Psyllid ID: psy18034

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-
Protein Sequence
MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVKSRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFGKARFIIINIYYVY
Secondary Structure (PSIPRED)
cEEEEEcccccHHHHHHHHHHcccEEEEEcccccHHHHHHHHHHcccccccEEEEEccccccccccccccEEEccccccccccEEccccccccccccEEEEEccccHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHcccccccEEEEccccccEEEEEEEc
Secondary Structure Prediction (SSPRO)
cEEEEEccHHHHHHHHHHHHHccccEEEEEccccHHHHHHHHHHHHcccccEEEEEEHHHccccccccccEEEEcccccccEEEEEEccEcccccccEEEEEEcccccHHHHHHHHHHcccccccccccHHHHcccccEEccccHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHccccccEEEEEccccccHEEEEEEc
Coil and Loop (DISEMBL)
MTVVFTATKYHVEYVHKILGLagisstyiysdldptaRKINAAKFQTGKIRVLVVTDVaargidipsldavinynfpckaKLFVHRvgrcaragrsgVAYSLVSSDELCYYLDLLLFlgrkpvladdsmkgkirhqdgmfgkipqglmEDQISEIMNWVELDADMEGIQKTCNNAYKKYvksrpgasvesVKKVKELELATMQvhplfrnigSAEQEKFNLLTkmseyrppstvlefgKARFIIINIYYVY
Flexible Loop (DISEMBL)
MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINaakfqtgkirVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYvksrpgasvesVKKVKELELATMqvhplfrnigSAEQEKFNLLTKMSEyrppstvlefgkarfIIINIYYVY
Low Complexity Region (SEG)
MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDElcyyldlllflGRKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVKSRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFGKARFIIINIYYVY
Disordered region (IsUnstruct)
**VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVKS********VKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFGKARFIIINIYYV*
Disordered Region (DISOPRED)
MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPV******************KI**GLMEDQISEIMNWVELDAD*EG*****************************LELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFGKARFIIINIYYVY
Disordered Region (DISEMBL)
MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKY**********SVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFGKARFIIINIYYVY
Disordered Region (DISPRