VTQYYAFVQERQKVHCLNTLFSKLQINQSII 81
           M  H      ++L  E             V Q   +V+E  K+  L     K      +I
Sbjct: 1   MHHHHHHSSGVDLGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKTP-PPVLI 59

Query: 82  FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLV 131
           F      V+ + + +   G     IH    Q  R +    FR G    LV
Sbjct: 60  FAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLV 109

>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 = 56.4 bits (137), Expect = 1e-10
 Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 9/58 (15%)

Query: 1   MLDH--------VISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINL-MEELTLK 49
           ML          + ++LP   Q++L SAT P  V     K +++P  I +  +ELTL+
Sbjct: 167 MLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLE 224

>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 = 53.7 bits (130), Expect = 5e-10
 Identities = 23/82 (28%), Positives = 36/82 (43%), Gaps = 1/82 (1%)

Query: 51  VTQYYAFVQERQKVHCLNTLFSKLQINQ-SIIFCNSTQRVELLAKKITELGYCCYYIHAR 109
           +TQ   +V+E  K   L  L +    +  +++F  + +  + L   +   GY C  IH  
Sbjct: 20  ITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGD 79

Query: 110 MAQAHRNRVFHDFRSGLCRNLV 131
            +Q  R    H FRSG    LV
Sbjct: 80  RSQRDREEALHQFRSGKSPILV 101

>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 = 53.0 bits (128), Expect = 2e-09
 Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 8/53 (15%)

Query: 1   MLDH--------VISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE 45
           ML          +   L    Q++L SAT P  V    +K ++DP  I + +E
Sbjct: 185 MLSRGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILVKKE 237

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19 Length = 219

 Score = 48.7 bits (117), Expect = 6e-08
 Identities = 14/48 (29%), Positives = 29/48 (60%), Gaps = 8/48 (16%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEI 40
           MLD         + + +P + Q+L++SAT P  +K F++K++++P  +
Sbjct: 162 MLDMGFITDVDQIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTFV 209

>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 = 48.3 bits (116), Expect = 7e-08
 Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 8/48 (16%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEI 40
           ML          ++S  P  RQ LL+SAT P   K   E+++K+P  I
Sbjct: 156 MLSMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLI 203

>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 = 46.8 bits (112), Expect = 2e-07
 Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 3/43 (6%)

Query: 1   MLDHVISIL---PHERQILLYSATFPLTVKNFMEKHLKDPYEI 40
           M   V  I    PHE+Q++++SAT    ++    K ++DP EI
Sbjct: 176 MRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEI 218

>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 = 46.8 bits (112), Expect = 3e-07
 Identities = 17/44 (38%), Positives = 27/44 (61%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE 45
           ++ VI  LP +RQ LL+SAT   +VK+     LK+P  + + E+
Sbjct: 192 MNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWVHEK 235

>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 = 46.8 bits (112), Expect = 3e-07
 Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 8/49 (16%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEIN 41
           MLD         ++  +  +RQ ++ SAT+P TV+     +LKDP  + 
Sbjct: 179 MLDMEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVY 227

>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 = 45.4 bits (108), Expect = 8e-07
 Identities = 11/39 (28%), Positives = 22/39 (56%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEI 40
           +D ++ ++P +R+  L+SAT    V+      LK+P + 
Sbjct: 207 VDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKC 245

>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 = 44.8 bits (107), Expect = 1e-06
 Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 8/49 (16%)

Query: 1   MLD--------HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEIN 41
           MLD         ++  +  +RQ L++SAT+P  V+   E  LKD   IN
Sbjct: 188 MLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHIN 236

>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 = 43.3 bits (103), Expect = 5e-06
 Identities = 7/53 (13%), Positives = 22/53 (41%), Gaps = 12/53 (22%)

Query: 1   MLDH------------VISILPHERQILLYSATFPLTVKNFMEKHLKDPYEIN 41
           + +              ++   H+ +  ++SATF   V+ + + +L +   ++
Sbjct: 187 LFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVS 239

>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* Length = 591

 Score = 40.0 bits (94), Expect = 1e-04
 Identities = 17/89 (19%), Positives = 28/89 (31%), Gaps = 14/89 (15%)

Query: 38  YEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQS-IIFCNSTQRVELLAKKI 96
           YE+      T   +      +  R K              QS II+C S +  E +   +
Sbjct: 241 YEVRQKPSNTEDFIEDIVKLINGRYK-------------GQSGIIYCFSQKDSEQVTVSL 287

Query: 97  TELGYCCYYIHARMAQAHRNRVFHDFRSG 125
             LG      HA +    +  V   + + 
Sbjct: 288 QNLGIHAGAYHANLEPEDKTTVHRKWSAN 316

>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 = 38.8 bits (91), Expect = 2e-04
 Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 1/40 (2%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHL-KDPYEI 40
           L  +I +LP  RQ +L+SAT    V++     L K+P  +
Sbjct: 222 LKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPLYV 261

>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 = 38.7 bits (89), Expect = 3e-04
 Identities = 20/105 (19%), Positives = 43/105 (40%), Gaps = 15/105 (14%)

Query: 2   LDHVISILPHERQILLYSATFPL----TVKNFMEKHLKDPYEINLMEEL---TLKGVTQY 54
           +DH+I         L    T        V+ F+E+ L+  Y+  LM  +     +     
Sbjct: 51  IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKF-LMSPIKTEQRQPSMMT 109

Query: 55  YAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITEL 99
             ++++R +++  N +F+K  +++        Q    L + + EL
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRL-------QPYLKLRQALLEL 147

>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 = 38.3 bits (90), Expect = 3e-04
 Identities = 9/32 (28%), Positives = 15/32 (46%)

Query: 10  PHERQILLYSATFPLTVKNFMEKHLKDPYEIN 41
              RQ L++SATFP  ++      L +   + 
Sbjct: 207 GINRQTLMFSATFPKEIQKLAADFLYNYIFMT 238

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	140
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	99.94
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	99.92
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	99.92
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	99.92
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	99.92
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	99.92
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	99.91
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	99.91
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	99.89
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	99.88
2hjv_A	163	ATP-dependent RNA helicase DBPA; parallel alpha-be	99.88
2v1x_A	591	ATP-dependent DNA helicase Q1; DNA strand annealin	99.88
1t5i_A	172	C_terminal domain of A probable ATP-dependent RNA	99.88
2p6n_A	191	ATP-dependent RNA helicase DDX41; DEAD, structural	99.87
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	99.87
1oyw_A	523	RECQ helicase, ATP-dependent DNA helicase; winged	99.87
2rb4_A	175	ATP-dependent RNA helicase DDX25; rossmann fold, s	99.87
1fuk_A	165	Eukaryotic initiation factor 4A; helicase, DEAD-bo	99.87
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	99.86
2jgn_A	185	DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosp	99.85
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	99.85
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	99.85
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	99.83
3eaq_A	212	Heat resistant RNA dependent ATPase; DEAD box RNA	99.82
3i32_A	300	Heat resistant RNA dependent ATPase; RNA helicase,	99.82
2yjt_D	170	ATP-dependent RNA helicase SRMB, regulator of ribo	99.67
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	99.79
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	99.77
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	99.75
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	99.74
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	99.74
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	99.72
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	99.72
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	99.72
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	99.7
2d7d_A	661	Uvrabc system protein B; helicase, protein-DNA-ADP	99.7
4ddu_A	1104	Reverse gyrase; topoisomerase, DNA supercoiling, a	99.7
1c4o_A	664	DNA nucleotide excision repair enzyme UVRB; uvrabc	99.69
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	99.69
1yks_A	440	Genome polyprotein [contains: flavivirin protease	99.69
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	99.67
1gku_B	1054	Reverse gyrase, TOP-RG; topoisomerase, DNA superco	99.66
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	99.66
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	99.66
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	99.65
2wv9_A	673	Flavivirin protease NS2B regulatory subunit, FLAV	99.64
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	99.63
2ykg_A	696	Probable ATP-dependent RNA helicase DDX58; hydrola	99.63
4gl2_A	699	Interferon-induced helicase C domain-containing P;	99.63
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	99.63
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	99.62
3jux_A	822	Protein translocase subunit SECA; protein transloc	99.61
1tf5_A	844	Preprotein translocase SECA subunit; ATPase, helic	99.59
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	99.58
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	99.58
2fsf_A	853	Preprotein translocase SECA subunit; ATPase, DNA-R	99.58
3o8b_A	666	HCV NS3 protease/helicase; ntpase, RNA, translocat	99.57
4a2q_A	797	RIG-I, retinoic acid inducible protein I; hydrolas	99.55
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	99.53
1nkt_A	922	Preprotein translocase SECA 1 subunit; preprotein	99.52
3rc3_A	677	ATP-dependent RNA helicase SUPV3L1, mitochondrial;	99.52
1z5z_A	271	Helicase of the SNF2/RAD54 family; hydrolase, reco	99.48
3h1t_A	590	Type I site-specific restriction-modification syst	99.47
3dmq_A	968	RNA polymerase-associated protein RAPA; SWF2/SNF2,	99.47
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	99.47
4a2w_A	936	RIG-I, retinoic acid inducible protein I; hydrolas	99.43
1z63_A	500	Helicase of the SNF2/RAD54 hamily; protein-DNA com	99.23
1z3i_X	644	Similar to RAD54-like; recombination ATPase helica	99.14
3mwy_W	800	Chromo domain-containing protein 1; SWI2/SNF2 ATPa	99.04
2w00_A	1038	HSDR, R.ECOR124I; ATP-binding, DNA-binding, restri	98.95
4a15_A	620	XPD helicase, ATP-dependent DNA helicase TA0057; h	98.12
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	97.96
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	97.89
2ipc_A	997	Preprotein translocase SECA subunit; nucleotide bi	97.87
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	97.87
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	97.63
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	97.63
3crv_A	551	XPD/RAD3 related DNA helicase; XPD helicase DNA re	97.49
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	97.41
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	97.3
4ddu_A	1104	Reverse gyrase; topoisomerase, DNA supercoiling, a	97.22
2vl7_A	540	XPD; helicase, unknown function; 2.25A {Sulfolobus	97.22
1oyw_A	523	RECQ helicase, ATP-dependent DNA helicase; winged	97.11
2v1x_A	591	ATP-dependent DNA helicase Q1; DNA strand annealin	97.05
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	96.73
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	96.65
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	96.63
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	96.33
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	96.31
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	96.08
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	96.05
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	95.94
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	95.75
3bor_A	237	Human initiation factor 4A-II; translation initiat	95.72
1gku_B	1054	Reverse gyrase, TOP-RG; topoisomerase, DNA superco	95.7
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	95.7
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	95.67
3gk5_A	108	Uncharacterized rhodanese-related protein TVG08686	95.56
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	95.51
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	95.41
4a2q_A	797	RIG-I, retinoic acid inducible protein I; hydrolas	95.38
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	95.36
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	95.36
3foj_A	100	Uncharacterized protein; protein SSP1007, structur	95.24
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	95.2
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	95.13
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	95.07
2fsf_A	853	Preprotein translocase SECA subunit; ATPase, DNA-R	95.03
1tf5_A	844	Preprotein translocase SECA subunit; ATPase, helic	94.92
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	94.92
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	94.77
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	94.7
3eme_A	103	Rhodanese-like domain protein; alpha-beta-alpha sa	94.68
3hgt_A	328	HDA1 complex subunit 3; RECA-like domain, SWI2/SNF	94.67
2l82_A	162	Designed protein OR32; structural genomics, northe	94.61
3iwh_A	103	Rhodanese-like domain protein; alpha-beta-alpha sa	94.6
3g5j_A	134	Putative ATP/GTP binding protein; N-terminal domai	94.59
1wv9_A	94	Rhodanese homolog TT1651; CDC25, phosphatase, sulf	94.56
1nkt_A	922	Preprotein translocase SECA 1 subunit; preprotein	94.53
2ipc_A	997	Preprotein translocase SECA subunit; nucleotide bi	94.53
2jtq_A	85	Phage shock protein E; solution structure rhodanes	94.47
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	94.38
3flh_A	124	Uncharacterized protein LP_1913; alpha-beta protei	94.29
2ykg_A	696	Probable ATP-dependent RNA helicase DDX58; hydrola	94.2
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	93.91
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	93.89
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	93.81
1gmx_A	108	GLPE protein; transferase, rhodanese, sulfurtransf	93.77
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	93.48
3hix_A	106	ALR3790 protein; rhodanese, rhodanese_3, Q8YQN0, Q	93.45
4a2w_A	936	RIG-I, retinoic acid inducible protein I; hydrolas	93.36
3nhv_A	144	BH2092 protein; alpha-beta protein, structural gen	93.35
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	93.33
1qxn_A	137	SUD, sulfide dehydrogenase; polysulfide-sulfur tra	93.1
2k0z_A	110	Uncharacterized protein HP1203; A/B domain, struct	92.95
2fsx_A	148	RV0390, COG0607: rhodanese-related sulfurtransfera	92.93
4gl2_A	699	Interferon-induced helicase C domain-containing P;	92.9
1tq1_A	129	AT5G66040, senescence-associated family protein; C	92.9
3b6e_A	216	Interferon-induced helicase C domain-containing P;	92.9
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	92.58
3h11_B	271	Caspase-8; cell death, apoptosis, caspase, alterna	92.47
2hhg_A	139	Hypothetical protein RPA3614; MCSG, structural gen	92.33
2h54_A	178	Caspase-1; allosteric site, dimer interface, hydro	91.91
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	91.73
3d1p_A	139	Putative thiosulfate sulfurtransferase YOR285W; at	91.54
3ilm_A	141	ALR3790 protein; rhodanese-like, NSR437H, NESG, st	91.48
1vee_A	134	Proline-rich protein family; hypothetical protein,	91.31
4f67_A	265	UPF0176 protein LPG2838; structural genomics, PSI-	91.12
3e4c_A	302	Caspase-1; zymogen, inflammasome, ICE, IL-1B, inna	90.99
1c4o_A	664	DNA nucleotide excision repair enzyme UVRB; uvrabc	90.78
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	90.7
1qtn_A	164	Caspase-8; apoptosis, dithiane-DIOL, caspase, cyst	90.66
3hjh_A	483	Transcription-repair-coupling factor; MFD, mutatio	90.47
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	90.46
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	90.12
1pyo_A	167	Caspase-2; apoptosis, caspase, alpha-beta, thiol p	89.64
1urh_A	280	3-mercaptopyruvate sulfurtransferase; rhodanese; 2	89.53
3h11_A	272	CAsp8 and FADD-like apoptosis regulator; cell deat	89.18
2dko_A	146	Caspase-3; low barrier hydrogen bond, caspase, dru	89.05
3od5_A	278	Caspase-6; caspase domain, apoptotic protease, hyd	88.47
1m72_A	272	Caspase-1; caspase, cysteine protease, hydrolase-h	88.21
1uar_A	285	Rhodanese; sulfurtransferase, riken structural gen	87.88
2d7d_A	661	Uvrabc system protein B; helicase, protein-DNA-ADP	87.86
3sir_A	259	Caspase; hydrolase; 2.68A {Drosophila melanogaster	87.83
3p45_A	179	Caspase-6; protease, huntington'S disease, physio	87.78
2j32_A	250	Caspase-3; Pro-caspase3, thiol protease, hydrolase	87.61
3tg1_B	158	Dual specificity protein phosphatase 10; kinase/rh	87.61
3i2v_A	127	Adenylyltransferase and sulfurtransferase MOCS3; r	86.68
4fn4_A	254	Short chain dehydrogenase; NADH-binding, rossmann	86.58
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	86.38
1urh_A	280	3-mercaptopyruvate sulfurtransferase; rhodanese; 2	86.26
2fp3_A	316	Caspase NC; apoptosis, initiator caspase activatio	86.11
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	86.08
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	85.68
2ql9_A	173	Caspase-7; cysteine protease, apoptosis, thiol pro	85.53
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	85.48
1e0c_A	271	Rhodanese, sulfurtransferase; sulfur metabolism, t	85.43
2nn3_C	310	Caspase-1; cysteine protease, hydrolase; 3.00A {Sp	85.36
4ehd_A	277	Caspase-3; caspase, apoptosis, allosteric inhibiti	85.33
2eg4_A	230	Probable thiosulfate sulfurtransferase; structural	85.31
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	85.16
3hzu_A	318	Thiosulfate sulfurtransferase SSEA; niaid, ssgcid,	84.96
1nw9_B	277	Caspase 9, apoptosis-related cysteine protease; XI	84.36
1e0c_A	271	Rhodanese, sulfurtransferase; sulfur metabolism, t	84.24
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	83.88
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	83.61
2eg4_A	230	Probable thiosulfate sulfurtransferase; structural	83.42
3aay_A	277	Putative thiosulfate sulfurtransferase; sulfurtran	82.79
2j6p_A	152	SB(V)-AS(V) reductase; arsenate reductase, antimon	82.66
1uar_A	285	Rhodanese; sulfurtransferase, riken structural gen	82.3
1z63_A	500	Helicase of the SNF2/RAD54 hamily; protein-DNA com	82.15
1rhs_A	296	Sulfur-substituted rhodanese; transferase, sulfurt	82.14
2wlr_A	423	Putative thiosulfate sulfurtransferase YNJE; rhoda	81.95
1f1j_A	305	Caspase-7 protease; caspase-7, cysteine protease,	81.81
3ipz_A	109	Monothiol glutaredoxin-S14, chloroplastic; electro	81.67
3aay_A	277	Putative thiosulfate sulfurtransferase; sulfurtran	81.16
3ntd_A	565	FAD-dependent pyridine nucleotide-disulphide oxido	80.29
3zyw_A	111	Glutaredoxin-3; metal binding protein; 1.84A {Homo	80.15
2ouc_A	142	Dual specificity protein phosphatase 10; rhodanese	80.09

>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=99.94  E-value=2.4e-25  Score=164.83  Aligned_cols=138  Identities=22%  Similarity=0.310  Sum_probs=125.0

Q ss_pred             HHHHHhhC--CCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCc
Q psy13287          2 LDHVISIL--PHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQ   78 (140)
Q Consensus         2 l~~il~~~--~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~   78 (140)
                      +.+|+..+  +++.|++++|||+|+.+..+...++.++..+.+. ......++.+.+..+....|...|.+++..... +
T Consensus       224 ~~~i~~~~~~~~~~q~l~~SAT~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~i~~~~~~~~~~~k~~~l~~~l~~~~~-~  302 (434)
T 2db3_A          224 MRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILSEQAD-G  302 (434)
T ss_dssp             HHHHHHCTTSCSSCEEEEEESCCCHHHHHHHHTTCSSCEEEEESSTTCCCTTEEEEEEECCGGGHHHHHHHHHHHCCT-T
T ss_pred             HHHHHHhcCCCCCceEEEEeccCCHHHHHHHHHhccCCEEEEeccccccccccceEEEEeCcHHHHHHHHHHHHhCCC-C
Confidence            45666664  5689999999999999999999999998888776 445678899999999999999999999988654 4


Q ss_pred             EEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +||||++++.++.+++.|++.++.+..+||++++.+|..++++|++|+.+||||||+++||+
T Consensus       303 ~lVF~~t~~~a~~l~~~L~~~~~~~~~lhg~~~~~~R~~~l~~F~~g~~~vLvaT~v~~rGl  364 (434)
T 2db3_A          303 TIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGL  364 (434)
T ss_dssp             EEEECSSHHHHHHHHHHHHHTTCCEEEESTTSCHHHHHHHHHHHHTSSCSEEEECGGGTSSC
T ss_pred             EEEEEeCcHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEchhhhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999996

>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=99.92  E-value=9.5e-24  Score=154.02  Aligned_cols=139  Identities=72%  Similarity=1.158  Sum_probs=128.4

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSII   81 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lI   81 (140)
                      +..++..+++..|++++|||+|+.+.+.....+.++..+........+++.+++..++...|...+..++...+.+++||
T Consensus       184 ~~~i~~~~~~~~~~i~lSAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~l~~~~~~~~~~~~lV  263 (400)
T 1s2m_A          184 IEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLMEELTLKGITQYYAFVEERQKLHCLNTLFSKLQINQAII  263 (400)
T ss_dssp             HHHHHTTSCSSCEEEEEESCCCHHHHHHHHHHCSSCEEESCCSSCBCTTEEEEEEECCGGGHHHHHHHHHHHSCCSEEEE
T ss_pred             HHHHHHhCCcCceEEEEEecCCHHHHHHHHHHcCCCeEEEeccccccCCceeEEEEechhhHHHHHHHHHhhcCCCcEEE
Confidence            45677778888999999999999999999999998887777666677889999999999999999999999888899999


Q ss_pred             EeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||++++.++.+++.|++.++.+..+||++++.+|..++++|++|+.++||||+++++|+
T Consensus       264 f~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gi  322 (400)
T 1s2m_A          264 FCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGI  322 (400)
T ss_dssp             ECSSHHHHHHHHHHHHHHTCCEEEECTTSCHHHHHHHHHHHHTTSSSEEEESSCSSSSC
T ss_pred             EEecHHHHHHHHHHHHhcCCCeEEecCCCCHHHHHHHHHHHhcCCCcEEEEcCccccCC
Confidence            99999999999999999999999999999999999999999999999999999999996

>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=99.92  E-value=2.5e-24  Score=157.62  Aligned_cols=139  Identities=32%  Similarity=0.586  Sum_probs=125.5

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccc-hHHHHHHHHhhCCCCcE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQS   79 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~-k~~~l~~ll~~~~~~~~   79 (140)
                      +..+++.++++.|++++|||+|+.+.+....++.+|..+... .....+++.+.+..++..+ |...+.+++.....+++
T Consensus       200 ~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~l~~~~~~~~~~~~  279 (410)
T 2j0s_A          200 IYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQA  279 (410)
T ss_dssp             HHHHHTTSCTTCEEEEEESCCCHHHHTTGGGTCSSCEEECCCGGGCSCTTEEEEEEEESSTTHHHHHHHHHHHHHTSSEE
T ss_pred             HHHHHHhCccCceEEEEEcCCCHHHHHHHHHHcCCCEEEEecCccccCCCceEEEEEeCcHHhHHHHHHHHHHhcCCCcE
Confidence            456788888899999999999999888888888888887776 3456778899888887654 89999999988888899


Q ss_pred             EEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||||++++.++.+++.|++.++.+..+||++++.+|..++++|++|+.++||||+++++|+
T Consensus       280 lVf~~~~~~~~~l~~~L~~~~~~~~~~h~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  340 (410)
T 2j0s_A          280 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGL  340 (410)
T ss_dssp             EEECSSHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHHTSSCEEEECGGGSSSC
T ss_pred             EEEEcCHHHHHHHHHHHHhCCCceEEeeCCCCHHHHHHHHHHHHCCCCCEEEECChhhCcC
Confidence            9999999999999999999999999999999999999999999999999999999999996

>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=99.92  E-value=2.3e-23  Score=151.34  Aligned_cols=139  Identities=31%  Similarity=0.488  Sum_probs=126.9

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCC--cccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME--ELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQS   79 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~--~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~   79 (140)
                      +..++...+.+.|++++|||+++.+......++.++..+....  ......+.+++..+....|...+.+++...+.+++
T Consensus       174 ~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~  253 (391)
T 1xti_A          174 VQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQV  253 (391)
T ss_dssp             HHHHHHTSCSSSEEEEEESSCCSTHHHHHHHHCSSCEEEECCCCCCCCCTTCEEEEEECCGGGHHHHHHHHHHHSCCSEE
T ss_pred             HHHHHhhCCCCceEEEEEeeCCHHHHHHHHHHcCCCeEEEecCccccCcccceEEEEEcCchhHHHHHHHHHHhcCCCcE
Confidence            4567777888999999999999999999999999988887763  34567788899888999999999999998888999


Q ss_pred             EEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||||++++.++.+++.|++.++.+..+||++++++|..++++|++|+.++||||+++++|+
T Consensus       254 lvf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gi  314 (391)
T 1xti_A          254 VIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGM  314 (391)
T ss_dssp             EEECSCHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTCCSEEEESCCCSSCB
T ss_pred             EEEeCcHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCcEEEECChhhcCC
Confidence            9999999999999999999999999999999999999999999999999999999999996

>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=99.92  E-value=1.6e-23  Score=153.03  Aligned_cols=138  Identities=30%  Similarity=0.492  Sum_probs=124.9

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCc-cchHHHHHHHHhhCCCCcEE
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQE-RQKVHCLNTLFSKLQINQSI   80 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~-~~k~~~l~~ll~~~~~~~~l   80 (140)
                      ..++..++.+.|++++|||+++.+......++.++..+... .......+.+.+..+.. ..+...+.+++.....+++|
T Consensus       191 ~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l  270 (412)
T 3fht_A          191 IRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAM  270 (412)
T ss_dssp             HHHHHTSCTTCEEEEEESCCCHHHHHHHHHHSSSCEEECCCGGGSSCTTEEEEEEECSSHHHHHHHHHHHHHHHSSSEEE
T ss_pred             HHHHhhCCCCceEEEEEeecCHHHHHHHHHhcCCCeEEeeccccccccCceEEEEEcCChHHHHHHHHHHHhhcCCCCEE
Confidence            45677778889999999999999999999999998888776 44567788888887754 57889999999888889999


Q ss_pred             EEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||++++.++.+++.|++.++.+..+||++++++|..++++|++|+.++||||+++++|+
T Consensus       271 vf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  330 (412)
T 3fht_A          271 IFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGI  330 (412)
T ss_dssp             EECSSHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHTTSCSEEEECGGGTSSC
T ss_pred             EEeCCHHHHHHHHHHHHhCCCeEEEecCCCCHHHHHHHHHHHHCCCCcEEEEcCccccCC
Confidence            999999999999999999999999999999999999999999999999999999999996

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}

Probab=99.92  E-value=2.2e-23  Score=152.74  Aligned_cols=129  Identities=24%  Similarity=0.382  Sum_probs=117.8

Q ss_pred             CCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhC-CCCcEEEEeCchHHH
Q psy13287         12 ERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKL-QINQSIIFCNSTQRV   89 (140)
Q Consensus        12 ~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~-~~~~~lIF~~t~~~~   89 (140)
                      ..|++++|||+|+.+......++.++..+... .....+++.+.+..++..+|...+.++++.. ..+++||||++++.+
T Consensus       210 ~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~l~~~l~~~~~~~~~lVf~~~~~~~  289 (417)
T 2i4i_A          210 VRHTMMFSATFPKEIQMLARDFLDEYIFLAVGRVGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGA  289 (417)
T ss_dssp             TBEEEEEESCCCHHHHHHHHHHCSSCEEEEEC----CCSSEEEEEEECCGGGHHHHHHHHHHTCCTTCEEEEECSSHHHH
T ss_pred             CcEEEEEEEeCCHHHHHHHHHHcCCCEEEEeCCCCCCccCceEEEEEeccHhHHHHHHHHHHhcCCCCeEEEEECCHHHH
Confidence            67999999999999999999999988877776 4457788999999999999999999999887 467899999999999


Q ss_pred             HHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         90 ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        90 ~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.+++.|++.++.+..+||++++++|..++++|++|+.++||||+++++|+
T Consensus       290 ~~l~~~L~~~~~~~~~~h~~~~~~~r~~~~~~f~~g~~~vlvaT~~~~~Gi  340 (417)
T 2i4i_A          290 DSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGL  340 (417)
T ss_dssp             HHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHHTSSCEEEECHHHHTTS
T ss_pred             HHHHHHHHHCCCCeeEecCCCCHHHHHHHHHHHHcCCCCEEEECChhhcCC
Confidence            999999999999999999999999999999999999999999999999996

>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=99.91  E-value=1.2e-23  Score=153.81  Aligned_cols=139  Identities=31%  Similarity=0.522  Sum_probs=117.9

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCc-cchHHHHHHHHhhCCCCcE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQE-RQKVHCLNTLFSKLQINQS   79 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~-~~k~~~l~~ll~~~~~~~~   79 (140)
                      +..++..++++.|++++|||+++.+......++.++..+... .......+.+.+..+.. ..|...+.+++.....+++
T Consensus       204 ~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  283 (414)
T 3eiq_A          204 IYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDTLCDLYETLTITQA  283 (414)
T ss_dssp             HHHHHTTSCTTCEEEEECSCCCHHHHHHHTTTCSSCEEECCCCCCCCTTSCCEEEEECSSSTTHHHHHHHHHHSSCCSSC
T ss_pred             HHHHHHhCCCCCeEEEEEEecCHHHHHHHHHHcCCCEEEEecCCccCCCCceEEEEEeChHHhHHHHHHHHHHhCCCCcE
Confidence            456788888899999999999999999999999998887776 44566778888887765 4589999999998888999


Q ss_pred             EEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||||++++.++.+++.|++.++.+..+||++++++|..++++|++|+.++||||+++++|+
T Consensus       284 lvf~~~~~~~~~l~~~l~~~~~~~~~~h~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  344 (414)
T 3eiq_A          284 VIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGI  344 (414)
T ss_dssp             EEECSCHHHHHHHHHHHHTTTCCCEEC---CHHHHHHHHHHHHSCC---CEEECSSCC--C
T ss_pred             EEEeCCHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHHHcCCCcEEEECCccccCC
Confidence            9999999999999999999999999999999999999999999999999999999999996

>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=99.91  E-value=8.5e-23  Score=148.22  Aligned_cols=138  Identities=25%  Similarity=0.451  Sum_probs=123.3

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcC-ccchHHHHHHHHhhCCCCcEE
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSI   80 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~-~~~k~~~l~~ll~~~~~~~~l   80 (140)
                      ..+...++.+.|++++|||+++.+......++.++..+... .....+.+.+.+..+. ...+...+..++.....+++|
T Consensus       168 ~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l  247 (395)
T 3pey_A          168 IRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADKFDVLTELYGLMTIGSSI  247 (395)
T ss_dssp             HHHHHTSCTTCEEEEEESCCCHHHHHHHHHHSCSCEEECCCGGGCSCTTEEEEEEECSSHHHHHHHHHHHHTTTTSSEEE
T ss_pred             HHHHHhCCCCcEEEEEEecCCHHHHHHHHHhCCCCeEEEccccccccccccEEEEEcCchHHHHHHHHHHHHhccCCCEE
Confidence            45677788889999999999999999999999888877776 3456677888887774 457888888888888889999


Q ss_pred             EEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||++++.++.+++.|++.++.+..+||++++++|..++++|++|+.++||||+++++|+
T Consensus       248 vf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gi  307 (395)
T 3pey_A          248 IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGI  307 (395)
T ss_dssp             EECSCHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHTTSCCEEEECGGGSSSC
T ss_pred             EEeCCHHHHHHHHHHHHhcCCcEEEeCCCCCHHHHHHHHHHHHCCCCCEEEECChhhcCC
Confidence            999999999999999999999999999999999999999999999999999999999996

>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=99.89  E-value=7.5e-24  Score=158.25  Aligned_cols=138  Identities=30%  Similarity=0.492  Sum_probs=36.4

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCc-cchHHHHHHHHhhCCCCcEE
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQE-RQKVHCLNTLFSKLQINQSI   80 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~-~~k~~~l~~ll~~~~~~~~l   80 (140)
                      ..+.+.++.++|++++|||+++.+......++.++..+.+. .......+.+.+..+.. ..+...+..++.....+++|
T Consensus       258 ~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l  337 (479)
T 3fmp_B          258 IRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEKFQALCNLYGAITIAQAM  337 (479)
T ss_dssp             HHHHTTSCTTSEEEEEESCCCHHHHHHHHHHSSSEEEEEEC---------------------------------------
T ss_pred             HHHHhhCCccceEEEEeCCCCHHHHHHHHHHcCCCeEEeccccccCcCCceEEEEEeCCHHHHHHHHHHHHhhccCCceE
Confidence            45777788899999999999999999999999998888776 34566778888877754 57888888888877788999


Q ss_pred             EEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||++++.++.+++.|.+.++.+..+||++++.+|..++++|++|+++|||||+++++|+
T Consensus       338 vF~~s~~~~~~l~~~L~~~~~~v~~lh~~~~~~~R~~~~~~f~~g~~~iLv~T~~~~~Gl  397 (479)
T 3fmp_B          338 IFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGI  397 (479)
T ss_dssp             ------------------------------------------------------------
T ss_pred             EEeCcHHHHHHHHHHHHhCCccEEEecCCCCHHHHHHHHHHHHcCCCcEEEEccccccCC
Confidence            999999999999999999999999999999999999999999999999999999999996

>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=99.88  E-value=1.2e-21  Score=140.88  Aligned_cols=135  Identities=23%  Similarity=0.397  Sum_probs=119.3

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSII   81 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lI   81 (140)
                      +..++..++++.+++++|||+++........+++++..+...   ...++.+.+..+...+|...+.+++.. ...++||
T Consensus       168 ~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~l~~~l~~-~~~~~lv  243 (367)
T 1hv8_A          168 VEKILNACNKDKRILLFSATMPREILNLAKKYMGDYSFIKAK---INANIEQSYVEVNENERFEALCRLLKN-KEFYGLV  243 (367)
T ss_dssp             HHHHHHTSCSSCEEEEECSSCCHHHHHHHHHHCCSEEEEECC---SSSSSEEEEEECCGGGHHHHHHHHHCS-TTCCEEE
T ss_pred             HHHHHHhCCCCceEEEEeeccCHHHHHHHHHHcCCCeEEEec---CCCCceEEEEEeChHHHHHHHHHHHhc-CCCcEEE
Confidence            456777788899999999999999988888888876665543   234677888888888999999998874 5678999


Q ss_pred             EeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||++++.++.+++.|++.++.+..+||+++..+|..++++|++|+.++||||+++++|+
T Consensus       244 f~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gi  302 (367)
T 1hv8_A          244 FCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVMSRGI  302 (367)
T ss_dssp             ECSSHHHHHHHHHHHHHTTCCEEEECSSSCHHHHHHHHHHHHTTSSSEEEECTTHHHHC
T ss_pred             EECCHHHHHHHHHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHcCCCeEEEECChhhcCC
Confidence            99999999999999999999999999999999999999999999999999999999986

>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase; 1.95A {Bacillus subtilis}

Probab=99.88  E-value=1e-21  Score=127.95  Aligned_cols=96  Identities=28%  Similarity=0.480  Sum_probs=90.6

Q ss_pred             cccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         45 ELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        45 ~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      +..++++.|+++.++.++|...|.+++...+++++||||++++.++.+++.|++.|+.+..+||++++.+|..++++|++
T Consensus         4 ~~~~~~i~~~~~~~~~~~K~~~L~~ll~~~~~~~~lVF~~~~~~~~~l~~~L~~~~~~~~~~hg~~~~~~r~~~~~~f~~   83 (163)
T 2hjv_A            4 GLTTRNIEHAVIQVREENKFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKR   83 (163)
T ss_dssp             --CCCCEEEEEEECCGGGHHHHHHHHHHHHCCSSEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHT
T ss_pred             ccCcccceEEEEECChHHHHHHHHHHHHhcCCCcEEEEECCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHHc
Confidence            34677899999999999999999999998888899999999999999999999999999999999999999999999999


Q ss_pred             CCccEEEEecccCCCC
Q psy13287        125 GLCRNLVCSGDSSAMM  140 (140)
Q Consensus       125 g~~~vlv~T~~~~rGl  140 (140)
                      |++++||||+++++|+
T Consensus        84 g~~~vlv~T~~~~~Gl   99 (163)
T 2hjv_A           84 GEYRYLVATDVAARGI   99 (163)
T ss_dssp             TSCSEEEECGGGTTTC
T ss_pred             CCCeEEEECChhhcCC
Confidence            9999999999999996

>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=99.88  E-value=2.4e-21  Score=148.18  Aligned_cols=132  Identities=13%  Similarity=0.081  Sum_probs=109.2

Q ss_pred             CCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCc--cchHHHHHHHHhhC-CCCcEEEEeCc
Q psy13287          9 LPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE--RQKVHCLNTLFSKL-QINQSIIFCNS   85 (140)
Q Consensus         9 ~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~--~~k~~~l~~ll~~~-~~~~~lIF~~t   85 (140)
                      ..++.|++++|||+++.+...+..++..+....+......+++...+.....  .++...+.+++... +.+++||||+|
T Consensus       197 ~~~~~~ii~lSAT~~~~v~~~i~~~l~~~~~~~~~~~~~r~nl~~~v~~~~~~~~~~~~~l~~~l~~~~~~~~~IVf~~s  276 (591)
T 2v1x_A          197 QFPNASLIGLTATATNHVLTDAQKILCIEKCFTFTASFNRPNLYYEVRQKPSNTEDFIEDIVKLINGRYKGQSGIIYCFS  276 (591)
T ss_dssp             HCTTSEEEEEESSCCHHHHHHHHHHTTCCSCEEEECCCCCTTEEEEEEECCSSHHHHHHHHHHHHTTTTTTCEEEEECSS
T ss_pred             hCCCCcEEEEecCCCHHHHHHHHHHhCCCCcEEEecCCCCcccEEEEEeCCCcHHHHHHHHHHHHHHhccCCCeEEEeCc
Confidence            3457899999999999998888888875544444444556677666554432  34566777777543 56889999999


Q ss_pred             hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         86 TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        86 ~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++.++.+++.|++.|+.+..+||+|++++|..++++|++|+++|||||+++++|+
T Consensus       277 r~~~e~la~~L~~~g~~~~~~h~~l~~~~R~~~~~~F~~g~~~VlVAT~a~~~GI  331 (591)
T 2v1x_A          277 QKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGI  331 (591)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSSSEEEECTTSCTTC
T ss_pred             HHHHHHHHHHHHHCCCCEEEecCCCCHHHHHHHHHHHHcCCCeEEEEechhhcCC
Confidence            9999999999999999999999999999999999999999999999999999996

>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=99.88  E-value=1.1e-21  Score=128.86  Aligned_cols=93  Identities=31%  Similarity=0.408  Sum_probs=88.6

Q ss_pred             CCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCc
Q psy13287         48 LKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLC  127 (140)
Q Consensus        48 ~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~  127 (140)
                      +.++.|+++.++.++|...|.++++..+.+++||||++++.++.+++.|...|+++..+||++++.+|..++++|++|++
T Consensus         3 ~~~i~q~~~~~~~~~K~~~L~~ll~~~~~~~~lVF~~~~~~~~~l~~~L~~~~~~~~~~hg~~~~~~r~~~~~~f~~g~~   82 (172)
T 1t5i_A            3 LHGLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQR   82 (172)
T ss_dssp             --CCEEEEEECCGGGHHHHHHHHHHHSCCSSEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSC
T ss_pred             cCCeEEEEEECChHHHHHHHHHHHHhCCCCcEEEEECCHHHHHHHHHHHHhcCCCEEEEECCCCHHHHHHHHHHHHCCCC
Confidence            56899999999999999999999999888999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEecccCCCC
Q psy13287        128 RNLVCSGDSSAMM  140 (140)
Q Consensus       128 ~vlv~T~~~~rGl  140 (140)
                      ++||||+++++|+
T Consensus        83 ~vLvaT~~~~~Gl   95 (172)
T 1t5i_A           83 RILVATNLFGRGM   95 (172)
T ss_dssp             SEEEESSCCSTTC
T ss_pred             cEEEECCchhcCc
Confidence            9999999999996

>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; 2.60A {Homo sapiens}

Probab=99.87  E-value=6.1e-22  Score=132.20  Aligned_cols=111  Identities=19%  Similarity=0.172  Sum_probs=87.1

Q ss_pred             HHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEe
Q psy13287         29 FMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIH  107 (140)
Q Consensus        29 ~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h  107 (140)
                      ....++++|..+.++ ....++++.|.+..++.++|...|.+++... ++++||||++++.++.+++.|+..|+++..+|
T Consensus         7 ~~~~~~~~p~~i~v~~~~~~~~~i~q~~~~~~~~~K~~~L~~~l~~~-~~~~lVF~~~~~~~~~l~~~L~~~g~~~~~lh   85 (191)
T 2p6n_A            7 HSSGVDLGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKT-PPPVLIFAEKKADVDAIHEYLLLKGVEAVAIH   85 (191)
T ss_dssp             ---------------------CCSEEEEEECCGGGHHHHHHHHHTTS-CSCEEEECSCHHHHHHHHHHHHHHTCCEEEEC
T ss_pred             ccccccCCCEEEEECCCCCCCcCceEEEEEcChHHHHHHHHHHHHhC-CCCEEEEECCHHHHHHHHHHHHHcCCcEEEEe
Confidence            345678889888886 4567789999999999999999999999875 56899999999999999999999999999999


Q ss_pred             cCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287        108 ARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       108 ~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |++++.+|..++++|++|++++|||||++++|+
T Consensus        86 g~~~~~~R~~~l~~F~~g~~~vLvaT~~~~~Gl  118 (191)
T 2p6n_A           86 GGKDQEERTKAIEAFREGKKDVLVATDVASKGL  118 (191)
T ss_dssp             TTSCHHHHHHHHHHHHHTSCSEEEECHHHHTTC
T ss_pred             CCCCHHHHHHHHHHHhcCCCEEEEEcCchhcCC
Confidence            999999999999999999999999999999996

>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=99.87  E-value=4.1e-23  Score=150.09  Aligned_cols=139  Identities=31%  Similarity=0.581  Sum_probs=37.1

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCC-cccCCCeEEEEEEcCcc-chHHHHHHHHhhCCCCcE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME-ELTLKGVTQYYAFVQER-QKVHCLNTLFSKLQINQS   79 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~i~~~~~~~~~~-~k~~~l~~ll~~~~~~~~   79 (140)
                      +..++..++++.|++++|||+++.+.+....++.+|..+.... ....+++.+.+..++.. .+...+.++++..+.+++
T Consensus       183 ~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  262 (394)
T 1fuu_A          183 IYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYECLTDLYDSISVTQA  262 (394)
T ss_dssp             HHHHHHHSCTTCEEEEECSSCCHHHHHHHHHHCCSCEEEEECC-------------------------------------
T ss_pred             HHHHHHhCCCCceEEEEEEecCHHHHHHHHHhcCCCeEEEecCccccCCCceEEEEEcCchhhHHHHHHHHHhcCCCCcE
Confidence            4567788888999999999999999999999999988887763 44556777777776554 478888888887778899


Q ss_pred             EEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||||++++.++.+++.|++.++.+..+||++++.+|..++++|++|+.++||||+++++|+
T Consensus       263 lVf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gl  323 (394)
T 1fuu_A          263 VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGI  323 (394)
T ss_dssp             -------------------------------------------------------------
T ss_pred             EEEECCHHHHHHHHHHHHHcCCeEEEeeCCCCHHHHHHHHHHHHCCCCcEEEECChhhcCC
Confidence            9999999999999999999999999999999999999999999999999999999999996

>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=99.87  E-value=7.5e-21  Score=143.74  Aligned_cols=133  Identities=17%  Similarity=0.202  Sum_probs=107.7

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhcc--CCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEE
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLK--DPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSI   80 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~--~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~l   80 (140)
                      ..+.+.++ +.|++++|||+++.+.......++  ++..+ .. ....+++...+.  +...+...+.+++...+..++|
T Consensus       166 ~~l~~~~~-~~~~i~lSAT~~~~~~~~i~~~l~~~~~~~~-~~-~~~r~~l~~~v~--~~~~~~~~l~~~l~~~~~~~~I  240 (523)
T 1oyw_A          166 GQLRQRFP-TLPFMALTATADDTTRQDIVRLLGLNDPLIQ-IS-SFDRPNIRYMLM--EKFKPLDQLMRYVQEQRGKSGI  240 (523)
T ss_dssp             GGHHHHCT-TSCEEEEESCCCHHHHHHHHHHHTCCSCEEE-EC-CCCCTTEEEEEE--ECSSHHHHHHHHHHHTTTCCEE
T ss_pred             HHHHHhCC-CCCEEEEeCCCCHHHHHHHHHHhCCCCCeEE-eC-CCCCCceEEEEE--eCCCHHHHHHHHHHhcCCCcEE
Confidence            34455554 689999999999988776665554  44333 22 233455654443  4466788888888877778999


Q ss_pred             EEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||+|++.++.+++.|++.|+.+..+||++++++|..++++|++|+++|||||+++++|+
T Consensus       241 Vf~~sr~~~e~l~~~L~~~g~~~~~~h~~l~~~~R~~~~~~f~~g~~~vlVaT~a~~~Gi  300 (523)
T 1oyw_A          241 IYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGI  300 (523)
T ss_dssp             EECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEECTTSCTTT
T ss_pred             EEeCCHHHHHHHHHHHHHCCCCEEEecCCCCHHHHHHHHHHHHcCCCeEEEEechhhCCC
Confidence            999999999999999999999999999999999999999999999999999999999996

>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=99.87  E-value=1.9e-21  Score=127.99  Aligned_cols=95  Identities=23%  Similarity=0.489  Sum_probs=89.8

Q ss_pred             ccCCCeEEEEEEcCccc-hHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         46 LTLKGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        46 ~~~~~i~~~~~~~~~~~-k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      ..++++.|+++.++..+ |...|.++++..+.+++||||++++.++.+++.|+..|+.+..+||++++.+|..++++|++
T Consensus         3 ~~~~~i~q~~~~~~~~~~K~~~L~~ll~~~~~~~~lVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~f~~   82 (175)
T 2rb4_A            3 LTLNNIRQYYVLCEHRKDKYQALCNIYGSITIGQAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRD   82 (175)
T ss_dssp             CCBCCEEEEEEECSSHHHHHHHHHHHHTTSCCSEEEEECSCHHHHHHHHHHHHTTTCCEEEECSSCCHHHHHHHHHHHHT
T ss_pred             CccCCceEEEEEcCChHhHHHHHHHHHHhCCCCCEEEEECCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHHc
Confidence            35678999999998765 99999999998888999999999999999999999999999999999999999999999999


Q ss_pred             CCccEEEEecccCCCC
Q psy13287        125 GLCRNLVCSGDSSAMM  140 (140)
Q Consensus       125 g~~~vlv~T~~~~rGl  140 (140)
                      |++++||||+++++|+
T Consensus        83 g~~~vLvaT~~~~~Gi   98 (175)
T 2rb4_A           83 GKEKVLITTNVCARGI   98 (175)
T ss_dssp             TSCSEEEECCSCCTTT
T ss_pred             CCCeEEEEecchhcCC
Confidence            9999999999999996

>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein, translation; 1.75A {Saccharomyces cerevisiae} SCOP: c.37.1.19

Probab=99.87  E-value=3.9e-21  Score=125.37  Aligned_cols=92  Identities=29%  Similarity=0.598  Sum_probs=86.7

Q ss_pred             CCeEEEEEEcCccc-hHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCc
Q psy13287         49 KGVTQYYAFVQERQ-KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLC  127 (140)
Q Consensus        49 ~~i~~~~~~~~~~~-k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~  127 (140)
                      +++.|+++.++.++ |.+.|.++++..+++++||||++++.++.+++.|++.++.+..+||++++.+|..++++|++|+.
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            57899999998777 99999999999888999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEecccCCCC
Q psy13287        128 RNLVCSGDSSAMM  140 (140)
Q Consensus       128 ~vlv~T~~~~rGl  140 (140)
                      ++||||+++++|+
T Consensus        82 ~vlv~T~~~~~G~   94 (165)
T 1fuk_A           82 RILISTDLLARGI   94 (165)
T ss_dssp             SEEEEEGGGTTTC
T ss_pred             EEEEEcChhhcCC
Confidence            9999999999996

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}

Probab=99.86  E-value=7e-21  Score=145.29  Aligned_cols=130  Identities=17%  Similarity=0.222  Sum_probs=106.2

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-----CcccCCCeEEEEEEcCcc-ch----HHHHHHHHhh-CCCCcE
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLM-----EELTLKGVTQYYAFVQER-QK----VHCLNTLFSK-LQINQS   79 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-----~~~~~~~i~~~~~~~~~~-~k----~~~l~~ll~~-~~~~~~   79 (140)
                      .+.|++++|||+|+.+......++.++..+.+.     .......+.+.+...+.. .+    ...+...+.. .+..++
T Consensus       212 ~~~~~l~~SAT~~~~v~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  291 (579)
T 3sqw_A          212 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKA  291 (579)
T ss_dssp             TCCEEEEEESSCCTHHHHHTTTTCCSSEEEEEESSCSSSCSSCTTEEEEEEEESSTTHHHHHHHHHHHHHHHHTTTCCEE
T ss_pred             cCceEEEEeccCChHHHHHHHHHcCCCceEEEeecCccccccccccceEEEEecchhhhHHHHHHHHHHHHhhcCCCCcE
Confidence            367999999999999999999999887665543     233556777777776543 22    2333333333 356799


Q ss_pred             EEEeCchHHHHHHHHHHHhc---CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITEL---GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~---~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||||+|++.++.+++.|++.   ++.+..+||++++.+|..++++|++|+.+|||||+++++|+
T Consensus       292 iVF~~t~~~~~~l~~~L~~~~~~~~~v~~~hg~~~~~~R~~~~~~F~~g~~~vLVaT~~~~~Gi  355 (579)
T 3sqw_A          292 IIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGM  355 (579)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTTTSCEEEESTTSCHHHHHHHHHHHHHCSSEEEEECGGGTSSC
T ss_pred             EEECCcHHHHHHHHHHHHHhhcCCCcEEEecCCCCHHHHHHHHHHhhcCCCeEEEEcchhhcCC
Confidence            99999999999999999987   89999999999999999999999999999999999999996

>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=99.85  E-value=6.6e-21  Score=126.56  Aligned_cols=95  Identities=25%  Similarity=0.393  Sum_probs=76.5

Q ss_pred             ccCCCeEEEEEEcCccchHHHHHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         46 LTLKGVTQYYAFVQERQKVHCLNTLFSKL-QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        46 ~~~~~i~~~~~~~~~~~k~~~l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      ..++++.|.++.++.++|...|.++++.. +.+++||||++++.++.+++.|+..|+.+..+||++++.+|..++++|++
T Consensus        15 ~~~~~i~q~~~~v~~~~K~~~L~~ll~~~~~~~k~lVF~~~~~~~~~l~~~L~~~g~~~~~lhg~~~~~~r~~~~~~f~~   94 (185)
T 2jgn_A           15 STSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRS   94 (185)
T ss_dssp             -CCTTEEEEEEECCGGGHHHHHHHHHHHC-CCSCEEEEESCHHHHHHHHHHHHHTTCCEEEEC--------CHHHHHHHH
T ss_pred             CCCCCceEEEEEeCcHHHHHHHHHHHHhcCCCCeEEEEECCHHHHHHHHHHHHHcCCceEEEeCCCCHHHHHHHHHHHHc
Confidence            46789999999999999999999999887 46889999999999999999999999999999999999999999999999


Q ss_pred             CCccEEEEecccCCCC
Q psy13287        125 GLCRNLVCSGDSSAMM  140 (140)
Q Consensus       125 g~~~vlv~T~~~~rGl  140 (140)
                      |++++||||+++++|+
T Consensus        95 g~~~vLvaT~~~~~Gl  110 (185)
T 2jgn_A           95 GKSPILVATAVAARGL  110 (185)
T ss_dssp             TSSSEEEEEC------
T ss_pred             CCCeEEEEcChhhcCC
Confidence            9999999999999996

>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=99.85  E-value=3.5e-20  Score=140.77  Aligned_cols=130  Identities=17%  Similarity=0.222  Sum_probs=105.8

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-----CcccCCCeEEEEEEcCcc-ch----HHHHHHHHhh-CCCCcE
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLM-----EELTLKGVTQYYAFVQER-QK----VHCLNTLFSK-LQINQS   79 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-----~~~~~~~i~~~~~~~~~~-~k----~~~l~~ll~~-~~~~~~   79 (140)
                      ++.|++++|||+|+.+......++.++..+.+.     .......+.+.+...+.. .+    ...+...+.. .+..++
T Consensus       263 ~~~~~l~~SAT~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  342 (563)
T 3i5x_A          263 DNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDSNYKA  342 (563)
T ss_dssp             TCCEEEEEESSCCTHHHHHTTTTCCSSEEEEEESSCSSSCSSCTTEEEEEEEESSTTHHHHHHHHHHHHHHHHTTTCCEE
T ss_pred             cCceEEEEEccCCHHHHHHHHHhcCCCceEEEeccCCCCccccccCceEEEECchhHhhHHHHHHHHHHHHhhcCCCCcE
Confidence            478999999999999999999998887665543     233556777777766543 22    2233333333 356799


Q ss_pred             EEEeCchHHHHHHHHHHHhc---CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITEL---GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~---~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||||+|++.++.+++.|++.   ++.+..+||++++.+|..++++|++|+++|||||+++++|+
T Consensus       343 iVF~~s~~~~~~l~~~L~~~~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vLvaT~~~~~Gi  406 (563)
T 3i5x_A          343 IIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGM  406 (563)
T ss_dssp             EEECSCHHHHHHHHHHHHHHHTTTSCEEEESTTSCHHHHHHHHHHHHHCSSEEEEECGGGTSSC
T ss_pred             EEEcCcHHHHHHHHHHHHHhccCCceEEEecCCCCHHHHHHHHHHHhcCCCCEEEEcchhhcCC
Confidence            99999999999999999987   89999999999999999999999999999999999999996

>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=99.83  E-value=2.5e-19  Score=127.61  Aligned_cols=131  Identities=18%  Similarity=0.293  Sum_probs=109.4

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEE
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSII   81 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lI   81 (140)
                      +..++...+...+++++|||+|+...+....++.++..+...  ...+++.+.+..++...+.  ....+.....+++||
T Consensus       150 ~~~~~~~~~~~~~~~~~SAT~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~lv  225 (337)
T 2z0m_A          150 IKIILAQTSNRKITGLFSATIPEEIRKVVKDFITNYEEIEAC--IGLANVEHKFVHVKDDWRS--KVQALRENKDKGVIV  225 (337)
T ss_dssp             HHHHHHHCTTCSEEEEEESCCCHHHHHHHHHHSCSCEEEECS--GGGGGEEEEEEECSSSSHH--HHHHHHTCCCSSEEE
T ss_pred             HHHHHhhCCcccEEEEEeCcCCHHHHHHHHHhcCCceeeecc--cccCCceEEEEEeChHHHH--HHHHHHhCCCCcEEE
Confidence            456778888889999999999999999999998887666432  4456677777777655443  235556667789999


Q ss_pred             EeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||++++.++.+++.|+    ++..+||+++..+|..++++|++|+.++||||+++++|+
T Consensus       226 f~~~~~~~~~l~~~l~----~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gi  280 (337)
T 2z0m_A          226 FVRTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGL  280 (337)
T ss_dssp             ECSCHHHHHHHHTTCT----TEEEECTTSCHHHHHHHHHHHHTTSCSEEEECHHHHTTC
T ss_pred             EEcCHHHHHHHHHHhh----hhhhhcCCCCHHHHHHHHHHHHcCCCcEEEEcCccccCC
Confidence            9999999999999886    578999999999999999999999999999999999996

>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=99.82  E-value=8.7e-20  Score=123.52  Aligned_cols=92  Identities=21%  Similarity=0.309  Sum_probs=86.7

Q ss_pred             CCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCcc
Q psy13287         49 KGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCR  128 (140)
Q Consensus        49 ~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~  128 (140)
                      ..+.+.++.++.+.|.+.|.+++...+++++||||++++.++.+++.|.+.|+.+..+||++++.+|..++++|++|+.+
T Consensus         4 i~~~~~~~~~~~~~k~~~l~~ll~~~~~~~~lVF~~~~~~~~~l~~~L~~~~~~~~~lhg~~~~~~r~~~~~~f~~g~~~   83 (212)
T 3eaq_A            4 VTYEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVR   83 (212)
T ss_dssp             CCBCCEEEECCTTSHHHHHHHHHHHHCCSCEEEECSSHHHHHHHHHHHHHHTCCEEEECSSSCHHHHHHHHHHHHSSSCC
T ss_pred             cceeeeEEeCCHHHHHHHHHHHHHhCCCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHHCCCCe
Confidence            34567788888999999999999988889999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecccCCCC
Q psy13287        129 NLVCSGDSSAMM  140 (140)
Q Consensus       129 vlv~T~~~~rGl  140 (140)
                      +|||||++++|+
T Consensus        84 vlvaT~~~~~Gi   95 (212)
T 3eaq_A           84 VLVATDVAARGL   95 (212)
T ss_dssp             EEEECTTTTCSS
T ss_pred             EEEecChhhcCC
Confidence            999999999996

>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA recognition motif, ATP-BIND helicase, nucleotide-binding; 2.80A {Thermus thermophilus}

Probab=99.82  E-value=1.2e-19  Score=128.53  Aligned_cols=91  Identities=22%  Similarity=0.322  Sum_probs=87.5

Q ss_pred             CeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccE
Q psy13287         50 GVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRN  129 (140)
Q Consensus        50 ~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~v  129 (140)
                      .+.|+++.++..+|.+.|.+++....++++||||++++.++.+++.|.+.|+.+..+||++++.+|..+++.|++|+.+|
T Consensus         2 ~v~~~~i~~~~~~K~~~L~~ll~~~~~~~~LVF~~t~~~~~~l~~~L~~~g~~~~~lhg~l~~~~r~~~~~~f~~g~~~v   81 (300)
T 3i32_A            2 TYEEEAVPAPVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRV   81 (300)
T ss_dssp             CSEEEEEECCSSSHHHHHHHHHHHHCCSSEEEECSSHHHHHHHHHHHHTTTCCEEEECSCCCTHHHHHHHHHHHHTSCCE
T ss_pred             ceEEEEEECCHHHHHHHHHHHHHhcCCCCEEEEECCHHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHhhcCCceE
Confidence            46899999999999999999998888999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecccCCCC
Q psy13287        130 LVCSGDSSAMM  140 (140)
Q Consensus       130 lv~T~~~~rGl  140 (140)
                      |||||+++||+
T Consensus        82 LVaT~va~~Gi   92 (300)
T 3i32_A           82 LVATDVAARGL   92 (300)
T ss_dssp             EEECSTTTCST
T ss_pred             EEEechhhcCc
Confidence            99999999996

>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=99.67  E-value=5.2e-21  Score=125.36  Aligned_cols=92  Identities=25%  Similarity=0.387  Sum_probs=87.1

Q ss_pred             CCeEEEEEEcCc-cchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCc
Q psy13287         49 KGVTQYYAFVQE-RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLC  127 (140)
Q Consensus        49 ~~i~~~~~~~~~-~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~  127 (140)
                      +++.|++..++. ++|...|.++++..+.+++||||++++.++.+++.|+..++.+..+||++++.+|..++++|++|++
T Consensus         2 ~~i~~~~~~~~~~~~k~~~l~~ll~~~~~~~~iVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~r~~~~~~f~~g~~   81 (170)
T 2yjt_D            2 KKIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRV   81 (170)
Confidence            568889999988 8999999999988777899999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEecccCCCC
Q psy13287        128 RNLVCSGDSSAMM  140 (140)
Q Consensus       128 ~vlv~T~~~~rGl  140 (140)
                      ++||||+++++|+
T Consensus        82 ~vLvaT~~~~~Gi   94 (170)
T 2yjt_D           82 NVLVATDVAARGI   94 (170)
Confidence            9999999999996

>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=99.79  E-value=2.6e-18  Score=138.95  Aligned_cols=138  Identities=19%  Similarity=0.237  Sum_probs=99.5

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchh--HHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCc-------------------
Q psy13287          2 LDHVISILPHERQILLYSATFPLT--VKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQE-------------------   60 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~--~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~-------------------   60 (140)
                      ++.++..++++.|++++|||+|+.  +..........+..+...... +..+.+++.....                   
T Consensus       311 ~e~ii~~l~~~~qvl~lSATipn~~e~a~~l~~~~~~~~~vi~~~~r-p~pl~~~~~~~~~~~~~~~vd~~~~~~~~~~~  389 (1108)
T 3l9o_A          311 WEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFR-PTPLQHYLFPAHGDGIYLVVDEKSTFREENFQ  389 (1108)
T ss_dssp             HHHHHHHSCTTSEEEEEECSCSSCHHHHHHHHHHTCSCEEEEEECCC-SSCEEEEEEETTSSCCEEEEETTTEECHHHHH
T ss_pred             HHHHHHhcCCCceEEEEcCCCCCHHHHHHHHHhhcCCCeEEEecCCC-cccceEEEeecCCcceeeeeccccchhhhhHH
Confidence            467888899999999999999875  334445555555554443222 2223343322110                   


Q ss_pred             ------------------------------------cchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCce--
Q psy13287         61 ------------------------------------RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYC--  102 (140)
Q Consensus        61 ------------------------------------~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~--  102 (140)
                                                          ..+...+...+.....+++||||++++.|+.++..|...++.  
T Consensus       390 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~li~~l~~~~~~~vIVF~~sr~~~e~la~~L~~~~~~~~  469 (1108)
T 3l9o_A          390 KAMASISNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSD  469 (1108)
T ss_dssp             HHHTTC-----------------------------CHHHHHHHHHHHHHTTCCCEEEEESCHHHHHHHHHHTCSHHHHCC
T ss_pred             HHHHHHHhhhcccccccccccccccccccccccccchhHHHHHHHHHHhcCCCCEEEEeCcHHHHHHHHHHHHhccCCCH
Confidence                                                112233444444446779999999999999999998654322  


Q ss_pred             -------------------------------------EEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287        103 -------------------------------------CYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       103 -------------------------------------v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                                                           ++.+||+|++.+|..+++.|++|+++|||||+++++|+
T Consensus       470 ~e~~~i~~~~~~~~~~l~~~d~~l~~~~~l~~~l~~gV~~~Hg~l~~~~R~~v~~~F~~G~ikVLVAT~vla~GI  544 (1108)
T 3l9o_A          470 DEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGL  544 (1108)
T ss_dssp             ----CHHHHGGGSCTHHHHHTTCCHHHHHHTHHHHHTEEEECSCSCHHHHHHHHHHHHHTCCCEEEEESCCCSCC
T ss_pred             HHHHHHHHHHHHHHhhcchhhhhhhhHHHHHHhhhcCeeeecCCCCHHHHHHHHHHHhCCCCeEEEECcHHhcCC
Confidence                                                 89999999999999999999999999999999999997

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=99.77  E-value=2.4e-17  Score=132.36  Aligned_cols=138  Identities=20%  Similarity=0.255  Sum_probs=97.5

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHH--HHHHHhccCCcEEEcCCcccCCCeEEEEEEcC---------c----------
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVK--NFMEKHLKDPYEINLMEELTLKGVTQYYAFVQ---------E----------   60 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~--~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~---------~----------   60 (140)
                      ++.++..++.+.|++++|||+|+...  .......+.+..+...+.. +..+.+++....         .          
T Consensus       213 ~e~il~~l~~~~~il~LSATi~n~~e~a~~l~~~~~~~~~vi~~~~r-p~pl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  291 (1010)
T 2xgj_A          213 WEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFR-PTPLQHYLFPAHGDGIYLVVDEKSTFREENFQ  291 (1010)
T ss_dssp             HHHHHHHSCTTCEEEEEECCCTTHHHHHHHHHHHHTSCEEEEEECCC-SSCEEEEEEETTSSCCEEEECTTCCBCHHHHH
T ss_pred             HHHHHHhcCCCCeEEEEcCCCCCHHHHHHHHHhhcCCCeEEEecCCC-cccceEEEEecCCcceeeeeccccccchHHHH
Confidence            35677888889999999999986522  2222233445544443322 223455444311         0          


Q ss_pred             ------------------------------------cchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCc---
Q psy13287         61 ------------------------------------RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGY---  101 (140)
Q Consensus        61 ------------------------------------~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~---  101 (140)
                                                          ......+...+...+..++||||++++.|+.+++.|...++   
T Consensus       292 ~~~~~l~~~~~~~~~~~~~~g~~~~~~k~~~~~~~~~~~l~~l~~~l~~~~~~~~IVF~~sr~~~e~la~~L~~~~~~~~  371 (1010)
T 2xgj_A          292 KAMASISNQIGDDPNSTDSRGKKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSD  371 (1010)
T ss_dssp             HHHHTCC------------------------------CHHHHHHHHHHHHTCCSEEEEESSHHHHHHHHHTTTTSCCCCH
T ss_pred             HHHHHHhhhhcccccccccccccccccccccccccchHHHHHHHHHHHhcCCCCEEEEECCHHHHHHHHHHHHhCCCCCh
Confidence                                                11122344444444567999999999999999999976433   


Q ss_pred             ------------------------------------eEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287        102 ------------------------------------CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       102 ------------------------------------~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                                                          .++.+||++++.+|..+++.|++|+++|||||+++++|+
T Consensus       372 ~e~~~i~~~~~~~~~~l~~~d~~l~~~~~l~~~l~~gI~~~Hggl~~~eR~~ve~~F~~G~ikVLVAT~~la~GI  446 (1010)
T 2xgj_A          372 DEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGL  446 (1010)
T ss_dssp             HHHHHHHHHHHHHHTTSCGGGTTCHHHHHHHHHHHHTEEEESTTSCHHHHHHHHHHHHTTCCSEEEEEGGGGGST
T ss_pred             HHHHHHHHHHHHHHHhcchhhhcchhHHHHHHHHhCCeeEECCCCCHHHHHHHHHHHhcCCCcEEEEehHhhccC
Confidence                                                289999999999999999999999999999999999996

>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=99.75  E-value=8.7e-18  Score=136.41  Aligned_cols=134  Identities=17%  Similarity=0.171  Sum_probs=101.9

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhC-CCCcEEE
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKL-QINQSII   81 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~-~~~~~lI   81 (140)
                      .++++.++.+.+++++|||++++........+.++..+... ......+..++.....   ......++... ..++++|
T Consensus       742 ~~~l~~l~~~~~vl~lSATp~p~~l~~~~~~~~~~~~i~~~-~~~r~~i~~~~~~~~~---~~i~~~il~~l~~g~qvlv  817 (1151)
T 2eyq_A          742 KERIKAMRANVDILTLTATPIPRTLNMAMSGMRDLSIIATP-PARRLAVKTFVREYDS---MVVREAILREILRGGQVYY  817 (1151)
T ss_dssp             HHHHHHHHTTSEEEEEESSCCCHHHHHHHTTTSEEEECCCC-CCBCBCEEEEEEECCH---HHHHHHHHHHHTTTCEEEE
T ss_pred             HHHHHHhcCCCCEEEEcCCCChhhHHHHHhcCCCceEEecC-CCCccccEEEEecCCH---HHHHHHHHHHHhcCCeEEE
Confidence            45566677789999999999988877776666554333222 2223345555443332   22333333333 4689999


Q ss_pred             EeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||+++.++.+++.|++.  +.++..+||+|++.+|..++++|++|+++|||||+++++|+
T Consensus       818 f~~~v~~~~~l~~~L~~~~p~~~v~~lhg~~~~~eR~~il~~F~~g~~~VLVaT~v~e~Gi  878 (1151)
T 2eyq_A          818 LYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGI  878 (1151)
T ss_dssp             ECCCSSCHHHHHHHHHHHCTTSCEEECCSSCCHHHHHHHHHHHHTTSCCEEEESSTTGGGS
T ss_pred             EECCHHHHHHHHHHHHHhCCCCeEEEEeCCCCHHHHHHHHHHHHcCCCcEEEECCcceeee
Confidence            999999999999999987  88999999999999999999999999999999999999996

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=99.74  E-value=5.6e-17  Score=130.14  Aligned_cols=79  Identities=13%  Similarity=0.148  Sum_probs=70.5

Q ss_pred             chHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCc---------------------------------------e
Q psy13287         62 QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGY---------------------------------------C  102 (140)
Q Consensus        62 ~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~---------------------------------------~  102 (140)
                      .+...+.+.+...+..++||||+|++.|+.+++.|...++                                       .
T Consensus       322 ~~~~~li~~l~~~~~~~~IVF~~sr~~~e~la~~L~~~~~~~~~e~~~i~~~~~~~~~~l~~~d~~l~~~~~l~~~l~~g  401 (997)
T 4a4z_A          322 KTWPEIVNYLRKRELLPMVVFVFSKKRCEEYADWLEGINFCNNKEKSQIHMFIEKSITRLKKEDRDLPQILKTRSLLERG  401 (997)
T ss_dssp             THHHHHHHHHHHTTCCSEEEECSCHHHHHHHHHTTTTCCCCCHHHHHHHHHHHHHHHTTSCHHHHTCHHHHHHHHHHTTT
T ss_pred             hHHHHHHHHHHhCCCCCEEEEECCHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhcchhhhcchhHHHHHHHhhcC
Confidence            3456677777777778999999999999999999977554                                       5


Q ss_pred             EEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287        103 CYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       103 v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +..+||++++.+|..+++.|++|+++|||||+++++|+
T Consensus       402 i~~~H~gl~~~~R~~v~~~F~~G~~kVLvAT~~~a~GI  439 (997)
T 4a4z_A          402 IAVHHGGLLPIVKELIEILFSKGFIKVLFATETFAMGL  439 (997)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHTTCCSEEEECTHHHHSC
T ss_pred             eeeecCCCCHHHHHHHHHHHHCCCCcEEEEchHhhCCC
Confidence            89999999999999999999999999999999999996

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=99.74  E-value=5.1e-18  Score=124.56  Aligned_cols=116  Identities=16%  Similarity=0.176  Sum_probs=90.6

Q ss_pred             CCCeEEEEEec-CchhHHH-HHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchH
Q psy13287         11 HERQILLYSAT-FPLTVKN-FMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQ   87 (140)
Q Consensus        11 ~~~q~v~~SAT-~~~~~~~-~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~   87 (140)
                      .+.|++++||| .|..+.. .....+.    +.+. .....+++.+.+..+   ++...+.++++. .++++||||++++
T Consensus       192 ~~~~~i~~SAT~~~~~~~~~~~~~~~~----~~~~~~~~~~~~i~~~~~~~---~~~~~l~~~l~~-~~~~~lVF~~~~~  263 (414)
T 3oiy_A          192 KPGILVVSSATAKPRGIRPLLFRDLLN----FTVGRLVSVARNITHVRISS---RSKEKLVELLEI-FRDGILIFAQTEE  263 (414)
T ss_dssp             CCCEEEESSCCSSCCSSTTHHHHHHHS----CCSSCCCCCCCSEEEEEESS---CCHHHHHHHHHH-HCSSEEEEESSHH
T ss_pred             CCceEEEEecCCCcchhHHHHHHHhhc----cCcCccccccccchheeecc---CHHHHHHHHHHH-cCCCEEEEECCHH
Confidence            77899999999 5655442 2333332    2222 334567788887665   566777788777 3589999999999


Q ss_pred             HHHHHHHHHHhcCceEE-EEecCCCHHHHHHHHHHhhcCCccEEEE----ecccCCCC
Q psy13287         88 RVELLAKKITELGYCCY-YIHARMAQAHRNRVFHDFRSGLCRNLVC----SGDSSAMM  140 (140)
Q Consensus        88 ~~~~~~~~L~~~~~~v~-~~h~~~~~~~R~~~~~~f~~g~~~vlv~----T~~~~rGl  140 (140)
                      .++.+++.|++.|+++. .+||+    +|.  +++|++|++++|||    |+++++|+
T Consensus       264 ~~~~l~~~L~~~~~~~~~~~h~~----~r~--~~~f~~g~~~vLvat~s~T~~~~~Gi  315 (414)
T 3oiy_A          264 EGKELYEYLKRFKFNVGETWSEF----EKN--FEDFKVGKINILIGVQAYYGKLTRGV  315 (414)
T ss_dssp             HHHHHHHHHHHTTCCEEESSSCH----HHH--HHHHHTTSCSEEEEECCTTCCCCCCC
T ss_pred             HHHHHHHHHHHcCCceehhhcCc----chH--HHHHhCCCCeEEEEecCcCchhhccC
Confidence            99999999999999998 99985    444  99999999999999    99999996

>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=99.72  E-value=2.6e-17  Score=129.23  Aligned_cols=131  Identities=13%  Similarity=0.192  Sum_probs=99.6

Q ss_pred             HHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchH----HHHHHHHhhCCCCcE
Q psy13287          4 HVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKV----HCLNTLFSKLQINQS   79 (140)
Q Consensus         4 ~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~----~~l~~ll~~~~~~~~   79 (140)
                      .+.... ++.|++++|||++..   ....++.++..+.+....  ..+.+++...+..+..    ..+.++....+.+++
T Consensus       233 ~l~~~~-~~~~iIl~SAT~~~~---~l~~~~~~~~vi~v~gr~--~pv~~~~~~~~~~~~~~~~l~~l~~~~~~~~~g~i  306 (773)
T 2xau_A          233 QVVKRR-PDLKIIIMSATLDAE---KFQRYFNDAPLLAVPGRT--YPVELYYTPEFQRDYLDSAIRTVLQIHATEEAGDI  306 (773)
T ss_dssp             HHHHHC-TTCEEEEEESCSCCH---HHHHHTTSCCEEECCCCC--CCEEEECCSSCCSCHHHHHHHHHHHHHHHSCSCEE
T ss_pred             HHHHhC-CCceEEEEeccccHH---HHHHHhcCCCcccccCcc--cceEEEEecCCchhHHHHHHHHHHHHHHhcCCCCE
Confidence            344333 478999999999743   344566666666554322  2466666555554443    334444444468899


Q ss_pred             EEEeCchHHHHHHHHHHHh-----------cCceEEEEecCCCHHHHHHHHHHhh-----cCCccEEEEecccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITE-----------LGYCCYYIHARMAQAHRNRVFHDFR-----SGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~-----------~~~~v~~~h~~~~~~~R~~~~~~f~-----~g~~~vlv~T~~~~rGl  140 (140)
                      ||||+++++++.+++.|++           .++.+..+||++++++|..+++.|+     +|+.+||||||++++|+
T Consensus       307 LVF~~~~~~i~~l~~~L~~~~~~l~~~~~~~~~~v~~lhg~l~~~eR~~v~~~f~~~~~~~g~~kVlVAT~iae~Gi  383 (773)
T 2xau_A          307 LLFLTGEDEIEDAVRKISLEGDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSL  383 (773)
T ss_dssp             EEECSCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECTTCCHHHHGGGGSCCCCCSSSSCCEEEEEECTHHHHTC
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhcccccCCCeEEEEeCCCCCHHHHHHHHhhcccccCCCCceEEEEeCcHHHhCc
Confidence            9999999999999999985           4788999999999999999999999     99999999999999996

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=99.72  E-value=1.5e-16  Score=123.99  Aligned_cols=130  Identities=22%  Similarity=0.180  Sum_probs=90.1

Q ss_pred             HHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE------------EEEEcC--------ccc
Q psy13287          3 DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ------------YYAFVQ--------ERQ   62 (140)
Q Consensus         3 ~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~------------~~~~~~--------~~~   62 (140)
                      +.++..++ +.|++++|||+++. ..+. .+++.+ .+.... . +-.+..            .+.+.+        ...
T Consensus       167 ~~i~~~~~-~~~ii~lSATl~n~-~~~~-~~l~~~-~~~~~~-r-~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (715)
T 2va8_A          167 ESVTIRAK-RRNLLALSATISNY-KQIA-KWLGAE-PVATNW-R-PVPLIEGVIYPERKKKEYNVIFKDNTTKKVHGDDA  240 (715)
T ss_dssp             HHHHHHHH-TSEEEEEESCCTTH-HHHH-HHHTCE-EEECCC-C-SSCEEEEEEEECSSTTEEEEEETTSCEEEEESSSH
T ss_pred             HHHHHhcc-cCcEEEEcCCCCCH-HHHH-HHhCCC-ccCCCC-C-CCCceEEEEecCCcccceeeecCcchhhhcccchH
Confidence            34555554 78999999999853 4443 455432 122110 0 011111            111121        133


Q ss_pred             hHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcC------------------------------------ceEEEE
Q psy13287         63 KVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELG------------------------------------YCCYYI  106 (140)
Q Consensus        63 k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~------------------------------------~~v~~~  106 (140)
                      +...+.+.+.  +.+++||||++++.++.+++.|.+..                                    ..+.++
T Consensus       241 ~~~~~~~~~~--~~~~~LVF~~s~~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~~v~~~  318 (715)
T 2va8_A          241 IIAYTLDSLS--KNGQVLVFRNSRKMAESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSDEKELLKSLISKGVAYH  318 (715)
T ss_dssp             HHHHHHHHHT--TTCCEEEECSSHHHHHHHHHHHHHTTTSSCCCHHHHHHHHHHHHTCCSSCHHHHHHHHHHHTTTEEEE
T ss_pred             HHHHHHHHHh--cCCCEEEEECCHHHHHHHHHHHHHHHhhccCChHHHHHHHHHHHHhhhccccccHHHHHHHhcCEEEE
Confidence            4455555553  46899999999999999999998642                                    248999


Q ss_pred             ecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287        107 HARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       107 h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||++++++|..+++.|++|+++|||||+++++|+
T Consensus       319 h~~l~~~~r~~v~~~f~~g~~~vlvaT~~l~~Gi  352 (715)
T 2va8_A          319 HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGV  352 (715)
T ss_dssp             CTTSCHHHHHHHHHHHHTTCSCEEEECGGGGGSS
T ss_pred             CCCCCHHHHHHHHHHHHcCCCeEEEEChHHhccc
Confidence            9999999999999999999999999999999996

>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=99.72  E-value=9.7e-17  Score=125.20  Aligned_cols=132  Identities=18%  Similarity=0.178  Sum_probs=92.3

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEE------EEcC-----ccchHHHHHHH
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYY------AFVQ-----ERQKVHCLNTL   70 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~------~~~~-----~~~k~~~l~~l   70 (140)
                      ++.++..++++.|++++|||+++. .++ ..+++.+ .+....  .+..+...+      .+..     ...+...+.+.
T Consensus       159 ~~~ll~~l~~~~~ii~lSATl~n~-~~~-~~~l~~~-~~~~~~--rp~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  233 (720)
T 2zj8_A          159 LEVILAHMLGKAQIIGLSATIGNP-EEL-AEWLNAE-LIVSDW--RPVKLRRGVFYQGFVTWEDGSIDRFSSWEELVYDA  233 (720)
T ss_dssp             HHHHHHHHBTTBEEEEEECCCSCH-HHH-HHHTTEE-EEECCC--CSSEEEEEEEETTEEEETTSCEEECSSTTHHHHHH
T ss_pred             HHHHHHHhhcCCeEEEEcCCcCCH-HHH-HHHhCCc-ccCCCC--CCCcceEEEEeCCeeeccccchhhhhHHHHHHHHH
Confidence            345566665689999999999863 444 3455422 121110  111111111      1112     23455666666


Q ss_pred             HhhCCCCcEEEEeCchHHHHHHHHHHHhc---------------------------------CceEEEEecCCCHHHHHH
Q psy13287         71 FSKLQINQSIIFCNSTQRVELLAKKITEL---------------------------------GYCCYYIHARMAQAHRNR  117 (140)
Q Consensus        71 l~~~~~~~~lIF~~t~~~~~~~~~~L~~~---------------------------------~~~v~~~h~~~~~~~R~~  117 (140)
                      +..  .+++||||++++.++.+++.|.+.                                 ...+.++||++++++|..
T Consensus       234 ~~~--~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~l~~~~~~~v~~~h~~l~~~~R~~  311 (720)
T 2zj8_A          234 IRK--KKGALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGVAFHHAGLGRDERVL  311 (720)
T ss_dssp             HHT--TCCEEEECSCHHHHHHHHHHHHHHHGGGSCHHHHHHHHHHHHTSCSCHHHHHHHHHHTTTEEEECTTSCHHHHHH
T ss_pred             HhC--CCCEEEEecCHHHHHHHHHHHHHHHHHhcChhhHHHHHHHHHHHhcccchHHHHHHHhcCeeeecCCCCHHHHHH
Confidence            543  689999999999999999999753                                 124999999999999999


Q ss_pred             HHHHhhcCCccEEEEecccCCCC
Q psy13287        118 VFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       118 ~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +++.|++|+++|||||+++++|+
T Consensus       312 v~~~f~~g~~~vlvaT~~l~~Gv  334 (720)
T 2zj8_A          312 VEENFRKGIIKAVVATPTLSAGI  334 (720)
T ss_dssp             HHHHHHTTSSCEEEECSTTGGGC
T ss_pred             HHHHHHCCCCeEEEECcHhhccC
Confidence            99999999999999999999996

>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=99.70  E-value=6.6e-17  Score=125.85  Aligned_cols=124  Identities=15%  Similarity=0.123  Sum_probs=88.0

Q ss_pred             CCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEE------EcCcc-------chHHHHHHHHhhCCC
Q psy13287         10 PHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYA------FVQER-------QKVHCLNTLFSKLQI   76 (140)
Q Consensus        10 ~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~------~~~~~-------~k~~~l~~ll~~~~~   76 (140)
                      .++.|++++|||+++ ..++. .+++.+ .+....  .+-.+...+.      +....       .+...+.+.+.  +.
T Consensus       170 ~~~~~ii~lSATl~n-~~~~~-~~l~~~-~~~~~~--r~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~  242 (702)
T 2p6r_A          170 NKALRVIGLSATAPN-VTEIA-EWLDAD-YYVSDW--RPVPLVEGVLCEGTLELFDGAFSTSRRVKFEELVEECVA--EN  242 (702)
T ss_dssp             CTTCEEEEEECCCTT-HHHHH-HHTTCE-EEECCC--CSSCEEEEEECSSEEEEEETTEEEEEECCHHHHHHHHHH--TT
T ss_pred             CcCceEEEECCCcCC-HHHHH-HHhCCC-cccCCC--CCccceEEEeeCCeeeccCcchhhhhhhhHHHHHHHHHh--cC
Confidence            568999999999986 34444 455532 222211  1111222111      11111       14566666554  47


Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc------------------------------CceEEEEecCCCHHHHHHHHHHhhcCC
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL------------------------------GYCCYYIHARMAQAHRNRVFHDFRSGL  126 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~------------------------------~~~v~~~h~~~~~~~R~~~~~~f~~g~  126 (140)
                      +++||||++++.++.+++.|.+.                              +..+.++||++++++|..+++.|++|+
T Consensus       243 ~~~LVF~~s~~~~~~~a~~L~~~~~~~~~~~~~~~~i~~~~~~~~~~~l~~~~~~~v~~~h~~l~~~~R~~v~~~f~~g~  322 (702)
T 2p6r_A          243 GGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGN  322 (702)
T ss_dssp             CCEEEECSSHHHHHHHHHHHHHHHHTTCCCSSHHHHHHTTCCSHHHHHHHHHHHTTCCEECTTSCHHHHHHHHHHHHTTS
T ss_pred             CCEEEEcCCHHHHHHHHHHHHHHHHhhcChHHHHHHHHhhccccccHHHHHHHhcCeEEecCCCCHHHHHHHHHHHHCCC
Confidence            89999999999999999998753                              135889999999999999999999999


Q ss_pred             ccEEEEecccCCCC
Q psy13287        127 CRNLVCSGDSSAMM  140 (140)
Q Consensus       127 ~~vlv~T~~~~rGl  140 (140)
                      ++|||||+++++|+
T Consensus       323 ~~vlvaT~~l~~Gi  336 (702)
T 2p6r_A          323 IKVVVATPTLAAGV  336 (702)
T ss_dssp             CCEEEECSTTTSSS
T ss_pred             CeEEEECcHHhccC
Confidence            99999999999996

>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=99.70  E-value=4.1e-16  Score=120.70  Aligned_cols=122  Identities=16%  Similarity=0.121  Sum_probs=87.9

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCc-ccCCCeEEEEEEcCccchHHHHHHHHh-hC-CCCcEEEEeCchH
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE-LTLKGVTQYYAFVQERQKVHCLNTLFS-KL-QINQSIIFCNSTQ   87 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~-~~~~~i~~~~~~~~~~~k~~~l~~ll~-~~-~~~~~lIF~~t~~   87 (140)
                      ...|++++|||+++.....    ........+.+. ...+.    +...+...+...+...+. .. ...++||||+|++
T Consensus       385 ~~~q~i~~SAT~~~~~~~~----~~~~~~~~~r~~~l~~p~----i~v~~~~~~~~~Ll~~l~~~~~~~~~vlVf~~t~~  456 (661)
T 2d7d_A          385 HMHNIVYVSATPGPYEIEH----TDEMVEQIIRPTGLLDPL----IDVRPIEGQIDDLIGEIQARIERNERVLVTTLTKK  456 (661)
T ss_dssp             TCSEEEEECSSCCHHHHHH----CSSCEEECCCTTCCCCCE----EEEECSTTHHHHHHHHHHHHHTTTCEEEEECSSHH
T ss_pred             cCCCEEEEecCCChhHHHh----hhCeeeeeecccCCCCCe----EEEecccchHHHHHHHHHHHHhcCCeEEEEECCHH
Confidence            3689999999998654322    112112222221 12221    111223334444444343 32 4679999999999


Q ss_pred             HHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         88 RVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        88 ~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .++.+++.|++.|+++..+||++++.+|..++++|++|+++||||||++++|+
T Consensus       457 ~ae~L~~~L~~~gi~~~~lh~~~~~~~R~~~l~~f~~g~~~VLVaT~~l~~Gl  509 (661)
T 2d7d_A          457 MSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGL  509 (661)
T ss_dssp             HHHHHHHHHHHTTCCEEEECTTCCHHHHHHHHHHHHHTSCSEEEESCCCSTTC
T ss_pred             HHHHHHHHHHhcCCCeEEEeCCCCHHHHHHHHHHHhcCCeEEEEecchhhCCc
Confidence            99999999999999999999999999999999999999999999999999996

>4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A

Probab=99.70  E-value=3.7e-17  Score=132.23  Aligned_cols=125  Identities=14%  Similarity=0.183  Sum_probs=97.4

Q ss_pred             HHHHHhhCC-----------CCCeEEEEEec-CchhHHH-HHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHH
Q psy13287          2 LDHVISILP-----------HERQILLYSAT-FPLTVKN-FMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCL   67 (140)
Q Consensus         2 l~~il~~~~-----------~~~q~v~~SAT-~~~~~~~-~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l   67 (140)
                      ++.+++.++           .+.|++++||| .|..+.. .....+.    +.+. ......++.+.+..+   +|...|
T Consensus       229 i~~il~~l~~~~~~~~~~~~~~~q~ll~SAT~~p~~~~~~~~~~~l~----i~v~~~~~~~~~i~~~~~~~---~k~~~L  301 (1104)
T 4ddu_A          229 IRKAFSTIKQGKIYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLN----FTVGRLVSVARNITHVRISS---RSKEKL  301 (1104)
T ss_dssp             HHHHHHHHHHTSCCCCCSSCCCCEEEEECBSSCCCSSTTHHHHHHTC----CCCCBCCCCCCCEEEEEESC---CCHHHH
T ss_pred             HHHHHHhcccchhhhhhccCCCceEEEEcCCCCcHHHHHHHhhccee----EEeccCCCCcCCceeEEEec---CHHHHH
Confidence            456666665           78999999999 5655442 2222322    3333 345677888888766   567777


Q ss_pred             HHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEE-EEecCCCHHHHHHHHHHhhcCCccEEEE----ecccCCCC
Q psy13287         68 NTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCY-YIHARMAQAHRNRVFHDFRSGLCRNLVC----SGDSSAMM  140 (140)
Q Consensus        68 ~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~-~~h~~~~~~~R~~~~~~f~~g~~~vlv~----T~~~~rGl  140 (140)
                      .+++... ++++||||++++.++.+++.|+..|+++. .+||+     |.+ +++|++|+++||||    ||+++||+
T Consensus       302 ~~ll~~~-~~~~LVF~~s~~~a~~l~~~L~~~g~~~~~~lhg~-----rr~-l~~F~~G~~~VLVatas~TdvlarGI  372 (1104)
T 4ddu_A          302 VELLEIF-RDGILIFAQTEEEGKELYEYLKRFKFNVGETWSEF-----EKN-FEDFKVGKINILIGVQAYYGKLTRGV  372 (1104)
T ss_dssp             HHHHHHH-CSSEEEEESSSHHHHHHHHHHHHTTCCEEESSSSH-----HHH-HHHHHHTSCSEEEEETTTHHHHCCSC
T ss_pred             HHHHHhc-CCCEEEEECcHHHHHHHHHHHHhCCCCeeeEecCc-----HHH-HHHHHCCCCCEEEEecCCCCeeEecC
Confidence            8888774 58999999999999999999999999998 99993     555 99999999999999    99999997

>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=99.69  E-value=7.2e-16  Score=119.42  Aligned_cols=122  Identities=16%  Similarity=0.084  Sum_probs=87.6

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCC-cccCCCeEEEEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchH
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLME-ELTLKGVTQYYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQ   87 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~-~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~   87 (140)
                      ...|++++|||+++.....    ........+.+ ....+.+    ...+...+...+...+...  ...++||||+|++
T Consensus       379 ~~~q~i~~SAT~~~~~~~~----~~~~~~~~~r~~~l~~p~i----~v~~~~~~~~~Ll~~l~~~~~~~~~vlVf~~t~~  450 (664)
T 1c4o_A          379 RVSQVVFVSATPGPFELAH----SGRVVEQIIRPTGLLDPLV----RVKPTENQILDLMEGIRERAARGERTLVTVLTVR  450 (664)
T ss_dssp             TCSEEEEEESSCCHHHHHH----CSEEEEECSCTTCCCCCEE----EEECSTTHHHHHHHHHHHHHHTTCEEEEECSSHH
T ss_pred             hcCCEEEEecCCCHHHHHh----hhCeeeeeeccCCCCCCeE----EEecccchHHHHHHHHHHHHhcCCEEEEEECCHH
Confidence            3579999999998654222    11111111111 1122211    1122334444444444332  4679999999999


Q ss_pred             HHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         88 RVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        88 ~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .++.+++.|.+.|+++..+||++++.+|..++++|+.|+++|||||+++++|+
T Consensus       451 ~ae~L~~~L~~~gi~~~~lh~~~~~~~R~~~~~~f~~g~~~VLvaT~~l~~Gl  503 (664)
T 1c4o_A          451 MAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGL  503 (664)
T ss_dssp             HHHHHHHHHHHTTCCEEEECTTCCHHHHHHHHHHHHTTSCSEEEESCCCCTTC
T ss_pred             HHHHHHHHHHhcCCCceeecCCCCHHHHHHHHHHhhcCCceEEEccChhhcCc
Confidence            99999999999999999999999999999999999999999999999999996

>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=99.69  E-value=6.9e-18  Score=129.68  Aligned_cols=116  Identities=10%  Similarity=0.047  Sum_probs=84.3

Q ss_pred             HHHHhhCC-CCCeEEEEEecCchhHHHHHHHhcc-CCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEE
Q psy13287          3 DHVISILP-HERQILLYSATFPLTVKNFMEKHLK-DPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSI   80 (140)
Q Consensus         3 ~~il~~~~-~~~q~v~~SAT~~~~~~~~~~~~~~-~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~l   80 (140)
                      ..|++.++ ++.|++++|||+|+.+..    +.. ++..+.+...            .+. .+...+...+.+ ..+++|
T Consensus       298 ~~i~~~l~~~~~q~il~SAT~~~~~~~----~~~~~~~~~~v~~~------------~~~-~~~~~ll~~l~~-~~~~~L  359 (618)
T 2whx_A          298 GYISTRVEMGEAAAIFMTATPPGSTDP----FPQSNSPIEDIERE------------IPE-RSWNTGFDWITD-YQGKTV  359 (618)
T ss_dssp             HHHHHHHHHTSCEEEEECSSCTTCCCS----SCCCSSCEEEEECC------------CCS-SCCSSSCHHHHH-CCSCEE
T ss_pred             HHHHHHhcccCccEEEEECCCchhhhh----hhccCCceeeeccc------------CCH-HHHHHHHHHHHh-CCCCEE
Confidence            34555554 579999999999977442    222 3333333211            011 111112222333 367999


Q ss_pred             EEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         81 IFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        81 IF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      |||+|++.++.+++.|++.++++..+||+    +|..++++|++|+.+||||||+++||+
T Consensus       360 VF~~s~~~a~~l~~~L~~~g~~v~~lhg~----~R~~~l~~F~~g~~~VLVaTdv~~rGi  415 (618)
T 2whx_A          360 WFVPSIKAGNDIANCLRKSGKRVIQLSRK----TFDTEYPKTKLTDWDFVVTTDISEMGA  415 (618)
T ss_dssp             EECSSHHHHHHHHHHHHHTTCCEEEECTT----THHHHTTHHHHSCCSEEEECGGGGTTC
T ss_pred             EEECChhHHHHHHHHHHHcCCcEEEEChH----HHHHHHHhhcCCCcEEEEECcHHHcCc
Confidence            99999999999999999999999999984    788899999999999999999999996

>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=99.69  E-value=3.5e-18  Score=126.81  Aligned_cols=109  Identities=11%  Similarity=0.094  Sum_probs=71.2

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHH
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVE   90 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~   90 (140)
                      .+.|++++|||+++.+..+.    ..+           ..+......++...+...+..+ .+ ..+++||||++++.++
T Consensus       129 ~~~~~l~~SAT~~~~~~~~~----~~~-----------~~~~~~~~~~~~~~~~~~~~~l-~~-~~~~~lVF~~s~~~a~  191 (440)
T 1yks_A          129 NESATILMTATPPGTSDEFP----HSN-----------GEIEDVQTDIPSEPWNTGHDWI-LA-DKRPTAWFLPSIRAAN  191 (440)
T ss_dssp             TSCEEEEECSSCTTCCCSSC----CCS-----------SCEEEEECCCCSSCCSSSCHHH-HH-CCSCEEEECSCHHHHH
T ss_pred             CCceEEEEeCCCCchhhhhh----hcC-----------CCeeEeeeccChHHHHHHHHHH-Hh-cCCCEEEEeCCHHHHH
Confidence            57999999999987744221    111           1111111112222222222222 22 2679999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|++.++++..+||    ++|..++++|++|+++||||||++++|+
T Consensus       192 ~l~~~L~~~~~~v~~lhg----~~R~~~~~~F~~g~~~vLVaT~v~e~Gi  237 (440)
T 1yks_A          192 VMAASLRKAGKSVVVLNR----KTFEREYPTIKQKKPDFILATDIAEMGA  237 (440)
T ss_dssp             HHHHHHHHTTCCEEECCS----SSCC--------CCCSEEEESSSTTCCT
T ss_pred             HHHHHHHHcCCCEEEecc----hhHHHHHhhhcCCCceEEEECChhheee
Confidence            999999999999999999    4688999999999999999999999996

>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=99.67  E-value=1.9e-15  Score=126.34  Aligned_cols=135  Identities=16%  Similarity=0.093  Sum_probs=94.3

Q ss_pred             HHhhCCCCCeEEEEEecCchhHHHHHHHhccCC-cEEEcCCcccCCCeEEEEEEcCccch-------HHHHHHHHh-hCC
Q psy13287          5 VISILPHERQILLYSATFPLTVKNFMEKHLKDP-YEINLMEELTLKGVTQYYAFVQERQK-------VHCLNTLFS-KLQ   75 (140)
Q Consensus         5 il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~-~~i~~~~~~~~~~i~~~~~~~~~~~k-------~~~l~~ll~-~~~   75 (140)
                      +...++++.|++++|||+++. .++...+-..+ ....+.+...+..+...+........       ...+...+. ..+
T Consensus      1076 i~~~~~~~~riI~lSATl~N~-~dla~WL~~~~~~~~~~~~~~RPvpL~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~~~ 1154 (1724)
T 4f92_B         1076 ISSQIERPIRIVALSSSLSNA-KDVAHWLGCSATSTFNFHPNVRPVPLELHIQGFNISHTQTRLLSMAKPVYHAITKHSP 1154 (1724)
T ss_dssp             HHHTTSSCCEEEEEESCBTTH-HHHHHHHTCCSTTEEECCGGGCSSCEEEEEEEECCCSHHHHHHTTHHHHHHHHHHHCS
T ss_pred             HHhhcCCCceEEEEeCCCCCH-HHHHHHhCCCCCCeEEeCCCCCCCCeEEEEEeccCCCchhhhhhhcchHHHHHHHhcC
Confidence            445567789999999999854 55554432232 33344444444445555544432221       122333333 335


Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----------------------------------CceEEEEecCCCHHHHHHHHHH
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----------------------------------GYCCYYIHARMAQAHRNRVFHD  121 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----------------------------------~~~v~~~h~~~~~~~R~~~~~~  121 (140)
                      .+++||||+|++.|+.+|..|...                                  ...++++||+|++++|..+++.
T Consensus      1155 ~~~~lVF~~sR~~~~~~A~~L~~~~~~~~~~~~~~~~~~~~l~~~l~~~~d~~L~~~l~~GIa~hHagL~~~~R~~VE~l 1234 (1724)
T 4f92_B         1155 KKPVIVFVPSRKQTRLTAIDILTTCAADIQRQRFLHCTEKDLIPYLEKLSDSTLKETLLNGVGYLHEGLSPMERRLVEQL 1234 (1724)
T ss_dssp             SSCEEEEESSHHHHHHHHHHHHHHHHHTTCTTTTBCSCHHHHHHHHTTCCCHHHHHHHHTTEEEECTTSCHHHHHHHHHH
T ss_pred             CCCeeeeCCCHHHHHHHHHHHHHHHhhccchhhhhcccHHHHHHHHhhcccHHHHHHHhCCEEEECCCCCHHHHHHHHHH
Confidence            688999999999999988776421                                  2348999999999999999999


Q ss_pred             hhcCCccEEEEecccCCCC
Q psy13287        122 FRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       122 f~~g~~~vlv~T~~~~rGl  140 (140)
                      |++|.++|||||+.+++|+
T Consensus      1235 F~~G~i~VLvaT~tlA~GV 1253 (1724)
T 4f92_B         1235 FSSGAIQVVVASRSLCWGM 1253 (1724)
T ss_dssp             HHHTSBCEEEEEGGGSSSC
T ss_pred             HHCCCCeEEEEChHHHcCC
Confidence            9999999999999999996

>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=99.66  E-value=2.2e-17  Score=133.20  Aligned_cols=120  Identities=14%  Similarity=0.200  Sum_probs=92.5

Q ss_pred             CCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHH
Q psy13287         10 PHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQR   88 (140)
Q Consensus        10 ~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~   88 (140)
                      +...|++++|||+++. ......++.++..+.+. .....+++.+.+.   ..+|...|.++++.. ++++||||++++.
T Consensus       213 ~~~~q~~l~SAT~t~~-~~~~~~~~~~~~~i~v~~~~~~~~~i~~~~~---~~~k~~~L~~ll~~~-~~~~LVF~~t~~~  287 (1054)
T 1gku_B          213 VGEARGCLMVSTATAK-KGKKAELFRQLLNFDIGSSRITVRNVEDVAV---NDESISTLSSILEKL-GTGGIIYARTGEE  287 (1054)
T ss_dssp             EECCSSEEEECCCCSC-CCTTHHHHHHHHCCCCSCCEECCCCEEEEEE---SCCCTTTTHHHHTTS-CSCEEEEESSHHH
T ss_pred             ccCCceEEEEecCCCc-hhHHHHHhhcceEEEccCcccCcCCceEEEe---chhHHHHHHHHHhhc-CCCEEEEEcCHHH
Confidence            3568999999999988 65555555555445444 3345667888776   456777788888775 5789999999999


Q ss_pred             HHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEE----ecccCCCC
Q psy13287         89 VELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVC----SGDSSAMM  140 (140)
Q Consensus        89 ~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~----T~~~~rGl  140 (140)
                      |+.+++.|++. +++..+||++.     .++++|++|+++||||    ||+++||+
T Consensus       288 a~~l~~~L~~~-~~v~~lhg~~~-----~~l~~F~~G~~~VLVaTas~Tdv~~rGI  337 (1054)
T 1gku_B          288 AEEIYESLKNK-FRIGIVTATKK-----GDYEKFVEGEIDHLIGTAHYYGTLVRGL  337 (1054)
T ss_dssp             HHHHHHTTTTS-SCEEECTTSSS-----HHHHHHHHTSCSEEEEECC------CCS
T ss_pred             HHHHHHHHhhc-cCeeEEeccHH-----HHHHHHHcCCCcEEEEecCCCCeeEecc
Confidence            99999999988 99999999984     7899999999999999    89999997

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=99.66  E-value=1.9e-16  Score=117.19  Aligned_cols=110  Identities=10%  Similarity=0.089  Sum_probs=78.5

Q ss_pred             CCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHH
Q psy13287         10 PHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRV   89 (140)
Q Consensus        10 ~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~   89 (140)
                      +.++|++++|||+++.+..+    ...           ...+.......+. .+...+..++.. ..+++||||++++.+
T Consensus       122 ~~~~~~l~~SAT~~~~~~~~----~~~-----------~~~i~~~~~~~~~-~~~~~~~~~l~~-~~~~~lVF~~~~~~~  184 (431)
T 2v6i_A          122 MGDAGAIFMTATPPGTTEAF----PPS-----------NSPIIDEETRIPD-KAWNSGYEWITE-FDGRTVWFVHSIKQG  184 (431)
T ss_dssp             TTSCEEEEEESSCTTCCCSS----CCC-----------SSCCEEEECCCCS-SCCSSCCHHHHS-CSSCEEEECSSHHHH
T ss_pred             CCCCcEEEEeCCCCcchhhh----cCC-----------CCceeeccccCCH-HHHHHHHHHHHc-CCCCEEEEeCCHHHH
Confidence            45799999999999742211    110           0111111001111 111222333444 367899999999999


Q ss_pred             HHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         90 ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        90 ~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.+++.|++.++++..+||+    +|..++++|++|+++|||||+++++|+
T Consensus       185 ~~l~~~L~~~~~~v~~lhg~----~r~~~~~~f~~g~~~vLVaT~v~e~Gi  231 (431)
T 2v6i_A          185 AEIGTCLQKAGKKVLYLNRK----TFESEYPKCKSEKWDFVITTDISEMGA  231 (431)
T ss_dssp             HHHHHHHHHTTCCEEEESTT----THHHHTTHHHHSCCSEEEECGGGGTSC
T ss_pred             HHHHHHHHHcCCeEEEeCCc----cHHHHHHhhcCCCCeEEEECchHHcCc
Confidence            99999999999999999997    578999999999999999999999996

>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=99.66  E-value=1.1e-15  Score=112.93  Aligned_cols=80  Identities=15%  Similarity=0.246  Sum_probs=70.4

Q ss_pred             cchHHHHHHHHhh----CCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEec--------CCCHHHHHHHHHHhhcCCcc
Q psy13287         61 RQKVHCLNTLFSK----LQINQSIIFCNSTQRVELLAKKITELGYCCYYIHA--------RMAQAHRNRVFHDFRSGLCR  128 (140)
Q Consensus        61 ~~k~~~l~~ll~~----~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~--------~~~~~~R~~~~~~f~~g~~~  128 (140)
                      ..|...+.+++..    .+..++||||++++.++.+++.|+..|+++..+||        +++..+|..++++|++|+++
T Consensus       342 ~~k~~~l~~~l~~~~~~~~~~k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~~~~~  421 (494)
T 1wp9_A          342 HPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFN  421 (494)
T ss_dssp             CHHHHHHHHHHHHHHHHCTTCCEEEECSCHHHHHHHHHHHHHTTCCEEEECCSSCC-------CCHHHHHHHHHHHTSCS
T ss_pred             ChHHHHHHHHHHHHhccCCCCeEEEEEccHHHHHHHHHHHHHcCCCcEEEeccccccccccCCHHHHHHHHHHHhcCCce
Confidence            3466777777766    46789999999999999999999999999999999        99999999999999999999


Q ss_pred             EEEEecccCCCC
Q psy13287        129 NLVCSGDSSAMM  140 (140)
Q Consensus       129 vlv~T~~~~rGl  140 (140)
                      +||||+++++|+
T Consensus       422 vLv~T~~~~~Gl  433 (494)
T 1wp9_A          422 VLVATSVGEEGL  433 (494)
T ss_dssp             EEEECGGGGGGG
T ss_pred             EEEECCccccCC
Confidence            999999999996

>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=99.65  E-value=6.7e-16  Score=129.03  Aligned_cols=132  Identities=18%  Similarity=0.214  Sum_probs=92.6

Q ss_pred             hhCCCCCeEEEEEecCchhHHHHHHHhccC-C--cEEEcCCcccCCCeEEEEEEcCccc---hHHHH----HHHHh-hCC
Q psy13287          7 SILPHERQILLYSATFPLTVKNFMEKHLKD-P--YEINLMEELTLKGVTQYYAFVQERQ---KVHCL----NTLFS-KLQ   75 (140)
Q Consensus         7 ~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~-~--~~i~~~~~~~~~~i~~~~~~~~~~~---k~~~l----~~ll~-~~~   75 (140)
                      +.++++.|+|++|||+|+. .+++ .|++. +  ....+.....+-.+.+.++.+....   +...+    .+.+. ...
T Consensus       239 ~~~~~~~riI~LSATl~N~-~dvA-~wL~~~~~~~~~~~~~~~RPvpL~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~  316 (1724)
T 4f92_B          239 EMTQEDVRLIGLSATLPNY-EDVA-TFLRVDPAKGLFYFDNSFRPVPLEQTYVGITEKKAIKRFQIMNEIVYEKIMEHAG  316 (1724)
T ss_dssp             HHHTCCCEEEEEECSCTTH-HHHH-HHTTCCHHHHEEECCGGGCSSCEEEECCEECCCCHHHHHHHHHHHHHHHHTTCCS
T ss_pred             HhCCCCCcEEEEecccCCH-HHHH-HHhCCCCCCCeEEECCCCccCccEEEEeccCCcchhhhhHHHHHHHHHHHHHHhc
Confidence            3456789999999999853 5544 45542 2  1223333334445666655544322   12222    22222 224


Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc-------------------------------------CceEEEEecCCCHHHHHHH
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL-------------------------------------GYCCYYIHARMAQAHRNRV  118 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~-------------------------------------~~~v~~~h~~~~~~~R~~~  118 (140)
                      .+++||||+|++.|+.+|+.|.+.                                     ...++++||+|++++|..+
T Consensus       317 ~~~~LVF~~sR~~~~~~A~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Gva~HHagL~~~~R~~v  396 (1724)
T 4f92_B          317 KNQVLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSASTEVLRTEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLV  396 (1724)
T ss_dssp             SCCEEEECSSTTTTHHHHHHHHHHHHHTTSTTCCSSCCTTCSSHHHHTTSCCSTHHHHHHTTTTEEEECSSSCTHHHHHH
T ss_pred             CCcEEEECCCHHHHHHHHHHHHHHHhhccchhhhcccchhHHHHHHhhhcccccHHHHHHhhcCEEEEcCCCCHHHHHHH
Confidence            678999999999999999888541                                     2348999999999999999


Q ss_pred             HHHhhcCCccEEEEecccCCCC
Q psy13287        119 FHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       119 ~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ++.|++|.++|||||+.+|+|+
T Consensus       397 E~~F~~G~i~vlvaTsTLa~GV  418 (1724)
T 4f92_B          397 EDLFADKHIQVLVSTATLAWGV  418 (1724)
T ss_dssp             HHHHHTTCCCEEEECHHHHHHS
T ss_pred             HHHHHCCCCeEEEEcchhHhhC
Confidence            9999999999999999999996

>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3 catalytic subunit; nucleotide-binding, capsid protein; 2.75A {Murray valley encephalitis virus}

Probab=99.64  E-value=2e-16  Score=122.58  Aligned_cols=109  Identities=13%  Similarity=0.124  Sum_probs=78.6

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHH
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVE   90 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~   90 (140)
                      .+.|++++|||+++.+..+    ...           ...+......++...+...+.. +.+ ..+++||||++++.++
T Consensus       362 ~~~~vl~~SAT~~~~i~~~----~~~-----------~~~i~~v~~~~~~~~~~~~l~~-l~~-~~~~~lVF~~s~~~~e  424 (673)
T 2wv9_A          362 GEAAAIFMTATPPGTSDPF----PDT-----------NSPVHDVSSEIPDRAWSSGFEW-ITD-YAGKTVWFVASVKMSN  424 (673)
T ss_dssp             TSCEEEEECSSCTTCCCSS----CCC-----------SSCEEEEECCCCSSCCSSCCHH-HHS-CCSCEEEECSSHHHHH
T ss_pred             cCCcEEEEcCCCChhhhhh----ccc-----------CCceEEEeeecCHHHHHHHHHH-HHh-CCCCEEEEECCHHHHH
Confidence            5789999999999763321    111           0111111111121222122222 222 4789999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|++.++++..+||+    +|..++++|++|+++||||||++++|+
T Consensus       425 ~la~~L~~~g~~v~~lHg~----eR~~v~~~F~~g~~~VLVaTdv~e~GI  470 (673)
T 2wv9_A          425 EIAQCLQRAGKRVIQLNRK----SYDTEYPKCKNGDWDFVITTDISEMGA  470 (673)
T ss_dssp             HHHHHHHTTTCCEEEECSS----SHHHHGGGGGTCCCSEEEECGGGGTTC
T ss_pred             HHHHHHHhCCCeEEEeChH----HHHHHHHHHHCCCceEEEECchhhcce
Confidence            9999999999999999994    799999999999999999999999996

>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=99.63  E-value=2.4e-15  Score=113.48  Aligned_cols=80  Identities=16%  Similarity=0.198  Sum_probs=39.4

Q ss_pred             cchHHHHHHHHhh----CCCCcEEEEeCchHHHHHHHHHHHhc------------CceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         61 RQKVHCLNTLFSK----LQINQSIIFCNSTQRVELLAKKITEL------------GYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        61 ~~k~~~l~~ll~~----~~~~~~lIF~~t~~~~~~~~~~L~~~------------~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      ..|...|.+++..    .++.++||||+++..++.+++.|++.            |.....+||++++++|..++++|++
T Consensus       371 ~~K~~~L~~~l~~~~~~~~~~k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~R~~~~~~F~~  450 (556)
T 4a2p_A          371 NPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKT  450 (556)
T ss_dssp             CHHHHHHHHHHHHHHHHCTTCCEEEEESSHHHHHHHHHHHTTCSGGGSCCEEC---------------------------
T ss_pred             ChHHHHHHHHHHHHhcCCCCceEEEEEccHHHHHHHHHHHHhCCCcceeeeeEEEccCCcccccccCHHHHHHHHHHhcc
Confidence            3466667777754    35789999999999999999999875            5556677888999999999999999


Q ss_pred             -CCccEEEEecccCCCC
Q psy13287        125 -GLCRNLVCSGDSSAMM  140 (140)
Q Consensus       125 -g~~~vlv~T~~~~rGl  140 (140)
                       |+++|||||+++++|+
T Consensus       451 ~g~~~vLvaT~~~~~Gi  467 (556)
T 4a2p_A          451 SKDNRLLIATSVADEGI  467 (556)
T ss_dssp             ---CCEEEEEC------
T ss_pred             cCceEEEEEcCchhcCC
Confidence             9999999999999996

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*

Probab=99.63  E-value=1.4e-16  Score=123.60  Aligned_cols=80  Identities=14%  Similarity=0.163  Sum_probs=52.6

Q ss_pred             cchHHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhcC----ceEEEE--------ecCCCHHHHHHHHHHhhc
Q psy13287         61 RQKVHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITELG----YCCYYI--------HARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        61 ~~k~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~~----~~v~~~--------h~~~~~~~R~~~~~~f~~  124 (140)
                      ..|...|.+++...    +..++||||++++.++.+++.|+..+    +++..+        ||++++++|..++++|++
T Consensus       379 ~~k~~~L~~ll~~~~~~~~~~~~IIF~~~~~~~~~l~~~L~~~~~~~~~~~~~l~G~~~~~~h~~~~~~eR~~v~~~F~~  458 (696)
T 2ykg_A          379 NPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKA  458 (696)
T ss_dssp             CHHHHHHHHHHHHHHTTCTTCCEEEECSCHHHHHHHHHHHHHCTTCCSCCEEC---------------------------
T ss_pred             CHHHHHHHHHHHHHhccCCCCcEEEEeCcHHHHHHHHHHHHhCCCccccceeEEEccCCCccccCCCHHHHHHHHHHHHh
Confidence            45778888888765    56789999999999999999999987    888888        559999999999999998


Q ss_pred             -CCccEEEEecccCCCC
Q psy13287        125 -GLCRNLVCSGDSSAMM  140 (140)
Q Consensus       125 -g~~~vlv~T~~~~rGl  140 (140)
                       |+++|||||+++++|+
T Consensus       459 ~g~~~vLVaT~v~~~Gi  475 (696)
T 2ykg_A          459 SGDHNILIATSVADEGI  475 (696)
T ss_dssp             --CCSCSEEEESSCCC-
T ss_pred             cCCccEEEEechhhcCC
Confidence             9999999999999996

>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=99.63  E-value=6.3e-16  Score=119.98  Aligned_cols=65  Identities=25%  Similarity=0.306  Sum_probs=57.3

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc------CceEEEEecC--------CCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL------GYCCYYIHAR--------MAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~------~~~v~~~h~~--------~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ..++||||++++.++.+++.|+..      |+++..+||+        |++.+|..++++|++|+++|||||+++++|+
T Consensus       400 ~~~~IVF~~s~~~~~~l~~~L~~~~~l~~~g~~~~~lhg~~~~~~~~~~~~~eR~~~~~~F~~g~~~VLVaT~~~~~GI  478 (699)
T 4gl2_A          400 SARGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGL  478 (699)
T ss_dssp             CCCEEEECSCHHHHHHHHHHHHSSCSCC-----CEECCCSCCCTTCCCCCHHHHHHHHHHHCC---CCSEEECSCCTTS
T ss_pred             CCcEEEEECcHHHHHHHHHHHHhCccccccCcceEEEECCCCccCCCCCCHHHHHHHHHHHhcCCCcEEEEccccccCC
Confidence            789999999999999999999987      8999999999        9999999999999999999999999999997

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=99.63  E-value=4.9e-15  Score=111.63  Aligned_cols=79  Identities=19%  Similarity=0.191  Sum_probs=45.9

Q ss_pred             chHHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhcC------------ceEEEEecCCCHHHHHHHHHHhhc-
Q psy13287         62 QKVHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITELG------------YCCYYIHARMAQAHRNRVFHDFRS-  124 (140)
Q Consensus        62 ~k~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~~------------~~v~~~h~~~~~~~R~~~~~~f~~-  124 (140)
                      .|...+.+++...    +..++||||++++.++.+++.|+..+            .....+||+|++++|..++++|++ 
T Consensus       371 ~k~~~l~~~l~~~~~~~~~~k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~R~~~~~~F~~~  450 (555)
T 3tbk_A          371 PKLRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGMTLPAQKCVLEAFRAS  450 (555)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCCEEEECSSHHHHHHHHHHHHHCGGGTTCCEEECCC-------------------------
T ss_pred             HHHHHHHHHHHHHhccCCCceEEEEeCcHHHHHHHHHHHhhCcCcCceeeeEEEecCCcccccccCHHHHHHHHHHHhcC
Confidence            4666666666543    56899999999999999999998863            344555669999999999999999 


Q ss_pred             CCccEEEEecccCCCC
Q psy13287        125 GLCRNLVCSGDSSAMM  140 (140)
Q Consensus       125 g~~~vlv~T~~~~rGl  140 (140)
                      |+++|||||+++++|+
T Consensus       451 g~~~vLvaT~~~~~Gl  466 (555)
T 3tbk_A          451 GDNNILIATSVADEGI  466 (555)
T ss_dssp             -CCSEEEECCCTTCCE
T ss_pred             CCeeEEEEcchhhcCC
Confidence            9999999999999996

>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=99.62  E-value=7.9e-16  Score=114.46  Aligned_cols=110  Identities=11%  Similarity=0.051  Sum_probs=79.5

Q ss_pred             CCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHH
Q psy13287         10 PHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRV   89 (140)
Q Consensus        10 ~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~   89 (140)
                      +++.|++++|||+|+.+...   +..++..+..........         ...+    ..++.+ ..+++||||+|++.+
T Consensus       139 ~~~~~~i~~SAT~~~~~~~~---~~~~~~~~~~~~~~p~~~---------~~~~----~~~l~~-~~~~~lVF~~s~~~a  201 (451)
T 2jlq_A          139 MGEAAAIFMTATPPGSTDPF---PQSNSPIEDIEREIPERS---------WNTG----FDWITD-YQGKTVWFVPSIKAG  201 (451)
T ss_dssp             TTSCEEEEECSSCTTCCCSS---CCCSSCEEEEECCCCSSC---------CSSS----CHHHHH-CCSCEEEECSSHHHH
T ss_pred             CCCceEEEEccCCCccchhh---hcCCCceEecCccCCchh---------hHHH----HHHHHh-CCCCEEEEcCCHHHH
Confidence            45799999999998754332   233444333321100000         0111    223333 367899999999999


Q ss_pred             HHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         90 ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        90 ~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.+++.|++.++.+..+||++.    ..++++|++|+.+||||||++++|+
T Consensus       202 ~~l~~~L~~~g~~~~~lh~~~~----~~~~~~f~~g~~~vLVaT~v~~~Gi  248 (451)
T 2jlq_A          202 NDIANCLRKSGKRVIQLSRKTF----DTEYPKTKLTDWDFVVTTDISEMGA  248 (451)
T ss_dssp             HHHHHHHHTTTCCEEEECTTTH----HHHGGGGGSSCCSEEEECGGGGSSC
T ss_pred             HHHHHHHHHcCCeEEECCHHHH----HHHHHhhccCCceEEEECCHHHhCc
Confidence            9999999999999999999754    5799999999999999999999996

>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=99.61  E-value=1.1e-14  Score=112.58  Aligned_cols=124  Identities=10%  Similarity=0.066  Sum_probs=95.4

Q ss_pred             CeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHH
Q psy13287         13 RQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRV   89 (140)
Q Consensus        13 ~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~   89 (140)
                      ..+.++|+|+.....++.+.+ + ...+.+.+..+...+.+ ..++....+|...+.+.+...  ...|+||||+|++.+
T Consensus       410 ~kL~GMTGTa~te~~Ef~~iY-~-l~vv~IPtnkp~~R~d~~d~vy~t~~eK~~al~~~I~~~~~~gqpVLVFt~S~e~s  487 (822)
T 3jux_A          410 EKLAGMTGTAKTEESEFVQVY-G-MEVVVIPTHKPMIRKDHDDLVFRTQKEKYEKIVEEIEKRYKKGQPVLVGTTSIEKS  487 (822)
T ss_dssp             SEEEEEESSCGGGHHHHHHHS-C-CCEEECCCSSCCCCEECCCEEESSHHHHHHHHHHHHHHHHHHTCCEEEEESSHHHH
T ss_pred             hHHeEECCCCchHHHHHHHHh-C-CeEEEECCCCCcceeecCcEEEecHHHHHHHHHHHHHHHhhCCCCEEEEECCHHHH
Confidence            358899999998766665444 2 33555544433344444 345667788988888888653  467899999999999


Q ss_pred             HHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         90 ELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        90 ~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +.+++.|++.|+++..+||+..+.+|..+.++++.|  .|+||||+++||+
T Consensus       488 E~Ls~~L~~~Gi~~~vLhgkq~~rE~~ii~~ag~~g--~VtVATdmAgRGt  536 (822)
T 3jux_A          488 ELLSSMLKKKGIPHQVLNAKYHEKEAEIVAKAGQKG--MVTIATNMAGRGT  536 (822)
T ss_dssp             HHHHHHHHTTTCCCEEECSCHHHHHHHHHHHHHSTT--CEEEEETTTTTTC
T ss_pred             HHHHHHHHHCCCCEEEeeCCchHHHHHHHHhCCCCC--eEEEEcchhhCCc
Confidence            999999999999999999997666666666777666  7999999999996

>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=99.59  E-value=1.3e-14  Score=113.50  Aligned_cols=123  Identities=7%  Similarity=0.017  Sum_probs=93.9

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      .+..+|+|......++...+--+  .+.+........+.+ .++++...+|...|.+.+...  ...++||||+|++.++
T Consensus       369 kl~GmTGTa~te~~e~~~iY~l~--vv~IPtn~p~~r~d~~d~v~~~~~~K~~al~~~i~~~~~~~~pvLVft~s~~~se  446 (844)
T 1tf5_A          369 KLAGMTGTAKTEEEEFRNIYNMQ--VVTIPTNRPVVRDDRPDLIYRTMEGKFKAVAEDVAQRYMTGQPVLVGTVAVETSE  446 (844)
T ss_dssp             EEEEEESCCGGGHHHHHHHHCCC--EEECCCSSCCCCEECCCEEESSHHHHHHHHHHHHHHHHHHTCCEEEEESCHHHHH
T ss_pred             hhccCCcccchhHHHHHHHhCCc--eEEecCCCCcccccCCcEEEeCHHHHHHHHHHHHHHHHhcCCcEEEEECCHHHHH
Confidence            46789999988766665554323  444433222222222 255667788999888887643  4678999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|++.|+++..+||++.+.+|..+.++|+.|  .|+||||+++||+
T Consensus       447 ~Ls~~L~~~gi~~~vLhg~~~~rEr~ii~~ag~~g--~VlIATdmAgRG~  494 (844)
T 1tf5_A          447 LISKLLKNKGIPHQVLNAKNHEREAQIIEEAGQKG--AVTIATNMAGRGT  494 (844)
T ss_dssp             HHHHHHHTTTCCCEEECSSCHHHHHHHHTTTTSTT--CEEEEETTSSTTC
T ss_pred             HHHHHHHHCCCCEEEeeCCccHHHHHHHHHcCCCC--eEEEeCCccccCc
Confidence            99999999999999999999988888777777666  7999999999996

>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=99.58  E-value=7.8e-16  Score=114.75  Aligned_cols=61  Identities=10%  Similarity=0.107  Sum_probs=55.1

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++||||++++.++.+++.|++.++.+..+||+    +|..++++|++|+.+||||||++++|+
T Consensus       190 ~~~~LVF~~s~~~~~~l~~~L~~~g~~v~~lh~~----~R~~~~~~f~~g~~~iLVaT~v~~~Gi  250 (459)
T 2z83_A          190 AGKTVWFVASVKMGNEIAMCLQRAGKKVIQLNRK----SYDTEYPKCKNGDWDFVITTDISEMGA  250 (459)
T ss_dssp             CSCEEEECSCHHHHHHHHHHHHHTTCCEEEESTT----CCCCCGGGSSSCCCSEEEESSCC---C
T ss_pred             CCCEEEEeCChHHHHHHHHHHHhcCCcEEecCHH----HHHHHHhhccCCCceEEEECChHHhCe
Confidence            6789999999999999999999999999999995    678899999999999999999999996

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=99.58  E-value=8.9e-16  Score=115.35  Aligned_cols=138  Identities=16%  Similarity=0.077  Sum_probs=92.3

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHH-HHhccCCcEEEcCCc-------ccCCCeEEEEEEcC--------------
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFM-EKHLKDPYEINLMEE-------LTLKGVTQYYAFVQ--------------   59 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~-~~~~~~~~~i~~~~~-------~~~~~i~~~~~~~~--------------   59 (140)
                      ...+++.++...+++++|||+++...... ...+..+..+.....       ..+..+.......+              
T Consensus       242 ~~~il~~~~~~~~~l~lSATp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  321 (510)
T 2oca_A          242 ISSIISGLNNCMFKFGLSGSLRDGKANIMQYVGMFGEIFKPVTTSKLMEDGQVTELKINSIFLRYPDEFTTKLKGKTYQE  321 (510)
T ss_dssp             HHHHGGGCTTCCEEEEEESCGGGCSSCHHHHHHHHCSEECCCCCC---------CCEEEEEEEECCHHHHHHHTTCCHHH
T ss_pred             HHHHHHhcccCcEEEEEEeCCCCCcccHHHhHHhhCCeEEeeCHHHHhhCCcCCCceEEEEeecCChHHhccccccchHH
Confidence            45678888888899999999986642211 111223322222211       11111122111111              


Q ss_pred             -------ccchHHHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccE
Q psy13287         60 -------ERQKVHCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRN  129 (140)
Q Consensus        60 -------~~~k~~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~v  129 (140)
                             ...+...+.+++...   ...++||||+ .+.++.+++.|.+.+.++..+||++++.+|..++++|++|+.++
T Consensus       322 ~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ivf~~-~~~~~~l~~~L~~~~~~v~~~~g~~~~~~r~~i~~~f~~g~~~v  400 (510)
T 2oca_A          322 EIKIITGLSKRNKWIAKLAIKLAQKDENAFVMFKH-VSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGII  400 (510)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTTCEEEEEESS-HHHHHHHHHHHHTTCSSEEEESSSTTHHHHHHHHHHHHHCCSCE
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHhcCCCeEEEEec-HHHHHHHHHHHHHcCCCeEEEECCCCHHHHHHHHHHHhCCCCCE
Confidence                   112344455655544   3345566666 89999999999998889999999999999999999999999999


Q ss_pred             EEEe-cccCCCC
Q psy13287        130 LVCS-GDSSAMM  140 (140)
Q Consensus       130 lv~T-~~~~rGl  140 (140)
                      |||| +++++|+
T Consensus       401 Lv~T~~~~~~Gi  412 (510)
T 2oca_A          401 IVASYGVFSTGI  412 (510)
T ss_dssp             EEEEHHHHHHSC
T ss_pred             EEEEcChhhccc
Confidence            9999 9999996

>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=99.58  E-value=2.9e-14  Score=111.50  Aligned_cols=123  Identities=9%  Similarity=0.035  Sum_probs=96.4

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      .+..+|+|......++.+.+-  ...+.+.+..+.....+ .++++...+|...|.+.+...  ...++||||+|++.++
T Consensus       378 kl~GmTGTa~te~~ef~~iY~--l~vv~IPtn~p~~R~d~~d~v~~~~~~K~~al~~~i~~~~~~gqpvLVft~sie~se  455 (853)
T 2fsf_A          378 KLAGMTGTADTEAFEFSSIYK--LDTVVVPTNRPMIRKDLPDLVYMTEAEKIQAIIEDIKERTAKGQPVLVGTISIEKSE  455 (853)
T ss_dssp             EEEEEECTTCCCHHHHHHHHC--CEEEECCCSSCCCCEECCCEEESSHHHHHHHHHHHHHHHHTTTCCEEEEESSHHHHH
T ss_pred             hhhcCCCCchhHHHHHHHHhC--CcEEEcCCCCCceeecCCcEEEeCHHHHHHHHHHHHHHHhcCCCCEEEEECcHHHHH
Confidence            467899999877665554442  23444543333333333 345677888999999888543  4578999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|++.|+++..+||++.+.+|..+.+.|+.|  .|+||||+|+||+
T Consensus       456 ~Ls~~L~~~gi~~~vLnak~~~rEa~iia~agr~G--~VtIATnmAgRGt  503 (853)
T 2fsf_A          456 LVSNELTKAGIKHNVLNAKFHANEAAIVAQAGYPA--AVTIATNMAGRGT  503 (853)
T ss_dssp             HHHHHHHHTTCCCEECCTTCHHHHHHHHHTTTSTT--CEEEEESCCSSCS
T ss_pred             HHHHHHHHCCCCEEEecCChhHHHHHHHHhcCCCC--eEEEecccccCCc
Confidence            99999999999999999999999999999999988  7999999999996

>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=99.57  E-value=1.6e-15  Score=116.92  Aligned_cols=114  Identities=16%  Similarity=0.182  Sum_probs=78.2

Q ss_pred             HHHHHhhCCCCCe--EEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcE
Q psy13287          2 LDHVISILPHERQ--ILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQS   79 (140)
Q Consensus         2 l~~il~~~~~~~q--~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~   79 (140)
                      +..|++.++...|  ++++|||+|+.+.      ...+....+... ....+.    .......       +.....+++
T Consensus       338 l~~Il~~l~~~~~~llil~SAT~~~~i~------~~~p~i~~v~~~-~~~~i~----~~~~~~~-------l~~~~~~~v  399 (666)
T 3o8b_A          338 IGTVLDQAETAGARLVVLATATPPGSVT------VPHPNIEEVALS-NTGEIP----FYGKAIP-------IEAIRGGRH  399 (666)
T ss_dssp             HHHHHHHTTTTTCSEEEEEESSCTTCCC------CCCTTEEEEECB-SCSSEE----ETTEEEC-------GGGSSSSEE
T ss_pred             HHHHHHhhhhcCCceEEEECCCCCcccc------cCCcceEEEeec-ccchhH----HHHhhhh-------hhhccCCcE
Confidence            5667888887666  6777999997421      112222111100 001111    0111001       233467899


Q ss_pred             EEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ||||||++.++.+++.|++.++++..+||++++++       |++++.+||||||+++||+
T Consensus       400 LVFv~Tr~~ae~la~~L~~~g~~v~~lHG~l~q~e-------r~~~~~~VLVATdVaerGI  453 (666)
T 3o8b_A          400 LIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSV-------IPTIGDVVVVATDALMTGY  453 (666)
T ss_dssp             EEECSCHHHHHHHHHHHHTTTCCEEEECTTSCGGG-------SCSSSCEEEEECTTHHHHC
T ss_pred             EEEeCCHHHHHHHHHHHHhCCCcEEEecCCCCHHH-------HHhCCCcEEEECChHHccC
Confidence            99999999999999999999999999999999875       5566779999999999996

>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=99.55  E-value=4.8e-14  Score=111.20  Aligned_cols=79  Identities=16%  Similarity=0.199  Sum_probs=40.8

Q ss_pred             chHHHHHHHHhh----CCCCcEEEEeCchHHHHHHHHHHHhc------------CceEEEEecCCCHHHHHHHHHHhhc-
Q psy13287         62 QKVHCLNTLFSK----LQINQSIIFCNSTQRVELLAKKITEL------------GYCCYYIHARMAQAHRNRVFHDFRS-  124 (140)
Q Consensus        62 ~k~~~l~~ll~~----~~~~~~lIF~~t~~~~~~~~~~L~~~------------~~~v~~~h~~~~~~~R~~~~~~f~~-  124 (140)
                      .|+..|.++|..    .+..++||||++++.++.+++.|++.            |..+..+||++++.+|..++++|++ 
T Consensus       613 ~K~~~L~~lL~~~~~~~~~~kvLIF~~~~~~~~~L~~~L~~~~~~~~~~~~~l~G~~~~~~hg~~~~~eR~~~l~~F~~~  692 (797)
T 4a2q_A          613 PKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTS  692 (797)
T ss_dssp             HHHHHHHHHHHHHHHHCSSCCEEEEESSHHHHHHHHHHHHTCSTTCSCCCEEC---------------------------
T ss_pred             hHHHHHHHHHHHHhccCCCCeEEEEECcHHHHHHHHHHHHhCcccccccceEEEecCCcccCCCCCHHHHHHHHHHhhcc
Confidence            466667777754    35689999999999999999999873            5567778999999999999999999 


Q ss_pred             CCccEEEEecccCCCC
Q psy13287        125 GLCRNLVCSGDSSAMM  140 (140)
Q Consensus       125 g~~~vlv~T~~~~rGl  140 (140)
                      |++++||||+++++|+
T Consensus       693 g~~~vLVaT~~~~~GI  708 (797)
T 4a2q_A          693 KDNRLLIATSVADEGI  708 (797)
T ss_dssp             -CCSEEEEECC-----
T ss_pred             CCceEEEEcCchhcCC
Confidence            9999999999999996

>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=99.53  E-value=3.5e-15  Score=117.09  Aligned_cols=126  Identities=16%  Similarity=0.120  Sum_probs=86.0

Q ss_pred             CCCCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEEEEEcCccchHHHHHHHHh-hC-CCCcEEEEeCch
Q psy13287         10 PHERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQYYAFVQERQKVHCLNTLFS-KL-QINQSIIFCNST   86 (140)
Q Consensus        10 ~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~~~~~~~~~k~~~l~~ll~-~~-~~~~~lIF~~t~   86 (140)
                      ..++|++++|||+++......  .+++.....+. .......+...+  ++ ..+...+.+.+. .. ...+++|||++.
T Consensus       514 ~~~~~vL~mSATp~p~tl~~~--~~g~~~~s~i~~~p~~r~~i~~~~--~~-~~~~~~l~~~i~~~l~~g~qvlVf~~~i  588 (780)
T 1gm5_A          514 GKMVDTLVMSATPIPRSMALA--FYGDLDVTVIDEMPPGRKEVQTML--VP-MDRVNEVYEFVRQEVMRGGQAFIVYPLI  588 (780)
T ss_dssp             SSCCCEEEEESSCCCHHHHHH--HTCCSSCEEECCCCSSCCCCEECC--CC-SSTHHHHHHHHHHHTTTSCCBCCBCCCC
T ss_pred             CCCCCEEEEeCCCCHHHHHHH--HhCCcceeeeeccCCCCcceEEEE--ec-cchHHHHHHHHHHHHhcCCcEEEEecch
Confidence            356899999999987765543  33332222222 111222333322  22 233334444443 33 467899999965


Q ss_pred             --------HHHHHHHHHHHh---cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         87 --------QRVELLAKKITE---LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        87 --------~~~~~~~~~L~~---~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                              ..++.+++.|.+   .++++..+||+|++++|..++++|++|+++|||||+++++|+
T Consensus       589 e~se~l~~~~a~~l~~~L~~~~~~~~~v~~lHG~m~~~eR~~v~~~F~~G~~~ILVaT~vie~GI  653 (780)
T 1gm5_A          589 EESDKLNVKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGI  653 (780)
T ss_dssp             --------CHHHHHHHSGGGSCC---CBCCCCSSSCCSCSHHHHHHHTTTSSSBCCCSSCCCSCS
T ss_pred             hhhhhhhHHHHHHHHHHHHhhhcCCCcEEEEeCCCCHHHHHHHHHHHHCCCCeEEEECCCCCccc
Confidence                    457889999988   378999999999999999999999999999999999999996

>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=99.52  E-value=1.8e-13  Score=107.42  Aligned_cols=123  Identities=12%  Similarity=0.056  Sum_probs=95.0

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      .+..+|+|......++.+.+  +...+.+.+........+ .++++...+|...+.+.+...  ...++||||+|++.++
T Consensus       397 kL~GMTGTa~te~~Ef~~iY--~l~vv~IPtn~p~~R~d~~d~v~~t~~~K~~al~~~i~~~~~~gqpvLVft~Sie~sE  474 (922)
T 1nkt_A          397 KLAGMTGTAQTEAAELHEIY--KLGVVSIPTNMPMIREDQSDLIYKTEEAKYIAVVDDVAERYAKGQPVLIGTTSVERSE  474 (922)
T ss_dssp             EEEEEESCCGGGHHHHHHHH--CCEEEECCCSSCCCCEECCCEEESCHHHHHHHHHHHHHHHHHTTCCEEEEESCHHHHH
T ss_pred             hhhccccCchhHHHHHHHHh--CCCeEEeCCCCCcccccCCcEEEeCHHHHHHHHHHHHHHHHhcCCcEEEEECCHHHHH
Confidence            56789999987766555444  223444443332222222 345667788998888877543  4568999999999999


Q ss_pred             HHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         91 LLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        91 ~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+++.|++.|+++..+||++.+.+|..+.+.|+.|  .|+||||+++||+
T Consensus       475 ~Ls~~L~~~Gi~~~vLnak~~~rEa~iia~agr~G--~VtIATnmAgRGt  522 (922)
T 1nkt_A          475 YLSRQFTKRRIPHNVLNAKYHEQEATIIAVAGRRG--GVTVATNMAGRGT  522 (922)
T ss_dssp             HHHHHHHHTTCCCEEECSSCHHHHHHHHHTTTSTT--CEEEEETTCSTTC
T ss_pred             HHHHHHHHCCCCEEEecCChhHHHHHHHHhcCCCC--eEEEecchhhcCc
Confidence            99999999999999999999888888888899888  7999999999996

>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus, hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A

Probab=99.52  E-value=3.7e-14  Score=109.86  Aligned_cols=123  Identities=15%  Similarity=0.189  Sum_probs=85.9

Q ss_pred             HHHHhhCC-CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEE
Q psy13287          3 DHVISILP-HERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSII   81 (140)
Q Consensus         3 ~~il~~~~-~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lI   81 (140)
                      ..++..++ .+.+++++|||.+ .+..+.... +....+....  .......    ...  .   + ..+.... ...+|
T Consensus       261 ~~~l~~l~~~~i~il~~SAT~~-~i~~l~~~~-~~~~~v~~~~--r~~~l~~----~~~--~---l-~~l~~~~-~g~iI  325 (677)
T 3rc3_A          261 TRALLGLCAEEVHLCGEPAAID-LVMELMYTT-GEEVEVRDYK--RLTPISV----LDH--A---L-ESLDNLR-PGDCI  325 (677)
T ss_dssp             HHHHHHCCEEEEEEEECGGGHH-HHHHHHHHH-TCCEEEEECC--CSSCEEE----CSS--C---C-CSGGGCC-TTEEE
T ss_pred             HHHHHccCccceEEEeccchHH-HHHHHHHhc-CCceEEEEee--ecchHHH----HHH--H---H-HHHHhcC-CCCEE
Confidence            45666676 6789999999953 344444333 3333332211  0111110    000  0   0 1122323 34589


Q ss_pred             EeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc--CCccEEEEecccCCCC
Q psy13287         82 FCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS--GLCRNLVCSGDSSAMM  140 (140)
Q Consensus        82 F~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~--g~~~vlv~T~~~~rGl  140 (140)
                      ||+|+++++.+++.|++.++.+..+||+|++++|..+++.|++  |+++||||||++++|+
T Consensus       326 f~~s~~~ie~la~~L~~~g~~v~~lHG~L~~~~R~~~~~~F~~~~g~~~VLVATdi~e~Gl  386 (677)
T 3rc3_A          326 VCFSKNDIYSVSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGL  386 (677)
T ss_dssp             ECSSHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHCTTSSCCEEEECGGGGSSC
T ss_pred             EEcCHHHHHHHHHHHHhcCCCeeeeeccCCHHHHHHHHHHHHccCCCeEEEEeCcHHHCCc
Confidence            9999999999999999999999999999999999999999999  8999999999999997

>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination, hydrolase-recombination complex; 2.00A {Sulfolobus solfataricus} SCOP: c.37.1.19

Probab=99.48  E-value=1.8e-13  Score=95.73  Aligned_cols=83  Identities=8%  Similarity=0.149  Sum_probs=75.9

Q ss_pred             cCccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhc-CceEEEEecCCCHHHHHHHHHHhhcC-Ccc-EEEE
Q psy13287         58 VQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITEL-GYCCYYIHARMAQAHRNRVFHDFRSG-LCR-NLVC  132 (140)
Q Consensus        58 ~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~-~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~-vlv~  132 (140)
                      ...+.|+..|.+++...  +..++||||++...++.+++.|.+. |+++..+||++++.+|..++++|++| +++ +|++
T Consensus        92 ~~~s~K~~~L~~ll~~~~~~~~kvlIFs~~~~~~~~l~~~L~~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~v~L~s  171 (271)
T 1z5z_A           92 VRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLS  171 (271)
T ss_dssp             STTCHHHHHHHHHHHHHHHTTCCEEEEESCHHHHHHHHHHHHHHHCSCCCEECTTSCHHHHHHHHHHHHHCTTCCEEEEE
T ss_pred             cccCHHHHHHHHHHHHHHhCCCeEEEEeccHHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHhcCCCCCCEEEEe
Confidence            45678999999999876  6789999999999999999999885 99999999999999999999999998 788 7999


Q ss_pred             ecccCCCC
Q psy13287        133 SGDSSAMM  140 (140)
Q Consensus       133 T~~~~rGl  140 (140)
                      |+++++|+
T Consensus       172 t~~~g~Gl  179 (271)
T 1z5z_A          172 VKAGGFGI  179 (271)
T ss_dssp             CCTTCCCC
T ss_pred             hhhhcCCc
Confidence            99999996

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=99.47  E-value=8.2e-13  Score=100.99  Aligned_cols=65  Identities=11%  Similarity=0.169  Sum_probs=56.6

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCce--------EEEEecCCCHHHHHHHHHHhhcCCcc---EEEEecccCCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYC--------CYYIHARMAQAHRNRVFHDFRSGLCR---NLVCSGDSSAMM  140 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~--------v~~~h~~~~~~~R~~~~~~f~~g~~~---vlv~T~~~~rGl  140 (140)
                      +.+++||||++++.|+.+++.|++.+..        +..+||+++. +|..++++|++|+.+   +||||+++++|+
T Consensus       438 ~~~k~lVF~~~~~~a~~l~~~L~~~~~~~~~~~~~~~~~i~g~~~~-~r~~~l~~F~~~~~~~~~ilvtt~~l~~Gi  513 (590)
T 3h1t_A          438 RFAKTIVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTSEEGK-IGKGHLSRFQELETSTPVILTTSQLLTTGV  513 (590)
T ss_dssp             TTSEEEEEESSHHHHHHHHHHHHHHTHHHHTTCTTSEEECSSTTHH-HHHHHHHHHHCTTCCCCCEEEESSTTTTTC
T ss_pred             CCccEEEEECCHHHHHHHHHHHHHhhhhhhccCCCeEEEEeCCChH-HHHHHHHHHhCCCCCCCEEEEECChhhcCc
Confidence            3579999999999999999999876442        7889999763 799999999998876   899999999996

>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=99.47  E-value=9.9e-14  Score=111.33  Aligned_cols=84  Identities=18%  Similarity=0.219  Sum_probs=78.2

Q ss_pred             EcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHh-cCceEEEEecCCCHHHHHHHHHHhhcCC--ccEEEEe
Q psy13287         57 FVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITE-LGYCCYYIHARMAQAHRNRVFHDFRSGL--CRNLVCS  133 (140)
Q Consensus        57 ~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~-~~~~v~~~h~~~~~~~R~~~~~~f~~g~--~~vlv~T  133 (140)
                      ++....|...+.+++...+..++||||++++.++.+++.|+. .|+++..+||++++.+|..++++|++|+  +++||||
T Consensus       484 ~~~~~~K~~~L~~ll~~~~~~k~iVF~~~~~~~~~l~~~L~~~~g~~~~~lhG~~~~~~R~~~l~~F~~g~~~~~vLvaT  563 (968)
T 3dmq_A          484 WWNFDPRVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCS  563 (968)
T ss_dssp             TTTTSHHHHHHHHHHHHTSSSCCCEECSSTHHHHHHHHHHHTTTCCCEEEECTTSCTTHHHHHHHHHHSTTSSCEEEECS
T ss_pred             ccCccHHHHHHHHHHHhCCCCCEEEEeCcHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccEEEec
Confidence            445667999999999887789999999999999999999995 5999999999999999999999999998  9999999


Q ss_pred             cccCCCC
Q psy13287        134 GDSSAMM  140 (140)
Q Consensus       134 ~~~~rGl  140 (140)
                      +++++|+
T Consensus       564 ~v~~~Gl  570 (968)
T 3dmq_A          564 EIGSEGR  570 (968)
T ss_dssp             CCTTCSS
T ss_pred             chhhcCC
Confidence            9999996

>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=99.47  E-value=1.7e-15  Score=112.89  Aligned_cols=76  Identities=21%  Similarity=0.333  Sum_probs=69.4

Q ss_pred             ccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCC
Q psy13287         60 ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      ...|...+.+++......++||||++++.++.+++.|.     +..+||+++..+|..++++|++|++++||||+++++|
T Consensus       333 ~~~k~~~l~~~l~~~~~~k~lvF~~~~~~~~~l~~~l~-----~~~~~g~~~~~~R~~~~~~F~~g~~~vLv~T~~~~~G  407 (472)
T 2fwr_A          333 SKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFL-----IPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEG  407 (472)
T ss_dssp             CSHHHHHHHHHHHHTSSSCBCCBCSCHHHHHHHHHHTT-----CCBCCSSSCSHHHHTHHHHHHHSSCSBCBCSSCCCSS
T ss_pred             ChHHHHHHHHHHHhCCCCcEEEEECCHHHHHHHHHHhC-----cceeeCCCCHHHHHHHHHHHhCCCCCEEEEcCchhcC
Confidence            44577888999988778899999999999999999983     6689999999999999999999999999999999999


Q ss_pred             C
Q psy13287        140 M  140 (140)
Q Consensus       140 l  140 (140)
                      +
T Consensus       408 l  408 (472)
T 2fwr_A          408 I  408 (472)
T ss_dssp             S
T ss_pred             c
Confidence            6

>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=99.43  E-value=1.9e-13  Score=109.44  Aligned_cols=81  Identities=17%  Similarity=0.217  Sum_probs=44.2

Q ss_pred             ccchHHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhc------------CceEEEEecCCCHHHHHHHHHHhh
Q psy13287         60 ERQKVHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITEL------------GYCCYYIHARMAQAHRNRVFHDFR  123 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~------------~~~v~~~h~~~~~~~R~~~~~~f~  123 (140)
                      ...|+..|.++|...    +..++||||++++.++.+++.|++.            |.....+||+|++.+|..++++|+
T Consensus       611 ~~~K~~~L~~lL~~~~~~~~~~rvLIF~~t~~~ae~L~~~L~~~~~l~~ik~~~l~G~~~~~~hg~m~~~eR~~il~~Fr  690 (936)
T 4a2w_A          611 ENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFK  690 (936)
T ss_dssp             CCHHHHHHHHHHHHTTTSCTTCCEEEEESSHHHHHHHHHHHHHCSTTSSCCCEEC-------------------------
T ss_pred             CCHHHHHHHHHHHHHhccCCCCeEEEEeCCHHHHHHHHHHHhhCccccccceeEEecCCCcccCCCCCHHHHHHHHHHhh
Confidence            356888888888763    4689999999999999999999986            556677799999999999999999


Q ss_pred             c-CCccEEEEecccCCCC
Q psy13287        124 S-GLCRNLVCSGDSSAMM  140 (140)
Q Consensus       124 ~-g~~~vlv~T~~~~rGl  140 (140)
                      + |++++||||+++++|+
T Consensus       691 ~~g~~~VLVaT~~~~eGI  708 (936)
T 4a2w_A          691 TSKDNRLLIATSVADEGI  708 (936)
T ss_dssp             ---CCSEEEEECC-----
T ss_pred             ccCCeeEEEEeCchhcCC
Confidence            9 9999999999999996

>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=99.23  E-value=3.1e-11  Score=90.42  Aligned_cols=81  Identities=7%  Similarity=0.132  Sum_probs=71.1

Q ss_pred             ccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhc-CceEEEEecCCCHHHHHHHHHHhhcC-Ccc-EEEEec
Q psy13287         60 ERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITEL-GYCCYYIHARMAQAHRNRVFHDFRSG-LCR-NLVCSG  134 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~-~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~-vlv~T~  134 (140)
                      .+.|...+.+++...  ++.++||||+++..++.+++.|.+. |+++..+||++++.+|..++++|++| +.+ +|+||+
T Consensus       323 ~s~K~~~l~~~l~~~~~~~~k~lvF~~~~~~~~~l~~~l~~~~~~~~~~~~g~~~~~~R~~~~~~F~~~~~~~vil~st~  402 (500)
T 1z63_A          323 RSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVK  402 (500)
T ss_dssp             TCHHHHHHHHHHHHHHTTTCCEEEECSCHHHHHHHHHHHHHHHTCCCCEEETTSCHHHHHHHHHHHHHCTTCCCCEEECC
T ss_pred             cchhHHHHHHHHHHHHccCCcEEEEEehHHHHHHHHHHHHHhhCCCeEEEECCCCHHHHHHHHHHhcCCCCCCEEEEecc
Confidence            356888888888765  5679999999999999999999885 99999999999999999999999998 566 799999


Q ss_pred             ccCCCC
Q psy13287        135 DSSAMM  140 (140)
Q Consensus       135 ~~~rGl  140 (140)
                      ++++|+
T Consensus       403 ~~~~Gl  408 (500)
T 1z63_A          403 AGGFGI  408 (500)
T ss_dssp             CC-CCC
T ss_pred             cccCCC
Confidence            999996

>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=99.14  E-value=2.6e-10  Score=88.17  Aligned_cols=80  Identities=15%  Similarity=0.245  Sum_probs=71.1

Q ss_pred             cchHHHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCcc---EEEEec
Q psy13287         61 RQKVHCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCR---NLVCSG  134 (140)
Q Consensus        61 ~~k~~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~---vlv~T~  134 (140)
                      +.|+..+..++...   ...++||||+++..++.+++.|...|+.+..+||+++..+|..++++|++|+..   +|++|+
T Consensus       398 s~K~~~l~~ll~~~~~~~~~k~lIFs~~~~~~~~l~~~l~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~L~st~  477 (644)
T 1z3i_X          398 SGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSK  477 (644)
T ss_dssp             SHHHHHHHHHHHHHHHHCCCEEEEEESCHHHHHHHHHHHHHHTCCEEEECSSCCHHHHHHHHHHHHSTTCCCCEEEEEGG
T ss_pred             ChHHHHHHHHHHHHhhcCCCEEEEEEccHHHHHHHHHHHHHCCCCEEEEeCCCCHHHHHHHHHHhcCCCCCcEEEEEecc
Confidence            45677777776554   468999999999999999999999999999999999999999999999998764   899999


Q ss_pred             ccCCCC
Q psy13287        135 DSSAMM  140 (140)
Q Consensus       135 ~~~rGl  140 (140)
                      ++++|+
T Consensus       478 a~g~Gl  483 (644)
T 1z3i_X          478 AGGCGL  483 (644)
T ss_dssp             GSCTTC
T ss_pred             cccCCc
Confidence            999996

>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces cerevisiae}

Probab=99.04  E-value=5.7e-10  Score=88.18  Aligned_cols=80  Identities=16%  Similarity=0.250  Sum_probs=72.6

Q ss_pred             cchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCcc---EEEEecc
Q psy13287         61 RQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCR---NLVCSGD  135 (140)
Q Consensus        61 ~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~---vlv~T~~  135 (140)
                      +.|+..|.+++...  ...++||||+....++.+...|...|+++..+||+++..+|..++++|++|...   +|++|.+
T Consensus       555 s~K~~~L~~lL~~~~~~g~kvLIFsq~~~~ld~L~~~L~~~g~~~~~i~G~~~~~eR~~~i~~F~~~~~~~~v~LlSt~a  634 (800)
T 3mwy_W          555 SGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRA  634 (800)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCEEEEESCHHHHHHHHHHHHHHTCCCEEESTTSCHHHHHHHHHTTSSTTCSCCCEEEEHHH
T ss_pred             ChHHHHHHHHHHHHhhCCCeEEEEechHHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHhhCCCCCceEEEEeccc
Confidence            45888899988776  457899999999999999999999999999999999999999999999986654   8999999


Q ss_pred             cCCCC
Q psy13287        136 SSAMM  140 (140)
Q Consensus       136 ~~rGl  140 (140)
                      ++.|+
T Consensus       635 gg~Gl  639 (800)
T 3mwy_W          635 GGLGI  639 (800)
T ss_dssp             HTTTC
T ss_pred             ccCCC
Confidence            99996

>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=98.95  E-value=2.5e-09  Score=86.37  Aligned_cols=65  Identities=6%  Similarity=-0.045  Sum_probs=52.5

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcC------------ceEE-EEecC----------C----------CH----------
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELG------------YCCY-YIHAR----------M----------AQ----------  112 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~------------~~v~-~~h~~----------~----------~~----------  112 (140)
                      ..++||||+|+..|..+++.|.+.+            ++++ .+||+          +          ++          
T Consensus       537 g~kamVf~~S~~~A~~~~~~l~~~~~~~~~~~~~~~~~k~avv~s~~~~~~~~~~G~~~~e~~~~~~~~~~~r~~l~~~I  616 (1038)
T 2w00_A          537 GFNAMLAVSSVDAAKAYYATFKRLQEEAANKSATYKPLRIATIFSFAANEEQNAIGEISDETFDTSAMDSSAKEFLDAAI  616 (1038)
T ss_dssp             CCEEEEEESSHHHHHHHHHHHHHHHHHHTTTSSSCCCCCEEEECCCCC------CCCCCCCCSCGGGSCHHHHHHHHHHH
T ss_pred             CCcEEEEECCHHHHHHHHHHHHhhhhhhcccccccccCcEEEEEeCCCccccccccccccccccccccchhHHHHHHHHH
Confidence            3579999999999999999998754            4554 45542          2          22          


Q ss_pred             -------------------HHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287        113 -------------------AHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       113 -------------------~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                                         .+|..++++|++|++++||+||.+++|.
T Consensus       617 ~dyn~~f~~~~~~~~~~~~~~R~~i~~~Fk~g~i~ILIvvd~lltGf  663 (1038)
T 2w00_A          617 REYNSHFKTNFSTDSNGFQNYYRDLAQRVKNQDIDLLIVVGMFLTGF  663 (1038)
T ss_dssp             HHHHHHHTCCCCSSHHHHHHHHHHHHHHHHTTSSSEEEESSTTSSSC
T ss_pred             HHHHHHhcccccccchhhhHHHHHHHHHHHcCCCeEEEEcchHHhCc
Confidence                               1488999999999999999999999995

>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase, nucleotide excision repair,; 2.20A {Thermoplasma acidophilum} PDB: 2vsf_A*

Probab=98.12  E-value=3e-05  Score=59.91  Aligned_cols=124  Identities=10%  Similarity=0.065  Sum_probs=72.0

Q ss_pred             CCCeEEEEEecCchhHHHHHHHhcc-CCcEEEcCCcccCCCeEEEEEE-cCc----cc--hHHHHHHHHhhC---CCCcE
Q psy13287         11 HERQILLYSATFPLTVKNFMEKHLK-DPYEINLMEELTLKGVTQYYAF-VQE----RQ--KVHCLNTLFSKL---QINQS   79 (140)
Q Consensus        11 ~~~q~v~~SAT~~~~~~~~~~~~~~-~~~~i~~~~~~~~~~i~~~~~~-~~~----~~--k~~~l~~ll~~~---~~~~~   79 (140)
                      ....+|++|||+.+ ..... ..++ +...+........++..-.+.. ++.    .+  -...+.+.+.+.   .++.+
T Consensus       374 ~~~~~il~SaTL~p-~~~~~-~~lGl~~~~~~~~spf~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~i~~l~~~~~g~~  451 (620)
T 4a15_A          374 KESKTIHMSGTLDP-FDFYS-DITGFEIPFKKIGEIFPPENRYIAYYDGVSSKYDTLDEKELDRMATVIEDIILKVKKNT  451 (620)
T ss_dssp             GGSEEEEEESSCCS-HHHHH-HHHCCCCCEEECCCCSCGGGEEEEEECCC-------CHHHHHHHHHHHHHHHHHHCSCE
T ss_pred             hCCeEEEEccCCCc-HHHHH-HHhCCCceeeecCCCCCHHHeEEEEeCCCCCcCCCCCHHHHHHHHHHHHHHHHhCCCCE
Confidence            55679999999986 33333 3333 2333444322233333222211 110    11  122333333222   47789


Q ss_pred             EEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec--ccCCCC
Q psy13287         80 IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG--DSSAMM  140 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~--~~~rGl  140 (140)
                      +||++|.+..+.+++.++..+.+   ...+++..+|..++++|+ ++--||+++.  -++.|+
T Consensus       452 lvlF~Sy~~l~~v~~~l~~~~~~---~~q~~~~~~~~~ll~~f~-~~~~vL~~v~~gsf~EGi  510 (620)
T 4a15_A          452 IVYFPSYSLMDRVENRVSFEHMK---EYRGIDQKELYSMLKKFR-RDHGTIFAVSGGRLSEGI  510 (620)
T ss_dssp             EEEESCHHHHHHHTSSCCSCCEE---CCTTCCSHHHHHHHHHHT-TSCCEEEEETTSCC----
T ss_pred             EEEeCCHHHHHHHHHHHHhcchh---ccCCCChhHHHHHHHHhc-cCCcEEEEEecCceeccc
Confidence            99999999999999998732322   555566678999999999 8888999985  666664

>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=97.96  E-value=1.1e-05  Score=54.87  Aligned_cols=43  Identities=33%  Similarity=0.566  Sum_probs=39.3

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCC
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME   44 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~   44 (140)
                      +..|++.++++.|++++|||+|+.+.+..+.++++|..|.++.
T Consensus       197 ~~~i~~~~~~~~q~~~~SAT~~~~~~~~~~~~l~~~~~i~~~~  239 (242)
T 3fe2_A          197 IRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINIGA  239 (242)
T ss_dssp             HHHHHTTSCSSCEEEEEESCCCHHHHHHHHHHCSSCEEEEECC
T ss_pred             HHHHHHhCCccceEEEEEeecCHHHHHHHHHHCCCCEEEEecC
Confidence            5678899999999999999999999999999999999998864

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=97.89  E-value=1.4e-05  Score=53.42  Aligned_cols=44  Identities=30%  Similarity=0.654  Sum_probs=38.3

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCCc
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEE   45 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~   45 (140)
                      +..+++.++++.|++++|||+|+.+.+..+.++++|..+.+...
T Consensus       171 l~~i~~~~~~~~~~l~~SAT~~~~~~~~~~~~~~~p~~~~~~~~  214 (219)
T 1q0u_A          171 VDQIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHVLEH  214 (219)
T ss_dssp             HHHHHHTSCTTCEEEEEESCCCGGGHHHHHHHCSSCEEEECC--
T ss_pred             HHHHHHhCCcccEEEEEecCCCHHHHHHHHHHcCCCeEEEeecc
Confidence            56788888889999999999999999999999999998877643

>2ipc_A Preprotein translocase SECA subunit; nucleotide binding fold, ATPase, parallel dimer; 2.80A {Thermus thermophilus}

Probab=97.87  E-value=0.00031  Score=56.24  Aligned_cols=82  Identities=12%  Similarity=0.018  Sum_probs=52.9

Q ss_pred             eEEEEEecCchhHHHHHHHhccCCcEEEcCCcccCCCeEE-EEEEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHH
Q psy13287         14 QILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQ-YYAFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVE   90 (140)
Q Consensus        14 q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~~-~~~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~   90 (140)
                      .+..+|.|......++.+.+--+  .+.+.+..+.....+ -.++.....|...+.+-+...  ...|+||+|.|.+..|
T Consensus       380 kLsGMTGTA~tE~~Ef~~iY~l~--Vv~IPTn~p~~R~D~~d~vy~t~~~K~~AIv~eI~~~~~~GqPVLVgT~SIe~SE  457 (997)
T 2ipc_A          380 KRAGMTGTAKTEEKEFQEIYGMD--VVVVPTNRPVIRKDFPDVVYRTEKGKFYAVVEEIAEKYERGQPVLVGTISIEKSE  457 (997)
T ss_dssp             EEEEEESSCGGGHHHHHHHHCCC--EEECCCSSCCCCEEEEEEEESSHHHHHHHHHHHHHHHHHHTCCEEEECSSHHHHH
T ss_pred             HheecCCCchHHHHHHHHHhCCC--EEEcCCCCCcccccCCCeEEcCHHHHHHHHHHHHHHHHHCCCCEEEEeCCHHHHH
Confidence            57889999987765554444323  444443332222222 223345567777766655433  4678999999999999


Q ss_pred             HHHHHHH
Q psy13287         91 LLAKKIT   97 (140)
Q Consensus        91 ~~~~~L~   97 (140)
                      .+++.|+
T Consensus       458 ~LS~~L~  464 (997)
T 2ipc_A          458 RLSQMLK  464 (997)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9999998

>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=97.87  E-value=1.7e-05  Score=54.23  Aligned_cols=53  Identities=25%  Similarity=0.388  Sum_probs=35.3

Q ss_pred             HHHHHhh--CCC--CCeEEEEEecCchhHHHHHHHhccCCcEEEcC-CcccCCCeEEE
Q psy13287          2 LDHVISI--LPH--ERQILLYSATFPLTVKNFMEKHLKDPYEINLM-EELTLKGVTQY   54 (140)
Q Consensus         2 l~~il~~--~~~--~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~-~~~~~~~i~~~   54 (140)
                      +..|++.  ++.  +.|++++|||+|+.+.++.+.++.+|..+.++ .+...++++|+
T Consensus       195 ~~~i~~~~~~~~~~~~q~l~~SAT~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~i~q~  252 (253)
T 1wrb_A          195 IRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMTVGRVGSTSDSIKQE  252 (253)
T ss_dssp             HHHHHHSSCCCCGGGCEEEEEESSCCHHHHHHHHHHCSSCEEEEEC------------
T ss_pred             HHHHHhhccCCCCCCcEEEEEEEeCCHHHHHHHHHHcCCCEEEEECCCCCCcCCceec
Confidence            4566664  343  68999999999999999999999999988887 34456667665

>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=97.63  E-value=7.9e-05  Score=49.80  Aligned_cols=43  Identities=28%  Similarity=0.517  Sum_probs=36.6

Q ss_pred             HHHHHhhCCCCCeEEEEEecCchhHHHHHHHhccCCcEEEcCC
Q psy13287          2 LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME   44 (140)
Q Consensus         2 l~~il~~~~~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~   44 (140)
                      +..+++.++++.|++++|||+|+.+.++.+.++++|..+.+..
T Consensus       176 l~~i~~~~~~~~~~i~lSAT~~~~~~~~~~~~~~~p~~i~~~~  218 (224)
T 1qde_A          176 IYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKK  218 (224)
T ss_dssp             HHHHHHHSCTTCEEEEEESSCCHHHHHHHHHHCSSCEEEC---
T ss_pred             HHHHHHhCCccCeEEEEEeecCHHHHHHHHHHCCCCEEEEecC
Confidence            5678888888999999999999999999999999998887753

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=97.63  E-value=0.00025  Score=51.70  Aligned_cols=60  Identities=12%  Similarity=0.111  Sum_probs=55.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHh---cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITE---LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~---~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.++++.-+..+++.+++   .++++..+||+.+..+|...++.+..|+.+|+|+|+
T Consensus        63 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~~~~l~~~~~~Iiv~Tp  125 (414)
T 3oiy_A           63 KGKKSALVFPTVTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFST  125 (414)
T ss_dssp             TTCCEEEEESSHHHHHHHHHHHHHHCCSSCCEEECCTTSCHHHHHHHHHHHHHTCCSEEEEEH
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHHHccCCceEEEEECCCChhhHHHHHHHhhcCCCCEEEECH
Confidence            467899999999999999999998   478999999999999999999999999999999997

>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer aging, hydrolase; HET: FLC; 2.00A {Sulfolobus acidocaldarius} PDB: 3crw_1*

Probab=97.49  E-value=0.0031  Score=47.95  Aligned_cols=127  Identities=12%  Similarity=0.134  Sum_probs=69.8

Q ss_pred             HHhhCCCC-CeEEEEEecCchhHHHHHHHhccCC-cEE----EcC-CcccCCCeEEEEEEc--Cc--c----chHHHHHH
Q psy13287          5 VISILPHE-RQILLYSATFPLTVKNFMEKHLKDP-YEI----NLM-EELTLKGVTQYYAFV--QE--R----QKVHCLNT   69 (140)
Q Consensus         5 il~~~~~~-~q~v~~SAT~~~~~~~~~~~~~~~~-~~i----~~~-~~~~~~~i~~~~~~~--~~--~----~k~~~l~~   69 (140)
                      .++.+... ..+|++|||+++  .......++-+ ...    ... +.....+. ..++..  +.  .    .-...+.+
T Consensus       307 ~l~~~~~~~~svIltSaTL~~--~~~~~~~lGl~~~~~~~~~~~~~~spf~~~~-~l~v~~~~~~~~~~r~~~~~~~l~~  383 (551)
T 3crv_A          307 YLNLLNDNELSIILMSGTLPP--REYMEKVWGIKRNMLYLDVEREIQKRVSGSY-ECYIGVDVTSKYDMRSDNMWKRYAD  383 (551)
T ss_dssp             HHGGGGCTTCEEEEEESSCCC--HHHHHHTSCCCSCEEEEEHHHHTTSCCSCEE-EEEEECSCCCCTTTCCHHHHHHHHH
T ss_pred             HHHHHhccCceEEEEeeCCCc--HHHHHHHhCCCCccccccceeecCCcCCCce-EEEEeCCCCCccccCCHHHHHHHHH
Confidence            34433344 789999999997  34444445532 111    111 11122222 222221  11  1    11233444


Q ss_pred             HHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEe--cccCCCC
Q psy13287         70 LFSKL---QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS--GDSSAMM  140 (140)
Q Consensus        70 ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T--~~~~rGl  140 (140)
                      .+.+.   .++.++||++|.+..+.+++.   .+.++..-..+++   +.+.++.|+.+.--||+||  .-++.|+
T Consensus       384 ~i~~l~~~~~g~~lvlF~Sy~~l~~v~~~---~~~~v~~q~~~~~---~~~~~~~~~~~~~~vl~~v~gg~~~EGi  453 (551)
T 3crv_A          384 YLLKIYFQAKANVLVVFPSYEIMDRVMSR---ISLPKYVESEDSS---VEDLYSAISANNKVLIGSVGKGKLAEGI  453 (551)
T ss_dssp             HHHHHHHHCSSEEEEEESCHHHHHHHHTT---CCSSEEECCSSCC---HHHHHHHTTSSSSCEEEEESSCCSCCSS
T ss_pred             HHHHHHHhCCCCEEEEecCHHHHHHHHHh---cCCcEEEcCCCCC---HHHHHHHHHhcCCeEEEEEecceecccc
Confidence            44332   578899999999999999873   3444543333445   3567788854334799998  5677775

>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=97.41  E-value=0.00024  Score=48.14  Aligned_cols=43  Identities=19%  Similarity=0.348  Sum_probs=35.7

Q ss_pred             HHHHHhhCC-CCCeEEEEEecCchhHHHHHHHhccCCcEEEcCC
Q psy13287          2 LDHVISILP-HERQILLYSATFPLTVKNFMEKHLKDPYEINLME   44 (140)
Q Consensus         2 l~~il~~~~-~~~q~v~~SAT~~~~~~~~~~~~~~~~~~i~~~~   44 (140)
                      +..++..+. .+.|++++|||+|+.+.+..+.++++|..+.++.
T Consensus       199 ~~~i~~~~~~~~~~~~~~SAT~~~~v~~~~~~~l~~p~~i~~~~  242 (245)
T 3dkp_A          199 LASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNVISVSIGA  242 (245)
T ss_dssp             HHHHHHHCCCTTCEEEEEESSCCHHHHHHHHHHSSSCEEEEECC
T ss_pred             HHHHHHhcCCCCcEEEEEeccCCHHHHHHHHHhCCCCEEEEeCC
Confidence            345555553 5789999999999999999999999999998864

>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=97.30  E-value=0.0008  Score=53.31  Aligned_cols=59  Identities=7%  Similarity=0.061  Sum_probs=54.4

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..+++|.++|+.-++.+++.+++.    ++++..+||+++..+|...++++.+|+.+|+|+|.
T Consensus       417 g~qvlvlaPtr~La~Q~~~~l~~~~~~~gi~v~~l~G~~~~~~r~~~~~~l~~g~~~IvVgT~  479 (780)
T 1gm5_A          417 GFQTAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTH  479 (780)
T ss_dssp             TSCEEEECSCHHHHHHHHHHHHHHHTCSSCCEEECCSSSCHHHHHHHHHHHHSSCCCEEEECT
T ss_pred             CCeEEEEeCcHHHHHHHHHHHHHHhhhcCceEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECH
Confidence            578999999999999988888754    78999999999999999999999999999999997

>4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A

Probab=97.22  E-value=0.0012  Score=54.15  Aligned_cols=60  Identities=12%  Similarity=0.111  Sum_probs=55.5

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHh---cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITE---LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~---~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.++++.-|..+++.+++   .++++..+||+.+..+|...++.+++|+.+|+|+|+
T Consensus       120 ~~~~~Lil~PtreLa~Q~~~~l~~l~~~~i~v~~l~Gg~~~~er~~~~~~l~~g~~~IlV~Tp  182 (1104)
T 4ddu_A          120 KGKKSALVFPTVTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFST  182 (1104)
T ss_dssp             TTCCEEEEESSHHHHHHHHHHHHTTSCTTSCEEEECTTCCTTHHHHHHHHHHTSCCSEEEEEH
T ss_pred             cCCeEEEEechHHHHHHHHHHHHHhhCCCCeEEEEeCCCCHHHHHHHHHHHhCCCCCEEEECH
Confidence            467899999999999999999998   467999999999999999999999999999999997

>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}

Probab=97.22  E-value=0.00045  Score=52.46  Aligned_cols=60  Identities=10%  Similarity=0.134  Sum_probs=41.1

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEE--EecccCCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLV--CSGDSSAMM  140 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv--~T~~~~rGl  140 (140)
                      .++.+|||++|.+.++.+++.+..  .. ...+|..  .+|..++++|+.|. .+|+  ||+.+++|+
T Consensus       383 ~~g~~lvff~S~~~~~~v~~~l~~--~~-~~~q~~~--~~~~~~l~~f~~~~-~il~~V~~~~~~EGi  444 (540)
T 2vl7_A          383 SSKSVLVFFPSYEMLESVRIHLSG--IP-VIEENKK--TRHEEVLELMKTGK-YLVMLVMRAKESEGV  444 (540)
T ss_dssp             CSSEEEEEESCHHHHHHHHTTCTT--SC-EEESTTT--CCHHHHHHHHHTSC-CEEEEEC--------
T ss_pred             CCCCEEEEeCCHHHHHHHHHHhcc--Cc-eEecCCC--CcHHHHHHHHhcCC-eEEEEEecCceecce
Confidence            577899999999999999998865  23 3556653  56889999999864 5776  889999996

>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=97.11  E-value=0.002  Score=48.73  Aligned_cols=59  Identities=10%  Similarity=0.140  Sum_probs=56.1

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+.+||.++++.-++...+.|+..|+.+..+||+.+..++..+++.+..|..+++++|+
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            57899999999999999999999999999999999999999999999999999999997

>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=97.05  E-value=0.0019  Score=49.62  Aligned_cols=60  Identities=12%  Similarity=0.197  Sum_probs=55.6

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHh--hcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDF--RSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f--~~g~~~vlv~T~  134 (140)
                      ..+++||.++++.-++...+.|++.|+++..++|+.+..++..+++.+  ..+..+++++|+
T Consensus        83 ~~g~~lVisP~~~L~~q~~~~l~~~gi~~~~l~~~~~~~~~~~~~~~l~~~~~~~~Ilv~Tp  144 (591)
T 2v1x_A           83 SDGFTLVICPLISLMEDQLMVLKQLGISATMLNASSSKEHVKWVHAEMVNKNSELKLIYVTP  144 (591)
T ss_dssp             SSSEEEEECSCHHHHHHHHHHHHHHTCCEEECCSSCCHHHHHHHHHHHHCTTCCCCEEEECH
T ss_pred             cCCcEEEEeCHHHHHHHHHHHHHhcCCcEEEEeCCCCHHHHHHHHHHhhcccCCCCEEEECh
Confidence            367899999999999999999999999999999999999999999988  578999999998

>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=96.73  E-value=0.0095  Score=39.44  Aligned_cols=55  Identities=5%  Similarity=0.111  Sum_probs=45.2

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++||.|++++-++.+++.+++.     +.++..++|+.+...+.   +.+..+..+++|+|.
T Consensus        83 ~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~v~~~~g~~~~~~~~---~~~~~~~~~i~v~T~  142 (220)
T 1t6n_A           83 VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDE---EVLKKNCPHIVVGTP  142 (220)
T ss_dssp             CCEEEECSCHHHHHHHHHHHHHHTTTSTTCCEEEESCCSCHHHHH---HHHHHSCCSEEEECH
T ss_pred             EEEEEEeCCHHHHHHHHHHHHHHHhhCCCceEEEEeCCCChHHHH---HHHhcCCCCEEEeCH
Confidence            47999999999999999888775     67899999998876554   344557789999996

>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=96.65  E-value=0.0089  Score=40.01  Aligned_cols=55  Identities=16%  Similarity=0.190  Sum_probs=44.4

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.|++++-++.+++.+++.     ++++..++|+.+..++...+     .+.+|+|+|.
T Consensus        91 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-----~~~~Iiv~Tp  150 (230)
T 2oxc_A           91 LSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRL-----KKCHIAVGSP  150 (230)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTSTTCCEEEECTTSCHHHHHHHT-----TSCSEEEECH
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHHHhcccCCceEEEEeCCCCHHHHHHhc-----cCCCEEEECH
Confidence            3468999999999999999988775     67899999998876654433     3579999997

>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=96.63  E-value=0.019  Score=39.00  Aligned_cols=56  Identities=7%  Similarity=0.081  Sum_probs=44.3

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.++++.-+..+++.+++.    ++++..++|+.+...+...+    .+..+|+|+|+
T Consensus       110 ~~~~~lil~Ptr~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~----~~~~~I~v~Tp  169 (249)
T 3ber_A          110 QRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLAL----AKKPHIIIATP  169 (249)
T ss_dssp             CSSCEEEECSSHHHHHHHHHHHHHHHGGGTCCEEEECTTSCHHHHHHHH----HTCCSEEEECH
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHHHhccCCeeEEEEECCCChHHHHHHh----cCCCCEEEECH
Confidence            3457999999999999999888765    78899999998876544333    25689999996

>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=96.33  E-value=0.03  Score=46.35  Aligned_cols=60  Identities=8%  Similarity=0.054  Sum_probs=54.1

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...+++|.|+|+.-++.+++.+++.    ++++..++|..+..++...++.+..|+.+|+|+|.
T Consensus       651 ~g~~vlvlvPt~~La~Q~~~~~~~~~~~~~i~v~~l~~~~~~~~~~~~~~~l~~g~~dIvV~T~  714 (1151)
T 2eyq_A          651 NHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTH  714 (1151)
T ss_dssp             TTCEEEEECSSHHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHHHHHHHHHHTTCCSEEEECT
T ss_pred             hCCeEEEEechHHHHHHHHHHHHHHhhcCCCeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECH
Confidence            4578999999999999999888753    67899999999999999999999999999999996

>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=96.31  E-value=0.021  Score=38.40  Aligned_cols=55  Identities=5%  Similarity=0.001  Sum_probs=44.3

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.+++++-++.+++.+++.    ++.+..++|+.+...+...+.   . ..+|+|+|+
T Consensus       102 ~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~---~-~~~I~v~Tp  160 (242)
T 3fe2_A          102 GPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLE---R-GVEICIATP  160 (242)
T ss_dssp             CCSEEEECSSHHHHHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHH---H-CCSEEEECH
T ss_pred             CCEEEEEeCcHHHHHHHHHHHHHHHhhcCceEEEEECCCChHHHHHHhc---C-CCCEEEECH
Confidence            457999999999999988877664    789999999998876655443   2 479999996

>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=96.08  E-value=0.031  Score=39.96  Aligned_cols=56  Identities=5%  Similarity=0.097  Sum_probs=45.8

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.|+++.-++.+++.+++.     +.++..++|+.+...+..   .+..+..+|+|+|.
T Consensus        76 ~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~~iiv~T~  136 (391)
T 1xti_A           76 QVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEE---VLKKNCPHIVVGTP  136 (391)
T ss_dssp             CCCEEEECSCHHHHHHHHHHHHHHTTTCTTCCEEEECTTSCHHHHHH---HHHHSCCSEEEECH
T ss_pred             CeeEEEECCCHHHHHHHHHHHHHHHhhCCCeEEEEEeCCCCHHHHHH---HHhcCCCCEEEECH
Confidence            458999999999999999988775     788999999988765543   34557789999996

>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=96.05  E-value=0.034  Score=36.24  Aligned_cols=55  Identities=4%  Similarity=-0.011  Sum_probs=42.7

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.++++.-++.+++.+++.     +..+..++|+.+.......   + .+..+|+|+|.
T Consensus        71 ~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~-~~~~~i~v~T~  130 (206)
T 1vec_A           71 NIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMR---L-DDTVHVVIATP  130 (206)
T ss_dssp             SCCEEEECSCHHHHHHHHHHHHHHTTTSSSCCEEEECSSSCHHHHHHH---T-TSCCSEEEECH
T ss_pred             CeeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEeCCccHHHHHHh---c-CCCCCEEEeCH
Confidence            457999999999999998888764     5689999999886543322   2 35679999997

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=95.94  E-value=0.023  Score=37.97  Aligned_cols=55  Identities=11%  Similarity=0.087  Sum_probs=41.8

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..++||.++++.-+..+++.+++.    ++.+..++|+.+.......+     +..+|+|+|.
T Consensus        96 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-----~~~~iiv~Tp  154 (236)
T 2pl3_A           96 DGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI-----NNINILVCTP  154 (236)
T ss_dssp             GCCCEEEECSSHHHHHHHHHHHHHHTTTSSCCEEEECCC--CHHHHHHH-----TTCSEEEECH
T ss_pred             CCceEEEEeCCHHHHHHHHHHHHHHhCCCCeeEEEEECCCCHHHHHHhC-----CCCCEEEECH
Confidence            3567999999999999999998875    47899999998765443332     4679999996

>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=95.75  E-value=0.048  Score=35.46  Aligned_cols=55  Identities=5%  Similarity=0.065  Sum_probs=43.3

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.|+++.-++.+++.+++.  +.++..++|+.+...+...+.    +..+++|+|+
T Consensus        72 ~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~i~v~T~  128 (207)
T 2gxq_A           72 KPRALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEALL----RGADAVVATP  128 (207)
T ss_dssp             CCSEEEECSSHHHHHHHHHHHHHHCTTSCEEEECSSSCSHHHHHHHH----HCCSEEEECH
T ss_pred             CCcEEEEECCHHHHHHHHHHHHHHhhcceEEEEECCCChHHHHHHhh----CCCCEEEECH
Confidence            467999999999999999999887  468899999987655433332    2578999996

>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=95.72  E-value=0.031  Score=37.55  Aligned_cols=57  Identities=12%  Similarity=0.175  Sum_probs=37.5

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.+++++-+..+++.+++.    +..+..++|+.+...   ..+.+..+..+++|+|+
T Consensus        97 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~---~~~~l~~~~~~Ilv~Tp  157 (237)
T 3bor_A           97 KETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRN---EMQKLQAEAPHIVVGTP  157 (237)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECC----------------CCCSEEEECH
T ss_pred             CCceEEEEECcHHHHHHHHHHHHHHhhhcCceEEEEECCCchHH---HHHHHhcCCCCEEEECH
Confidence            3468999999999999999998765    567888888865433   34456667789999995

>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=95.70  E-value=0.027  Score=46.18  Aligned_cols=58  Identities=14%  Similarity=0.281  Sum_probs=50.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----Cc----eEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GY----CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~----~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.++|+.-+..+++.+++.    ++    ++..+||+.+..++....+.+++  .+|+|+|+
T Consensus        98 ~~~~~lil~PtreLa~Q~~~~l~~l~~~~~i~~~~~v~~~~Gg~~~~~~~~~~~~l~~--~~IlV~TP  163 (1054)
T 1gku_B           98 KGKRCYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRN--FKIVITTT  163 (1054)
T ss_dssp             TSCCEEEEESCHHHHHHHHHHHHHHHTTTCCSGGGSEEECCSSCCSHHHHHHHHSGGG--CSEEEEEH
T ss_pred             cCCeEEEEeccHHHHHHHHHHHHHHHhhcCCCccceEEEEeCCCChhhHHHHHhhccC--CCEEEEcH
Confidence            4578999999999999999888754    56    89999999999998888888877  89999997

>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=95.70  E-value=0.017  Score=38.27  Aligned_cols=70  Identities=9%  Similarity=0.038  Sum_probs=43.2

Q ss_pred             ccchHHH-HHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEE
Q psy13287         60 ERQKVHC-LNTLFSKL----QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNL  130 (140)
Q Consensus        60 ~~~k~~~-l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vl  130 (140)
                      +.-|-.. +..++...    ...++||.++++.-++.+++.+++.    +.++..++|+.+..++...   +.  +.+|+
T Consensus        61 GsGKT~~~~~~~l~~l~~~~~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~--~~~ii  135 (224)
T 1qde_A           61 GTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEG---LR--DAQIV  135 (224)
T ss_dssp             TSSHHHHHHHHHHHHCCTTCCSCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECC-------------CT--TCSEE
T ss_pred             CCcHHHHHHHHHHHHHhccCCCceEEEEECCHHHHHHHHHHHHHHhcccCceEEEEeCCcchHHHHhc---CC--CCCEE
Confidence            4445433 44444433    3458999999999999999888764    6789999999776544332   22  37899


Q ss_pred             EEec
Q psy13287        131 VCSG  134 (140)
Q Consensus       131 v~T~  134 (140)
                      |+|.
T Consensus       136 v~Tp  139 (224)
T 1qde_A          136 VGTP  139 (224)
T ss_dssp             EECH
T ss_pred             EECH
Confidence            9996

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=95.67  E-value=0.028  Score=42.01  Aligned_cols=55  Identities=13%  Similarity=0.103  Sum_probs=43.3

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+++||.|+++.-+..+++.+++.    ++++..++|+.+...+...+.    +..+|+|+|.
T Consensus        52 ~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~i~v~T~  110 (555)
T 3tbk_A           52 KGKVVFFANQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHII----EDNDIIILTP  110 (555)
T ss_dssp             CCCEEEECSSHHHHHHHHHHHHHHHHTTTCCEEEECTTTGGGSCHHHHH----HHCSEEEECH
T ss_pred             CCEEEEEeCCHHHHHHHHHHHHHHhccCCcEEEEEcCCCcchhhHHHHh----cCCCEEEECH
Confidence            678999999999999988888775    889999999987665432222    2368999996

>3gk5_A Uncharacterized rhodanese-related protein TVG0868615; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.40A {Thermoplasma volcanium GSS1}

Probab=95.56  E-value=0.027  Score=33.28  Aligned_cols=46  Identities=13%  Similarity=0.229  Sum_probs=36.9

Q ss_pred             HHHHHHhhCC-CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         66 CLNTLFSKLQ-INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        66 ~l~~ll~~~~-~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      .+.+.+..++ ..++++||.+-..+...+..|++.|+++..+.|++.
T Consensus        44 ~l~~~~~~l~~~~~ivvyC~~G~rs~~aa~~L~~~G~~v~~l~GG~~   90 (108)
T 3gk5_A           44 ELREKWKILERDKKYAVICAHGNRSAAAVEFLSQLGLNIVDVEGGIQ   90 (108)
T ss_dssp             HHHHHGGGSCTTSCEEEECSSSHHHHHHHHHHHTTTCCEEEETTHHH
T ss_pred             HHHHHHHhCCCCCeEEEEcCCCcHHHHHHHHHHHcCCCEEEEcCcHH
Confidence            3444555554 467999999999999999999999999999999843

>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=95.51  E-value=0.036  Score=36.79  Aligned_cols=56  Identities=4%  Similarity=-0.019  Sum_probs=39.5

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc---CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL---GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~---~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.+++++-++.+++.+++.   +..+..++|+.+...+...   +. +..+|+|+|+
T Consensus        93 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~iiv~Tp  151 (228)
T 3iuy_A           93 NGPGMLVLTPTRELALHVEAECSKYSYKGLKSICIYGGRNRNGQIED---IS-KGVDIIIATP  151 (228)
T ss_dssp             CCCSEEEECSSHHHHHHHHHHHHHHCCTTCCEEEECC------CHHH---HH-SCCSEEEECH
T ss_pred             CCCcEEEEeCCHHHHHHHHHHHHHhcccCceEEEEECCCChHHHHHH---hc-CCCCEEEECH
Confidence            3567999999999999999999875   6788999998776544333   23 3489999996

>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=95.41  E-value=0.057  Score=36.46  Aligned_cols=54  Identities=9%  Similarity=0.088  Sum_probs=42.2

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++||.|++++-+..+++.+++.    +..+..++|+.+.......+    .+..+|+|+|.
T Consensus       101 ~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~----~~~~~Ivv~Tp  158 (253)
T 1wrb_A          101 PKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREV----QMGCHLLVATP  158 (253)
T ss_dssp             CSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCSHHHHHHH----SSCCSEEEECH
T ss_pred             ceEEEEECCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHh----CCCCCEEEECH
Confidence            57999999999999999888765    56788999998765543322    24679999997

>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=95.38  E-value=0.063  Score=42.56  Aligned_cols=55  Identities=9%  Similarity=0.003  Sum_probs=40.4

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+++||.|+++.-+..+++.+++.    ++++..+||+.+...+...+.    +..+|+|||.
T Consensus       296 ~~~~Lvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~~~----~~~~Ivv~Tp  354 (797)
T 4a2q_A          296 KAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVI----EDSDIIVVTP  354 (797)
T ss_dssp             CCCEEEECSSHHHHHHHHHHHHHHHGGGTCCEEEECCC-----CHHHHH----HTCSEEEECH
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHhcccCCceEEEEeCCcchhhhHHHhh----CCCCEEEEch
Confidence            678999999999999988888775    889999999987665433222    3578999996

>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=95.36  E-value=0.066  Score=38.20  Aligned_cols=55  Identities=7%  Similarity=0.013  Sum_probs=44.0

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.|+++.-++.+++.+++.    +.++..++|+.+..++...+.     ..+++|+|.
T Consensus        88 ~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~-----~~~i~v~T~  146 (394)
T 1fuu_A           88 KAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR-----DAQIVVGTP  146 (394)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECSSCCHHHHHHHHH-----HCSEEEECH
T ss_pred             CCCCEEEEcCCHHHHHHHHHHHHHHhccCCeeEEEEeCCCchHHHHhhcC-----CCCEEEECH
Confidence            3568999999999999998888764    678999999998776555444     358999985

>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=95.36  E-value=0.045  Score=41.01  Aligned_cols=55  Identities=9%  Similarity=0.003  Sum_probs=39.8

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+++||.|+++.-+..+++.+++.    ++++..+||+.+...+...+.    +..+|+|||.
T Consensus        55 ~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~i~v~T~  113 (556)
T 4a2p_A           55 KAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVI----EDSDIIVVTP  113 (556)
T ss_dssp             CCCEEEECSSHHHHHHHHHHHHHHHGGGTCCEEECCCC-----CHHHHH----HHCSEEEECH
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHHhcccCceEEEEeCCCCcchhHHHhh----CCCCEEEECH
Confidence            678999999999999998888775    889999999987665432222    2368999996

>3foj_A Uncharacterized protein; protein SSP1007, structural genomics, PSI-2, protein structure initiative; 1.60A {Staphylococcus saprophyticus subsp}

Probab=95.24  E-value=0.037  Score=32.07  Aligned_cols=35  Identities=14%  Similarity=0.246  Sum_probs=31.5

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARM  110 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~  110 (140)
                      ..++++||.+-..+...+..|+..|+++..+.|++
T Consensus        56 ~~~ivvyC~~g~rs~~a~~~L~~~G~~v~~l~GG~   90 (100)
T 3foj_A           56 NETYYIICKAGGRSAQVVQYLEQNGVNAVNVEGGM   90 (100)
T ss_dssp             TSEEEEECSSSHHHHHHHHHHHTTTCEEEEETTHH
T ss_pred             CCcEEEEcCCCchHHHHHHHHHHCCCCEEEecccH
Confidence            46789999999999999999999999999999984

>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=95.20  E-value=0.12  Score=37.55  Aligned_cols=55  Identities=9%  Similarity=0.123  Sum_probs=45.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc-Cc---eEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL-GY---CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~-~~---~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..++||.|+++.-++.+++.+++. +.   ++..+||+.+..++.....     ..+|+|+|.
T Consensus        51 ~~~~~liv~P~~~L~~q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~~~-----~~~ivv~T~  109 (494)
T 1wp9_A           51 YGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWA-----RAKVIVATP  109 (494)
T ss_dssp             SCSCEEEECSSHHHHHHHHHHHHHHBCSCGGGEEEECSCSCHHHHHHHHH-----HCSEEEECH
T ss_pred             CCCeEEEEECCHHHHHHHHHHHHHHhCcchhheEEeeCCcchhhhhhhcc-----CCCEEEecH
Confidence            5778999999999999999999876 65   8999999999887665543     358999986

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=95.13  E-value=0.023  Score=37.60  Aligned_cols=55  Identities=4%  Similarity=-0.028  Sum_probs=40.9

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc--------CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL--------GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~--------~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.+++++-++.+++.+++.        +..+..++|+.+.....   +.+ .+..+|+|+|.
T Consensus        72 ~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---~~~-~~~~~Iiv~Tp  134 (219)
T 1q0u_A           72 EVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKAL---EKL-NVQPHIVIGTP  134 (219)
T ss_dssp             SCCEEEECSSHHHHHHHHHHHHHHHTTSCGGGCCCEEEECCCSHHHHTT---CCC-SSCCSEEEECH
T ss_pred             CceEEEEcCcHHHHHHHHHHHHHHhhhcccccceEEEEEeCCCCHHHHH---HHc-CCCCCEEEeCH
Confidence            467999999999999998888664        57888999987654321   112 24678999996

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}

Probab=95.07  E-value=0.2  Score=36.04  Aligned_cols=54  Identities=9%  Similarity=0.089  Sum_probs=42.7

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++||.+++++-+..+++.+++.    ++++..++|+.+..+....   +. ...+|+|+|+
T Consensus       102 ~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~-~~~~I~v~Tp  159 (417)
T 2i4i_A          102 PISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRD---LE-RGCHLLVATP  159 (417)
T ss_dssp             CSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCHHHHHHH---HT-TCCSEEEECH
T ss_pred             ccEEEECCcHHHHHHHHHHHHHHhCcCCceEEEEECCCCHHHHHHH---hh-CCCCEEEECh
Confidence            56999999999999999988764    6789999999887654332   32 3579999997

>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=95.03  E-value=0.14  Score=41.06  Aligned_cols=57  Identities=9%  Similarity=-0.016  Sum_probs=45.7

Q ss_pred             hhCCCCcEEEEeCchHHHHHHHHHHHh----cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         72 SKLQINQSIIFCNSTQRVELLAKKITE----LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        72 ~~~~~~~~lIF~~t~~~~~~~~~~L~~----~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ......+++|-|+|+.-|...++++..    .|+++..+.|+++.+.|....      .++|+|+|+
T Consensus       111 ~~l~g~~vlVltPTreLA~Q~~e~~~~l~~~lgl~v~~i~GG~~~~~r~~~~------~~dIvvgTp  171 (853)
T 2fsf_A          111 NALTGKGVHVVTVNDYLAQRDAENNRPLFEFLGLTVGINLPGMPAPAKREAY------AADITYGTN  171 (853)
T ss_dssp             HHTTSSCCEEEESSHHHHHHHHHHHHHHHHHTTCCEEECCTTCCHHHHHHHH------HSSEEEEEH
T ss_pred             HHHcCCcEEEEcCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCCCHHHHHHhc------CCCEEEECC
Confidence            444567899999999999888877755    389999999999987665443      379999997

>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=94.92  E-value=0.18  Score=40.42  Aligned_cols=57  Identities=9%  Similarity=0.050  Sum_probs=46.4

Q ss_pred             hhCCCCcEEEEeCchHHHHHHHHHHHh----cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         72 SKLQINQSIIFCNSTQRVELLAKKITE----LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        72 ~~~~~~~~lIF~~t~~~~~~~~~~L~~----~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..+...+++|.|+|+.-|...++++..    .|+++.++.|+++.++|....      ..+|+++|+
T Consensus       120 ~aL~g~~vlVltptreLA~qd~e~~~~l~~~lgl~v~~i~gg~~~~~r~~~~------~~dIv~gTp  180 (844)
T 1tf5_A          120 NALTGKGVHVVTVNEYLASRDAEQMGKIFEFLGLTVGLNLNSMSKDEKREAY------AADITYSTN  180 (844)
T ss_dssp             HHTTSSCEEEEESSHHHHHHHHHHHHHHHHHTTCCEEECCTTSCHHHHHHHH------HSSEEEEEH
T ss_pred             HHHcCCCEEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHhc------CCCEEEECc
Confidence            455567899999999999988887755    489999999999988766543      279999997

>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=94.92  E-value=0.1  Score=38.33  Aligned_cols=55  Identities=9%  Similarity=0.094  Sum_probs=43.8

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.++|++-+..+++.+++.    ++++..++|+.+...+...+    ....+|+|+|+
T Consensus       129 ~~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~l----~~~~~Ivv~Tp  187 (434)
T 2db3_A          129 RPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECI----TRGCHVVIATP  187 (434)
T ss_dssp             CCSEEEECSSHHHHHHHHHHHHHHTTTSSCCCCEECTTSCHHHHHHHH----TTCCSEEEECH
T ss_pred             CccEEEEecCHHHHHHHHHHHHHHhccCCcEEEEEECCCCHHHHHHHh----hcCCCEEEECh
Confidence            457999999999999999988775    56789999999876544333    24589999996

>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=94.77  E-value=0.14  Score=34.86  Aligned_cols=55  Identities=11%  Similarity=0.042  Sum_probs=43.1

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.++++.-++.+++.+++.    +..+..++|+.+.......   +..| .+|+|+|+
T Consensus       126 ~~~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~-~~Iiv~Tp  184 (262)
T 3ly5_A          126 GTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQK---LGNG-INIIVATP  184 (262)
T ss_dssp             CCCEEEECSSHHHHHHHHHHHHHHTTTCCSCEEEECSSSCHHHHHHH---HHHC-CSEEEECH
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHHHhhcCceEEEEECCCCHHHHHHH---hcCC-CCEEEEcH
Confidence            567999999999999999988774    5678999999876654433   3334 89999995

>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=94.70  E-value=0.2  Score=35.19  Aligned_cols=55  Identities=15%  Similarity=0.044  Sum_probs=43.2

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..++||.|+++.-++.+++.+++.    +..+..++|+.+.......+.     ..+++|+|.
T Consensus        73 ~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~-----~~~iiv~T~  131 (367)
T 1hv8_A           73 NGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALK-----NANIVVGTP  131 (367)
T ss_dssp             SSCCEEEECSCHHHHHHHHHHHHHHHCSSCCCEEEECTTSCHHHHHHHHH-----TCSEEEECH
T ss_pred             CCCcEEEEcCCHHHHHHHHHHHHHHhCCCCceEEEEECCcchHHHHhhcC-----CCCEEEecH
Confidence            4568999999999999999998874    678999999987665443332     468999996

>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=94.67  E-value=0.11  Score=37.03  Aligned_cols=76  Identities=13%  Similarity=0.157  Sum_probs=54.4

Q ss_pred             cCccchHHHHHHHHhhCC--CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecc
Q psy13287         58 VQERQKVHCLNTLFSKLQ--INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus        58 ~~~~~k~~~l~~ll~~~~--~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                      ++.+.|+..|.++|....  +.+++||++..+..+-+..+++..+++..-+-|....++ ++    -.+....+.+.|..
T Consensus       105 ~~~SGKf~~L~~LL~~l~~~~~kVLIfsq~t~~LDilE~~l~~~~~~y~RlDG~~~~~~-~k----~~~~~~~i~Lltsa  179 (328)
T 3hgt_A          105 AENSGKFSVLRDLINLVQEYETETAIVCRPGRTMDLLEALLLGNKVHIKRYDGHSIKSA-AA----ANDFSCTVHLFSSE  179 (328)
T ss_dssp             HHTCHHHHHHHHHHHHHTTSCEEEEEEECSTHHHHHHHHHHTTSSCEEEESSSCCC------------CCSEEEEEEESS
T ss_pred             HHcCccHHHHHHHHHHHHhCCCEEEEEECChhHHHHHHHHHhcCCCceEeCCCCchhhh-hh----cccCCceEEEEECC
Confidence            346779999999998773  568999999999999999999999999999999855432 21    12455566555654


Q ss_pred             cCC
Q psy13287        136 SSA  138 (140)
Q Consensus       136 ~~r  138 (140)
                      ++-
T Consensus       180 g~~  182 (328)
T 3hgt_A          180 GIN  182 (328)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            443

>2l82_A Designed protein OR32; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, de novo protein; NMR {Artificial gene}

Probab=94.61  E-value=0.37  Score=28.64  Aligned_cols=47  Identities=11%  Similarity=0.277  Sum_probs=32.7

Q ss_pred             EEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCC
Q psy13287         80 IIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL  126 (140)
Q Consensus        80 lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~  126 (140)
                      ++|....+-..++...++..|.++..++++.+...|.+.++.|....
T Consensus         6 vvfssdpeilkeivreikrqgvrvvllysdqdekrrrerleefekqg   52 (162)
T 2l82_A            6 VVFSSDPEILKEIVREIKRQGVRVVLLYSDQDEKRRRERLEEFEKQG   52 (162)
T ss_dssp             EEEESCHHHHHHHHHHHHHTTCEEEEEECCSCHHHHHHHHHHHHTTT
T ss_pred             EEecCCHHHHHHHHHHHHhCCeEEEEEecCchHHHHHHHHHHHHHcC
Confidence            45666666666777777777777777777777777777777775443

>3iwh_A Rhodanese-like domain protein; alpha-beta-alpha sandwich, structural genomics, C structural genomics of infectious diseases, csgid; 2.00A {Staphylococcus aureus subsp} PDB: 3mzz_A

Probab=94.60  E-value=0.057  Score=31.69  Aligned_cols=40  Identities=13%  Similarity=0.191  Sum_probs=32.7

Q ss_pred             HhhCC-CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCC
Q psy13287         71 FSKLQ-INQSIIFCNSTQRVELLAKKITELGYCCYYIHARM  110 (140)
Q Consensus        71 l~~~~-~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~  110 (140)
                      +..++ ..++++||.+-..+...+..|++.|+++..+.|++
T Consensus        50 ~~~l~~~~~ivv~C~~G~rS~~aa~~L~~~G~~~~~l~GG~   90 (103)
T 3iwh_A           50 LNSFNKNEIYYIVCAGGVRSAKVVEYLEANGIDAVNVEGGM   90 (103)
T ss_dssp             GGGCCTTSEEEEECSSSSHHHHHHHHHHTTTCEEEEETTHH
T ss_pred             hhhhcCCCeEEEECCCCHHHHHHHHHHHHcCCCEEEecChH
Confidence            34443 46788999998889999999999999988888883

>3g5j_A Putative ATP/GTP binding protein; N-terminal domain of ATP/GTP binding protein, PSI, MCSG, STR genomics, protein structure initiative; HET: PGE; 1.76A {Clostridium difficile}

Probab=94.59  E-value=0.053  Score=32.85  Aligned_cols=35  Identities=17%  Similarity=0.441  Sum_probs=30.9

Q ss_pred             CcEEEEe-CchHHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         77 NQSIIFC-NSTQRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        77 ~~~lIF~-~t~~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      .++++|| .+-..+...+..|+..|+++..+.|++.
T Consensus        90 ~~ivvyC~~~G~rs~~a~~~L~~~G~~v~~l~GG~~  125 (134)
T 3g5j_A           90 DNIVIYCARGGMRSGSIVNLLSSLGVNVYQLEGGYK  125 (134)
T ss_dssp             SEEEEECSSSSHHHHHHHHHHHHTTCCCEEETTHHH
T ss_pred             CeEEEEECCCChHHHHHHHHHHHcCCceEEEeCcHH
Confidence            6789999 5888888999999999999999999854

>1wv9_A Rhodanese homolog TT1651; CDC25, phosphatase, sulfurtransferase, structural genomics, NPPSFA; 2.00A {Thermus thermophilus}

Probab=94.56  E-value=0.038  Score=31.64  Aligned_cols=35  Identities=11%  Similarity=0.247  Sum_probs=31.3

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         77 NQSIIFCNSTQRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      .++++||.+-..+...+..|++.|+.+..+.|++.
T Consensus        54 ~~ivvyC~~g~rs~~a~~~L~~~G~~v~~l~GG~~   88 (94)
T 1wv9_A           54 RPLLLVCEKGLLSQVAALYLEAEGYEAMSLEGGLQ   88 (94)
T ss_dssp             SCEEEECSSSHHHHHHHHHHHHHTCCEEEETTGGG
T ss_pred             CCEEEEcCCCChHHHHHHHHHHcCCcEEEEcccHH
Confidence            77899999998999999999999999888889864

>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=94.53  E-value=0.23  Score=40.11  Aligned_cols=58  Identities=16%  Similarity=0.047  Sum_probs=46.7

Q ss_pred             HhhCCCCcEEEEeCchHHHHHHHHHHHh----cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         71 FSKLQINQSIIFCNSTQRVELLAKKITE----LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        71 l~~~~~~~~lIF~~t~~~~~~~~~~L~~----~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..+...+++|-|+|+.-|...++++..    .|+++.++.|+++.++|....      .++|+++|+
T Consensus       147 l~aL~g~~v~VvTpTreLA~Qdae~m~~l~~~lGLsv~~i~gg~~~~~r~~~y------~~DIvygTp  208 (922)
T 1nkt_A          147 LNALAGNGVHIVTVNDYLAKRDSEWMGRVHRFLGLQVGVILATMTPDERRVAY------NADITYGTN  208 (922)
T ss_dssp             HHHTTTSCEEEEESSHHHHHHHHHHHHHHHHHTTCCEEECCTTCCHHHHHHHH------HSSEEEEEH
T ss_pred             HHHHhCCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHhc------CCCEEEECc
Confidence            4555567899999999998888777754    489999999999988776554      269999997

>2ipc_A Preprotein translocase SECA subunit; nucleotide binding fold, ATPase, parallel dimer; 2.80A {Thermus thermophilus}

Probab=94.53  E-value=0.18  Score=40.85  Aligned_cols=59  Identities=14%  Similarity=0.091  Sum_probs=47.7

Q ss_pred             HHhhCCCCcEEEEeCchHHHHHHHHHHHh----cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         70 LFSKLQINQSIIFCNSTQRVELLAKKITE----LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        70 ll~~~~~~~~lIF~~t~~~~~~~~~~L~~----~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ++..+...+++|.++|+.-|...++++..    .|++|..+.|+++.++|....      .++|+++|+
T Consensus       114 ~L~aL~G~qv~VvTPTreLA~Qdae~m~~l~~~lGLsv~~i~Gg~~~~~r~~ay------~~DIvyGTp  176 (997)
T 2ipc_A          114 ALNALTGKGVHVVTVNDYLARRDAEWMGPVYRGLGLSVGVIQHASTPAERRKAY------LADVTYVTN  176 (997)
T ss_dssp             HHHHTTCSCCEEEESSHHHHHHHHHHHHHHHHTTTCCEEECCTTCCHHHHHHHH------TSSEEEEEH
T ss_pred             HHHHHhCCCEEEEeCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHc------CCCEEEECc
Confidence            34555667899999999988888777755    489999999999988777664      379999997

>2jtq_A Phage shock protein E; solution structure rhodanese, stress response, transferase; NMR {Escherichia coli} PDB: 2jtr_A 2jts_A

Probab=94.47  E-value=0.14  Score=28.49  Aligned_cols=36  Identities=14%  Similarity=0.372  Sum_probs=29.8

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +..++++||.+-..+...+..|++.|+. +..+ |++.
T Consensus        40 ~~~~ivv~C~~g~rs~~aa~~L~~~G~~~v~~l-GG~~   76 (85)
T 2jtq_A           40 KNDTVKVYCNAGRQSGQAKEILSEMGYTHVENA-GGLK   76 (85)
T ss_dssp             TTSEEEEEESSSHHHHHHHHHHHHTTCSSEEEE-EETT
T ss_pred             CCCcEEEEcCCCchHHHHHHHHHHcCCCCEEec-cCHH
Confidence            3567899999988999999999999985 6666 8754

>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=94.38  E-value=0.19  Score=36.06  Aligned_cols=57  Identities=11%  Similarity=0.173  Sum_probs=45.1

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.++++.-+..+++.+++.    +..+..++|+.+...+   .+.+..+..+|+|+|+
T Consensus       107 ~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~iiv~T~  167 (414)
T 3eiq_A          107 KATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAE---VQKLQMEAPHIIVGTP  167 (414)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHGGGSCCCEEECCCCTTHHHH---HHHHTTTCCSEEEECH
T ss_pred             CceeEEEEeChHHHHHHHHHHHHHHhcccCceEEEEECCcchHHH---HHHHhcCCCCEEEECH
Confidence            4568999999999999999888765    5678888888765433   4556668889999996

>3flh_A Uncharacterized protein LP_1913; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.00A {Lactobacillus plantarum} PDB: 3fnj_A 3i3u_A

Probab=94.29  E-value=0.054  Score=32.73  Aligned_cols=45  Identities=11%  Similarity=0.150  Sum_probs=35.3

Q ss_pred             HHHHHHhhCC-CCcEEEEeCchHH--HHHHHHHHHhcCceEEEEecCC
Q psy13287         66 CLNTLFSKLQ-INQSIIFCNSTQR--VELLAKKITELGYCCYYIHARM  110 (140)
Q Consensus        66 ~l~~ll~~~~-~~~~lIF~~t~~~--~~~~~~~L~~~~~~v~~~h~~~  110 (140)
                      .+...+..++ ..++++||.+-..  +...+..|+..|+++..+.|++
T Consensus        60 ~l~~~~~~l~~~~~ivvyC~~g~r~~s~~a~~~L~~~G~~v~~l~GG~  107 (124)
T 3flh_A           60 DLATRIGELDPAKTYVVYDWTGGTTLGKTALLVLLSAGFEAYELAGAL  107 (124)
T ss_dssp             HHHHHGGGSCTTSEEEEECSSSSCSHHHHHHHHHHHHTCEEEEETTHH
T ss_pred             HHHHHHhcCCCCCeEEEEeCCCCchHHHHHHHHHHHcCCeEEEeCCcH
Confidence            3445555554 4578899998776  8899999999999999999984

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*

Probab=94.20  E-value=0.14  Score=39.67  Aligned_cols=54  Identities=13%  Similarity=0.094  Sum_probs=42.0

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +++||.++++.-+..+++.+++.    ++++..++|+.+...+...+.    ...+|+|||+
T Consensus        62 ~~~lvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~~~----~~~~Iiv~Tp  119 (696)
T 2ykg_A           62 GKVVFFANQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIV----ENNDIIILTP  119 (696)
T ss_dssp             CCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECSSSCSSSCHHHHH----HTCSEEEECH
T ss_pred             CeEEEEECCHHHHHHHHHHHHHHhccCCceEEEEeCCccccccHHHhc----cCCCEEEECH
Confidence            78999999999999999888775    789999999986543322221    2479999997

>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=93.91  E-value=0.083  Score=36.93  Aligned_cols=68  Identities=9%  Similarity=0.017  Sum_probs=46.0

Q ss_pred             ccchH-HHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccE
Q psy13287         60 ERQKV-HCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRN  129 (140)
Q Consensus        60 ~~~k~-~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~v  129 (140)
                      +.-|- ..+..++...    ...++||.++|++-|..+++.++..     +..+..++|+.+...+.       ....+|
T Consensus       141 GsGKT~a~~lp~l~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-------~~~~~I  213 (300)
T 3fmo_B          141 GTGKTAAFVLAMLSQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQ-------KISEQI  213 (300)
T ss_dssp             TSSHHHHHHHHHHHHCCTTSCSCCEEEECSSHHHHHHHHHHHHHHTTTSTTCCEEEESTTCCCCTTC-------CCCCSE
T ss_pred             CCCccHHHHHHHHHhhhccCCCceEEEEcCcHHHHHHHHHHHHHHHhhCCCcEEEEEeCCccHhhhh-------cCCCCE
Confidence            34453 3344455444    2347999999999999988888764     46788888876543221       456789


Q ss_pred             EEEec
Q psy13287        130 LVCSG  134 (140)
Q Consensus       130 lv~T~  134 (140)
                      +|||+
T Consensus       214 lV~TP  218 (300)
T 3fmo_B          214 VIGTP  218 (300)
T ss_dssp             EEECH
T ss_pred             EEECH
Confidence            99997

>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=93.89  E-value=0.19  Score=34.94  Aligned_cols=54  Identities=11%  Similarity=0.063  Sum_probs=43.1

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.++++.-++.+++.+++.    +..+..++|+.+...+...   +.  ..+++|+|.
T Consensus        56 ~~~~liv~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~--~~~i~v~T~  113 (337)
T 2z0m_A           56 GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINR---VR--NADIVVATP  113 (337)
T ss_dssp             TCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECTTSCHHHHHHH---HT--TCSEEEECH
T ss_pred             cCCEEEEeCCHHHHHHHHHHHHHHhhhcCCcEEEEECCcchHHHHhh---cC--CCCEEEECH
Confidence            678999999999999999999864    5789999999887654333   32  378999996

>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=93.81  E-value=0.28  Score=35.11  Aligned_cols=56  Identities=13%  Similarity=0.089  Sum_probs=43.2

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.|+++.-++.+++.+++.    ++++..++|+.+.......    ..+..+++|+|.
T Consensus        88 ~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~----~~~~~~Ivv~T~  147 (400)
T 1s2m_A           88 NKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILR----LNETVHILVGTP  147 (400)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECSSSCHHHHHHH----TTSCCSEEEECH
T ss_pred             CCccEEEEcCCHHHHHHHHHHHHHHhcccCceEEEEeCCcchHHHHHH----hcCCCCEEEEch
Confidence            3457999999999999998888765    6789999999876543222    236789999995

>1gmx_A GLPE protein; transferase, rhodanese, sulfurtransferase, glycerol metabolism; 1.1A {Escherichia coli} SCOP: c.46.1.3 PDB: 1gn0_A

Probab=93.77  E-value=0.098  Score=30.64  Aligned_cols=45  Identities=16%  Similarity=0.293  Sum_probs=35.1

Q ss_pred             HHHHHhhCC-CCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         67 LNTLFSKLQ-INQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        67 l~~ll~~~~-~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +...+..++ ..++++||.+-..+...+..|+..|+. +..+.|++.
T Consensus        48 l~~~~~~l~~~~~ivvyc~~g~rs~~a~~~L~~~G~~~v~~l~GG~~   94 (108)
T 1gmx_A           48 LGAFMRDNDFDTPVMVMCYHGNSSKGAAQYLLQQGYDVVYSIDGGFE   94 (108)
T ss_dssp             HHHHHHHSCTTSCEEEECSSSSHHHHHHHHHHHHTCSSEEEETTHHH
T ss_pred             HHHHHHhcCCCCCEEEEcCCCchHHHHHHHHHHcCCceEEEecCCHH
Confidence            334444443 467899999988999999999999994 889999854

>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=93.48  E-value=0.37  Score=34.64  Aligned_cols=56  Identities=11%  Similarity=0.047  Sum_probs=43.9

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.++++.-+..+++.+++.    ++.+..++|+.+..+....+.    ...+++|+|.
T Consensus       104 ~~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~ivv~Tp  163 (410)
T 2j0s_A          104 RETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD----YGQHVVAGTP  163 (410)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECTTSCHHHHHHHHH----HCCSEEEECH
T ss_pred             CCceEEEEcCcHHHHHHHHHHHHHHhccCCeEEEEEECCCCHHHHHHHhh----cCCCEEEcCH
Confidence            4578999999999999999988765    568899999988766544333    2468999996

>3hix_A ALR3790 protein; rhodanese, rhodanese_3, Q8YQN0, Q8YQN0_anAsp, NSR437I, NESG, structural genomics, PSI-2, protein structure initiative; 1.92A {Anabaena SP} PDB: 3k9r_A

Probab=93.45  E-value=0.065  Score=31.39  Aligned_cols=35  Identities=3%  Similarity=0.135  Sum_probs=30.7

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYC-CYYIHARM  110 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~  110 (140)
                      ..++++||.+-..+...+..|+..|+. +..+.|++
T Consensus        52 ~~~ivvyc~~g~rs~~a~~~L~~~G~~~v~~l~GG~   87 (106)
T 3hix_A           52 SRDIYVYGAGDEQTSQAVNLLRSAGFEHVSELKGGL   87 (106)
T ss_dssp             TSCEEEECSSHHHHHHHHHHHHHTTCSCEEECTTHH
T ss_pred             CCeEEEEECCCChHHHHHHHHHHcCCcCEEEecCCH
Confidence            467899999998999999999999994 88899984

>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=93.36  E-value=0.11  Score=42.06  Aligned_cols=55  Identities=9%  Similarity=0.003  Sum_probs=39.5

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+++||.++++.-+..+++.+++.    ++++..+||+.+...+...+.    +..+|+|+|+
T Consensus       296 ~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~G~~~~~~~~~~~~----~~~~IvI~Tp  354 (936)
T 4a2w_A          296 KAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVI----EDSDIIVVTP  354 (936)
T ss_dssp             CCCEEEECSSHHHHHHHHHHHHHHHHTTTCCEEEECCC-----CCHHHH----HHCSEEEECH
T ss_pred             CCeEEEEeCCHHHHHHHHHHHHHHhcccCceEEEEECCcchhhHHHHhc----cCCCEEEecH
Confidence            678999999999999998888775    889999999986654322221    2368999996

>3nhv_A BH2092 protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 2.50A {Bacillus halodurans} PDB: 3o3w_A

Probab=93.35  E-value=0.082  Score=32.90  Aligned_cols=36  Identities=17%  Similarity=0.260  Sum_probs=31.2

Q ss_pred             CCcEEEEeCch--HHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         76 INQSIIFCNST--QRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        76 ~~~~lIF~~t~--~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      ..++++||.+-  ..+...+..|+..|+++..+.|++.
T Consensus        72 ~~~ivvyC~~g~~~rs~~aa~~L~~~G~~v~~l~GG~~  109 (144)
T 3nhv_A           72 EKVIITYCWGPACNGATKAAAKFAQLGFRVKELIGGIE  109 (144)
T ss_dssp             TSEEEEECSCTTCCHHHHHHHHHHHTTCEEEEEESHHH
T ss_pred             CCeEEEEECCCCccHHHHHHHHHHHCCCeEEEeCCcHH
Confidence            46788999987  6889999999999999999999943

>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=93.33  E-value=0.5  Score=31.73  Aligned_cols=51  Identities=14%  Similarity=0.148  Sum_probs=39.4

Q ss_pred             ccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         60 ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +.-|-.....++... ..+++|+|+++.-++.+.+.+.+.+.. +..++|+..
T Consensus       118 G~GKT~~a~~~~~~~-~~~~liv~P~~~L~~q~~~~~~~~~~~~v~~~~g~~~  169 (237)
T 2fz4_A          118 GSGKTHVAMAAINEL-STPTLIVVPTLALAEQWKERLGIFGEEYVGEFSGRIK  169 (237)
T ss_dssp             STTHHHHHHHHHHHS-CSCEEEEESSHHHHHHHHHHHGGGCGGGEEEESSSCB
T ss_pred             CCCHHHHHHHHHHHc-CCCEEEEeCCHHHHHHHHHHHHhCCCCeEEEEeCCCC
Confidence            445655544444443 678999999999999999999888888 999998754

>1qxn_A SUD, sulfide dehydrogenase; polysulfide-sulfur transferase, homodimer; NMR {Wolinella succinogenes} SCOP: c.46.1.3

Probab=93.10  E-value=0.19  Score=30.92  Aligned_cols=36  Identities=25%  Similarity=0.562  Sum_probs=31.6

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      +..+++|||.+-..+...+..|+..|+ +|..+.|++
T Consensus        81 ~~~~ivvyC~~G~rS~~aa~~L~~~G~~~v~~l~GG~  117 (137)
T 1qxn_A           81 PEKPVVVFCKTAARAALAGKTLREYGFKTIYNSEGGM  117 (137)
T ss_dssp             TTSCEEEECCSSSCHHHHHHHHHHHTCSCEEEESSCH
T ss_pred             CCCeEEEEcCCCcHHHHHHHHHHHcCCcceEEEcCcH
Confidence            356799999998889999999999999 599999994

>2k0z_A Uncharacterized protein HP1203; A/B domain, structural genomics, unknown function, PSI-2, PR structure initiative; NMR {Helicobacter pylori}

Probab=92.95  E-value=0.15  Score=30.02  Aligned_cols=37  Identities=27%  Similarity=0.540  Sum_probs=31.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      +..++++||.+-..+...+..|+..|+....+.|++.
T Consensus        55 ~~~~ivvyC~~G~rs~~aa~~L~~~G~~~~~l~GG~~   91 (110)
T 2k0z_A           55 KDKKVLLHCRAGRRALDAAKSMHELGYTPYYLEGNVY   91 (110)
T ss_dssp             SSSCEEEECSSSHHHHHHHHHHHHTTCCCEEEESCGG
T ss_pred             CCCEEEEEeCCCchHHHHHHHHHHCCCCEEEecCCHH
Confidence            4567999999999999999999999985588889954

>2fsx_A RV0390, COG0607: rhodanese-related sulfurtransferase; RV0390 BR SAD DATA with FBAR, structural genomics, PSI; 1.80A {Mycobacterium tuberculosis}

Probab=92.93  E-value=0.12  Score=32.18  Aligned_cols=37  Identities=24%  Similarity=0.279  Sum_probs=31.2

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      +..+++|||.+-..+...+..|+..|+ +|..+.|++.
T Consensus        79 ~~~~ivvyC~~G~rS~~aa~~L~~~G~~~v~~l~GG~~  116 (148)
T 2fsx_A           79 HERPVIFLCRSGNRSIGAAEVATEAGITPAYNVLDGFE  116 (148)
T ss_dssp             --CCEEEECSSSSTHHHHHHHHHHTTCCSEEEETTTTT
T ss_pred             CCCEEEEEcCCChhHHHHHHHHHHcCCcceEEEcCChh
Confidence            356799999998888899999999999 5999999974

>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=92.90  E-value=0.03  Score=43.46  Aligned_cols=54  Identities=15%  Similarity=0.158  Sum_probs=40.2

Q ss_pred             CcEEEEeCchHHHHHH-HHHHHhcC---ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELL-AKKITELG---YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~-~~~L~~~~---~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +++||.++++.-+..+ ++.|++..   +++..+||+.+..++...+.    +..+|+|+|.
T Consensus        57 ~~vlvl~P~~~L~~Q~~~~~l~~~~~~~~~v~~~~g~~~~~~~~~~~~----~~~~Ilv~Tp  114 (699)
T 4gl2_A           57 GKVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVV----KSCDIIISTA  114 (699)
T ss_dssp             CCBCCEESCSHHHHHHHHHTHHHHHTTTSCEEEEC----CCCCHHHHH----HSCSEEEEEH
T ss_pred             CeEEEEECCHHHHHHHHHHHHHHHcCcCceEEEEeCCcchhhHHHhhh----cCCCEEEECH
Confidence            7899999999999999 88888763   89999999987665433332    5689999996

>1tq1_A AT5G66040, senescence-associated family protein; CESG, structural genomics, protein structure initiative; NMR {Arabidopsis thaliana} SCOP: c.46.1.3

Probab=92.90  E-value=0.09  Score=31.95  Aligned_cols=45  Identities=20%  Similarity=0.248  Sum_probs=35.1

Q ss_pred             HHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         67 LNTLFSKL-QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        67 l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +.++.... +..++++||.+-..+...+..|+..|+. +..+.|++.
T Consensus        72 ~~~~~~~l~~~~~ivvyC~~G~rs~~aa~~L~~~G~~~v~~l~GG~~  118 (129)
T 1tq1_A           72 LEQVSSHFGQSDNIIVGCQSGGRSIKATTDLLHAGFTGVKDIVGGYS  118 (129)
T ss_dssp             HHHHTTTCCTTSSEEEEESSCSHHHHHHHHHHHHHCCSEEEEECCHH
T ss_pred             HHHHHhhCCCCCeEEEECCCCcHHHHHHHHHHHcCCCCeEEeCCcHH
Confidence            33444444 3567999999988999999999999985 999999953

>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=92.90  E-value=0.12  Score=33.65  Aligned_cols=55  Identities=13%  Similarity=0.130  Sum_probs=36.3

Q ss_pred             CCcEEEEeCchHHHHH-HHHHHHhc---CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVEL-LAKKITEL---GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~-~~~~L~~~---~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.|+++.-++. +.+.++..   ++++..++|+.+...+...+.    +..+|+|+|.
T Consensus        82 ~~~~lil~p~~~L~~q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~~~----~~~~i~v~T~  140 (216)
T 3b6e_A           82 PGKVIVLVNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVV----KSCDIIISTA  140 (216)
T ss_dssp             CCCEEEEESSHHHHHHHHHHTHHHHHTTTSCEEECCC---CCCCHHHHH----HHCSEEEEEH
T ss_pred             CCcEEEEECHHHHHHHHHHHHHHHHhccCceEEEEeCCcccchhHHhhc----cCCCEEEECH
Confidence            5789999999998887 66666554   678999999865443222211    2468888886

>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=92.58  E-value=0.38  Score=35.45  Aligned_cols=61  Identities=15%  Similarity=0.117  Sum_probs=46.1

Q ss_pred             ccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         60 ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +.-|-......+... ..++||.|+++.-+..+++.+++.+.+ +..+||+.+.             ..+|+|+|.
T Consensus       118 GsGKT~~~l~~i~~~-~~~~Lvl~P~~~L~~Q~~~~~~~~~~~~v~~~~g~~~~-------------~~~Ivv~T~  179 (472)
T 2fwr_A          118 GSGKTHVAMAAINEL-STPTLIVVPTLALAEQWKERLGIFGEEYVGEFSGRIKE-------------LKPLTVSTY  179 (472)
T ss_dssp             TSCHHHHHHHHHHHH-CSCEEEEESSHHHHHHHHHHGGGGCGGGEEEBSSSCBC-------------CCSEEEEEH
T ss_pred             CCCHHHHHHHHHHHc-CCCEEEEECCHHHHHHHHHHHHhCCCcceEEECCCcCC-------------cCCEEEEEc
Confidence            334544443334333 678999999999999999999999998 9999998753             357888875

>3h11_B Caspase-8; cell death, apoptosis, caspase, alternative splicing, HOST- virus interaction, polymorphism, cytoplasm, disease mutation; 1.90A {Homo sapiens} SCOP: c.17.1.1 PDB: 2k7z_A 1i4e_B 2fun_B 2c2z_B*

Probab=92.47  E-value=0.78  Score=31.72  Aligned_cols=39  Identities=10%  Similarity=0.117  Sum_probs=33.6

Q ss_pred             chHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         85 STQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        85 t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      +..+++.+.+.|+..|+.| ..+.+++.++=...+++|..
T Consensus        47 t~~D~~~L~~~f~~LGF~V-~~~~dlt~~em~~~l~~~~~   85 (271)
T 3h11_B           47 THLDAGALTTTFEELHFEI-KPHDDCTVEQIYEILKIYQL   85 (271)
T ss_dssp             HHHHHHHHHHHHHHTTCEE-EEEESCCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCEE-EEEeCCCHHHHHHHHHHHHH
Confidence            4578999999999999998 46678999998899999965

>2hhg_A Hypothetical protein RPA3614; MCSG, structural genomics, rohopseudom palustris, PSI-2, protein structure initiative; 1.20A {Rhodopseudomonas palustris}

Probab=92.33  E-value=0.1  Score=31.95  Aligned_cols=36  Identities=19%  Similarity=0.347  Sum_probs=31.5

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARM  110 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~  110 (140)
                      +..++++||.+-..+...+..|+..|+. |..+.|++
T Consensus        85 ~~~~ivvyC~~G~rs~~a~~~L~~~G~~~v~~l~GG~  121 (139)
T 2hhg_A           85 EDKKFVFYCAGGLRSALAAKTAQDMGLKPVAHIEGGF  121 (139)
T ss_dssp             SSSEEEEECSSSHHHHHHHHHHHHHTCCSEEEETTHH
T ss_pred             CCCeEEEECCCChHHHHHHHHHHHcCCCCeEEecCCH
Confidence            3567899999988899999999999995 99999984

>2h54_A Caspase-1; allosteric site, dimer interface, hydrolase; HET: PHQ; 1.80A {Homo sapiens} PDB: 1rwm_A* 1rwk_A* 1rwo_A* 1rwp_A* 1rwv_A* 1rww_A* 1rwn_A* 2h48_A* 2h4w_A* 1rwx_A* 2hbq_A* 2hby_A* 1ibc_A 3d6m_A* 2h4y_A* 2h51_A* 3d6f_A* 3d6h_A* 2hbz_A* 2hbr_A* ...

Probab=91.91  E-value=1.1  Score=28.92  Aligned_cols=47  Identities=15%  Similarity=0.373  Sum_probs=39.0

Q ss_pred             CcEEEEeCc-----------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         77 NQSIIFCNS-----------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        77 ~~~lIF~~t-----------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      +.+||+.|.           ..+++.+++.|+.+|+.|. .+.+++.++=...+++|..
T Consensus        44 g~ALIInn~~f~~~~~R~G~~~Da~~L~~~f~~LgF~V~-~~~dlt~~em~~~l~~f~~  101 (178)
T 2h54_A           44 RLALIICNEEFDSIPRRTGAEVDITGMTMLLQNLGYSVD-VKKNLTASDMTTELEAFAH  101 (178)
T ss_dssp             CEEEEEECCCCSSSCCCTTHHHHHHHHHHHHHHTTCEEE-EEESCCHHHHHHHHHHHHT
T ss_pred             CEEEEEehhhcCCCccCCCCHHHHHHHHHHHHHCCCEEE-EecCCCHHHHHHHHHHHHh
Confidence            457888875           4889999999999999985 5677899998888999854

>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=91.73  E-value=0.055  Score=36.31  Aligned_cols=56  Identities=16%  Similarity=0.195  Sum_probs=40.2

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.+++++-+..+++.+++.    ++.+..++|+.....   .......+..+|+|+|+
T Consensus        98 ~~~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~I~v~Tp  157 (245)
T 3dkp_A           98 GFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAK---KFGPKSSKKFDILVTTP  157 (245)
T ss_dssp             SCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEECCCHHHHHHT---TTSTTSCCCCCEEEECH
T ss_pred             CceEEEEeCCHHHHHHHHHHHHHHhcccCceEEEEecCccHHH---HhhhhhcCCCCEEEECH
Confidence            347999999999999999988775    667877777633221   12223356789999995

>3d1p_A Putative thiosulfate sulfurtransferase YOR285W; atomic structure, atomic resolution structure, PSI, MCSG; HET: MSE; 0.98A {Saccharomyces cerevisiae}

Probab=91.54  E-value=0.13  Score=31.47  Aligned_cols=36  Identities=22%  Similarity=0.325  Sum_probs=31.2

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      ..++++||.+-..+...+..|++.|+. +..+.|++.
T Consensus        91 ~~~ivvyC~~G~rs~~aa~~L~~~G~~~v~~l~GG~~  127 (139)
T 3d1p_A           91 AKELIFYCASGKRGGEAQKVASSHGYSNTSLYPGSMN  127 (139)
T ss_dssp             TSEEEEECSSSHHHHHHHHHHHTTTCCSEEECTTHHH
T ss_pred             CCeEEEECCCCchHHHHHHHHHHcCCCCeEEeCCcHH
Confidence            467899999999999999999999995 888999843

>3ilm_A ALR3790 protein; rhodanese-like, NSR437H, NESG, structural genomics, protein structure initiative, northeast structural genomics consortium; 2.26A {Nostoc SP} PDB: 2kl3_A

Probab=91.48  E-value=0.16  Score=31.45  Aligned_cols=35  Identities=3%  Similarity=0.135  Sum_probs=30.4

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYC-CYYIHARM  110 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~  110 (140)
                      ..++++||.+-..+...+..|+..|+. +..+.|++
T Consensus        56 ~~~ivvyC~~g~rs~~aa~~L~~~G~~~v~~l~GG~   91 (141)
T 3ilm_A           56 SRDIYVYGAGDEQTSQAVNLLRSAGFEHVSELKGGL   91 (141)
T ss_dssp             TSEEEEECSSHHHHHHHHHHHHHTTCCSEEECTTHH
T ss_pred             CCeEEEEECCChHHHHHHHHHHHcCCCCEEEecCHH
Confidence            467899999988999999999999985 88888883

>1vee_A Proline-rich protein family; hypothetical protein, structural genomics, rhodanese domain, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} PDB: 2dcq_A

Probab=91.31  E-value=0.16  Score=30.96  Aligned_cols=37  Identities=19%  Similarity=0.203  Sum_probs=32.0

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCCH
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMAQ  112 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~~  112 (140)
                      ..++++||.+-..+...+..|++.|+ +|..+.|++..
T Consensus        74 ~~~ivv~C~sG~RS~~aa~~L~~~G~~~v~~l~GG~~~  111 (134)
T 1vee_A           74 NTTLYILDKFDGNSELVAELVALNGFKSAYAIKDGAEG  111 (134)
T ss_dssp             GCEEEEECSSSTTHHHHHHHHHHHTCSEEEECTTTTTS
T ss_pred             CCEEEEEeCCCCcHHHHHHHHHHcCCcceEEecCCccC
Confidence            46799999998888899999999999 59999999843

>4f67_A UPF0176 protein LPG2838; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium; 1.79A {Legionella pneumophila subsp}

Probab=91.12  E-value=0.28  Score=33.89  Aligned_cols=47  Identities=19%  Similarity=0.374  Sum_probs=37.5

Q ss_pred             HHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         65 HCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        65 ~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      ..+...+...+..++++||.+-..++..+..|+..|+ +|..+.|++.
T Consensus       170 ~~l~~~l~~~kdk~IVvyC~~G~RS~~Aa~~L~~~Gf~nV~~L~GGi~  217 (265)
T 4f67_A          170 DYVQRNLIDKKDKKIAMFCTGGIRCEKTTAYMKELGFEHVYQLHDGIL  217 (265)
T ss_dssp             HHHHHHTGGGTTSCEEEECSSSHHHHHHHHHHHHHTCSSEEEETTHHH
T ss_pred             HHHHHhhhhCCCCeEEEEeCCChHHHHHHHHHHHcCCCCEEEecCHHH
Confidence            3444444444567899999999999999999999998 6999999965

>3e4c_A Caspase-1; zymogen, inflammasome, ICE, IL-1B, innate immunity, apoptosis, hydrolase, protease protease; 2.05A {Homo sapiens}

Probab=90.99  E-value=1.4  Score=30.99  Aligned_cols=47  Identities=15%  Similarity=0.373  Sum_probs=40.6

Q ss_pred             CcEEEEeCc-----------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         77 NQSIIFCNS-----------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        77 ~~~lIF~~t-----------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      +-+|||+|.           ..+++.+++.|+..|+.|. .+.+++.++=...+++|..
T Consensus        61 r~aLII~N~~f~~l~~R~G~~~Da~~L~~~f~~LGF~V~-~~~dlt~~em~~~l~~f~~  118 (302)
T 3e4c_A           61 RLALIICNEEFDSIPRRTGAEVDITGMTMLLQNLGYSVD-VKKNLTASDMTTELEAFAH  118 (302)
T ss_dssp             CEEEEEECCSCSSSCCCTTHHHHHHHHHHHHHHTTCEEE-EEESCCHHHHHHHHHHHHT
T ss_pred             cEEEEEECcCCCCCCCCCCcHHHHHHHHHHHHHCCCEEE-EeeCCCHHHHHHHHHHHHh
Confidence            348999998           6789999999999999985 6668999999999999964

>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=90.78  E-value=4.8  Score=31.36  Aligned_cols=82  Identities=12%  Similarity=0.055  Sum_probs=59.5

Q ss_pred             EEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhc--CceEEEEe--------------------cCC
Q psy13287         53 QYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITEL--GYCCYYIH--------------------ARM  110 (140)
Q Consensus        53 ~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h--------------------~~~  110 (140)
                      +...-+.++.|.-.+..++... +.++||.+++...|..+++.|+..  +-.|.++-                    ...
T Consensus        31 ~~l~g~tgs~kt~~~a~~~~~~-~~~~lvv~~~~~~A~ql~~el~~~~~~~~V~~fps~yd~~~pe~~~~~~d~~~~~~~  109 (664)
T 1c4o_A           31 VTLLGATGTGKTVTMAKVIEAL-GRPALVLAPNKILAAQLAAEFRELFPENAVEYFISYYDYYQPEAYVPGKDLYIEKDA  109 (664)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH-TCCEEEEESSHHHHHHHHHHHHHHCTTSEEEECCCGGGTSCCCEEEGGGTEEECCCC
T ss_pred             EEEEcCCCcHHHHHHHHHHHHh-CCCEEEEecCHHHHHHHHHHHHHHCCCCeEEEcCchhhccCcccccchhhhhhhhhc
Confidence            3445567788988888887664 567999999999999999999876  23455443                    222


Q ss_pred             --C---HHHHHHHHHHhhcCCccEEEEecc
Q psy13287        111 --A---QAHRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus       111 --~---~~~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                        +   ...|..++.++..++-.|+|+|--
T Consensus       110 ~~~~~i~~~R~~~l~~L~~~~~~ivV~s~~  139 (664)
T 1c4o_A          110 SINPEIERLRHSTTRSLLTRRDVIVVASVS  139 (664)
T ss_dssp             SCCHHHHHHHHHHHHHHHHCSCEEEEEEGG
T ss_pred             ccCHHHHHHHHHHHHHHHhCCCeEEEecHH
Confidence              2   447999999998776556666653

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}

Probab=90.70  E-value=0.81  Score=34.80  Aligned_cols=55  Identities=5%  Similarity=0.144  Sum_probs=42.5

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc--------CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL--------GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~--------~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++||.++++.-+..+++.+++.        ...+..++|+.+..   ..++.+..+..+|+|||+
T Consensus        96 ~~~lvl~Ptr~La~Q~~~~~~~~~~~~~~~~~~~~~~~~gg~~~~---~~~~~l~~~~~~IlV~Tp  158 (579)
T 3sqw_A           96 VKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFR---AAMNKMNKLRPNIVIATP  158 (579)
T ss_dssp             CCEEEECSSHHHHHHHHHHHHHHHHHCGGGTTSCEEEECTTSCHH---HHHHHHHHHCCSEEEECH
T ss_pred             CeEEEEcchHHHHHHHHHHHHHHHhhcccccceEEEEEECCccHH---HHHHHHhcCCCCEEEECH
Confidence            47999999999999999988763        34677888886654   344555566789999996

>1qtn_A Caspase-8; apoptosis, dithiane-DIOL, caspase, cysteine-protease, hydrol hydrolase inhibitor complex; 1.20A {Homo sapiens} SCOP: c.17.1.1 PDB: 3kjn_A* 3kjq_A* 2y1l_A 2c2z_A 1qdu_A* 1f9e_A*

Probab=90.66  E-value=2.1  Score=27.29  Aligned_cols=38  Identities=11%  Similarity=0.107  Sum_probs=32.5

Q ss_pred             hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         86 TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        86 ~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      ..+++.+.+.|+.+|+.| ..|.+++.++=...+++|..
T Consensus        54 ~~D~~~L~~~f~~LgF~V-~~~~dlt~~em~~~l~~~~~   91 (164)
T 1qtn_A           54 HLDAGALTTTFEELHFEI-KPHDDCTVEQIYEILKIYQL   91 (164)
T ss_dssp             HHHHHHHHHHHHHTTCEE-EEEESCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCEE-EEecCCCHHHHHHHHHHHHH
Confidence            677899999999999998 55778899988888888864

>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=90.47  E-value=3.3  Score=31.04  Aligned_cols=82  Identities=6%  Similarity=0.043  Sum_probs=60.4

Q ss_pred             EEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhc-CceEEEEecC-------CC-----HHHHHHH
Q psy13287         52 TQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITEL-GYCCYYIHAR-------MA-----QAHRNRV  118 (140)
Q Consensus        52 ~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~-~~~v~~~h~~-------~~-----~~~R~~~  118 (140)
                      .+.+.-+.++.|.-.+..+.+.. ++++||.|++...|..+++.|+.. +-.|..+=+.       .+     ..+|..+
T Consensus        16 ~~~l~g~~gs~ka~~~a~l~~~~-~~p~lvv~~~~~~A~~l~~~l~~~~~~~v~~fp~~e~lpyd~~~p~~~~~~~Rl~~   94 (483)
T 3hjh_A           16 QRLLGELTGAACATLVAEIAERH-AGPVVLIAPDMQNALRLHDEISQFTDQMVMNLADWETLPYDSFSPHQDIISSRLST   94 (483)
T ss_dssp             EEEEECCCTTHHHHHHHHHHHHS-SSCEEEEESSHHHHHHHHHHHHHTCSSCEEECCCCCSCTTCSSCCCHHHHHHHHHH
T ss_pred             eEEEeCCCchHHHHHHHHHHHHh-CCCEEEEeCCHHHHHHHHHHHHhhCCCcEEEEeCcccccccccCCChHHHHHHHHH
Confidence            44555567788888888888764 667999999999999999999875 3335443321       11     2368999


Q ss_pred             HHHhhcCCccEEEEec
Q psy13287        119 FHDFRSGLCRNLVCSG  134 (140)
Q Consensus       119 ~~~f~~g~~~vlv~T~  134 (140)
                      +.++..++-.|+|+|-
T Consensus        95 l~~L~~~~~~ivv~sv  110 (483)
T 3hjh_A           95 LYQLPTMQRGVLIVPV  110 (483)
T ss_dssp             HHHGGGCCSSEEEEEH
T ss_pred             HHHHHhCCCCEEEEEH
Confidence            9999988888888874

>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=90.46  E-value=0.88  Score=34.29  Aligned_cols=55  Identities=5%  Similarity=0.143  Sum_probs=42.6

Q ss_pred             CcEEEEeCchHHHHHHHHHHHhc--------CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         77 NQSIIFCNSTQRVELLAKKITEL--------GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        77 ~~~lIF~~t~~~~~~~~~~L~~~--------~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++||.++++.-+..+++.+++.        +..+..+.|+.+...   .++.+..+..+|+|||+
T Consensus       147 ~~~lil~Ptr~La~Q~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~---~~~~~~~~~~~Iiv~Tp  209 (563)
T 3i5x_A          147 VKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRA---AMNKMNKLRPNIVIATP  209 (563)
T ss_dssp             CCEEEECSSHHHHHHHHHHHHHHHHHCGGGTTSCEEEECTTSCHHH---HHHHHHHHCCSEEEECH
T ss_pred             eeEEEEcCcHHHHHHHHHHHHHHHhhccccCceeEEEEECCcCHHH---HHHHHhcCCCCEEEECc
Confidence            47999999999999999988763        345788888876543   44555566789999997

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=90.12  E-value=0.5  Score=35.18  Aligned_cols=53  Identities=9%  Similarity=0.016  Sum_probs=43.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..+++||.|+++.-++.+++.+++.    +..+..++|+.+..++       ..+..+|+|+|.
T Consensus       156 ~~~~vlvl~P~~~L~~Q~~~~~~~~~~~~~~~v~~~~~~~~~~~~-------~~~~~~I~i~T~  212 (510)
T 2oca_A          156 YEGKILIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGGASKDDK-------YKNDAPVVVGTW  212 (510)
T ss_dssp             CSSEEEEEESSHHHHHHHHHHHHHTTSSCGGGEEECGGGCCTTGG-------GCTTCSEEEEEH
T ss_pred             CCCeEEEEECcHHHHHHHHHHHHHhhcCCccceEEEecCCccccc-------cccCCcEEEEeH
Confidence            3459999999999999999999876    2478999999877654       457789999996

>1pyo_A Caspase-2; apoptosis, caspase, alpha-beta, thiol protease, hydrolase-HY inhibitor complex; 1.65A {Homo sapiens} SCOP: c.17.1.1 PDB: 3rjm_A* 2p2c_A 3r5j_A 3r6g_A 3r6l_A 3r7b_A 3r7n_A 3r7s_A

Probab=89.64  E-value=2.7  Score=26.80  Aligned_cols=48  Identities=13%  Similarity=0.193  Sum_probs=39.1

Q ss_pred             CCcEEEEeCc--------------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         76 INQSIIFCNS--------------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        76 ~~~~lIF~~t--------------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      .+.+|||.|.              ..+++.+.+.|+.+|+.| ..+.+++.++=...+++|..
T Consensus        33 rG~aLIinn~~F~~~~~l~~R~Gt~~D~~~L~~~f~~LgF~V-~~~~dlt~~em~~~l~~~~~   94 (167)
T 1pyo_A           33 RGLALVLSNVHFTGEKELEFRSGGDVDHSTLVTLFKLLGYDV-HVLCDQTAQEMQEKLQNFAQ   94 (167)
T ss_dssp             SEEEEEEECCCCCSSSCSCCCTTHHHHHHHHHHHHHHTTEEE-EEEESCCHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCcccCCCCCCccCCCcHHHHHHHHHHHHHCCCEE-EEeeCCCHHHHHHHHHHhhh
Confidence            3457888765              347999999999999998 56788899998888888876

>1urh_A 3-mercaptopyruvate sulfurtransferase; rhodanese; 2.8A {Escherichia coli} SCOP: c.46.1.2 c.46.1.2

Probab=89.53  E-value=0.74  Score=31.58  Aligned_cols=48  Identities=13%  Similarity=0.145  Sum_probs=37.4

Q ss_pred             HHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCCH
Q psy13287         65 HCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMAQ  112 (140)
Q Consensus        65 ~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~~  112 (140)
                      +.+.+++...   +..++++||.+-..+...+..|+..|+ ++..|.|++..
T Consensus       216 ~~l~~~~~~~~~~~~~~ivv~C~~G~rs~~a~~~L~~~G~~~v~~~~GG~~~  267 (280)
T 1urh_A          216 DELDAIFFGRGVSYDKPIIVSCGSGVTAAVVLLALATLDVPNVKLYDGAWSE  267 (280)
T ss_dssp             HHHHHHHHTTTCCSSSCEEEECCSSSTHHHHHHHHHHTTCSSCEEECCSCCC
T ss_pred             HHHHHHHHHcCCCCCCCEEEECChHHHHHHHHHHHHHcCCCCceeeCChHHH
Confidence            3455555432   356799999998889999999999999 59999999764

>3h11_A CAsp8 and FADD-like apoptosis regulator; cell death, apoptosis, caspase, alternative splicing, HOST- virus interaction, polymorphism, cytoplasm, disease mutation; 1.90A {Homo sapiens} PDB: 3h13_A

Probab=89.18  E-value=0.35  Score=33.50  Aligned_cols=48  Identities=19%  Similarity=0.282  Sum_probs=42.1

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      .+-+|||+|+..+++.+.+.|+..|+.|. .|.+++.++=...+++|..
T Consensus        43 rG~~LIinn~~~D~~~L~~~f~~LgF~V~-~~~dlt~~em~~~l~~~~~   90 (272)
T 3h11_A           43 LGICLIIDCIGNETELLRDTFTSLGYEVQ-KFLHLSMHGISQILGQFAC   90 (272)
T ss_dssp             SEEEEEEESSCCCCSHHHHHHHHHTEEEE-EEESCBHHHHHHHHHHHHT
T ss_pred             ceEEEEECCchHHHHHHHHHHHHCCCEEE-EeeCCCHHHHHHHHHHHHh
Confidence            45689999999999999999999999985 5668999998899999865

>2dko_A Caspase-3; low barrier hydrogen bond, caspase, drug design, radiation D tetrahedral intermediate, protease; 1.06A {Homo sapiens} PDB: 1nme_A 2h5i_A 2h5j_A 2h65_A 2xyg_A* 2xyh_A 2xyp_A* 2xzd_A 2xzt_A 2y0b_A 3edq_A 1gfw_A 1re1_A* 1pau_A* 1rhk_A* 1rhm_A* 1rhq_A* 1rhr_A* 1rhu_A* 1rhj_A* ...

Probab=89.05  E-value=2.5  Score=26.31  Aligned_cols=40  Identities=10%  Similarity=0.130  Sum_probs=32.6

Q ss_pred             chHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC
Q psy13287         85 STQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG  125 (140)
Q Consensus        85 t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g  125 (140)
                      |..+++.+.+.|+..|+.|. .|.+++.++=...+++|...
T Consensus        39 t~~D~~~L~~~f~~LgF~V~-~~~dlt~~em~~~l~~~~~~   78 (146)
T 2dko_A           39 TDVDAANLRETFRNLKYEVR-NKNDLTREEIVELMRDVSKE   78 (146)
T ss_dssp             HHHHHHHHHHHHHHTTCEEE-EEESCCHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHCCCEEE-EeeCCCHHHHHHHHHHHHHh
Confidence            45578999999999999975 56678898888888888653

>3od5_A Caspase-6; caspase domain, apoptotic protease, hydrolase-hydrolase INHI complex; 1.60A {Homo sapiens} SCOP: c.17.1.0 PDB: 3k7e_A 3s70_A 3v6m_A 3v6l_A 3nr2_A 4fxo_A 2wdp_A 3nkf_A 3s8e_A 4ejf_A 3qnw_A* 3p4u_A* 3p45_B 3qnw_B* 3p4u_B*

Probab=88.47  E-value=2.7  Score=29.11  Aligned_cols=48  Identities=13%  Similarity=0.251  Sum_probs=39.7

Q ss_pred             CCcEEEEeCc--------------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         76 INQSIIFCNS--------------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        76 ~~~~lIF~~t--------------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      .+-+|||+|.              ..+++.+.+.|+..|+.|. .+.+++.++=...+++|..
T Consensus        21 rg~aLIInn~~F~~~~~l~~R~Gt~~D~~~L~~~f~~LGF~V~-~~~dlt~~em~~~l~~~~~   82 (278)
T 3od5_A           21 RGIALIFNHERFFWHLTLPERRGTCADRDNLTRRFSDLGFEVK-CFNDLKAEELLLKIHEVST   82 (278)
T ss_dssp             CCEEEEEECCCCCGGGCCCCCTTHHHHHHHHHHHHHHTTCEEE-EEESCCHHHHHHHHHHHHH
T ss_pred             cCEEEEEeccccCCCCCCCCCCCCHHHHHHHHHHHHHCCCEEE-EecCCCHHHHHHHHHHHHh
Confidence            3558898885              3789999999999999985 5668999998888888865

>1m72_A Caspase-1; caspase, cysteine protease, hydrolase-hydrolase inhibitor CO; 2.30A {Spodoptera frugiperda} SCOP: c.17.1.1 PDB: 3sip_B

Probab=88.21  E-value=3.6  Score=28.41  Aligned_cols=48  Identities=17%  Similarity=0.284  Sum_probs=39.6

Q ss_pred             CcEEEEeCc-------------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC
Q psy13287         77 NQSIIFCNS-------------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG  125 (140)
Q Consensus        77 ~~~lIF~~t-------------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g  125 (140)
                      +-+|||.|.             ..+++.+++.|+..|+.| ..+.+++.++=...+++|...
T Consensus        33 g~aLIInn~~f~~~~l~~R~g~~~Da~~L~~~f~~LGF~V-~~~~dlt~~em~~~l~~~~~~   93 (272)
T 1m72_A           33 GMAIIFNHEHFDIHSLKSRTGTNVDSDNLSKVLKTLGFKV-TVFPNLKSEEINKFIQQTAEM   93 (272)
T ss_dssp             EEEEEEECCCCSSTTCCCCTTHHHHHHHHHHHHHHTTCEE-EEEESCCHHHHHHHHHHHHTS
T ss_pred             CEEEEEechhcCCCCcccCCCCHHHHHHHHHHHHHCCCEE-EEecCcCHHHHHHHHHHHHHh
Confidence            346777764             788999999999999998 466789999999999999753

>1uar_A Rhodanese; sulfurtransferase, riken structural genomics/PROT initiative, RSGI, structural genomics, transferase; 1.70A {Thermus thermophilus} SCOP: c.46.1.2 c.46.1.2

Probab=87.88  E-value=1  Score=30.87  Aligned_cols=47  Identities=15%  Similarity=0.279  Sum_probs=36.7

Q ss_pred             HHHHHHHHhh--C-CCCcEEEEeCchHHHHHHHHHHH-hcCc-eEEEEecCC
Q psy13287         64 VHCLNTLFSK--L-QINQSIIFCNSTQRVELLAKKIT-ELGY-CCYYIHARM  110 (140)
Q Consensus        64 ~~~l~~ll~~--~-~~~~~lIF~~t~~~~~~~~~~L~-~~~~-~v~~~h~~~  110 (140)
                      .+.+.+.+..  . +..++++||.+-..+...+..|+ ..|+ ++..+.|++
T Consensus       218 ~~~l~~~~~~~g~~~~~~ivvyC~~G~rs~~a~~~L~~~~G~~~v~~l~GG~  269 (285)
T 1uar_A          218 AEELRALYEPLGITKDKDIVVYCRIAERSSHSWFVLKYLLGYPHVKNYDGSW  269 (285)
T ss_dssp             HHHHHHHHGGGTCCTTSEEEEECSSHHHHHHHHHHHHTTSCCSCEEEESSHH
T ss_pred             HHHHHHHHHHcCCCCCCCEEEECCchHHHHHHHHHHHHHcCCCCcceeCchH
Confidence            3455566665  3 35678999999888889999998 8898 699999984

>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=87.86  E-value=7.2  Score=30.36  Aligned_cols=81  Identities=10%  Similarity=0.080  Sum_probs=58.3

Q ss_pred             EEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhc--CceEEEEec--------------------CC
Q psy13287         53 QYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITEL--GYCCYYIHA--------------------RM  110 (140)
Q Consensus        53 ~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h~--------------------~~  110 (140)
                      +...-+.+..|.-.+..++... +.++||.+++...|..+++.|+..  +-.|.++-+                    ..
T Consensus        35 ~~l~g~~gs~k~~~~a~~~~~~-~~~~lvv~~~~~~A~~l~~el~~~~~~~~v~~fps~yd~~~pe~~~~~~d~y~~~~~  113 (661)
T 2d7d_A           35 QTLLGATGTGKTFTVSNLIKEV-NKPTLVIAHNKTLAGQLYSEFKEFFPNNAVEYFVSYYDYYQPEAYVPQTDTFIEKDA  113 (661)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH-CCCEEEECSSHHHHHHHHHHHHHHCTTSEEEEECCCEEEEECCEEETTTTEEECCEE
T ss_pred             EEEECcCCcHHHHHHHHHHHHh-CCCEEEEECCHHHHHHHHHHHHHHcCCCcEEEccccccccCccccCCcchhhhhhhc
Confidence            3445567788988888887664 457999999999999999999876  234554431                    11


Q ss_pred             --C---HHHHHHHHHHhhcCCccEEEEec
Q psy13287        111 --A---QAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus       111 --~---~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                        +   ...|..++.++..++-.|+|+|-
T Consensus       114 ~~~~~i~~~Rl~~l~~L~~~~~~ivV~sv  142 (661)
T 2d7d_A          114 SINDEIDKLRHSATSALFERRDVIIIASV  142 (661)
T ss_dssp             EECHHHHHHHHHHHHHHHHCSCEEEEECG
T ss_pred             ccCHHHHHHHHHHHHHHHhCCCeEEEecH
Confidence              2   45799999999877544666654

>3sir_A Caspase; hydrolase; 2.68A {Drosophila melanogaster} PDB: 3sip_A

Probab=87.83  E-value=2.5  Score=28.98  Aligned_cols=40  Identities=13%  Similarity=0.069  Sum_probs=33.0

Q ss_pred             chHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC
Q psy13287         85 STQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG  125 (140)
Q Consensus        85 t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g  125 (140)
                      +..+++.+.+.|+..|+.|. .+.+++.++=...+++|...
T Consensus        42 ~~~D~~~L~~~f~~LGF~V~-~~~dlt~~em~~~l~~~~~~   81 (259)
T 3sir_A           42 TNVDCENLTRVLKQLDFEVT-VYKDCRYKDILRTIEYSASQ   81 (259)
T ss_dssp             -CCHHHHHHHHHHHTTCEEE-EEEECSHHHHHHHHHHHHTS
T ss_pred             cHHHHHHHHHHHHHCCCEEE-EEeCCCHHHHHHHHHHHHHh
Confidence            34689999999999999974 66689999988899999753

>3p45_A Caspase-6; protease, huntington'S disease, physio PH, competitive inhibition, hydrolase; 2.53A {Homo sapiens}

Probab=87.78  E-value=4  Score=26.39  Aligned_cols=49  Identities=12%  Similarity=0.235  Sum_probs=39.7

Q ss_pred             CCcEEEEeCc--------------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC
Q psy13287         76 INQSIIFCNS--------------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG  125 (140)
Q Consensus        76 ~~~~lIF~~t--------------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g  125 (140)
                      .+.+|||+|.              ..+++.+.+.|+.+|+.|..+ -+++.++=...+++|...
T Consensus        44 rG~aLIinn~~F~~~~~l~~R~Gt~~D~~~L~~~F~~LGF~V~~~-~dlt~~em~~~l~~~~~~  106 (179)
T 3p45_A           44 RGIALIFNHERFFWHLTLPERRGTCADRDNLTRRFSDLGFEVKCF-NDLKAEELLLKIHEVSTV  106 (179)
T ss_dssp             CCEEEEEECCSCCGGGCCCCCTTHHHHHHHHHHHHHHTTCEEEEE-ESCCHHHHHHHHHHHHTS
T ss_pred             cCEEEEEeCcccCCCCCCCCCCCCHHHHHHHHHHHHHCCCEEEEE-eCCCHHHHHHHHHHHhhh
Confidence            4568999885              368999999999999998554 579999988888888753

>2j32_A Caspase-3; Pro-caspase3, thiol protease, hydrolase, hydrolase-hydrolase inhibitor complex; 1.30A {Homo sapiens} PDB: 2j30_A 3h0e_A* 2j33_A 3pd1_A 2j31_A 3pcx_A 1nms_A* 1nmq_A* 3deh_A* 3dei_A* 3dej_A* 3dek_A* 3pd0_A 3itn_A 1qx3_A

Probab=87.61  E-value=3.7  Score=27.88  Aligned_cols=39  Identities=10%  Similarity=0.120  Sum_probs=33.6

Q ss_pred             hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC
Q psy13287         86 TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG  125 (140)
Q Consensus        86 ~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g  125 (140)
                      ..+++.+++.|++.|+.|. .+.+++.++=...+++|...
T Consensus        40 ~~D~~~l~~~f~~LgF~V~-~~~dlt~~em~~~l~~~~~~   78 (250)
T 2j32_A           40 DVDAANLRETFRNLKYEVR-NKNDLTREEIVELMRDVSKE   78 (250)
T ss_dssp             HHHHHHHHHHHHHTTCEEE-EEESCCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHCCCEEE-EEeCCCHHHHHHHHHHHHHh
Confidence            4589999999999999984 66789999999999999754

>3tg1_B Dual specificity protein phosphatase 10; kinase/rhodanese-like domain, docking interaction, transfera hydrolase complex; 2.71A {Homo sapiens}

Probab=87.61  E-value=0.42  Score=29.98  Aligned_cols=35  Identities=11%  Similarity=0.234  Sum_probs=29.9

Q ss_pred             CCcEEEEeCch---------HHHHHHHHHHHhcCceEEEEecCC
Q psy13287         76 INQSIIFCNST---------QRVELLAKKITELGYCCYYIHARM  110 (140)
Q Consensus        76 ~~~~lIF~~t~---------~~~~~~~~~L~~~~~~v~~~h~~~  110 (140)
                      ..++++||.+-         ..+..++..|+..|+++..+.|++
T Consensus        93 ~~~IVvyc~~g~~~~~~~~~~~s~~a~~~L~~~G~~v~~L~GG~  136 (158)
T 3tg1_B           93 SKEIIVYDENTNEPSRVMPSQPLHIVLESLKREGKEPLVLKGGL  136 (158)
T ss_dssp             TSCEEEECSCCSCTTSCCSSSHHHHHHHHHHTTTCCEEEETTHH
T ss_pred             CCeEEEEECCCCcccccCcchHHHHHHHHHHhCCCcEEEeCCcH
Confidence            56899999887         457888999999999999999993

>3i2v_A Adenylyltransferase and sulfurtransferase MOCS3; rhodanese, UBA4, structural genomics, ubiquitin biology, structural genomics consortium, SGC; 1.25A {Homo sapiens}

Probab=86.68  E-value=0.62  Score=27.70  Aligned_cols=34  Identities=9%  Similarity=0.141  Sum_probs=28.8

Q ss_pred             cEEEEeCchHHHHHHHHHHHhc------C-ceEEEEecCCC
Q psy13287         78 QSIIFCNSTQRVELLAKKITEL------G-YCCYYIHARMA  111 (140)
Q Consensus        78 ~~lIF~~t~~~~~~~~~~L~~~------~-~~v~~~h~~~~  111 (140)
                      ++++||.+-..+...+..|+..      | .++..+.|++.
T Consensus        74 ~ivv~C~~G~rs~~a~~~L~~~gg~~~~G~~~v~~l~GG~~  114 (127)
T 3i2v_A           74 PIYVICKLGNDSQKAVKILQSLSAAQELDPLTVRDVVGGLM  114 (127)
T ss_dssp             EEEEECSSSSHHHHHHHHHHHHHHTTSSSCEEEEEETTHHH
T ss_pred             eEEEEcCCCCcHHHHHHHHHHhhccccCCCceEEEecCCHH
Confidence            7899999988888999999888      3 47999999854

>4fn4_A Short chain dehydrogenase; NADH-binding, rossmann fold, oxidoreductase; HET: NAD; 1.75A {Sulfolobus acidocaldarius}

Probab=86.58  E-value=5.1  Score=27.26  Aligned_cols=59  Identities=7%  Similarity=0.023  Sum_probs=42.3

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHH-HHHHHHHhh--cCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAH-RNRVFHDFR--SGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~-R~~~~~~f~--~g~~~vlv~T~  134 (140)
                      .-++++.--+.+.++++++.++..|.++..+..+++..+ -...++...  -|.+++||..-
T Consensus        31 Ga~Vv~~~~~~~~~~~~~~~i~~~g~~~~~~~~Dvt~~~~v~~~~~~~~~~~G~iDiLVNNA   92 (254)
T 4fn4_A           31 DSIVVAVELLEDRLNQIVQELRGMGKEVLGVKADVSKKKDVEEFVRRTFETYSRIDVLCNNA   92 (254)
T ss_dssp             TCEEEEEESCHHHHHHHHHHHHHTTCCEEEEECCTTSHHHHHHHHHHHHHHHSCCCEEEECC
T ss_pred             CCEEEEEECCHHHHHHHHHHHHhcCCcEEEEEccCCCHHHHHHHHHHHHHHcCCCCEEEECC
Confidence            345555556778889999999999989999999986543 333333332  28999999653

>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=86.38  E-value=1.1  Score=32.06  Aligned_cols=52  Identities=8%  Similarity=-0.069  Sum_probs=38.5

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++||.++++.-+..+++.+++.     +..+...+++.+...       ......+|+|+|.
T Consensus        95 ~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~ivv~T~  151 (412)
T 3fht_A           95 YPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER-------GQKISEQIVIGTP  151 (412)
T ss_dssp             SCCEEEECSSHHHHHHHHHHHHHHTTTSTTCCEEEECTTCCCCT-------TCCCCCSEEEECH
T ss_pred             CCCEEEECCCHHHHHHHHHHHHHHHhhcccceEEEeecCcchhh-------hhcCCCCEEEECc
Confidence            347999999999999998888764     467788887755321       2245678999986

>1urh_A 3-mercaptopyruvate sulfurtransferase; rhodanese; 2.8A {Escherichia coli} SCOP: c.46.1.2 c.46.1.2

Probab=86.26  E-value=0.88  Score=31.19  Aligned_cols=46  Identities=9%  Similarity=0.059  Sum_probs=34.6

Q ss_pred             HHHHHHHhhC---CCCcEEEEeCchHH-HHHHHHHHHhcCc-eEEEEecCC
Q psy13287         65 HCLNTLFSKL---QINQSIIFCNSTQR-VELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        65 ~~l~~ll~~~---~~~~~lIF~~t~~~-~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      +.+.+.+...   +..+++|||.+-.. +..++..|+..|+ +|..+.|++
T Consensus        72 ~~~~~~~~~~gi~~~~~ivvyc~~g~~~a~~a~~~L~~~G~~~v~~l~GG~  122 (280)
T 1urh_A           72 ETFAVAMRELGVNQDKHLIVYDEGNLFSAPRAWWMLRTFGVEKVSILGGGL  122 (280)
T ss_dssp             HHHHHHHHHTTCCTTSEEEEECSSSCSSHHHHHHHHHHTTCSCEEEETTHH
T ss_pred             HHHHHHHHHcCCCCCCeEEEECCCCCccHHHHHHHHHHcCCCCEEEecCCH
Confidence            4455555543   35678899988665 8889999999999 699999974

>2fp3_A Caspase NC; apoptosis, initiator caspase activation, dimerization, active site conformation, hydrolysis/apoptosis complex; 2.50A {Drosophila melanogaster}

Probab=86.11  E-value=2.8  Score=29.60  Aligned_cols=48  Identities=10%  Similarity=0.088  Sum_probs=40.2

Q ss_pred             CCcEEEEeCch------------HHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         76 INQSIIFCNST------------QRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        76 ~~~~lIF~~t~------------~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      .+-+|||+|..            .+++.+.+.|+.+|+.| .++.+++.++=...+++|..
T Consensus        61 rg~aLIInN~~F~~~~~~R~Gt~~D~~~L~~~f~~LGF~V-~~~~dlt~~em~~~l~~f~~  120 (316)
T 2fp3_A           61 RGVLLMVNIMDYPDQNRRRIGAEKDSKSLIHLFQELNFTI-FPYGNVNQDQFFKLLTMVTS  120 (316)
T ss_dssp             SEEEEEEECCCCSSTTSCCTTHHHHHHHHHHHHHHTTEEE-EEECSCCHHHHHHHHHHHHT
T ss_pred             CcEEEEEeCcccCCCCCCCCCcHHHHHHHHHHHHHCCCEE-EEccCCCHHHHHHHHHHHHH
Confidence            35578988763            78999999999999998 56778999998999999964

>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=86.08  E-value=1.6  Score=36.17  Aligned_cols=49  Identities=6%  Similarity=-0.139  Sum_probs=42.0

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..++++|-++++.-+..+++.+++..-.+..++|+.+           .+++.+|+|+|+
T Consensus       226 ~g~rvlvl~PtraLa~Q~~~~l~~~~~~VglltGd~~-----------~~~~~~IlV~Tp  274 (1108)
T 3l9o_A          226 NKQRVIYTSPIKALSNQKYRELLAEFGDVGLMTGDIT-----------INPDAGCLVMTT  274 (1108)
T ss_dssp             TTCEEEEEESSHHHHHHHHHHHHHHTSSEEEECSSCB-----------CCCSCSEEEEEH
T ss_pred             cCCeEEEEcCcHHHHHHHHHHHHHHhCCccEEeCccc-----------cCCCCCEEEeCh
Confidence            4678999999999999999999887558999999987           246789999996

>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=85.68  E-value=0.64  Score=36.37  Aligned_cols=52  Identities=6%  Similarity=0.048  Sum_probs=42.4

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHh---cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITE---LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~---~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+++++-++++.-+..+++.++.   .|+++..++|+.+.+.+.       .++.+|+|+|+
T Consensus        68 ~~~~l~i~P~raLa~q~~~~~~~l~~~g~~v~~~~G~~~~~~~~-------~~~~~Iiv~Tp  122 (720)
T 2zj8_A           68 GGKAVYIVPLKALAEEKFQEFQDWEKIGLRVAMATGDYDSKDEW-------LGKYDIIIATA  122 (720)
T ss_dssp             CSEEEEECSSGGGHHHHHHHTGGGGGGTCCEEEECSCSSCCCGG-------GGGCSEEEECH
T ss_pred             CCEEEEEcCcHHHHHHHHHHHHHHHhcCCEEEEecCCCCccccc-------cCCCCEEEECH
Confidence            57899999999999999999864   378999999998765431       24679999997

>2ql9_A Caspase-7; cysteine protease, apoptosis, thiol protease, zymogen, hydro hydrolase inhibitor complex; HET: CIT; 2.14A {Homo sapiens} PDB: 2ql7_A* 2ql5_A* 2qlb_A* 2qlf_A 2qlj_A* 3edr_A 3ibc_A 3ibf_A 1i51_A

Probab=85.53  E-value=4.6  Score=25.96  Aligned_cols=48  Identities=19%  Similarity=0.243  Sum_probs=37.6

Q ss_pred             CcEEEEeC--------------chHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC
Q psy13287         77 NQSIIFCN--------------STQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG  125 (140)
Q Consensus        77 ~~~lIF~~--------------t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g  125 (140)
                      +.+|||.|              |..+++.+.+.|+.+|+.| ..|-+++.++=...+++|...
T Consensus        45 G~aLIInn~~F~~~~~l~~R~Gt~~D~~~L~~~F~~LgF~V-~v~~dlt~~em~~~l~~~s~~  106 (173)
T 2ql9_A           45 GKCIIINNKNFDKVTGMGVRNGTDKDAEALFKCFRSLGFDV-IVYNDCSCAKMQDLLKKASEE  106 (173)
T ss_dssp             EEEEEEECCCCCGGGCCCCCTTHHHHHHHHHHHHHHHTEEE-EEEESCCHHHHHHHHHHHHTS
T ss_pred             eEEEEEeccccCCCCCCCCCCCcHHHHHHHHHHHHHCCCEE-EEEeCCCHHHHHHHHHHHHHh
Confidence            45778776              3467889999999999998 455688888888888888754

>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=85.48  E-value=0.91  Score=35.39  Aligned_cols=53  Identities=9%  Similarity=0.067  Sum_probs=42.5

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHh---cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITE---LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~---~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..+++++.++++.-+..+++.++.   .|+++..++|+....++       ..+..+|+|||+
T Consensus        67 ~~~~~l~i~P~r~La~q~~~~~~~~~~~g~~v~~~~G~~~~~~~-------~~~~~~Iiv~Tp  122 (702)
T 2p6r_A           67 KGGKSLYVVPLRALAGEKYESFKKWEKIGLRIGISTGDYESRDE-------HLGDCDIIVTTS  122 (702)
T ss_dssp             TTCCEEEEESSHHHHHHHHHHHTTTTTTTCCEEEECSSCBCCSS-------CSTTCSEEEEEH
T ss_pred             hCCcEEEEeCcHHHHHHHHHHHHHHHhcCCEEEEEeCCCCcchh-------hccCCCEEEECH
Confidence            367899999999999999998854   37899999998766443       125789999997

>1e0c_A Rhodanese, sulfurtransferase; sulfur metabolism, thiosulfate:cyanide sulfurtransferase; 1.8A {Azotobacter vinelandii} SCOP: c.46.1.2 c.46.1.2 PDB: 1h4k_X 1h4m_X

Probab=85.43  E-value=0.87  Score=31.01  Aligned_cols=36  Identities=17%  Similarity=0.188  Sum_probs=31.0

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      +..++++||.+-..+...+..|+..|+ ++..+.|++
T Consensus       222 ~~~~ivvyC~~G~rs~~a~~~L~~~G~~~v~~l~GG~  258 (271)
T 1e0c_A          222 PDKEIVTHCQTHHRSGLTYLIAKALGYPRVKGYAGSW  258 (271)
T ss_dssp             TTSEEEEECSSSSHHHHHHHHHHHTTCSCEEECSSHH
T ss_pred             CCCCEEEECCchHHHHHHHHHHHHcCCCCceeeCCcH
Confidence            356789999998888999999999999 588999984

>2nn3_C Caspase-1; cysteine protease, hydrolase; 3.00A {Spodoptera frugiperda}

Probab=85.36  E-value=4.2  Score=28.68  Aligned_cols=49  Identities=16%  Similarity=0.262  Sum_probs=41.1

Q ss_pred             CCcEEEEeCc-------------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC
Q psy13287         76 INQSIIFCNS-------------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG  125 (140)
Q Consensus        76 ~~~~lIF~~t-------------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g  125 (140)
                      .+-+|||.|.             ..+++.+++.|+.+|+.| ..+.+++.++=...+++|...
T Consensus        60 rg~aLIInN~~F~~~~l~~R~Gt~~Da~~L~~~f~~LGF~V-~~~~dlt~~em~~~l~~f~~~  121 (310)
T 2nn3_C           60 RGMAIIFNHEHFDIHSLKSRTGTNVDSDNLSKVLKTLGFKV-TVFPNLKSEEINKFIQQTAEM  121 (310)
T ss_dssp             CCEEEEEECCCCSSTTCCCCTTHHHHHHHHHHHHHHTTCEE-EEEESCCHHHHHHHHHHHHSS
T ss_pred             cCEEEEEechhcCCCCcccCCCCHHHHHHHHHHHHHCCCEE-EEecCCCHHHHHHHHHHHHHh
Confidence            3558898875             788999999999999998 466789999999999999753

>4ehd_A Caspase-3; caspase, apoptosis, allosteric inhibition; 1.58A {Homo sapiens} PDB: 4ehk_A 4ehf_A 4ehn_A 1cp3_A 4ehh_A 4eha_A 4ehl_A 1i3o_A

Probab=85.33  E-value=5.6  Score=27.52  Aligned_cols=40  Identities=10%  Similarity=0.130  Sum_probs=33.9

Q ss_pred             chHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC
Q psy13287         85 STQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG  125 (140)
Q Consensus        85 t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g  125 (140)
                      +..+++.+.+.|+.+|+.| ..+.+++.++=...+++|...
T Consensus        67 t~~D~~~L~~~f~~LGF~V-~~~~dlt~~em~~~l~~f~~~  106 (277)
T 4ehd_A           67 TDVDAANLRETFRNLKYEV-RNKNDLTREEIVELMRDVSKE  106 (277)
T ss_dssp             HHHHHHHHHHHHHHTTCEE-EEEESCCHHHHHHHHHHHHTS
T ss_pred             CHHHHHHHHHHHHHCCCEE-EEecCCCHHHHHHHHHHHHhh
Confidence            3558999999999999997 567789999988999999753

>2eg4_A Probable thiosulfate sulfurtransferase; structural genomics, NPPSFA, national Pro protein structural and functional analyses; 1.70A {Thermus thermophilus} PDB: 2eg3_A

Probab=85.31  E-value=0.73  Score=30.68  Aligned_cols=37  Identities=16%  Similarity=0.178  Sum_probs=31.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      +..++++||.+-..+...+..|+..|.++..|.|++.
T Consensus       183 ~~~~iv~~C~~G~rs~~a~~~L~~~G~~v~~~~Gg~~  219 (230)
T 2eg4_A          183 PGQEVGVYCHSGARSAVAFFVLRSLGVRARNYLGSMH  219 (230)
T ss_dssp             TTCEEEEECSSSHHHHHHHHHHHHTTCEEEECSSHHH
T ss_pred             CCCCEEEEcCChHHHHHHHHHHHHcCCCcEEecCcHH
Confidence            3567899999999999999999999977888998843

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=85.16  E-value=1.7  Score=35.52  Aligned_cols=49  Identities=8%  Similarity=0.001  Sum_probs=41.1

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.++++.-+..+++.|++.  +..+..++|+.+.           +++.+++|+|+
T Consensus        81 ~g~~vlvl~PtraLa~Q~~~~l~~~~~~~~v~~l~G~~~~-----------~~~~~IlV~Tp  131 (997)
T 4a4z_A           81 NMTKTIYTSPIKALSNQKFRDFKETFDDVNIGLITGDVQI-----------NPDANCLIMTT  131 (997)
T ss_dssp             TTCEEEEEESCGGGHHHHHHHHHTTC--CCEEEECSSCEE-----------CTTSSEEEEEH
T ss_pred             cCCeEEEEeCCHHHHHHHHHHHHHHcCCCeEEEEeCCCcc-----------CCCCCEEEECH
Confidence            4578999999999999999999886  6799999999752           36689999996

>3hzu_A Thiosulfate sulfurtransferase SSEA; niaid, ssgcid, infectious disease, transferase structural genomics; 2.10A {Mycobacterium tuberculosis} PDB: 3p3a_A

Probab=84.96  E-value=1.7  Score=30.58  Aligned_cols=46  Identities=9%  Similarity=0.109  Sum_probs=35.8

Q ss_pred             HHHHHHHhhC---CCCcEEEEeCchH-HHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         65 HCLNTLFSKL---QINQSIIFCNSTQ-RVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        65 ~~l~~ll~~~---~~~~~lIF~~t~~-~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      +.+.+.+...   +..+++|||.+-. .+..++..|+..|+ +|..+.|++
T Consensus        97 ~~~~~~l~~lgi~~~~~vVvyc~~g~~~a~~a~~~L~~~G~~~V~~L~GG~  147 (318)
T 3hzu_A           97 EQFAELMDRKGIARDDTVVIYGDKSNWWAAYALWVFTLFGHADVRLLNGGR  147 (318)
T ss_dssp             HHHHHHHHHTTCCTTCEEEEECSGGGHHHHHHHHHHHHTTCSCEEEETTHH
T ss_pred             HHHHHHHHHcCCCCCCeEEEECCCCCccHHHHHHHHHHcCCCceEEccCCH
Confidence            4566666653   3567899998766 78889999999998 599999873

>1nw9_B Caspase 9, apoptosis-related cysteine protease; XIAP, caspase inhibition, caspase activation, dimerization; 2.40A {Homo sapiens} SCOP: c.17.1.1 PDB: 1jxq_A* 2ar9_A

Probab=84.36  E-value=6.6  Score=27.04  Aligned_cols=47  Identities=11%  Similarity=0.223  Sum_probs=38.5

Q ss_pred             CcEEEEeCc--------------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         77 NQSIIFCNS--------------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        77 ~~~lIF~~t--------------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      +-+|||.|.              ..+++.+.+.|+.+|+.|. ++.+++.++=...+++|..
T Consensus        22 g~aLIInn~~f~~~~~l~~R~Gt~~D~~~L~~~f~~LgF~V~-~~~dlt~~em~~~l~~~~~   82 (277)
T 1nw9_B           22 GHCLIINNVNFCRESGLRTRTGSNIDCEKLRRRFSSLHFMVE-VKGDLTAKKMVLALLELAR   82 (277)
T ss_dssp             EEEEEEECCCCCGGGTCCCCTTHHHHHHHHHHHHHHTTEEEE-EEESCCHHHHHHHHHHHHH
T ss_pred             cEEEEEeCcccCCCCCCCCCCCcHHHHHHHHHHHHHCCCEEE-EEcCCCHHHHHHHHHHHHH
Confidence            457787765              3589999999999999984 5678999998899999964

>1e0c_A Rhodanese, sulfurtransferase; sulfur metabolism, thiosulfate:cyanide sulfurtransferase; 1.8A {Azotobacter vinelandii} SCOP: c.46.1.2 c.46.1.2 PDB: 1h4k_X 1h4m_X

Probab=84.24  E-value=1.1  Score=30.50  Aligned_cols=46  Identities=13%  Similarity=0.231  Sum_probs=33.7

Q ss_pred             HHHHHHHhhC---CCCcEEEEeCchH-HHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         65 HCLNTLFSKL---QINQSIIFCNSTQ-RVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        65 ~~l~~ll~~~---~~~~~lIF~~t~~-~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      +.+.+.+...   +..+++|||.+-. .+..++..|+..|+ +|..+.|++
T Consensus        67 ~~~~~~~~~~gi~~~~~vvvyc~~g~~~s~~a~~~L~~~G~~~v~~L~GG~  117 (271)
T 1e0c_A           67 EQLESLFGELGHRPEAVYVVYDDEGGGWAGRFIWLLDVIGQQRYHYLNGGL  117 (271)
T ss_dssp             HHHHHHHHHHTCCTTCEEEEECSSSSHHHHHHHHHHHHTTCCCEEEETTHH
T ss_pred             HHHHHHHHHcCCCCCCeEEEEcCCCCccHHHHHHHHHHcCCCCeEEecCCH
Confidence            3444445442   3567889998765 78889999999998 588898873

>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=83.88  E-value=1.6  Score=29.83  Aligned_cols=52  Identities=10%  Similarity=-0.008  Sum_probs=39.1

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcC----ceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELG----YCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~----~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .+++||.|+++.-++.+.+.+++.+    ..+..++|+.+...       -..+..+|+|+|.
T Consensus       157 ~~~~lil~Pt~~L~~q~~~~l~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~I~v~T~  212 (282)
T 1rif_A          157 EGKILIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGGASKDD-------KYKNDAPVVVGTW  212 (282)
T ss_dssp             SSEEEEECSSHHHHHHHHHHHHHHTSCCGGGEEECSTTCSSTT-------CCCTTCSEEEECH
T ss_pred             CCeEEEEECCHHHHHHHHHHHHHhcccccceEEEEeCCCcchh-------hhccCCcEEEEch
Confidence            4589999999999999999998763    35778888765432       1225678999986

>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=83.61  E-value=1.9  Score=30.45  Aligned_cols=52  Identities=12%  Similarity=0.057  Sum_probs=38.3

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.++++.-++.+++.+++.    ++.+...+++.....        .....+|+|+|.
T Consensus        74 ~~~~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~iiv~T~  129 (395)
T 3pey_A           74 ASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKN--------KQINAQVIVGTP  129 (395)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEESTTSSCTT--------SCBCCSEEEECH
T ss_pred             CCccEEEECCCHHHHHHHHHHHHHHhcccCeeEEEEecCchhhh--------ccCCCCEEEEcH
Confidence            3568999999999999999998874    566777777643221        233578888886

>2eg4_A Probable thiosulfate sulfurtransferase; structural genomics, NPPSFA, national Pro protein structural and functional analyses; 1.70A {Thermus thermophilus} PDB: 2eg3_A

Probab=83.42  E-value=2.9  Score=27.69  Aligned_cols=43  Identities=19%  Similarity=0.154  Sum_probs=33.5

Q ss_pred             HHHHHHhhCC-CCcEEEEeCchH-HHHHHHHHHHhcCce-EEEEecC
Q psy13287         66 CLNTLFSKLQ-INQSIIFCNSTQ-RVELLAKKITELGYC-CYYIHAR  109 (140)
Q Consensus        66 ~l~~ll~~~~-~~~~lIF~~t~~-~~~~~~~~L~~~~~~-v~~~h~~  109 (140)
                      .+.+.+.... ..+++|||.+.. .+..++..|+ .|+. +..+.|+
T Consensus        50 ~~~~~~~~l~~~~~ivvyc~~g~~~s~~a~~~L~-~G~~~v~~l~GG   95 (230)
T 2eg4_A           50 GLTELFQTLGLRSPVVLYDEGLTSRLCRTAFFLG-LGGLEVQLWTEG   95 (230)
T ss_dssp             HHHHHHHHTTCCSSEEEECSSSCHHHHHHHHHHH-HTTCCEEEECSS
T ss_pred             HHHHHHHhcCCCCEEEEEcCCCCccHHHHHHHHH-cCCceEEEeCCC
Confidence            4455555543 567899998877 8889999999 9994 8899988

>3aay_A Putative thiosulfate sulfurtransferase; sulfurtranserase, structural genomics, PSI, structure initiative; 1.90A {Mycobacterium tuberculosis} PDB: 3aax_A 3hwi_A

Probab=82.79  E-value=2.5  Score=28.78  Aligned_cols=45  Identities=20%  Similarity=0.281  Sum_probs=34.6

Q ss_pred             HHHHHHhh--C-CCCcEEEEeCchHHHHHHHHHHHh-cCc-eEEEEecCC
Q psy13287         66 CLNTLFSK--L-QINQSIIFCNSTQRVELLAKKITE-LGY-CCYYIHARM  110 (140)
Q Consensus        66 ~l~~ll~~--~-~~~~~lIF~~t~~~~~~~~~~L~~-~~~-~v~~~h~~~  110 (140)
                      .+.+.+..  . +..++++||.+-..+...+..|++ .|+ ++..|.|++
T Consensus       213 ~l~~~~~~~~~~~~~~iv~yC~~G~rs~~a~~~L~~~~G~~~v~~l~GG~  262 (277)
T 3aay_A          213 ELAKLYADAGLDNSKETIAYCRIGERSSHTWFVLRELLGHQNVKNYDGSW  262 (277)
T ss_dssp             HHHHHHHHHTCCTTSCEEEECSSHHHHHHHHHHHHTTSCCSCEEEESSHH
T ss_pred             HHHHHHHHcCCCCCCCEEEEcCcHHHHHHHHHHHHHHcCCCcceeeCchH
Confidence            45555543  2 356799999998888888999986 898 499999983

>2j6p_A SB(V)-AS(V) reductase; arsenate reductase, antimonate reductase, CDC25 phosphatase, rhodanese, C-MYC epitope, oxidoreductase; HET: EPE; 2.15A {Leishmania major}

Probab=82.66  E-value=2.3  Score=26.37  Aligned_cols=47  Identities=19%  Similarity=0.314  Sum_probs=27.7

Q ss_pred             HHHHHHHHhhCCCCcEEE-Ee-CchHHHH----HHHHHHHhcCc---eEEEEecCCC
Q psy13287         64 VHCLNTLFSKLQINQSII-FC-NSTQRVE----LLAKKITELGY---CCYYIHARMA  111 (140)
Q Consensus        64 ~~~l~~ll~~~~~~~~lI-F~-~t~~~~~----~~~~~L~~~~~---~v~~~h~~~~  111 (140)
                      +..+...+.. ...+.+| || .+-..+.    +++..|++.|+   ++..+.|++.
T Consensus        56 ~~~l~~~l~~-~~~~~vV~yC~~sg~rs~~aa~~~~~~L~~~G~~~~~v~~L~GG~~  111 (152)
T 2j6p_A           56 YEKLAKTLFE-EKKELAVFHCAQSLVRAPKGANRFALAQKKLGYVLPAVYVLRGGWE  111 (152)
T ss_dssp             HHHHHHHHHH-TTCCEEEEECSSSSSHHHHHHHHHHHHHHHHTCCCSEEEEETTHHH
T ss_pred             HHHHHHHhcc-cCCCEEEEEcCCCCCccHHHHHHHHHHHHHcCCCCCCEEEEcCcHH
Confidence            3444444443 2344454 59 4544433    34477888886   7889999954

>1uar_A Rhodanese; sulfurtransferase, riken structural genomics/PROT initiative, RSGI, structural genomics, transferase; 1.70A {Thermus thermophilus} SCOP: c.46.1.2 c.46.1.2

Probab=82.30  E-value=1.4  Score=30.21  Aligned_cols=45  Identities=7%  Similarity=0.037  Sum_probs=33.7

Q ss_pred             HHHHHHhhC---CCCcEEEEeCchH-HHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         66 CLNTLFSKL---QINQSIIFCNSTQ-RVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        66 ~l~~ll~~~---~~~~~lIF~~t~~-~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      .+.+.+...   +..++++||.+-. .+..++..|+..|+ +|..+.|++
T Consensus        66 ~~~~~~~~~gi~~~~~ivvyc~~g~~~s~~a~~~L~~~G~~~v~~l~GG~  115 (285)
T 1uar_A           66 EFAKLMERLGISNDTTVVLYGDKNNWWAAYAFWFFKYNGHKDVRLMNGGR  115 (285)
T ss_dssp             HHHHHHHHTTCCTTCEEEEECHHHHHHHHHHHHHHHHTTCSCEEEETTHH
T ss_pred             HHHHHHHHcCCCCCCeEEEECCCCCccHHHHHHHHHHcCCCCeEEecCCH
Confidence            455555543   3567889998866 67888999999998 588999874

>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=82.15  E-value=3.1  Score=30.79  Aligned_cols=50  Identities=6%  Similarity=0.171  Sum_probs=36.9

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...++||.|+ ..-+..+.+.+++.  +.++..+||+...         ...+..+|+|+|.
T Consensus        85 ~~~~~LIv~P-~~l~~qw~~e~~~~~~~~~v~~~~g~~~~---------~~~~~~~ivi~t~  136 (500)
T 1z63_A           85 ELTPSLVICP-LSVLKNWEEELSKFAPHLRFAVFHEDRSK---------IKLEDYDIILTTY  136 (500)
T ss_dssp             CCSSEEEEEC-STTHHHHHHHHHHHCTTSCEEECSSSTTS---------CCGGGSSEEEEEH
T ss_pred             CCCCEEEEcc-HHHHHHHHHHHHHHCCCceEEEEecCchh---------ccccCCcEEEeeH
Confidence            4578999999 45778888888876  5688889988532         2234567888885

>1rhs_A Sulfur-substituted rhodanese; transferase, sulfurtransferase; 1.36A {Bos taurus} SCOP: c.46.1.2 c.46.1.2 PDB: 1boh_A 1boi_A 1orb_A 2ora_A 1dp2_A* 1rhd_A

Probab=82.14  E-value=1.6  Score=30.20  Aligned_cols=47  Identities=13%  Similarity=0.046  Sum_probs=35.7

Q ss_pred             HHHHHHHhh--C-CCCcEEEEeCchHHHHHHHHHHHhcCce-EEEEecCCC
Q psy13287         65 HCLNTLFSK--L-QINQSIIFCNSTQRVELLAKKITELGYC-CYYIHARMA  111 (140)
Q Consensus        65 ~~l~~ll~~--~-~~~~~lIF~~t~~~~~~~~~~L~~~~~~-v~~~h~~~~  111 (140)
                      +.+.+.+..  . +..++++||.+-..+...+..|+..|+. +..|.|++.
T Consensus       226 ~~l~~~~~~~~~~~~~~ivv~C~sG~rs~~a~~~L~~~G~~~v~~~~GG~~  276 (296)
T 1rhs_A          226 EELRAMFEAKKVDLTKPLIATCRKGVTACHIALAAYLCGKPDVAIYDGSWF  276 (296)
T ss_dssp             HHHHHHHHHTTCCTTSCEEEECSSSSTHHHHHHHHHHTTCCCCEEESSHHH
T ss_pred             HHHHHHHHHcCCCCCCCEEEECCcHHHHHHHHHHHHHcCCCCceeeCCcHH
Confidence            345555543  2 3567999999988888889999999995 889999843

>2wlr_A Putative thiosulfate sulfurtransferase YNJE; rhodanese domains; HET: EPE; 1.45A {Escherichia coli} PDB: 2wlx_A* 3ipo_A* 3ipp_A

Probab=81.95  E-value=3.7  Score=29.97  Aligned_cols=48  Identities=10%  Similarity=0.098  Sum_probs=37.1

Q ss_pred             HHHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         64 VHCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        64 ~~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      .+.+.+.+...   +..++++||.+-..+..++..|+..|+ ++..|.|+++
T Consensus       188 ~~~l~~~~~~~gi~~~~~ivvyC~~G~~a~~~~~~L~~~G~~~v~~l~Gg~~  239 (423)
T 2wlr_A          188 DEQLKAMLAKHGIRHDTTVILYGRDVYAAARVAQIMLYAGVKDVRLLDGGWQ  239 (423)
T ss_dssp             HHHHHHHHHHTTCCTTSEEEEECSSHHHHHHHHHHHHHHTCSCEEEETTTHH
T ss_pred             HHHHHHHHHHcCCCCCCeEEEECCCchHHHHHHHHHHHcCCCCeEEECCCHH
Confidence            34555566543   356789999998889999999999998 6999999843

>1f1j_A Caspase-7 protease; caspase-7, cysteine protease, hydrolase, apoptosis, hydrolas hydrolase inhibitor complex; 2.35A {Homo sapiens} SCOP: c.17.1.1 PDB: 1kmc_A 3r5k_A 1i4o_A 1gqf_A 3h1p_A 1shj_A* 1k86_A 1k88_A 1shl_A*

Probab=81.81  E-value=6.4  Score=27.66  Aligned_cols=48  Identities=19%  Similarity=0.233  Sum_probs=39.0

Q ss_pred             CcEEEEeCc--------------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcC
Q psy13287         77 NQSIIFCNS--------------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSG  125 (140)
Q Consensus        77 ~~~lIF~~t--------------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g  125 (140)
                      +-+|||.|.              ..+++.+++.|+.+|+.| ..+-+++.++=...+++|...
T Consensus        70 g~aLIInN~~f~~~~~L~~R~G~~~Da~~L~~~f~~LGF~V-~~~~dlt~~em~~~l~~~~~~  131 (305)
T 1f1j_A           70 GKCIIINNKNFDKVTGMGVRNGTDKDAEALFKCFRSLGFDV-IVYNDCSCAKMQDLLKKASEE  131 (305)
T ss_dssp             EEEEEEECCCCCTTTTCCCCTTHHHHHHHHHHHHHHHTEEE-EEEESCCHHHHHHHHHHHHHS
T ss_pred             CEEEEEechhcCCCccCccCCCcHHHHHHHHHHHHHCCCEE-EEecCcCHHHHHHHHHHHHHh
Confidence            347888873              478999999999999998 456788999888888889754

>3ipz_A Monothiol glutaredoxin-S14, chloroplastic; electron transport, PL redox-active center, transit peptide, transport, oxidoreduc; 2.40A {Arabidopsis thaliana} PDB: 2lku_A

Probab=81.67  E-value=5.7  Score=22.99  Aligned_cols=57  Identities=7%  Similarity=-0.019  Sum_probs=40.2

Q ss_pred             CCCcEEEEeC------chHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEE
Q psy13287         75 QINQSIIFCN------STQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLV  131 (140)
Q Consensus        75 ~~~~~lIF~~------t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv  131 (140)
                      ...+++||..      ....|.++.+.|.+.|+....+.=..+++.+..+.+..-...+..++
T Consensus        16 ~~~~Vvvy~k~t~~~p~Cp~C~~ak~~L~~~gi~~~~~dI~~~~~~~~~l~~~~g~~tvP~if   78 (109)
T 3ipz_A           16 NSEKVVLFMKGTRDFPMCGFSNTVVQILKNLNVPFEDVNILENEMLRQGLKEYSNWPTFPQLY   78 (109)
T ss_dssp             TSSSEEEEESBCSSSBSSHHHHHHHHHHHHTTCCCEEEEGGGCHHHHHHHHHHHTCSSSCEEE
T ss_pred             ccCCEEEEEecCCCCCCChhHHHHHHHHHHcCCCcEEEECCCCHHHHHHHHHHHCCCCCCeEE
Confidence            4578999987      48899999999999998877776555666666665543333444443

>3aay_A Putative thiosulfate sulfurtransferase; sulfurtranserase, structural genomics, PSI, structure initiative; 1.90A {Mycobacterium tuberculosis} PDB: 3aax_A 3hwi_A

Probab=81.16  E-value=2.5  Score=28.78  Aligned_cols=46  Identities=9%  Similarity=0.067  Sum_probs=33.4

Q ss_pred             HHHHHHHhh--C-CCCcEEEEeCch-HHHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         65 HCLNTLFSK--L-QINQSIIFCNST-QRVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        65 ~~l~~ll~~--~-~~~~~lIF~~t~-~~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      +.+.+.+..  . +..+++|||.+- ..+..++..|+..|+ +|..+.|++
T Consensus        63 ~~~~~~~~~~gi~~~~~vvvyc~~g~~~s~~a~~~L~~~G~~~v~~l~GG~  113 (277)
T 3aay_A           63 QQFSKLLSERGIANEDTVILYGGNNNWFAAYAYWYFKLYGHEKVKLLDGGR  113 (277)
T ss_dssp             HHHHHHHHHHTCCTTSEEEEECSGGGHHHHHHHHHHHHTTCCSEEEETTHH
T ss_pred             HHHHHHHHHcCCCCCCeEEEECCCCCchHHHHHHHHHHcCCCcEEEecCCH
Confidence            345555544  2 346788999875 357788899999998 689999984

>3ntd_A FAD-dependent pyridine nucleotide-disulphide oxidoreductase; COA, persulfide reductase, rhodanese; HET: COA FAD; 1.99A {Shewanella loihica} PDB: 3nta_A* 3nt6_A*

Probab=80.29  E-value=1.4  Score=33.29  Aligned_cols=41  Identities=17%  Similarity=0.244  Sum_probs=33.9

Q ss_pred             HhhCC-CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCC
Q psy13287         71 FSKLQ-INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        71 l~~~~-~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      +..++ ..++++||.+-..+...+..|++.|+++..+.|++.
T Consensus       518 ~~~~~~~~~iv~~c~~g~rs~~a~~~l~~~G~~v~~l~gG~~  559 (565)
T 3ntd_A          518 MHELPKDKEIIIFSQVGLRGNVAYRQLVNNGYRARNLIGGYR  559 (565)
T ss_dssp             GGGSCTTSEEEEECSSSHHHHHHHHHHHHTTCCEEEETTHHH
T ss_pred             HhhcCCcCeEEEEeCCchHHHHHHHHHHHcCCCEEEEcChHH
Confidence            34443 467899999999999999999999999999999853

>3zyw_A Glutaredoxin-3; metal binding protein; 1.84A {Homo sapiens}

Probab=80.15  E-value=6.8  Score=22.86  Aligned_cols=57  Identities=5%  Similarity=-0.065  Sum_probs=39.8

Q ss_pred             CCCcEEEEe------CchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEE
Q psy13287         75 QINQSIIFC------NSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLV  131 (140)
Q Consensus        75 ~~~~~lIF~------~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv  131 (140)
                      ...+++||.      ++...|.++.+.|...|+....+.=..+++.|..+.+.--...+..++
T Consensus        14 ~~~~Vvlf~kg~~~~~~Cp~C~~ak~~L~~~gi~y~~~di~~d~~~~~~l~~~~g~~tvP~if   76 (111)
T 3zyw_A           14 HAAPCMLFMKGTPQEPRCGFSKQMVEILHKHNIQFSSFDIFSDEEVRQGLKAYSSWPTYPQLY   76 (111)
T ss_dssp             TSSSEEEEESBCSSSBSSHHHHHHHHHHHHTTCCCEEEEGGGCHHHHHHHHHHHTCCSSCEEE
T ss_pred             hcCCEEEEEecCCCCCcchhHHHHHHHHHHcCCCeEEEECcCCHHHHHHHHHHHCCCCCCEEE
Confidence            457899998      578889999999999998877776555666666655433223444443

>2ouc_A Dual specificity protein phosphatase 10; rhodanese fold, hydrolase; 2.20A {Homo sapiens}

Probab=80.09  E-value=0.81  Score=27.64  Aligned_cols=35  Identities=9%  Similarity=0.227  Sum_probs=28.1

Q ss_pred             CCcEEEEeCchHH---------HHHHHHHHHhcCceEEEEecCC
Q psy13287         76 INQSIIFCNSTQR---------VELLAKKITELGYCCYYIHARM  110 (140)
Q Consensus        76 ~~~~lIF~~t~~~---------~~~~~~~L~~~~~~v~~~h~~~  110 (140)
                      ..++++||.+-..         +..+++.|...|+++..+.|++
T Consensus        83 ~~~ivvyc~~g~~~~~~~~~~~~~~~~~~L~~~G~~v~~l~GG~  126 (142)
T 2ouc_A           83 SKEIIVYDENTNEPSRVMPSQPLHIVLESLKREGKEPLVLKGGL  126 (142)
T ss_dssp             HSCEEEECSSCCCGGGCCTTSHHHHHHHHHHHTTCCCEEETTHH
T ss_pred             CCcEEEEECCCCchhhcCcccHHHHHHHHHHHcCCcEEEEccCH
Confidence            4679999987554         3567888999999999999983

---

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	140
d1s2ma1	206	c.37.1.19 (A:46-251) Putative ATP-dependent RNA he	4e-10
d2j0sa2	168	c.37.1.19 (A:244-411) Probable ATP-dependent RNA h	5e-10
d1s2ma2	171	c.37.1.19 (A:252-422) Putative ATP-dependent RNA h	6e-10
d1veca_	206	c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Huma	8e-10
d1t6na_	207	c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP5	1e-08
d2j0sa1	222	c.37.1.19 (A:22-243) Probable ATP-dependent RNA he	2e-08
d1qdea_	212	c.37.1.19 (A:) Initiation factor 4a {Baker's yeast	2e-08
d2rb4a1	168	c.37.1.19 (A:307-474) ATP-dependent RNA helicase D	3e-08
d1q0ua_	209	c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR	4e-08
d2g9na1	218	c.37.1.19 (A:21-238) Initiation factor 4a {Human (	5e-08
d1gkub2	248	c.37.1.16 (B:251-498) Helicase-like "domain" of re	1e-07
d1a1va2	299	c.37.1.14 (A:326-624) HCV helicase domain {Human h	2e-07
d1hv8a1	208	c.37.1.19 (A:3-210) Putative DEAD box RNA helicase	6e-07
d1wrba1	238	c.37.1.19 (A:164-401) putative ATP-dependent RNA h	3e-06
d1t5ia_	168	c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP5	5e-06
d2bmfa2	305	c.37.1.14 (A:178-482) Dengue virus helicase {Dengu	5e-06
d1oywa3	200	c.37.1.19 (A:207-406) RecQ helicase domain {Escher	5e-05
d1hv8a2	155	c.37.1.19 (A:211-365) Putative DEAD box RNA helica	3e-04
d1jr6a_	138	c.37.1.14 (A:) HCV helicase domain {Human hepatiti	8e-04
d1c4oa2	174	c.37.1.19 (A:410-583) Nucleotide excision repair e	0.001

>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 = 53.1 bits (126), Expect = 4e-10
 Identities = 28/42 (66%), Positives = 32/42 (76%)

Query: 3   DHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLME 44
           + ++S LP   Q LL+SATFPLTVK FM KHL  PYEINLME
Sbjct: 165 EQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYEINLME 206

>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 = 52.2 bits (124), Expect = 5e-10
 Identities = 32/91 (35%), Positives = 53/91 (58%), Gaps = 1/91 (1%)

Query: 44  EELTLKGVTQYYAFVQ-ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYC 102
           +ELTL+G+ Q++  V+ E  K   L  L+  L I Q++IFCN+ ++V+ L +K+ E  + 
Sbjct: 1   DELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFT 60

Query: 103 CYYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
              +H  M Q  R  +  +FRSG  R L+ +
Sbjct: 61  VSSMHGDMPQKERESIMKEFRSGASRVLIST 91

>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 = 52.4 bits (124), Expect = 6e-10
 Identities = 71/88 (80%), Positives = 78/88 (88%)

Query: 45  ELTLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCY 104
           ELTLKG+TQYYAFV+ERQK+HCLNTLFSKLQINQ+IIFCNST RVELLAKKIT+LGY CY
Sbjct: 1   ELTLKGITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCY 60

Query: 105 YIHARMAQAHRNRVFHDFRSGLCRNLVC 132
           Y HARM Q  RN+VFH+FR G  R LVC
Sbjct: 61  YSHARMKQQERNKVFHEFRQGKVRTLVC 88

>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 = 52.7 bits (125), Expect = 8e-10
 Identities = 25/41 (60%), Positives = 32/41 (78%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEIN 41
           +++ +I  LP  RQILLYSATFPL+V+ FM  HL+ PYEIN
Sbjct: 166 IMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYEIN 206

>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 = 49.1 bits (116), Expect = 1e-08
 Identities = 12/39 (30%), Positives = 24/39 (61%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEI 40
           +  +  + PHE+Q++++SAT    ++    K ++DP EI
Sbjct: 167 VQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEI 205

>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 = 48.7 bits (115), Expect = 2e-08
 Identities = 13/41 (31%), Positives = 19/41 (46%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINL 42
           +  V   LP   Q++L SAT P  +     K + DP  I +
Sbjct: 180 IYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILV 220

>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 = 48.7 bits (115), Expect = 2e-08
 Identities = 12/39 (30%), Positives = 21/39 (53%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEI 40
           +  + ++LP   Q++L SAT P  V     K +++P  I
Sbjct: 172 IYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRI 210

>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 = 48.1 bits (113), Expect = 4e-08
 Identities = 12/43 (27%), Positives = 31/43 (72%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINLM 43
            +D + + +P + Q+L++SAT P  +K F++K++++P  ++++
Sbjct: 167 DVDQIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHVL 209

>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 = 47.5 bits (112), Expect = 5e-08
 Identities = 12/42 (28%), Positives = 20/42 (47%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINL 42
            +  +   L    Q++L SAT P  V    +K ++DP  I +
Sbjct: 175 QIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILV 216

>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 = 46.7 bits (110), Expect = 1e-07
 Identities = 10/83 (12%), Positives = 28/83 (33%), Gaps = 7/83 (8%)

Query: 58  VQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNR 117
               + +  L+++  KL     II+  + +  E + + +             +  A +  
Sbjct: 8   AVNDESISTLSSILEKLG-TGGIIYARTGEEAEEIYESLKN------KFRIGIVTATKKG 60

Query: 118 VFHDFRSGLCRNLVCSGDSSAMM 140
            +  F  G   +L+ +      +
Sbjct: 61  DYEKFVEGEIDHLIGTAHYYGTL 83

>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 = 46.5 bits (110), Expect = 2e-07
 Identities = 10/78 (12%), Positives = 26/78 (33%), Gaps = 10/78 (12%)

Query: 73  KLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHR----------NRVFHDF 122
            ++  + +IFC+S ++ + LA K+  LG      +  +  +                   
Sbjct: 33  VIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPTSGDVVVVATDALMTG 92

Query: 123 RSGLCRNLVCSGDSSAMM 140
            +G   +++         
Sbjct: 93  FTGDFDSVIDCNTCVTQT 110

>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 = 44.3 bits (104), Expect = 6e-07
 Identities = 11/42 (26%), Positives = 24/42 (57%)

Query: 1   MLDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEINL 42
            ++ +++    +++ILL+SAT P  + N  +K++ D   I  
Sbjct: 165 DVEKILNACNKDKRILLFSATMPREILNLAKKYMGDYSFIKA 206

>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 = 42.6 bits (99), Expect = 3e-06
 Identities = 9/40 (22%), Positives = 17/40 (42%)

Query: 2   LDHVISILPHERQILLYSATFPLTVKNFMEKHLKDPYEIN 41
           ++         RQ L++SATFP  ++      L +   + 
Sbjct: 197 IEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIFMT 236

>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 = 41.6 bits (96), Expect = 5e-06
 Identities = 27/84 (32%), Positives = 40/84 (47%)

Query: 50  GVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHAR 109
           G+ QYY  +++ +K   L  L   L+ NQ +IF  S QR   LA+ + E  +    IH  
Sbjct: 1   GLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRG 60

Query: 110 MAQAHRNRVFHDFRSGLCRNLVCS 133
           M Q  R   +  F+    R LV +
Sbjct: 61  MPQEERLSRYQQFKDFQRRILVAT 84

>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 = 42.2 bits (98), Expect = 5e-06
 Identities = 11/124 (8%), Positives = 33/124 (26%), Gaps = 17/124 (13%)

Query: 10  PHERQILLYSATFPLTVKNFMEKHLKDPYEINLMEELTLKGVTQYYAFVQERQKVHCLNT 69
             E   +  +AT P +   F + +                 +      + ER        
Sbjct: 129 MGEAAGIFMTATPPGSRDPFPQSNAP---------------IMDEEREIPERSWNSGHEW 173

Query: 70  LFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRN 129
           +       +++ F  S +    +A  + + G     +  +   +   +   +    +   
Sbjct: 174 V--TDFKGKTVWFVPSIKAGNDIAACLRKNGKKVIQLSRKTFDSEYIKTRTNDWDFVVTT 231

Query: 130 LVCS 133
            +  
Sbjct: 232 DISE 235

>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 = 38.9 bits (89), Expect = 5e-05
 Identities = 17/79 (21%), Positives = 32/79 (40%)

Query: 54  YYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQA 113
            Y  +++ + +  L     + +    II+CNS  +VE  A ++   G      HA +   
Sbjct: 8   RYMLMEKFKPLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENN 67

Query: 114 HRNRVFHDFRSGLCRNLVC 132
            R  V   F+    + +V 
Sbjct: 68  VRADVQEKFQRDDLQIVVA 86

>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 = 36.5 bits (83), Expect = 3e-04
 Identities = 20/90 (22%), Positives = 41/90 (45%), Gaps = 1/90 (1%)

Query: 51  VTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM 110
           + Q Y  V E ++   L  L    +    ++FC + +  + LA  + ++G+    IH  +
Sbjct: 4   IEQSYVEVNENERFEALCRLLKNKEF-YGLVFCKTKRDTKELASMLRDIGFKAGAIHGDL 62

Query: 111 AQAHRNRVFHDFRSGLCRNLVCSGDSSAMM 140
           +Q+ R +V   F+    R L+ +   S  +
Sbjct: 63  SQSQREKVIRLFKQKKIRILIATDVMSRGI 92

>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 = 35.1 bits (80), Expect = 8e-04
 Identities = 12/93 (12%), Positives = 27/93 (29%), Gaps = 3/93 (3%)

Query: 51  VTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARM 110
           + +           +        ++  + +IFC+S ++ + LA K+  LG      +  +
Sbjct: 10  IEEVALSTTGEIPFYGKAIPLEVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYYRGL 69

Query: 111 AQAHRNRVFHDFRSG---LCRNLVCSGDSSAMM 140
             +               L        DS    
Sbjct: 70  DVSVIPTNGDVVVVATDALMTGFTGDFDSVIDC 102

>d1c4oa2 c.37.1.19 (A:410-583) Nucleotide excision repair enzyme UvrB {Thermus thermophilus [TaxId: 274]} Length = 174

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]

 Score = 35.1 bits (80), Expect = 0.001
 Identities = 12/56 (21%), Positives = 22/56 (39%)

Query: 78  QSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS 133
           ++++   + +  E L   + E G    Y+H  +    R  +  D R G    LV  
Sbjct: 33  RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGI 88

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	140
d1s2ma2	171	Putative ATP-dependent RNA helicase DHH1 {Baker's	99.91
d1t5ia_	168	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	99.9
d2j0sa2	168	Probable ATP-dependent RNA helicase DDX48 {Human (	99.9
d1fuka_	162	Initiation factor 4a {Baker's yeast (Saccharomyces	99.9
d2rb4a1	168	ATP-dependent RNA helicase DDX25 {Human (Homo sapi	99.89
d1hv8a2	155	Putative DEAD box RNA helicase {Archaeon Methanoco	99.89
d1oywa3	200	RecQ helicase domain {Escherichia coli [TaxId: 562	99.85
d1c4oa2	174	Nucleotide excision repair enzyme UvrB {Thermus th	99.83
d1t5la2	181	Nucleotide excision repair enzyme UvrB {Bacillus c	99.82
d1jr6a_	138	HCV helicase domain {Human hepatitis C virus (HCV)	99.69
d2p6ra4	201	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	99.63
d1gkub2	248	Helicase-like "domain" of reverse gyrase {Archaeon	99.61
d1wp9a2	286	putative ATP-dependent RNA helicase PF2015 {Pyroco	99.54
d2eyqa5	211	Transcription-repair coupling factor, TRCF {Escher	99.51
d2fwra1	200	DNA repair protein RAD25 {Archaeoglobus fulgidus [	99.44
d1a1va2	299	HCV helicase domain {Human hepatitis C virus (HCV)	99.43
d1gm5a4	206	RecG helicase domain {Thermotoga maritima [TaxId:	99.35
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	99.33
d1yksa2	299	YFV helicase domain {Yellow fever virus [TaxId: 11	99.18
d1z5za1	244	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	99.03
d1z3ix1	346	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	98.97
d1tf5a4	175	Translocation ATPase SecA, nucleotide-binding doma	98.8
d1nkta4	219	Translocation ATPase SecA, nucleotide-binding doma	98.21
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	98.03
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	97.84
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	96.5
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	96.36
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	95.58
d1yt8a4	130	Thiosulfate sulfurtransferase PA2603 {Pseudomonas	95.33
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	95.32
d1gmxa_	108	Sulfurtransferase GlpE {Escherichia coli [TaxId: 5	94.81
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	94.72
d1tq1a_	119	Thiosulfate sulfurtransferase/Senescence-associate	94.72
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	94.68
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	94.54
d1qxna_	137	Polysulfide-sulfur transferase (sulfide dehydrogen	94.35
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	94.26
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	93.59
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	93.48
d2b2na1	308	Transcription-repair coupling factor, TRCF {Escher	93.13
d1urha2	120	3-mercaptopyruvate sulfurtransferase {Escherichia	92.98
d1yt8a1	136	Thiosulfate sulfurtransferase PA2603 {Pseudomonas	92.97
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	91.95
d1wmaa1	275	Carbonyl reductase/20beta-hydroxysteroid dehydroge	91.3
g1pyo.1	257	Caspase-2 {Human (Homo sapiens) [TaxId: 9606]}	91.3
d1yt8a2	101	Thiosulfate sulfurtransferase PA2603 {Pseudomonas	90.74
d1e0ca2	136	Sulfurtransferase {Azotobacter vinelandii [TaxId:	90.66
g1qtn.1	242	Caspase-8 {Human (Homo sapiens) [TaxId: 9606]}	90.23
d2eyqa2	117	Transcription-repair coupling factor, TRCF {Escher	89.92
d1okga1	156	3-mercaptopyruvate sulfurtransferase {Leishmania m	88.62
d1m72a_	256	Caspase-1 {Fall armyworm (Spodoptera frugiperda) [	87.4
d2c07a1	251	beta-keto acyl carrier protein reductase {Malaria	86.8
d1piia1	198	N-(5'phosphoribosyl)antranilate isomerase, PRAI {E	86.7
g1nme.1	238	Apopain (caspase-3, cpp32) {Human (Homo sapiens) [	86.48
d1yt8a3	157	Thiosulfate sulfurtransferase PA2603 {Pseudomonas	86.25
d1edoa_	244	beta-keto acyl carrier protein reductase {Oil seed	86.15
d1gega_	255	meso-2,3-butanediol dehydrogenase {Klebsiella pneu	86.03
d1uara2	141	Sulfurtransferase {Thermus thermophilus [TaxId: 27	85.72
d1rrma_	385	Lactaldehyde reductase FucO {Escherichia coli [Tax	85.59
d1rhsa2	144	Rhodanese {Cow (Bos taurus) [TaxId: 9913]}	85.41
d1urha1	147	3-mercaptopyruvate sulfurtransferase {Escherichia	84.06
d2bd0a1	240	Bacterial sepiapterin reductase {Chlorobium tepidu	84.06
d1tf5a3	273	Translocation ATPase SecA, nucleotide-binding doma	83.84
d2rhca1	257	beta-keto acyl carrier protein reductase {Streptom	83.54
d1f1ja_	245	Caspase-7 {Human (Homo sapiens) [TaxId: 9606]}	83.23
d2b8ea1	135	Cation-transporting ATPase {Archaeon Archaeoglobus	83.07
d1vlja_	398	NADH-dependent butanol dehydrogenase A (TM0820) {T	82.87
d1byka_	255	Trehalose repressor, C-terminal domain {Escherichi	82.18
d1yl7a1	135	Dihydrodipicolinate reductase {Mycobacterium tuber	81.45
d1u9ya2	129	Phosphoribosylpyrophosphate synthetase {Methanocal	81.22
d1uara1	143	Sulfurtransferase {Thermus thermophilus [TaxId: 27	81.2
d1nw9b_	277	Caspase-9 {Human (Homo sapiens) [TaxId: 9606]}	80.65

>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=99.91  E-value=1.2e-23  Score=136.72  Aligned_cols=94  Identities=74%  Similarity=1.194  Sum_probs=91.1

Q ss_pred             cCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCC
Q psy13287         47 TLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL  126 (140)
Q Consensus        47 ~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~  126 (140)
                      ...++.|+|+.+++.+|...|.++++..+..++||||+|++.++.++..|+..|+.+..+||++++++|..++++|++|+
T Consensus         3 tl~~i~q~yi~v~~~~K~~~L~~ll~~~~~~k~iVF~~~~~~~~~l~~~L~~~g~~~~~~h~~~~~~~r~~~~~~f~~~~   82 (171)
T d1s2ma2           3 TLKGITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGK   82 (171)
T ss_dssp             BCTTEEEEEEECCGGGHHHHHHHHHHHSCCSEEEEECSSHHHHHHHHHHHHHHTCCEEEECTTSCHHHHHHHHHHHHTTS
T ss_pred             CccceEEEEEEcCHHHHHHHHHHHHHhCCCCceEEEEeeeehhhHhHHhhhcccccccccccccchhhhhhhhhhcccCc
Confidence            56789999999999999999999999988899999999999999999999999999999999999999999999999999


Q ss_pred             ccEEEEecccCCCC
Q psy13287        127 CRNLVCSGDSSAMM  140 (140)
Q Consensus       127 ~~vlv~T~~~~rGl  140 (140)
                      .++|||||+++||+
T Consensus        83 ~~ilv~Td~~~~Gi   96 (171)
T d1s2ma2          83 VRTLVCSDLLTRGI   96 (171)
T ss_dssp             SSEEEESSCSSSSC
T ss_pred             cccccchhHhhhcc
Confidence            99999999999996

>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=99.90  E-value=1.6e-23  Score=135.72  Aligned_cols=91  Identities=31%  Similarity=0.400  Sum_probs=88.3

Q ss_pred             CeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccE
Q psy13287         50 GVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRN  129 (140)
Q Consensus        50 ~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~v  129 (140)
                      +++|+|+.+++++|...|.++++..+..++||||++++.++.+++.|.+.|+.+..+||++++++|..++++|++|++++
T Consensus         1 ~l~q~~v~~~~~~K~~~L~~ll~~~~~~k~iIF~~~~~~~~~l~~~L~~~~~~~~~ihg~~~~~~r~~~l~~F~~g~~~i   80 (168)
T d1t5ia_           1 GLQQYYVKLKDNEKNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRI   80 (168)
T ss_dssp             CCEEEEEECCGGGHHHHHHHHHHHSCCSSEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCSE
T ss_pred             CcEEEEEEeChHHHHHHHHHHHHhCCCCeEEEEEeeeecchhhhhhhccccccccccccccchhhhhhhhhhhcccccee
Confidence            47899999999999999999999998899999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecccCCCC
Q psy13287        130 LVCSGDSSAMM  140 (140)
Q Consensus       130 lv~T~~~~rGl  140 (140)
                      ||||+++++|+
T Consensus        81 Lv~T~~~~~Gi   91 (168)
T d1t5ia_          81 LVATNLFGRGM   91 (168)
T ss_dssp             EEESSCCSTTC
T ss_pred             eeccccccchh
Confidence            99999999996

>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=99.90  E-value=1.1e-23  Score=136.33  Aligned_cols=96  Identities=32%  Similarity=0.610  Sum_probs=90.6

Q ss_pred             cccCCCeEEEEEEcCcc-chHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhh
Q psy13287         45 ELTLKGVTQYYAFVQER-QKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFR  123 (140)
Q Consensus        45 ~~~~~~i~~~~~~~~~~-~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~  123 (140)
                      +....+++|+|+.++.+ +|++.|.++++..+..++||||++++.++.+++.|+..++.+..+||++++++|..++++|+
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            34678999999999765 59999999999988899999999999999999999999999999999999999999999999


Q ss_pred             cCCccEEEEecccCCCC
Q psy13287        124 SGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       124 ~g~~~vlv~T~~~~rGl  140 (140)
                      +|+.++|||||+++||+
T Consensus        82 ~g~~~iLv~Td~~~rGi   98 (168)
T d2j0sa2          82 SGASRVLISTDVWARGL   98 (168)
T ss_dssp             HTSSCEEEECGGGSSSC
T ss_pred             cCCccEEeccchhcccc
Confidence            99999999999999996

>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=99.90  E-value=1.7e-23  Score=134.80  Aligned_cols=90  Identities=29%  Similarity=0.569  Sum_probs=85.7

Q ss_pred             eEEEEEEcCc-cchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccE
Q psy13287         51 VTQYYAFVQE-RQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRN  129 (140)
Q Consensus        51 i~~~~~~~~~-~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~v  129 (140)
                      |+|+|+.+++ +.|++.|.++++..+..++||||+|+..++.+++.|...++.+..+||++++++|..++++|+.|+.++
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            5789999965 569999999999998999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecccCCCC
Q psy13287        130 LVCSGDSSAMM  140 (140)
Q Consensus       130 lv~T~~~~rGl  140 (140)
                      |||||+++||+
T Consensus        81 Lv~Tdv~~rGi   91 (162)
T d1fuka_          81 LISTDLLARGI   91 (162)
T ss_dssp             EEEEGGGTTTC
T ss_pred             eeccccccccc
Confidence            99999999997

>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=99.89  E-value=3.7e-23  Score=132.35  Aligned_cols=92  Identities=22%  Similarity=0.384  Sum_probs=87.5

Q ss_pred             CCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCc
Q psy13287         48 LKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLC  127 (140)
Q Consensus        48 ~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~  127 (140)
                      +.+|+|+|+.++..+|.+.|.++++. .+.++||||+|++.|+.+++.|++.|+.+..+||++++.+|..++++|++|+.
T Consensus         1 n~nI~~~~i~v~~~~K~~~L~~ll~~-~~~k~IIF~~s~~~~~~l~~~L~~~g~~~~~~~~~~~~~~r~~~~~~f~~~~~   79 (155)
T d1hv8a2           1 NANIEQSYVEVNENERFEALCRLLKN-KEFYGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKI   79 (155)
T ss_dssp             SSSSEEEEEECCGGGHHHHHHHHHCS-TTCCEEEECSSHHHHHHHHHHHHHTTCCEEEECSSSCHHHHHHHHHHHHTTSS
T ss_pred             CCCeEEEEEEeChHHHHHHHHHHHcc-CCCCEEEEECchHHHHHHHhhhcccccccccccccchhhhhhhhhhhhhcccc
Confidence            46899999999999999999999976 46789999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEecccCCCC
Q psy13287        128 RNLVCSGDSSAMM  140 (140)
Q Consensus       128 ~vlv~T~~~~rGl  140 (140)
                      ++|||||++++|+
T Consensus        80 ~ilv~T~~~~~Gi   92 (155)
T d1hv8a2          80 RILIATDVMSRGI   92 (155)
T ss_dssp             SEEEECTTHHHHC
T ss_pred             eeeeehhHHhhhh
Confidence            9999999999996

>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=99.85  E-value=4.9e-21  Score=126.91  Aligned_cols=92  Identities=17%  Similarity=0.210  Sum_probs=84.5

Q ss_pred             cCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCC
Q psy13287         47 TLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL  126 (140)
Q Consensus        47 ~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~  126 (140)
                      ..+|+.+.+  ++..+|++.|.++++..+..++||||+|++.++.+++.|+..++.+..+||++++++|..++++|++|+
T Consensus         3 ~RpNi~y~v--~~~~~k~~~L~~~l~~~~~~~~IIF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~r~~~~~~f~~g~   80 (200)
T d1oywa3           3 DRPNIRYML--MEKFKPLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDD   80 (200)
T ss_dssp             CCTTEEEEE--EECSSHHHHHHHHHHHTTTCCEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTS
T ss_pred             CCCCcEEEE--EcCCcHHHHHHHHHHhcCCCCEEEEEeeehhhHHhhhhhccCCceeEEecCCCcHHHHHHHHHHHhccc
Confidence            457776544  466779999999999888889999999999999999999999999999999999999999999999999


Q ss_pred             ccEEEEecccCCCC
Q psy13287        127 CRNLVCSGDSSAMM  140 (140)
Q Consensus       127 ~~vlv~T~~~~rGl  140 (140)
                      +++|||||+++||+
T Consensus        81 ~~ilvaTd~~~~Gi   94 (200)
T d1oywa3          81 LQIVVATVAFGMGI   94 (200)
T ss_dssp             CSEEEECTTSCTTT
T ss_pred             ceEEEecchhhhcc
Confidence            99999999999997

>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=2.4e-20  Score=120.39  Aligned_cols=75  Identities=16%  Similarity=0.215  Sum_probs=68.0

Q ss_pred             HHHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         66 CLNTLFSKL-QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        66 ~l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .+.++.+.. ...++||||+|++.|+.+++.|++.|+++..+||++++.+|.+++++|++|+++|||||++++||+
T Consensus        20 ll~~i~~~~~~g~r~lvfc~t~~~~~~l~~~L~~~Gi~a~~~Hg~~~~~eR~~~l~~F~~G~~~vLVaT~v~~~Gi   95 (174)
T d1c4oa2          20 LMEGIRERAARGERTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGL   95 (174)
T ss_dssp             HHHHHHHHHHTTCEEEEECSSHHHHHHHHHHHHHTTCCEEEECTTCCHHHHHHHHHHHHTTSCSEEEESCCCCTTC
T ss_pred             HHHHHHHHHhcCCcEEEEEcchhHHHHHHHHHHhcCCceEEEecccchHHHHHHHHHHHCCCeEEEEeeeeeeeec
Confidence            444443332 567999999999999999999999999999999999999999999999999999999999999996

>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=3e-20  Score=121.16  Aligned_cols=75  Identities=16%  Similarity=0.238  Sum_probs=67.8

Q ss_pred             HHHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         66 CLNTLFSKL-QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        66 ~l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .|.++.+.. .+.++||||++++.++.+++.|++.|+++..+||+|++++|..++++|++|++++|||||+++||+
T Consensus        20 ll~~i~~~~~~~~~~iif~~~~~~~~~~~~~l~~~g~~~~~~hg~~~~~eR~~~l~~Fr~g~~~vLVaTdv~~rGi   95 (181)
T d1t5la2          20 LIGEIRERVERNERTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGL   95 (181)
T ss_dssp             HHHHHHHHHHTTCEEEEECSSHHHHHHHHHHHHTTTCCEEEECSSCCHHHHHHHHHHHHHTSCSEEEESCCCSSSC
T ss_pred             HHHHHHHHHhcCCeEEEEeehhhhhHHHHHHHHhCCcceeEecCCccHHHHHHHHHHHHCCCCCEEEehhHHHccC
Confidence            344443332 467999999999999999999999999999999999999999999999999999999999999997

>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=99.69  E-value=2.2e-18  Score=107.69  Aligned_cols=87  Identities=11%  Similarity=0.088  Sum_probs=66.9

Q ss_pred             cCCCeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCC
Q psy13287         47 TLKGVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL  126 (140)
Q Consensus        47 ~~~~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~  126 (140)
                      ..+++.+.+...+++.......-.++..+.+++||||+|++.|+.+++.|++.|+++..+||+++++       .|++|+
T Consensus         6 ~~p~I~~~~~~~~~~~~~~~~~i~l~~~~~~k~IVFc~t~~~ae~la~~L~~~G~~~~~~H~~~~~~-------~~~~~~   78 (138)
T d1jr6a_           6 PHPNIEEVALSTTGEIPFYGKAIPLEVIKGGRHLIFCHSKKKCDELAAKLVALGINAVAYYRGLDVS-------VIPTNG   78 (138)
T ss_dssp             CCTTEEEEECCBCSSEECSSCEECHHHHTTSCEEEECSCHHHHHHHHHHHHHHTCEEEEECTTCCSC-------CCTTSS
T ss_pred             cCCCeEEEEeccCChhHHHHhhChHhhcCCCCEEEEeCcHHHHHHHHHHHhccccchhhhhccchhh-------hhhhhh
Confidence            4466777665544322111000113444678999999999999999999999999999999999864       578999


Q ss_pred             ccEEEEecccCCCC
Q psy13287        127 CRNLVCSGDSSAMM  140 (140)
Q Consensus       127 ~~vlv~T~~~~rGl  140 (140)
                      .++|||||+++||+
T Consensus        79 ~~vlvaTd~~~~Gi   92 (138)
T d1jr6a_          79 DVVVVATDALMTGF   92 (138)
T ss_dssp             CEEEEESSSSCSSS
T ss_pred             cceeehhHHHHhcc
Confidence            99999999999996

>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=99.63  E-value=4.2e-16  Score=103.02  Aligned_cols=75  Identities=17%  Similarity=0.223  Sum_probs=64.1

Q ss_pred             HHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhc------------------------------CceEEEEecCCCHH
Q psy13287         64 VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITEL------------------------------GYCCYYIHARMAQA  113 (140)
Q Consensus        64 ~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~------------------------------~~~v~~~h~~~~~~  113 (140)
                      .+.+.+.+++  .+++||||+|++.|+.+|..|.+.                              ...++++||+|+++
T Consensus        30 ~~l~~~~i~~--~~~~LVF~~sRk~~~~~A~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~GIa~hh~~l~~~  107 (201)
T d2p6ra4          30 EELVEECVAE--NGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHHAGLLNG  107 (201)
T ss_dssp             HHHHHHHHHT--TCCEEEECSSHHHHHHHHHHHHHHHHTTCCCSSHHHHHHTTCCSHHHHHHHHHHHTTCCEECTTSCHH
T ss_pred             HHHHHHHHHc--CCcEEEEeCCHHHHHHHHHHHHHHHHhhhchhHHHHHHHHhhhhhhhHHHHHHHhccHHHHHHHhhhh
Confidence            3455555554  678999999999999999888652                              11389999999999


Q ss_pred             HHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287        114 HRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus       114 ~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      +|..+++.|++|.+++||||+.+++|+
T Consensus       108 ~r~~ie~~f~~g~i~vlvaT~~l~~Gi  134 (201)
T d2p6ra4         108 QRRVVEDAFRRGNIKVVVATPTLAAGV  134 (201)
T ss_dssp             HHHHHHHHHHTTSCCEEEECSTTTSSS
T ss_pred             hHHHHHHHHhCCCceEEEechHHHhhc
Confidence            999999999999999999999999996

>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=99.61  E-value=8.8e-17  Score=109.44  Aligned_cols=81  Identities=15%  Similarity=0.299  Sum_probs=67.5

Q ss_pred             CeEEEEEEcCccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccE
Q psy13287         50 GVTQYYAFVQERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRN  129 (140)
Q Consensus        50 ~i~~~~~~~~~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~v  129 (140)
                      +|...+.   +++|++.|..+|+... +++||||+|++.|+.++++|++.      +||++++.+|..++++|++|++++
T Consensus         3 ~v~d~~~---~~~~~~~l~~~l~~~~-~~~iif~~~~~~~~~l~~~l~~~------~hg~~~~~~R~~~~~~f~~g~~~v   72 (248)
T d1gkub2           3 NVEDVAV---NDESISTLSSILEKLG-TGGIIYARTGEEAEEIYESLKNK------FRIGIVTATKKGDYEKFVEGEIDH   72 (248)
T ss_dssp             CEEEEEE---SCCCTTTTHHHHTTSC-SCEEEEESSHHHHHHHHHTTTTS------SCEEECTTSSSHHHHHHHHTSCSE
T ss_pred             CEEEEec---CchHHHHHHHHHHHhC-CCEEEEECCHHHHHHHHHHHHHh------ccCCCCHHHHHHHHHHHHhCCCeE
Confidence            4455443   5778899999998764 57999999999999999999763      899999999999999999999999


Q ss_pred             EEEe----cccCCCC
Q psy13287        130 LVCS----GDSSAMM  140 (140)
Q Consensus       130 lv~T----~~~~rGl  140 (140)
                      ||||    |+++|||
T Consensus        73 LVaT~a~~~v~~rGl   87 (248)
T d1gkub2          73 LIGTAHYYGTLVRGL   87 (248)
T ss_dssp             EEEECC------CCS
T ss_pred             EEEeccccchhhhcc
Confidence            9999    8899996

>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=99.54  E-value=7.4e-15  Score=101.58  Aligned_cols=79  Identities=15%  Similarity=0.253  Sum_probs=67.3

Q ss_pred             chHHHHHHHHh----hCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEec--------CCCHHHHHHHHHHhhcCCccE
Q psy13287         62 QKVHCLNTLFS----KLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHA--------RMAQAHRNRVFHDFRSGLCRN  129 (140)
Q Consensus        62 ~k~~~l~~ll~----~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~--------~~~~~~R~~~~~~f~~g~~~v  129 (140)
                      .|++.+.++|.    ..++.++||||+++..++.+++.|.+.++++..+||        +++..+|..++++|++|++++
T Consensus       143 pK~~~l~~~l~~~~~~~~~~k~iiF~~~~~~~~~~~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~F~~g~~~v  222 (286)
T d1wp9a2         143 PKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNV  222 (286)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCCEEEECSCHHHHHHHHHHHHHTTCCEEEECCSSCC-------CCHHHHHHHHHHHTSCSE
T ss_pred             cHHHHHHHHHHHHHHhCCCCcEEEEeCcHHhHHHHHHHHHHcCCceEEeeccccccccchhchHHHHHHHHHHHcCCCcE
Confidence            47666666664    346789999999999999999999999999988877        466778999999999999999


Q ss_pred             EEEecccCCCC
Q psy13287        130 LVCSGDSSAMM  140 (140)
Q Consensus       130 lv~T~~~~rGl  140 (140)
                      |||||++++|+
T Consensus       223 Lv~T~~~~~Gl  233 (286)
T d1wp9a2         223 LVATSVGEEGL  233 (286)
T ss_dssp             EEECGGGGGGG
T ss_pred             EEEccceeccc
Confidence            99999999996

>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=99.51  E-value=5.5e-14  Score=92.44  Aligned_cols=66  Identities=21%  Similarity=0.270  Sum_probs=62.6

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc--CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL--GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~--~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ..+|+.+.||..++.+.+++.+.+.  ++++..+||.|+++++..++++|++|+++|||||++.+.|+
T Consensus        30 rGgQvy~V~p~I~~~e~~~~~l~~~~p~~~i~~lHGkm~~~eke~im~~F~~g~~~ILv~TtvIEvGi   97 (211)
T d2eyqa5          30 RGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGI   97 (211)
T ss_dssp             TTCEEEEECCCSSCHHHHHHHHHHHCTTSCEEECCSSCCHHHHHHHHHHHHTTSCCEEEESSTTGGGS
T ss_pred             cCCeEEEEEcCccchhhHHHHHHHhCCceEEEEEEeccCHHHHHHHHHHHHcCCcceEEEehhhhhcc
Confidence            4789999999999999999999886  78999999999999999999999999999999999999996

>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=99.44  E-value=1.4e-14  Score=95.40  Aligned_cols=76  Identities=21%  Similarity=0.333  Sum_probs=69.0

Q ss_pred             ccchHHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCC
Q psy13287         60 ERQKVHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      .+.|++.|.++++..+..++||||++.+.++.+++.|.     +..+||+++..+|..++++|++|++++||||+.++.|
T Consensus        77 ~~~K~~~l~~ll~~~~~~k~lvf~~~~~~~~~l~~~l~-----~~~i~g~~~~~~R~~~l~~F~~~~~~vLv~~~~~~~G  151 (200)
T d2fwra1          77 SKNKIRKLREILERHRKDKIIIFTRHNELVYRISKVFL-----IPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEG  151 (200)
T ss_dssp             CSHHHHHHHHHHHHTSSSCBCCBCSCHHHHHHHHHHTT-----CCBCCSSSCSHHHHTHHHHHHHSSCSBCBCSSCCCSS
T ss_pred             cHHHHHHHHHHHHhCCCCcEEEEeCcHHHHHHHHhhcC-----cceeeCCCCHHHHHHHHHHhhcCCeeeeeecchhhcc
Confidence            34688999999998888899999999999999998873     4568999999999999999999999999999999999


Q ss_pred             C
Q psy13287        140 M  140 (140)
Q Consensus       140 l  140 (140)
                      +
T Consensus       152 i  152 (200)
T d2fwra1         152 I  152 (200)
T ss_dssp             S
T ss_pred             c
Confidence            6

>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=99.43  E-value=2.7e-15  Score=103.07  Aligned_cols=65  Identities=15%  Similarity=0.204  Sum_probs=57.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHH----------HHHHHHhhcCCccEEEEecccCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHR----------NRVFHDFRSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R----------~~~~~~f~~g~~~vlv~T~~~~rG  139 (140)
                      +.+++||||||++.|+++++.|++.|+++..+||+++++.|          ..+++.|+.|+.+++|+|+++++|
T Consensus        35 kggk~LVFcnSR~~aE~La~~L~~~Gi~a~~~Hgglsq~~R~~~gd~~i~~~~aLe~f~~G~~dvVVaT~~~a~g  109 (299)
T d1a1va2          35 KGGRHLIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPTSGDVVVVATDALMTGFTGDFDSVIDCNTCVTQ  109 (299)
T ss_dssp             HSSEEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCGGGSCSSSSEEEEECTTC---CCCCBSEEEECCEEEEE
T ss_pred             cCCCEEEECCcHHHHHHHHHHHHHCCCCEEEEeCCchHHHHHhccchHHHHHHHHHHHhcCCCcEEEEEeehhcc
Confidence            47899999999999999999999999999999999999887          567899999999999999998886

>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=99.35  E-value=4.2e-14  Score=93.30  Aligned_cols=81  Identities=15%  Similarity=0.233  Sum_probs=59.1

Q ss_pred             ccchHHHHHHHHhh-C-CCCcEEEEeCchHHHH--------HHHHHHHhc---CceEEEEecCCCHHHHHHHHHHhhcCC
Q psy13287         60 ERQKVHCLNTLFSK-L-QINQSIIFCNSTQRVE--------LLAKKITEL---GYCCYYIHARMAQAHRNRVFHDFRSGL  126 (140)
Q Consensus        60 ~~~k~~~l~~ll~~-~-~~~~~lIF~~t~~~~~--------~~~~~L~~~---~~~v~~~h~~~~~~~R~~~~~~f~~g~  126 (140)
                      +.++.+.+.+.+++ + ..+|+.+.||..++.+        +.++.|.+.   ++++..+||+|++++|..++++|++|+
T Consensus        11 ~~~~~~~v~~~I~~el~~g~QvyvVcP~Ieese~~~~~~~~e~~~~l~~~~~p~~~v~~lHG~m~~~eke~~m~~F~~g~   90 (206)
T d1gm5a4          11 PMDRVNEVYEFVRQEVMRGGQAFIVYPLIEESDKLNVKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGR   90 (206)
T ss_dssp             CSSTHHHHHHHHHHHTTTSCCBCCBCCCC--------CHHHHHHHSGGGSCC---CBCCCCSSSCCSCSHHHHHHHTTTS
T ss_pred             CcccHHHHHHHHHHHHHcCCCEEEEEeeecccccccchhhHHHHHHHHHhcCCCCeEEEEeecccHHHHHHHHHHHHCCC
Confidence            34455555665544 3 4578888898765443        444555433   678999999999999999999999999


Q ss_pred             ccEEEEecccCCCC
Q psy13287        127 CRNLVCSGDSSAMM  140 (140)
Q Consensus       127 ~~vlv~T~~~~rGl  140 (140)
                      ++|||||+++++|+
T Consensus        91 ~~iLVaTtViE~GI  104 (206)
T d1gm5a4          91 YDILVSTTVIEVGI  104 (206)
T ss_dssp             SSBCCCSSCCCSCS
T ss_pred             EEEEEEehhhhccc
Confidence            99999999999996

>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=99.33  E-value=6.4e-13  Score=91.86  Aligned_cols=62  Identities=11%  Similarity=0.045  Sum_probs=56.2

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      ..+++||||+++++++++++.|++.++.+..+||++.+..    ...|++|+.+++|||+++++|+
T Consensus       177 ~~~~~lvf~~~~~~~~~l~~~L~~~~~~~~~l~~~~~~~~----~~~~~~~~~~~lvaT~~~~~G~  238 (305)
T d2bmfa2         177 FKGKTVWFVPSIKAGNDIAACLRKNGKKVIQLSRKTFDSE----YIKTRTNDWDFVVTTDISEMGA  238 (305)
T ss_dssp             SCSCEEEECSCHHHHHHHHHHHHHHTCCCEECCTTCHHHH----GGGGGTSCCSEEEECGGGGTTC
T ss_pred             hCCCEEEEeccHHHHHHHHHHHHhCCCCEEEeCCcChHHH----HhhhhccchhhhhhhHHHHhcC
Confidence            4688999999999999999999999999999999987654    4578999999999999999995

>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=99.18  E-value=1.7e-11  Score=84.85  Aligned_cols=61  Identities=7%  Similarity=0.069  Sum_probs=51.1

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecccCCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGDSSAMM  140 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~~~rGl  140 (140)
                      .++++|||++.++++.+++.|++.|.+|..+||.+...++.    +|++|+.+++||||++++|+
T Consensus        36 ~g~~~~F~~s~~~~~~~a~~L~~~g~~V~~l~~~~~~~e~~----~~~~~~~~~~~~t~~~~~~~   96 (299)
T d1yksa2          36 KRPTAWFLPSIRAANVMAASLRKAGKSVVVLNRKTFEREYP----TIKQKKPDFILATDIAEMGA   96 (299)
T ss_dssp             CSCEEEECSCHHHHHHHHHHHHHTTCCEEECCSSSCC------------CCCSEEEESSSTTCCT
T ss_pred             CCCEEEEeCCHHHHHHHHHHHHhcCCeEEEEcCcCcHhHHh----hhhcCCcCEEEEechhhhce
Confidence            78899999999999999999999999999999999887654    57899999999999999996

>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=99.03  E-value=8.7e-10  Score=74.11  Aligned_cols=82  Identities=10%  Similarity=0.152  Sum_probs=68.9

Q ss_pred             CccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhc-CceEEEEecCCCHHHHHHHHHHhhcC-CccEEEEe-
Q psy13287         59 QERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITEL-GYCCYYIHARMAQAHRNRVFHDFRSG-LCRNLVCS-  133 (140)
Q Consensus        59 ~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~-~~~v~~~h~~~~~~~R~~~~~~f~~g-~~~vlv~T-  133 (140)
                      ..+.|+..+.+++...  +..++||||+.....+.+...+.+. +.++..+||+++..+|..++++|+++ ..+++++| 
T Consensus        66 ~~S~K~~~l~~~l~~~~~~g~kviIFs~~~~~~~~l~~~l~~~~~~~~~~i~G~~~~~~R~~~i~~F~~~~~~~vll~~~  145 (244)
T d1z5za1          66 RRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSV  145 (244)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTCCEEEEESCHHHHHHHHHHHHHHHCSCCCEECTTSCHHHHHHHHHHHHHCTTCCEEEEEC
T ss_pred             hhhhHHHHHHHHHHhhcccccceEEEeeceehHHHHHHHHHhhccceEEEEecccchhccchhhhhhhccccchhccccc
Confidence            3456999999988764  5678999999999999999988765 88999999999999999999999876 47777666 


Q ss_pred             cccCCCC
Q psy13287        134 GDSSAMM  140 (140)
Q Consensus       134 ~~~~rGl  140 (140)
                      ..++.|+
T Consensus       146 ~~~g~Gl  152 (244)
T d1z5za1         146 KAGGFGI  152 (244)
T ss_dssp             CTTCCCC
T ss_pred             ccccccc
Confidence            5777775

>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=98.97  E-value=2.4e-09  Score=75.40  Aligned_cols=81  Identities=15%  Similarity=0.230  Sum_probs=70.2

Q ss_pred             ccchHHHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCcc---EEEEe
Q psy13287         60 ERQKVHCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCR---NLVCS  133 (140)
Q Consensus        60 ~~~k~~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~---vlv~T  133 (140)
                      .+.|+..|.+++...   ++.++|||++.....+.+...|...|+.+..++|+++..+|..++++|+++...   +|++|
T Consensus        99 ~S~Kl~~L~~ll~~~~~~~g~KvlIFs~~~~~ld~l~~~l~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~vlLls~  178 (346)
T d1z3ix1          99 LSGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSS  178 (346)
T ss_dssp             GSHHHHHHHHHHHHHHHHCCCEEEEEESCHHHHHHHHHHHHHHTCCEEEECSSCCHHHHHHHHHHHHSTTCCCCEEEEEG
T ss_pred             cCHHHHHHHHHHHHHHHhcCCceeEEeehhhhhHHHHHHHhhhhccccccccchhHHHHHHHHHhhhcccccceeeeecc
Confidence            356888888888643   467999999999999999999999999999999999999999999999987543   57788


Q ss_pred             cccCCCC
Q psy13287        134 GDSSAMM  140 (140)
Q Consensus       134 ~~~~rGl  140 (140)
                      .+++.|+
T Consensus       179 ~agg~Gl  185 (346)
T d1z3ix1         179 KAGGCGL  185 (346)
T ss_dssp             GGSCTTC
T ss_pred             hhhhhcc
Confidence            8888886

>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=98.80  E-value=9.2e-09  Score=65.32  Aligned_cols=83  Identities=7%  Similarity=0.009  Sum_probs=62.7

Q ss_pred             EEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEe
Q psy13287         56 AFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS  133 (140)
Q Consensus        56 ~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T  133 (140)
                      ++....+|...+.+-+...  ...|+||+|.|.+..|.+++.|++.+++...+++....++-..+-+.-+  .-.|.|+|
T Consensus        12 vf~T~~eK~~AIi~eV~~~~~~grPVLIgT~SIe~SE~ls~~L~~~gi~h~vLnAk~~~~Ea~II~~Ag~--~g~VtIAT   89 (175)
T d1tf5a4          12 IYRTMEGKFKAVAEDVAQRYMTGQPVLVGTVAVETSELISKLLKNKGIPHQVLNAKNHEREAQIIEEAGQ--KGAVTIAT   89 (175)
T ss_dssp             EESSHHHHHHHHHHHHHHHHHHTCCEEEEESCHHHHHHHHHHHHTTTCCCEEECSSCHHHHHHHHTTTTS--TTCEEEEE
T ss_pred             EEcCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHcCCCceeehhhhHHHHHHHHHhccC--CCceeehh
Confidence            3345567877777666443  4678999999999999999999999999999999865444333333333  33799999


Q ss_pred             cccCCCC
Q psy13287        134 GDSSAMM  140 (140)
Q Consensus       134 ~~~~rGl  140 (140)
                      +.++||.
T Consensus        90 NmAGRGt   96 (175)
T d1tf5a4          90 NMAGRGT   96 (175)
T ss_dssp             TTSSTTC
T ss_pred             hHHHcCC
Confidence            9999993

>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=98.21  E-value=5.5e-06  Score=53.58  Aligned_cols=81  Identities=14%  Similarity=0.087  Sum_probs=61.8

Q ss_pred             EEcCccchHHHHHHHHhhC--CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCC-ccEEEE
Q psy13287         56 AFVQERQKVHCLNTLFSKL--QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGL-CRNLVC  132 (140)
Q Consensus        56 ~~~~~~~k~~~l~~ll~~~--~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~-~~vlv~  132 (140)
                      ++.....|...+.+-+...  ...|+||.+.|.+..|.++..|.+.|+++..+++.....+-..+-+   .|+ -.|-|+
T Consensus        12 Vy~T~~~K~~Avv~ei~~~h~~GqPVLVGT~SVe~SE~lS~lL~~~gi~h~vLNAK~herEAeIIAq---AG~~GaVTIA   88 (219)
T d1nkta4          12 IYKTEEAKYIAVVDDVAERYAKGQPVLIGTTSVERSEYLSRQFTKRRIPHNVLNAKYHEQEATIIAV---AGRRGGVTVA   88 (219)
T ss_dssp             EESCHHHHHHHHHHHHHHHHHTTCCEEEEESCHHHHHHHHHHHHHTTCCCEEECSSCHHHHHHHHHT---TTSTTCEEEE
T ss_pred             EEcCHHHHHHHHHHHHHHHHhcCCCEEEeeCcHHHHHHHHHHHHHhccchhccchhhHHHHHHHHHh---cccCCcEEee
Confidence            3345567877777766544  5778999999999999999999999999999999854333332222   233 378999


Q ss_pred             ecccCCC
Q psy13287        133 SGDSSAM  139 (140)
Q Consensus       133 T~~~~rG  139 (140)
                      |+.++||
T Consensus        89 TNMAGRG   95 (219)
T d1nkta4          89 TNMAGRG   95 (219)
T ss_dssp             ETTCSTT
T ss_pred             ccccCCC
Confidence            9999999

>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=98.03  E-value=2e-05  Score=53.02  Aligned_cols=61  Identities=7%  Similarity=0.056  Sum_probs=54.8

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEecc
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                      .+.|+++-++|..-++..++.+++.    |+.+..+||+++..+|..++.++++|+++++|+|-.
T Consensus       131 ~g~q~~~m~Pt~~La~Qh~~~~~~~f~~~~~~v~~l~~~~~~~~r~~~~~~~~~g~~~iiIGThs  195 (264)
T d1gm5a3         131 AGFQTAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHA  195 (264)
T ss_dssp             HTSCEEEECSCHHHHHHHHHHHHHHHTCSSCCEEECCSSSCHHHHHHHHHHHHSSCCCEEEECTT
T ss_pred             cccceeEEeehHhhhHHHHHHHHHhhhhccccceeeccccchHHHHHHHHHHHCCCCCEEEeehH
Confidence            4689999999999998887777654    789999999999999999999999999999999964

>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=97.84  E-value=9.2e-05  Score=48.80  Aligned_cols=75  Identities=8%  Similarity=0.007  Sum_probs=62.3

Q ss_pred             ccchHHHHHHHHh-hC-CCCcEEEEeCchHHHHHHHHHHHh----cCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEe
Q psy13287         60 ERQKVHCLNTLFS-KL-QINQSIIFCNSTQRVELLAKKITE----LGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCS  133 (140)
Q Consensus        60 ~~~k~~~l~~ll~-~~-~~~~~lIF~~t~~~~~~~~~~L~~----~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T  133 (140)
                      ++-|..+....+. .. ..+++++-+++..-+...++.+++    .+..+..+||.++..+|..+++++.+|+++++|.|
T Consensus        86 GsGKT~V~~~a~~~~~~~g~qv~~l~Pt~~La~Q~~~~~~~~~~~~~~~v~~l~~~~~~~~~~~~~~~~~~g~~~iviGt  165 (233)
T d2eyqa3          86 GFGKTEVAMRAAFLAVDNHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGT  165 (233)
T ss_dssp             CTTTHHHHHHHHHHHHTTTCEEEEECSSHHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHHHHHHHHHHTTCCSEEEEC
T ss_pred             CCCcHHHHHHHHHHHHHcCCceEEEccHHHhHHHHHHHHHHHHhhCCCEEEeccCcccchhHHHHHHHHhCCCCCEEEee
Confidence            4456555444432 22 468899999999999999999986    37799999999999999999999999999999998


Q ss_pred             c
Q psy13287        134 G  134 (140)
Q Consensus       134 ~  134 (140)
                      =
T Consensus       166 h  166 (233)
T d2eyqa3         166 H  166 (233)
T ss_dssp             T
T ss_pred             h
Confidence            6

>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=96.50  E-value=0.0049  Score=39.90  Aligned_cols=71  Identities=11%  Similarity=0.054  Sum_probs=50.7

Q ss_pred             ccch-HHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEE
Q psy13287         60 ERQK-VHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNL  130 (140)
Q Consensus        60 ~~~k-~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vl  130 (140)
                      ++-| ...+.-++...    ...+++|.|+|++-|..+++.+++.    ++++..+.|+.+..+....+   +. ..+++
T Consensus        64 GSGKTlayllPil~~l~~~~~~~~~lil~PtreLa~Qi~~~~~~l~~~~~i~~~~~~g~~~~~~~~~~l---~~-~~~Il  139 (222)
T d2j0sa1          64 GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL---DY-GQHVV  139 (222)
T ss_dssp             TSSHHHHHHHHHHHTCCTTSCSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECTTSCHHHHHHHH---HH-CCSEE
T ss_pred             chhhhhhhcccccccccccccCceeEEecchHHHHHHHHHHHHHHhCccceeEEEEeecccchhhHHHh---cc-CCeEE
Confidence            3344 44445555544    3457999999999999999888765    56899999998876654443   33 36899


Q ss_pred             EEec
Q psy13287        131 VCSG  134 (140)
Q Consensus       131 v~T~  134 (140)
                      |+|+
T Consensus       140 v~TP  143 (222)
T d2j0sa1         140 AGTP  143 (222)
T ss_dssp             EECH
T ss_pred             eCCC
Confidence            9997

>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=96.36  E-value=0.0098  Score=37.85  Aligned_cols=55  Identities=15%  Similarity=0.057  Sum_probs=43.9

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...+++|.|+|++.|..+.+.+++.    +.++..++|+.+..++...+   +  ..+++|||+
T Consensus        71 ~~~~~lil~pt~~l~~q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~l---~--~~~IlV~TP  129 (208)
T d1hv8a1          71 NGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKAL---K--NANIVVGTP  129 (208)
T ss_dssp             SSCCEEEECSCHHHHHHHHHHHHHHHCSSCCCEEEECTTSCHHHHHHHH---H--TCSEEEECH
T ss_pred             cCcceEEEeeccccchhhhhhhhhhcccCCeEEEEeeCCCChHHHHHhc---C--CCCEEEECh
Confidence            3457999999999999998888765    66899999998877665544   2  368999996

>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=95.58  E-value=0.031  Score=35.41  Aligned_cols=72  Identities=7%  Similarity=0.085  Sum_probs=49.9

Q ss_pred             ccch-HHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccE
Q psy13287         60 ERQK-VHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRN  129 (140)
Q Consensus        60 ~~~k-~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~v  129 (140)
                      +.-| ...+.-++...    ...+++|.|+|++-+..+.+.++..     .+.+..++|+.+.....   ..+..+..++
T Consensus        48 GsGKTla~~lp~l~~~~~~~~~~~~lil~PtreL~~qi~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---~~l~~~~~~i  124 (207)
T d1t6na_          48 GMGKTAVFVLATLQQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDE---EVLKKNCPHI  124 (207)
T ss_dssp             TSCHHHHHHHHHHHHCCCCTTCCCEEEECSCHHHHHHHHHHHHHHTTTSTTCCEEEESCCSCHHHHH---HHHHHSCCSE
T ss_pred             ccccccccccceeeeecccCCCceEEEEeccchhhHHHHHHHHHHHhhCCCceeEEEeccccHHHHH---HHHHhcCCCE
Confidence            3344 34444455544    2346999999999999998888765     24578888988766543   3344567899


Q ss_pred             EEEec
Q psy13287        130 LVCSG  134 (140)
Q Consensus       130 lv~T~  134 (140)
                      +|+|+
T Consensus       125 lI~TP  129 (207)
T d1t6na_         125 VVGTP  129 (207)
T ss_dssp             EEECH
T ss_pred             EEeCc
Confidence            99997

>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=95.33  E-value=0.012  Score=34.64  Aligned_cols=38  Identities=8%  Similarity=0.153  Sum_probs=33.9

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCH
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQ  112 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~  112 (140)
                      +.+++++||.+-..+...+..|++.|+++..+.|++..
T Consensus        79 ~~~~ivl~C~~G~rS~~aa~~L~~~G~~v~~l~GG~~a  116 (130)
T d1yt8a4          79 RGARLVLVDDDGVRANMSASWLAQMGWQVAVLDGLSEA  116 (130)
T ss_dssp             BTCEEEEECSSSSHHHHHHHHHHHTTCEEEEECSCCGG
T ss_pred             ccceEEeecCCCccHHHHHHHHHHcCCCeEEEcCchHH
Confidence            56789999999889999999999999999999999653

>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=95.32  E-value=0.036  Score=35.06  Aligned_cols=67  Identities=7%  Similarity=0.044  Sum_probs=47.7

Q ss_pred             HHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhc-----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         64 VHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITEL-----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        64 ~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~-----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..+.-++.+.    +..+++|.|+|++.+..+++.+...     +..+....|+.+...+...+    ....+++|+|+
T Consensus        55 layllP~l~~~~~~~~~~~~lil~pt~el~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l----~~~~~ivv~TP  130 (206)
T d1veca_          55 GAYLIPLLERLDLKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRL----DDTVHVVIATP  130 (206)
T ss_dssp             HHHHHHHHHHCCTTSCSCCEEEECSCHHHHHHHHHHHHHHTTTSSSCCEEEECSSSCHHHHHHHT----TSCCSEEEECH
T ss_pred             cccccchhhcccccccCcceEEEeecchhhHHHHHHHHHHhhcccCcccccccCCccHHHHHHHH----HhccCeEEeCC
Confidence            34444455443    4557999999999999998888654     45678888888776544443    35689999997

>d1gmxa_ c.46.1.3 (A:) Sulfurtransferase GlpE {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Rhodanese/Cell cycle control phosphatase
superfamily: Rhodanese/Cell cycle control phosphatase
family: Single-domain sulfurtransferase
domain: Sulfurtransferase GlpE
species: Escherichia coli [TaxId: 562]

Probab=94.81  E-value=0.02  Score=32.40  Aligned_cols=47  Identities=15%  Similarity=0.278  Sum_probs=37.4

Q ss_pred             HHHHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         65 HCLNTLFSKL-QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        65 ~~l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      ..+...+... +..++++||.+-..+...+..|.+.|+ ++..+.|++.
T Consensus        46 ~~l~~~~~~~~~~~~ivv~c~~g~rs~~~a~~L~~~G~~~v~~l~GG~~   94 (108)
T d1gmxa_          46 DTLGAFMRDNDFDTPVMVMCYHGNSSKGAAQYLLQQGYDVVYSIDGGFE   94 (108)
T ss_dssp             HHHHHHHHHSCTTSCEEEECSSSSHHHHHHHHHHHHTCSSEEEETTHHH
T ss_pred             hhHHHHhhhccccCcccccCCCChHHHHHHHHHHHcCCCCEEEEcChHH
Confidence            4455555555 456799999999999999999999998 5889999843

>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=94.72  E-value=0.11  Score=32.14  Aligned_cols=55  Identities=9%  Similarity=0.089  Sum_probs=45.0

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      .++++++.++++.-++.+++.+++.    +..+..+|++....+|.....+.     .++++|.
T Consensus        51 ~~~~il~i~P~~~L~~q~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~-----~i~i~t~  109 (200)
T d1wp9a1          51 YGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWARA-----KVIVATP  109 (200)
T ss_dssp             SCSCEEEECSSHHHHHHHHHHHHHHBCSCGGGEEEECSCSCHHHHHHHHHHC-----SEEEECH
T ss_pred             cCCcEEEEcCchHHHHHHHHHHHHhhcccccceeeeecccchhHHHHhhhcc-----ccccccc
Confidence            4678999999999999999888875    56799999999998888776543     6778775

>d1tq1a_ c.46.1.3 (A:) Thiosulfate sulfurtransferase/Senescence-associated protein {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a/b)
fold: Rhodanese/Cell cycle control phosphatase
superfamily: Rhodanese/Cell cycle control phosphatase
family: Single-domain sulfurtransferase
domain: Thiosulfate sulfurtransferase/Senescence-associated protein
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=94.72  E-value=0.012  Score=34.02  Aligned_cols=47  Identities=19%  Similarity=0.224  Sum_probs=36.6

Q ss_pred             HHHHHHHhhC-CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         65 HCLNTLFSKL-QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        65 ~~l~~ll~~~-~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      +.+.++.... +..++++||++-..+...+..|.+.|+ +|..+.|++.
T Consensus        60 ~~~~~~~~~~~~~~~iv~~C~~G~rs~~a~~~L~~~G~~nv~~l~GG~~  108 (119)
T d1tq1a_          60 DFLEQVSSHFGQSDNIIVGCQSGGRSIKATTDLLHAGFTGVKDIVGGYS  108 (119)
T ss_dssp             THHHHHTTTCCTTSSEEEEESSCSHHHHHHHHHHHHHCCSEEEEECCHH
T ss_pred             HHHHHHHHhcCCCcEEEEEcCCcCcHHHHHHHHHhcccCCeEEecChHH
Confidence            3344444444 356799999999999999999999998 5999999953

>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=94.68  E-value=0.11  Score=33.16  Aligned_cols=58  Identities=14%  Similarity=0.281  Sum_probs=45.3

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----Cc----eEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GY----CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~----~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ++.++|+-++++.-++.+++.+++.    ++    .+..++++.+...+...++....  .+|+|+|+
T Consensus        85 ~~~rvliv~Pt~~La~Q~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~Ilv~Tp  150 (237)
T d1gkub1          85 KGKRCYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRN--FKIVITTT  150 (237)
T ss_dssp             TSCCEEEEESCHHHHHHHHHHHHHHHTTTCCSGGGSEEECCSSCCSHHHHHHHHSGGG--CSEEEEEH
T ss_pred             hcCeEEEEeccHHHHHHHHHHHHHHHHHcCCceEEEEeeeecccchhhhhhhhccccc--cceeccCh
Confidence            4678999999999999999988763    33    36777888888888777765543  58999996

>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=94.54  E-value=0.065  Score=34.63  Aligned_cols=55  Identities=9%  Similarity=0.057  Sum_probs=42.7

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         76 INQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..+++|.|+|++.|..+.+.+...    ++++..+.|+.....+..    ......+++|||+
T Consensus        98 ~~~alil~pt~el~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~ivV~TP  156 (238)
T d1wrba1          98 YPKCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIR----EVQMGCHLLVATP  156 (238)
T ss_dssp             CCSEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCSHHHHH----HHSSCCSEEEECH
T ss_pred             CceEEEeccchhhhcchheeeeecccCCCcEEEEEeccchhhHHHh----hcccCCceeecCH
Confidence            346999999999999998877654    678999999877665432    2345689999997

>d1qxna_ c.46.1.3 (A:) Polysulfide-sulfur transferase (sulfide dehydrogenase, Sud) {Wolinella succinogenes [TaxId: 844]}

class: Alpha and beta proteins (a/b)
fold: Rhodanese/Cell cycle control phosphatase
superfamily: Rhodanese/Cell cycle control phosphatase
family: Single-domain sulfurtransferase
domain: Polysulfide-sulfur transferase (sulfide dehydrogenase, Sud)
species: Wolinella succinogenes [TaxId: 844]

Probab=94.35  E-value=0.039  Score=32.66  Aligned_cols=36  Identities=25%  Similarity=0.562  Sum_probs=31.8

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      +..++++||.+-..+...+..|++.|+ +|..+.|++
T Consensus        81 ~~~~ivvyC~~G~rs~~aa~~L~~~G~~nV~~l~GG~  117 (137)
T d1qxna_          81 PEKPVVVFCKTAARAALAGKTLREYGFKTIYNSEGGM  117 (137)
T ss_dssp             TTSCEEEECCSSSCHHHHHHHHHHHTCSCEEEESSCH
T ss_pred             cccceeeeecccchHHHHHHHHHHcCCCcEEEecCHH
Confidence            356799999999999999999999999 599999993

>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=94.26  E-value=0.02  Score=36.70  Aligned_cols=72  Identities=10%  Similarity=0.159  Sum_probs=45.0

Q ss_pred             ccch-HHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEE
Q psy13287         60 ERQK-VHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNL  130 (140)
Q Consensus        60 ~~~k-~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vl  130 (140)
                      +.-| ...+.-++...    ...++||+++|++-|..+++.++..    +..+..++++....+   .......+..+++
T Consensus        59 GsGKTlayllp~l~~i~~~~~~~~alil~Pt~eL~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~Iv  135 (218)
T d2g9na1          59 GTGKTATFAISILQQIELDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRA---EVQKLQMEAPHII  135 (218)
T ss_dssp             TSSHHHHHHHHHHHHCCTTCCSCCEEEECSSHHHHHHHHHHHHHHHTTTTCCEEEECC--CCCS---TTTSSSSCCCSEE
T ss_pred             chhhhhhhhhhhhheecccccCccEEEEcccchhhhhHHHHHhhhccccceeEEeeecccchhH---HHHHHhcCCCEEE
Confidence            3445 33344444443    4567999999999999998888764    455666666543321   1233444668999


Q ss_pred             EEec
Q psy13287        131 VCSG  134 (140)
Q Consensus       131 v~T~  134 (140)
                      |+|+
T Consensus       136 V~TP  139 (218)
T d2g9na1         136 VGTP  139 (218)
T ss_dssp             EECH
T ss_pred             EeCC
Confidence            9997

>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=93.59  E-value=0.19  Score=31.37  Aligned_cols=56  Identities=13%  Similarity=0.113  Sum_probs=43.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      +..+.++.+++...+......+...    ++++...+|+.+.......+    ....+++|||+
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l----~~~~~Ili~TP  127 (206)
T d1s2ma1          68 NKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRL----NETVHILVGTP  127 (206)
T ss_dssp             CSCCEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECSSSCHHHHHHHT----TSCCSEEEECH
T ss_pred             ccccceeeccchhhhhhhhhhhhhcccccCeeEEeecCccchhhHHHHh----cccceEEEECC
Confidence            4567899999999988877777654    77899999999887654433    45689999997

>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=93.48  E-value=0.087  Score=33.39  Aligned_cols=70  Identities=7%  Similarity=-0.021  Sum_probs=41.2

Q ss_pred             ccch-HHHHHHHHhhC----CCCcEEEEeCchHHHHHHHHHHHhc----CceEEEEecCCCHHHHHHHHHHhhcCCccEE
Q psy13287         60 ERQK-VHCLNTLFSKL----QINQSIIFCNSTQRVELLAKKITEL----GYCCYYIHARMAQAHRNRVFHDFRSGLCRNL  130 (140)
Q Consensus        60 ~~~k-~~~l~~ll~~~----~~~~~lIF~~t~~~~~~~~~~L~~~----~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vl  130 (140)
                      +.-| ...+.-++.+.    ...+++|.|+|++.+..+.+.+...    +..+...+++.+..++...     ..+.+++
T Consensus        57 GsGKT~a~~lp~i~~l~~~~~~~~~lil~pt~el~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~Iv  131 (212)
T d1qdea_          57 GTGKTGTFSIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEG-----LRDAQIV  131 (212)
T ss_dssp             TSSHHHHHHHHHHHHCCTTCCSCCEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECC---------------CTTCSEE
T ss_pred             ccchhhhhHhhhHhhhhccCCCcceEEEcccHHHhhhhhhhhcccccccccceeeEeeccchhHHHHH-----hcCCcEE
Confidence            3444 33344444443    3457999999999999998888654    4567777777655443322     2346899


Q ss_pred             EEec
Q psy13287        131 VCSG  134 (140)
Q Consensus       131 v~T~  134 (140)
                      |+|+
T Consensus       132 I~TP  135 (212)
T d1qdea_         132 VGTP  135 (212)
T ss_dssp             EECH
T ss_pred             EECC
Confidence            9996

>d2b2na1 c.37.1.19 (A:26-333) 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=93.13  E-value=0.28  Score=32.95  Aligned_cols=68  Identities=7%  Similarity=0.067  Sum_probs=49.2

Q ss_pred             HHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhc-CceEEEEec-------C--CC---HHHHHHHHHHhhcCCccEEEE
Q psy13287         66 CLNTLFSKLQINQSIIFCNSTQRVELLAKKITEL-GYCCYYIHA-------R--MA---QAHRNRVFHDFRSGLCRNLVC  132 (140)
Q Consensus        66 ~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~-~~~v~~~h~-------~--~~---~~~R~~~~~~f~~g~~~vlv~  132 (140)
                      .+.++..+ .++++||-|++...|+.+++.|+.. +-.+..+=+       .  .+   ..+|..++.++.+++-.++|+
T Consensus         5 ~~a~~~~~-~~~p~lvv~~~~~~A~~l~~~L~~~~~~~v~~fP~~e~lpyd~~s~~~~i~~~R~~~L~~l~~~~~~iiit   83 (308)
T d2b2na1           5 LVAEIAER-HAGPVVLIAPDMQNALRLHDEISQFTDQMVMNLADWETLPYDSFSPHQDIISSRLSTLYQLPTMQRGVLIV   83 (308)
T ss_dssp             HHHHHHHH-CSSCEEEEESSHHHHHHHHHHHHTTCSSCEEECCCCCSCTTCSSCCCHHHHHHHHHHHHHGGGCCSSEEEE
T ss_pred             HHHHHHHh-hCCCEEEEcCCHHHHHHHHHHHHhcCCCceEEcCCcccCccccCCCChHHHHHHHHHHHHHhhcCCceEEe
Confidence            45555554 4788999999999999999999875 334443322       1  11   236999999999998888888


Q ss_pred             ec
Q psy13287        133 SG  134 (140)
Q Consensus       133 T~  134 (140)
                      |-
T Consensus        84 s~   85 (308)
T d2b2na1          84 PV   85 (308)
T ss_dssp             EH
T ss_pred             ec
Confidence            74

>d1urha2 c.46.1.2 (A:149-268) 3-mercaptopyruvate sulfurtransferase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Rhodanese/Cell cycle control phosphatase
superfamily: Rhodanese/Cell cycle control phosphatase
family: Multidomain sulfurtransferase (rhodanese)
domain: 3-mercaptopyruvate sulfurtransferase
species: Escherichia coli [TaxId: 562]

Probab=92.98  E-value=0.13  Score=29.25  Aligned_cols=47  Identities=13%  Similarity=0.136  Sum_probs=36.3

Q ss_pred             HHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         65 HCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        65 ~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      +.+.+.+...   +..++++||++-..+-..+..|+..|+ ++..|.|++.
T Consensus        68 ~~~~~~~~~~g~~~~~~ii~yC~sG~~A~~~~~~L~~lG~~~v~~y~Gs~~  118 (120)
T d1urha2          68 DELDAIFFGRGVSYDKPIIVSCGSGVTAAVVLLALATLDVPNVKLYDGAWS  118 (120)
T ss_dssp             HHHHHHHHTTTCCSSSCEEEECCSSSTHHHHHHHHHHTTCSSCEEECCSCC
T ss_pred             HHhhhhhhhcccCccCceEEEccchhHHHHHHHHHHHcCCCCceEcCCChh
Confidence            4455555443   356799999998888888889999998 4888999875

>d1yt8a1 c.46.1.2 (A:107-242) 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=92.97  E-value=0.092  Score=30.90  Aligned_cols=36  Identities=11%  Similarity=0.155  Sum_probs=31.1

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc--eEEEEecCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY--CCYYIHARM  110 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~--~v~~~h~~~  110 (140)
                      +..++++||.+...+...+..|+..|+  .|..+.|++
T Consensus        79 ~~~~iV~~C~~g~rs~~aa~~L~~~G~~~~V~~L~GG~  116 (136)
T d1yt8a1          79 PRTRVIVNCAGRTRSIIGTQSLLNAGIPNPVAALRNGT  116 (136)
T ss_dssp             TTSEEEEECSSSHHHHHHHHHHHHTTCSSCEEEETTHH
T ss_pred             ccceEEEEcCCCCchHHHHHHHHHcCCCceEEEeCCcH
Confidence            345789999999999999999999998  488999983

>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=91.95  E-value=0.62  Score=28.69  Aligned_cols=60  Identities=10%  Similarity=0.129  Sum_probs=54.0

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ..+++++.++++.-+...++.|+..+.......+.....+..........+...++++|.
T Consensus        64 ~~~~~~~v~P~~~L~~q~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~t~  123 (206)
T d1oywa2          64 LNGLTVVVSPLISLMKDQVDQLQANGVAAACLNSTQTREQQLEVMTGCRTGQIRLLYIAP  123 (206)
T ss_dssp             SSSEEEEECSCHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHHTCCSEEEECH
T ss_pred             ccCceEEeccchhhhhhHHHHHHhhcccccccccccccccchhHHHHHhcCCceEEEEec
Confidence            467899999999999999999999998888888888888888888888999999999885

>d1wmaa1 c.2.1.2 (A:2-276) Carbonyl reductase/20beta-hydroxysteroid dehydrogenase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: Carbonyl reductase/20beta-hydroxysteroid dehydrogenase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.30  E-value=0.94  Score=29.34  Aligned_cols=59  Identities=10%  Similarity=0.090  Sum_probs=45.1

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHH-HHHHHHHhhc--CCccEEEEe
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAH-RNRVFHDFRS--GLCRNLVCS  133 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~-R~~~~~~f~~--g~~~vlv~T  133 (140)
                      ....+++.+-+.+..+++++.|+..+.++.++..+++..+ -....+.+.+  |.+++||.-
T Consensus        27 ~g~~Vi~~~r~~~~~~~~~~~l~~~~~~~~~~~~Dvs~~~sv~~~~~~~~~~~g~iDiLVnN   88 (275)
T d1wmaa1          27 FSGDVVLTARDVTRGQAAVQQLQAEGLSPRFHQLDIDDLQSIRALRDFLRKEYGGLDVLVNN   88 (275)
T ss_dssp             SSSEEEEEESSHHHHHHHHHHHHHTTCCCEEEECCTTCHHHHHHHHHHHHHHHSSEEEEEEC
T ss_pred             CCCEEEEEECCHHHHHHHHHHHHhcCCcEEEEEEecCCHHHHHHHHHHHHHhcCCcEEEEEc
Confidence            3457888888899999999999998888889999986543 4444444432  889999964

>d1yt8a2 c.46.1.2 (A:6-106) 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=90.74  E-value=0.21  Score=27.35  Aligned_cols=36  Identities=11%  Similarity=0.283  Sum_probs=31.0

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      ...+++++|++-..+...+..|.+.|+ +|..+.|++
T Consensus        57 ~~~~vv~~~~~g~~s~~~~~~l~~~G~~nV~~l~GG~   93 (101)
T d1yt8a2          57 RDTPITVYDDGEGLAPVAAQRLHDLGYSDVALLDGGL   93 (101)
T ss_dssp             TTSCEEEECSSSSHHHHHHHHHHHTTCSSEEEETTHH
T ss_pred             cCceeeeccchhhhHHHHHHHHHHcCCCcEEEeCChH
Confidence            356788899999999999999999998 599999984

>d1e0ca2 c.46.1.2 (A:136-271) Sulfurtransferase {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: Rhodanese/Cell cycle control phosphatase
superfamily: Rhodanese/Cell cycle control phosphatase
family: Multidomain sulfurtransferase (rhodanese)
domain: Sulfurtransferase
species: Azotobacter vinelandii [TaxId: 354]

Probab=90.66  E-value=0.14  Score=30.05  Aligned_cols=44  Identities=16%  Similarity=0.187  Sum_probs=34.2

Q ss_pred             HHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecC
Q psy13287         66 CLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHAR  109 (140)
Q Consensus        66 ~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~  109 (140)
                      .+.+++...   +..++++||++-..+...+..|+..|+ ++..|.|+
T Consensus        75 ~l~~~~~~~gi~~~~~vV~yC~~G~~a~~~~~~l~~~G~~~v~~ydGg  122 (136)
T d1e0ca2          75 DIAGRLEELGITPDKEIVTHCQTHHRSGLTYLIAKALGYPRVKGYAGS  122 (136)
T ss_dssp             THHHHHHHTTCCTTSEEEEECSSSSHHHHHHHHHHHTTCSCEEECSSH
T ss_pred             HHhhhhhhcccCCCCceEEeCCChHHHHHHHHHHHHcCCCCcEEecCC
Confidence            355555544   457789999998888888899999999 58888887

>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=89.92  E-value=0.2  Score=28.63  Aligned_cols=42  Identities=14%  Similarity=0.152  Sum_probs=33.9

Q ss_pred             HHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEE
Q psy13287         64 VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYI  106 (140)
Q Consensus        64 ~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~  106 (140)
                      ++.|..+++. ..+++|+.|.+...++.+.+.|++.++.+..+
T Consensus        23 ~~~L~~~i~~-~~~~Vli~a~s~g~~erl~e~L~~~~i~~~~~   64 (117)
T d2eyqa2          23 LDALRKFLET-FDGPVVFSVESEGRREALGELLARIKIAPQRI   64 (117)
T ss_dssp             THHHHHHHTT-CCSCCCEEESSHHHHHHHHHHHGGGTCCCEEC
T ss_pred             HHHHHHHHHh-CCCeEEEEECCccHHHHHHHHHHHcCCCceEe
Confidence            5667777765 35678899999999999999999998876444

>d1okga1 c.46.1.2 (A:7-162) 3-mercaptopyruvate sulfurtransferase {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: Rhodanese/Cell cycle control phosphatase
superfamily: Rhodanese/Cell cycle control phosphatase
family: Multidomain sulfurtransferase (rhodanese)
domain: 3-mercaptopyruvate sulfurtransferase
species: Leishmania major [TaxId: 5664]

Probab=88.62  E-value=0.49  Score=28.41  Aligned_cols=48  Identities=10%  Similarity=-0.041  Sum_probs=36.5

Q ss_pred             HHHHHHHHhhC---CCCcEEEEeCchH--HHHHHHHHHHhcCceEEEEecCCC
Q psy13287         64 VHCLNTLFSKL---QINQSIIFCNSTQ--RVELLAKKITELGYCCYYIHARMA  111 (140)
Q Consensus        64 ~~~l~~ll~~~---~~~~~lIF~~t~~--~~~~~~~~L~~~~~~v~~~h~~~~  111 (140)
                      .+.+.+.+...   +..+++||++...  .+-+++..|+..|.+|..+.|++.
T Consensus        74 ~~~~~~~l~~lGI~~~~~VVvYd~~~g~~~A~R~~w~L~~~G~~v~iLdGG~~  126 (156)
T d1okga1          74 CAEFIDWCMANGMAGELPVLCYDDECGAMGGCRLWWMLNSLGADAYVINGGFQ  126 (156)
T ss_dssp             HHHHHHHHHHTTCSSSSCEEEECSSTTTTTHHHHHHHHHHHTCCEEEETTTTH
T ss_pred             HHHHHHHHHhccccCCceEEEEeCCCCchHHHHHHHHHHHcCCeeEEeCCCHH
Confidence            46666677665   4567889986643  477888899999999999999954

>d1m72a_ c.17.1.1 (A:) Caspase-1 {Fall armyworm (Spodoptera frugiperda) [TaxId: 7108]}

class: Alpha and beta proteins (a/b)
fold: Caspase-like
superfamily: Caspase-like
family: Caspase catalytic domain
domain: Caspase-1
species: Fall armyworm (Spodoptera frugiperda) [TaxId: 7108]

Probab=87.40  E-value=1.1  Score=28.76  Aligned_cols=46  Identities=17%  Similarity=0.319  Sum_probs=36.9

Q ss_pred             cEEEEeCc-------------hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         78 QSIIFCNS-------------TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        78 ~~lIF~~t-------------~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      -+||++|.             ..+++.+++.|++.|+.| .++-+++.++=...+++|.+
T Consensus        23 ~aLIInN~~f~~~~~~~r~g~~~Da~~l~~~l~~lGF~V-~~~~nlt~~~m~~~l~~~~~   81 (256)
T d1m72a_          23 MAIIFNHEHFDIHSLKSRTGTNVDSDNLSKVLKTLGFKV-TVFPNLKSEEINKFIQQTAE   81 (256)
T ss_dssp             EEEEEECCCCSSTTCCCCTTHHHHHHHHHHHHHHTTCEE-EEEESCCHHHHHHHHHHHHT
T ss_pred             EEEEEeCCccCCCCCCCCCChHHHHHHHHHHHHHCCCEE-EEEeCCCHHHHHHHHHHHhh
Confidence            47777764             358999999999999998 56778888887788888865

>d2c07a1 c.2.1.2 (A:54-304) beta-keto acyl carrier protein reductase {Malaria parasite (Plasmodium falciparum) [TaxId: 5833]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: beta-keto acyl carrier protein reductase
species: Malaria parasite (Plasmodium falciparum) [TaxId: 5833]

Probab=86.80  E-value=2.5  Score=26.95  Aligned_cols=58  Identities=12%  Similarity=0.193  Sum_probs=43.4

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHH-HHHHHHHHhh--cCCccEEEEe
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQA-HRNRVFHDFR--SGLCRNLVCS  133 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~-~R~~~~~~f~--~g~~~vlv~T  133 (140)
                      ..++++...+.+.++++++.++..+.++..+..++..+ +-...++...  .|.+++||..
T Consensus        34 Ga~V~~~~r~~~~l~~~~~~l~~~g~~~~~~~~Dvt~~~~v~~~~~~~~~~~g~iDilvnn   94 (251)
T d2c07a1          34 VSHVICISRTQKSCDSVVDEIKSFGYESSGYAGDVSKKEEISEVINKILTEHKNVDILVNN   94 (251)
T ss_dssp             SSEEEEEESSHHHHHHHHHHHHTTTCCEEEEECCTTCHHHHHHHHHHHHHHCSCCCEEEEC
T ss_pred             CCEEEEEECCHHHHHHHHHHHHhcCCcEEEEEccCCCHHHHHHHHHHHHHhcCCceeeeec
Confidence            34566666778889999999999888999999998654 3444554442  3899999974

>d1piia1 c.1.2.4 (A:255-452) N-(5'phosphoribosyl)antranilate isomerase, PRAI {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: Tryptophan biosynthesis enzymes
domain: N-(5'phosphoribosyl)antranilate isomerase, PRAI
species: Escherichia coli [TaxId: 562]

Probab=86.70  E-value=1.7  Score=26.82  Aligned_cols=55  Identities=13%  Similarity=0.132  Sum_probs=38.5

Q ss_pred             HHHHHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHH
Q psy13287         64 VHCLNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFH  120 (140)
Q Consensus        64 ~~~l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~  120 (140)
                      .+...++.+..+...+.||++..  .+.+.+.++..++.+..+||.-+++.-..+-+
T Consensus        39 ~~~a~~i~~~~~~~~V~Vfv~~~--~~~i~~~~~~~~~d~iQlHG~e~~~~~~~l~~   93 (198)
T d1piia1          39 VEQAQEVMAAAPLQYVGVFRNHD--IADVVDKAKVLSLAAVQLHGNEEQLYIDTLRE   93 (198)
T ss_dssp             HHHHHHHHHHCCCEEEEEESSCC--HHHHHHHHHHHTCSEEEECSCCCHHHHHHHHH
T ss_pred             HHHHHHhhhhcccccceeeeccc--hhhHHHhhhcccccceeecCCccHHHHHHHhc
Confidence            45556666666667788998643  45666777777899999999988766444433

>d1yt8a3 c.46.1.2 (A:373-529) 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=86.25  E-value=0.2  Score=30.04  Aligned_cols=36  Identities=8%  Similarity=0.233  Sum_probs=30.7

Q ss_pred             CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         75 QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        75 ~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      +..++++||++-..+...+..|...|+ +|..+.|++
T Consensus        57 ~~~~vv~~c~~g~rs~~~a~~l~~~G~~~v~~L~GG~   93 (157)
T d1yt8a3          57 TAERYVLTCGSSLLARFAVAEVQALSGKPVFLLDGGT   93 (157)
T ss_dssp             CCSEEEEECSSSHHHHHHHHHHHHHHCSCEEEETTHH
T ss_pred             cCcceeeccCCcchHHHHHHHHhcccCceEEEecCCH
Confidence            456789999999999999999998876 789999983

>d1edoa_ c.2.1.2 (A:) beta-keto acyl carrier protein reductase {Oil seed rape (Brassica napus) [TaxId: 3708]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: beta-keto acyl carrier protein reductase
species: Oil seed rape (Brassica napus) [TaxId: 3708]

Probab=86.15  E-value=2.8  Score=26.61  Aligned_cols=57  Identities=12%  Similarity=0.173  Sum_probs=42.3

Q ss_pred             CcEEE-EeCchHHHHHHHHHHHhcCceEEEEecCCCHH-HHHHHHHHhh--cCCccEEEEe
Q psy13287         77 NQSII-FCNSTQRVELLAKKITELGYCCYYIHARMAQA-HRNRVFHDFR--SGLCRNLVCS  133 (140)
Q Consensus        77 ~~~lI-F~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~-~R~~~~~~f~--~g~~~vlv~T  133 (140)
                      -++++ +.++.+.++.+.+.++..+.++..+..++... +-...++...  .|.+++||..
T Consensus        26 a~V~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~Dv~~~~~v~~~~~~~~~~~g~iDiLVnn   86 (244)
T d1edoa_          26 CKVLVNYARSAKAAEEVSKQIEAYGGQAITFGGDVSKEADVEAMMKTAIDAWGTIDVVVNN   86 (244)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHTCEEEEEECCTTSHHHHHHHHHHHHHHSSCCSEEEEC
T ss_pred             CEEEEEeCCCHHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHHHHHHcCCCCccccc
Confidence            34444 55778889999999999888999999998654 3455555554  3899999964

>d1gega_ c.2.1.2 (A:) meso-2,3-butanediol dehydrogenase {Klebsiella pneumoniae [TaxId: 573]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: meso-2,3-butanediol dehydrogenase
species: Klebsiella pneumoniae [TaxId: 573]

Probab=86.03  E-value=2.8  Score=26.66  Aligned_cols=58  Identities=12%  Similarity=0.040  Sum_probs=42.8

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHH-HHHHHHHhhc--CCccEEEEe
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAH-RNRVFHDFRS--GLCRNLVCS  133 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~-R~~~~~~f~~--g~~~vlv~T  133 (140)
                      .-++++..-+.+.++++++.+++.+.++..+..++...+ -...++...+  |.+++||..
T Consensus        25 Ga~V~~~~r~~~~l~~~~~~i~~~g~~~~~~~~Dv~~~~~v~~~~~~~~~~~g~iDilVnn   85 (255)
T d1gega_          25 GFAVAIADYNDATAKAVASEINQAGGHAVAVKVDVSDRDQVFAAVEQARKTLGGFDVIVNN   85 (255)
T ss_dssp             TCEEEEEESCHHHHHHHHHHHHHTTCCEEEEECCTTSHHHHHHHHHHHHHHTTCCCEEEEC
T ss_pred             CCEEEEEECCHHHHHHHHHHHHhcCCcEEEEEeeCCCHHHHHHHHHHHHHHhCCccEEEec
Confidence            345555556678889999999998889999999986543 4555555543  899999965

>d1uara2 c.46.1.2 (A:145-285) Sulfurtransferase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Rhodanese/Cell cycle control phosphatase
superfamily: Rhodanese/Cell cycle control phosphatase
family: Multidomain sulfurtransferase (rhodanese)
domain: Sulfurtransferase
species: Thermus thermophilus [TaxId: 274]

Probab=85.72  E-value=0.87  Score=26.65  Aligned_cols=46  Identities=17%  Similarity=0.301  Sum_probs=34.7

Q ss_pred             HHHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHh-cCc-eEEEEecC
Q psy13287         64 VHCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITE-LGY-CCYYIHAR  109 (140)
Q Consensus        64 ~~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~-~~~-~v~~~h~~  109 (140)
                      .+.+.+++...   +..++++||++-..+-..+-.|.. .|+ ++..|.|+
T Consensus        74 ~~~~~~~~~~~gi~~d~~vV~yC~~G~~As~~~~~l~~~~G~~~v~~ydGs  124 (141)
T d1uara2          74 AEELRALYEPLGITKDKDIVVYCRIAERSSHSWFVLKYLLGYPHVKNYDGS  124 (141)
T ss_dssp             HHHHHHHHGGGTCCTTSEEEEECSSHHHHHHHHHHHHTTSCCSCEEEESSH
T ss_pred             HHHHHHHHHHhCCCCCCeEEEEecCcchHHHHHHHHHHHcCCCCeeEeCCc
Confidence            45566666554   456789999998888777788875 688 58889888

>d1rrma_ e.22.1.2 (A:) Lactaldehyde reductase FucO {Escherichia coli [TaxId: 562]}

class: Multi-domain proteins (alpha and beta)
fold: Dehydroquinate synthase-like
superfamily: Dehydroquinate synthase-like
family: Iron-containing alcohol dehydrogenase
domain: Lactaldehyde reductase FucO
species: Escherichia coli [TaxId: 562]

Probab=85.59  E-value=1.7  Score=29.64  Aligned_cols=71  Identities=13%  Similarity=0.124  Sum_probs=52.7

Q ss_pred             chHHHHHHHHhhCCCCcEEEEeCch----HHHHHHHHHHHhcCceEEEEec---CCCHHHHHHHHHHhhcCCccEEEE
Q psy13287         62 QKVHCLNTLFSKLQINQSIIFCNST----QRVELLAKKITELGYCCYYIHA---RMAQAHRNRVFHDFRSGLCRNLVC  132 (140)
Q Consensus        62 ~k~~~l~~ll~~~~~~~~lIF~~t~----~~~~~~~~~L~~~~~~v~~~h~---~~~~~~R~~~~~~f~~g~~~vlv~  132 (140)
                      ...+.+-++++++..+++||.+...    ...+++.+.|.+.|+.+..|.+   +-+.++=.+..+.+++.+.+++|+
T Consensus        16 g~l~~l~~~l~~~G~k~~Livt~~~~~~~g~~~~v~~~L~~~gi~~~vf~~v~~~p~~~~v~~~~~~~~~~~~D~Iia   93 (385)
T d1rrma_          16 GAVGALTDEVKRRGYQKALIVTDKTLVQCGVVAKVTDKMDAAGLAWAIYDGVVPNPTITVVKEGLGVFQNSGADYLIA   93 (385)
T ss_dssp             TGGGGHHHHHHHHTCCEEEEECBHHHHHTTHHHHHHHHHHHTTCEEEEECBCCSSCBHHHHHHHHHHHHHHTCSEEEE
T ss_pred             CHHHHHHHHHHHcCCCEEEEEECcchhhCcHHHHHHHHHHHcCCeEEEEcCccCCCCHHHHHHHhhhhhccCCCEEEe
Confidence            4556677777777778888887432    1246788888888998877765   445677788888899888999886

>d1rhsa2 c.46.1.2 (A:150-293) Rhodanese {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Rhodanese/Cell cycle control phosphatase
superfamily: Rhodanese/Cell cycle control phosphatase
family: Multidomain sulfurtransferase (rhodanese)
domain: Rhodanese
species: Cow (Bos taurus) [TaxId: 9913]

Probab=85.41  E-value=0.73  Score=27.10  Aligned_cols=47  Identities=13%  Similarity=0.022  Sum_probs=35.7

Q ss_pred             HHHHHHHHhhC---CCCcEEEEeCchHHHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         64 VHCLNTLFSKL---QINQSIIFCNSTQRVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        64 ~~~l~~ll~~~---~~~~~lIF~~t~~~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      .+.+.+++...   +..++|+||++--.+-.++..|+..|+ ++..|.|++
T Consensus        76 ~~~l~~~~~~~gi~~~~~iI~yC~sG~~A~~~~~~l~~lG~~~v~~YdGsw  126 (144)
T d1rhsa2          76 PEELRAMFEAKKVDLTKPLIATCRKGVTACHIALAAYLCGKPDVAIYDGSW  126 (144)
T ss_dssp             HHHHHHHHHHTTCCTTSCEEEECSSSSTHHHHHHHHHHTTCCCCEEESSHH
T ss_pred             HHHHHHHHHHcCCCCCCCEEEEecccchHHHHHHHHHHcCCCCCEEeCCCH
Confidence            45666776654   356799999987777777788888898 588888873

>d1urha1 c.46.1.2 (A:2-148) 3-mercaptopyruvate sulfurtransferase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Rhodanese/Cell cycle control phosphatase
superfamily: Rhodanese/Cell cycle control phosphatase
family: Multidomain sulfurtransferase (rhodanese)
domain: 3-mercaptopyruvate sulfurtransferase
species: Escherichia coli [TaxId: 562]

Probab=84.06  E-value=0.58  Score=27.61  Aligned_cols=48  Identities=10%  Similarity=0.062  Sum_probs=36.0

Q ss_pred             HHHHHHHHhhC---CCCcEEEEeCc-hHHHHHHHHHHHhcCc-eEEEEecCCC
Q psy13287         64 VHCLNTLFSKL---QINQSIIFCNS-TQRVELLAKKITELGY-CCYYIHARMA  111 (140)
Q Consensus        64 ~~~l~~ll~~~---~~~~~lIF~~t-~~~~~~~~~~L~~~~~-~v~~~h~~~~  111 (140)
                      .+.+.+++...   +..+++|||.. ...+-+++..|+..|+ +|..+.|+++
T Consensus        70 ~~~~~~~l~~~Gi~~~~~vVvY~~~~~~~A~r~~~~L~~~G~~~V~vLdGG~~  122 (147)
T d1urha1          70 PETFAVAMRELGVNQDKHLIVYDEGNLFSAPRAWWMLRTFGVEKVSILGGGLA  122 (147)
T ss_dssp             HHHHHHHHHHTTCCTTSEEEEECSSSCSSHHHHHHHHHHTTCSCEEEETTHHH
T ss_pred             HHHHHHHHHHhCcCCCCeEEEEeCCCcccchhHHHHHHhhcccceEEeCChHH
Confidence            45566666665   45678899964 4457789999999998 6999999943

>d2bd0a1 c.2.1.2 (A:2-241) Bacterial sepiapterin reductase {Chlorobium tepidum [TaxId: 1097]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: Bacterial sepiapterin reductase
species: Chlorobium tepidum [TaxId: 1097]

Probab=84.06  E-value=3.5  Score=26.02  Aligned_cols=55  Identities=15%  Similarity=0.140  Sum_probs=41.0

Q ss_pred             EEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHH-HHHHHHHHhhc--CCccEEEEe
Q psy13287         79 SIIFCNSTQRVELLAKKITELGYCCYYIHARMAQA-HRNRVFHDFRS--GLCRNLVCS  133 (140)
Q Consensus        79 ~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~-~R~~~~~~f~~--g~~~vlv~T  133 (140)
                      +++...+.+..+++++.++..|.++..+..+++.. +-...++...+  |.+++||..
T Consensus        35 v~~~~r~~~~l~~~~~~~~~~g~~~~~~~~Dvt~~~~v~~~~~~~~~~~g~iDilvnn   92 (240)
T d2bd0a1          35 LVLSSRTAADLEKISLECRAEGALTDTITADISDMADVRRLTTHIVERYGHIDCLVNN   92 (240)
T ss_dssp             EEEEESCHHHHHHHHHHHHTTTCEEEEEECCTTSHHHHHHHHHHHHHHTSCCSEEEEC
T ss_pred             EEEEeCCHHHHHHHHHHHHhcCCcEEEEEecCCCHHHHHHHHHHHHHHcCCcceeecc
Confidence            44555677788999999999898999999998654 44455555543  899999953

>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=83.84  E-value=4.1  Score=26.60  Aligned_cols=65  Identities=12%  Similarity=0.138  Sum_probs=49.5

Q ss_pred             HHHHHHHHhhCCCCcEEEEe-Cc---hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         64 VHCLNTLFSKLQINQSIIFC-NS---TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        64 ~~~l~~ll~~~~~~~~lIF~-~t---~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      ...+...+..+..+.+=|.+ |.   +++++++...++..|+.|++.+++++.++|....+      ++|.=+|+
T Consensus       109 ~a~l~a~l~al~g~~vhvvTvNdyLA~RDae~m~~iy~~lGlsvg~~~~~~~~~~r~~~Y~------~di~Ygt~  177 (273)
T d1tf5a3         109 TSTLPVYLNALTGKGVHVVTVNEYLASRDAEQMGKIFEFLGLTVGLNLNSMSKDEKREAYA------ADITYSTN  177 (273)
T ss_dssp             HHHHHHHHHHTTSSCEEEEESSHHHHHHHHHHHHHHHHHTTCCEEECCTTSCHHHHHHHHH------SSEEEEEH
T ss_pred             HHHHHHHHHHhcCCCceEEecCccccchhhhHHhHHHHHcCCCccccccccCHHHHHHHhh------CCceecch
Confidence            45566677777666554444 44   78899999999999999999999999999988876      35555554

>d2rhca1 c.2.1.2 (A:5-261) beta-keto acyl carrier protein reductase {Streptomyces coelicolor [TaxId: 1902]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Tyrosine-dependent oxidoreductases
domain: beta-keto acyl carrier protein reductase
species: Streptomyces coelicolor [TaxId: 1902]

Probab=83.54  E-value=3.8  Score=26.03  Aligned_cols=58  Identities=10%  Similarity=0.028  Sum_probs=43.7

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHH-HHHHHHHHhh--cCCccEEEEe
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQA-HRNRVFHDFR--SGLCRNLVCS  133 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~-~R~~~~~~f~--~g~~~vlv~T  133 (140)
                      .-++++...+.+.++++++.|++.+.++..+..+++.. +-...++...  .|.+++||..
T Consensus        26 Ga~V~i~~r~~~~l~~~~~~l~~~g~~~~~~~~Dvs~~~~v~~~~~~~~~~~g~iDilVnn   86 (257)
T d2rhca1          26 GLRVFVCARGEEGLRTTLKELREAGVEADGRTCDVRSVPEIEALVAAVVERYGPVDVLVNN   86 (257)
T ss_dssp             TCEEEEEESCHHHHHHHHHHHHHTTCCEEEEECCTTCHHHHHHHHHHHHHHTCSCSEEEEC
T ss_pred             CCEEEEEECCHHHHHHHHHHHHhcCCcEEEEEeecCCHHHHHHHHHHHHHHhCCCCEEEec
Confidence            34566666778889999999999988999999998544 4555555553  3899999964

>d1f1ja_ c.17.1.1 (A:) Caspase-7 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Caspase-like
superfamily: Caspase-like
family: Caspase catalytic domain
domain: Caspase-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.23  E-value=1.6  Score=27.79  Aligned_cols=38  Identities=16%  Similarity=0.186  Sum_probs=32.0

Q ss_pred             hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhc
Q psy13287         86 TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRS  124 (140)
Q Consensus        86 ~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~  124 (140)
                      ..+++.+++.|++.|+.|. .+-+++.++-...+++|.+
T Consensus        34 ~~Da~~l~~~l~~lGF~V~-~~~nl~~~em~~~l~~~~~   71 (245)
T d1f1ja_          34 DKDAEALFKCFRSLGFDVI-VYNDCSCAKMQDLLKKASE   71 (245)
T ss_dssp             HHHHHHHHHHHHHHTEEEE-EEESCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCEEE-EecCCCHHHHHHHHHHHHH
Confidence            4689999999999999985 5557899998888998865

>d2b8ea1 c.108.1.7 (A:416-434,A:548-663) Cation-transporting ATPase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: HAD-like
superfamily: HAD-like
family: Meta-cation ATPase, catalytic domain P
domain: Cation-transporting ATPase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=83.07  E-value=2.8  Score=24.17  Aligned_cols=56  Identities=7%  Similarity=0.150  Sum_probs=40.1

Q ss_pred             HHHHHhhCCCCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCc
Q psy13287         67 LNTLFSKLQINQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLC  127 (140)
Q Consensus        67 l~~ll~~~~~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~  127 (140)
                      ..+.|++..-.-.|+==.+...++.+++.|   |  +..+|++++++++...+++++.|..
T Consensus        29 ~I~~L~~~Gi~v~ilTGD~~~~a~~ia~~l---g--I~~v~~~~~p~~k~~~v~~~q~~~~   84 (135)
T d2b8ea1          29 AVQELKRMGIKVGMITGDNWRSAEAISREL---N--LDLVIAEVLPHQKSEEVKKLQAKEV   84 (135)
T ss_dssp             HHHHHHHTTCEEEEECSSCHHHHHHHHHHH---T--CSEEECSCCHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHHcCCEEEEEcCcchhhhhHHHhhh---h--hhhhccccchhHHHHHHHHHHcCCE
Confidence            444456654433334336678888888887   3  3568899999999999999999863

>d1vlja_ e.22.1.2 (A:) NADH-dependent butanol dehydrogenase A (TM0820) {Thermotoga maritima [TaxId: 2336]}

class: Multi-domain proteins (alpha and beta)
fold: Dehydroquinate synthase-like
superfamily: Dehydroquinate synthase-like
family: Iron-containing alcohol dehydrogenase
domain: NADH-dependent butanol dehydrogenase A (TM0820)
species: Thermotoga maritima [TaxId: 2336]

Probab=82.87  E-value=4.9  Score=27.38  Aligned_cols=70  Identities=4%  Similarity=0.059  Sum_probs=49.8

Q ss_pred             hHHHHHHHHhhCCCCcEEEEeC--chH---HHHHHHHHHHhcCceEEEEec---CCCHHHHHHHHHHhhcCCccEEEE
Q psy13287         63 KVHCLNTLFSKLQINQSIIFCN--STQ---RVELLAKKITELGYCCYYIHA---RMAQAHRNRVFHDFRSGLCRNLVC  132 (140)
Q Consensus        63 k~~~l~~ll~~~~~~~~lIF~~--t~~---~~~~~~~~L~~~~~~v~~~h~---~~~~~~R~~~~~~f~~g~~~vlv~  132 (140)
                      ..+.+.++++....++++|.+.  +.+   ..+++.+.|++.++.+..+.+   +-+.+.=.+..+.++..+.+++|+
T Consensus        21 ~~~~l~~~l~~~g~~rvliVt~~~~~~~~g~~~~l~~~L~~~gi~~~~f~~v~~~pt~~~v~~~~~~~~~~~~D~IIa   98 (398)
T d1vlja_          21 TIPKIGEEIKNAGIRKVLFLYGGGSIKKNGVYDQVVDSLKKHGIEWVEVSGVKPNPVLSKVHEAVEVAKKEKVEAVLG   98 (398)
T ss_dssp             CGGGHHHHHHHTTCCEEEEEECSSHHHHSSHHHHHHHHHHHTTCEEEEECCCCSSCBHHHHHHHHHHHHHTTCSEEEE
T ss_pred             HHHHHHHHHHhcCCCeEEEEECCcHHHHhhHHHHHHHHHHhcCCeEEEEcCccCCCCHHHHHHHhhhcccccCceEEe
Confidence            4455777777777677777663  222   358899999999998877754   234556667788888888898886

>d1byka_ c.93.1.1 (A:) Trehalose repressor, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Periplasmic binding protein-like I
superfamily: Periplasmic binding protein-like I
family: L-arabinose binding protein-like
domain: Trehalose repressor, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=82.18  E-value=3.5  Score=25.85  Aligned_cols=47  Identities=13%  Similarity=0.135  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhhcCCccEEEEec
Q psy13287         88 RVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSG  134 (140)
Q Consensus        88 ~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~  134 (140)
                      -...+.+.+++.|+.+..+.++.+.+...+.++.+...+++.+|..+
T Consensus        20 ~~~~i~~~~~~~Gy~~~~~~s~~d~~~~~~~i~~l~~~~vdgiIi~~   66 (255)
T d1byka_          20 AVQTMLPAFYEQGYDPIMMESQFSPQLVAEHLGVLKRRNIDGVVLFG   66 (255)
T ss_dssp             HHHHHHHHHHHHTCEEEEEECTTCHHHHHHHHHHHHTTTCCEEEEEC
T ss_pred             HHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHhccccceeecc
Confidence            35566777788899988888888888888888888888888766543

>d1yl7a1 c.2.1.3 (A:2-105,A:215-245) Dihydrodipicolinate reductase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
domain: Dihydrodipicolinate reductase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=81.45  E-value=2.8  Score=24.26  Aligned_cols=63  Identities=8%  Similarity=-0.054  Sum_probs=46.3

Q ss_pred             CCcEEEEeCchHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHh-hcCCccEEEEecccCCC
Q psy13287         76 INQSIIFCNSTQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDF-RSGLCRNLVCSGDSSAM  139 (140)
Q Consensus        76 ~~~~lIF~~t~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f-~~g~~~vlv~T~~~~rG  139 (140)
                      +..++|=+.+.+.+....+...+.+.++..=..+.++++...+.+.. ...++.++++.| +|.|
T Consensus        44 ~~DvvIDFS~p~~~~~~~~~~~~~~~~~ViGTTG~~~~~~~~l~~~~~~~~~ipil~apN-fSlG  107 (135)
T d1yl7a1          44 NTEVVIDFTHPDVVMGNLEFLIDNGIHAVVGTTGFTAERFQQVESWLVAKPNTSVLIAPN-FTSF  107 (135)
T ss_dssp             TCSEEEECCCTTTHHHHHHHHHHTTCEEEECCCCCCHHHHHHHHHHHHSCTTCEEEECSC-CGGG
T ss_pred             cCCEEEEcccHHHHHHHHHHHHhcCCCEEEeccccchhHHHHHHHHHHhcCCCCEEEcCC-ccHH
Confidence            34578888889999999999988898887766677766555554433 466789999988 3444

>d1u9ya2 c.61.1.2 (A:156-284) Phosphoribosylpyrophosphate synthetase {Methanocaldococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: PRTase-like
superfamily: PRTase-like
family: Phosphoribosylpyrophosphate synthetase-like
domain: Phosphoribosylpyrophosphate synthetase
species: Methanocaldococcus jannaschii [TaxId: 2190]

Probab=81.22  E-value=1.7  Score=24.94  Aligned_cols=57  Identities=12%  Similarity=0.117  Sum_probs=41.6

Q ss_pred             CCCcEEEE---eCchHHHHHHHHHHHhcCc---eEEEEecCCCHHHHHHHHHHhhcCCccEEEEecc
Q psy13287         75 QINQSIIF---CNSTQRVELLAKKITELGY---CCYYIHARMAQAHRNRVFHDFRSGLCRNLVCSGD  135 (140)
Q Consensus        75 ~~~~~lIF---~~t~~~~~~~~~~L~~~~~---~v~~~h~~~~~~~R~~~~~~f~~g~~~vlv~T~~  135 (140)
                      +.+.++|+   +.|-.+..+.++.|++.|.   -+.+-||=++....    +++.+..++-+|+||.
T Consensus        49 ~gk~viIvDDii~TGgTl~~aa~~Lk~~GA~~V~~~~tHgifs~~a~----~~l~~~~i~~iv~Tnt  111 (129)
T d1u9ya2          49 KDRDVFIVDDIISTGGTMATAVKLLKEQGAKKIIAACVHPVLIGDAL----NKLYSAGVEEVVGTDT  111 (129)
T ss_dssp             TTCCEEEEEEECSSSHHHHHHHHHHHHTTCCSEEEEEEECCCCTTHH----HHHHHHTCSEEEEETT
T ss_pred             cceEEEEEcchhcccccHHHHHHHHHhcCCcceEEEEeccccChHHH----HHHHhCCCCEEEEcCC
Confidence            34556554   4788889999999999865   47888998877654    4455545888999984

>d1uara1 c.46.1.2 (A:2-144) Sulfurtransferase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Rhodanese/Cell cycle control phosphatase
superfamily: Rhodanese/Cell cycle control phosphatase
family: Multidomain sulfurtransferase (rhodanese)
domain: Sulfurtransferase
species: Thermus thermophilus [TaxId: 274]

Probab=81.20  E-value=1.2  Score=25.99  Aligned_cols=47  Identities=6%  Similarity=0.025  Sum_probs=33.6

Q ss_pred             HHHHHHHHhhC---CCCcEEEEeCchH-HHHHHHHHHHhcCc-eEEEEecCC
Q psy13287         64 VHCLNTLFSKL---QINQSIIFCNSTQ-RVELLAKKITELGY-CCYYIHARM  110 (140)
Q Consensus        64 ~~~l~~ll~~~---~~~~~lIF~~t~~-~~~~~~~~L~~~~~-~v~~~h~~~  110 (140)
                      .+.+.+++.+.   +..++|+||.+.. .+...+..|+..|+ +|..+.|++
T Consensus        63 ~~~l~~~~~~~Gi~~~~~iVvy~~~~~~~a~~~~~~l~~~G~~~V~vldGG~  114 (143)
T d1uara1          63 EEEFAKLMERLGISNDTTVVLYGDKNNWWAAYAFWFFKYNGHKDVRLMNGGR  114 (143)
T ss_dssp             HHHHHHHHHHTTCCTTCEEEEECHHHHHHHHHHHHHHHHTTCSCEEEETTHH
T ss_pred             hHHHHHHhhhhccCCCceEEEecCCCcccchhHHHHHHHhCCceEEEEcCcH
Confidence            45567777765   3456788886654 46677778888877 699999984

>d1nw9b_ c.17.1.1 (B:) Caspase-9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Caspase-like
superfamily: Caspase-like
family: Caspase catalytic domain
domain: Caspase-9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.65  E-value=4.6  Score=25.76  Aligned_cols=37  Identities=8%  Similarity=0.152  Sum_probs=27.3

Q ss_pred             hHHHHHHHHHHHhcCceEEEEecCCCHHHHHHHHHHhh
Q psy13287         86 TQRVELLAKKITELGYCCYYIHARMAQAHRNRVFHDFR  123 (140)
Q Consensus        86 ~~~~~~~~~~L~~~~~~v~~~h~~~~~~~R~~~~~~f~  123 (140)
                      ..+++.+++.|++.|+.|.. +-+++.++=...+.+|.
T Consensus        45 ~~Da~~l~~~l~~lGF~V~~-~~nlt~~~~~~~l~~~~   81 (277)
T d1nw9b_          45 NIDCEKLRRRFSSLHFMVEV-KGDLTAKKMVLALLELA   81 (277)
T ss_dssp             HHHHHHHHHHHHHTTEEEEE-EESCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCEEEE-eeCCCHHHHHHHHHHhh
Confidence            46899999999999998754 44677776555555554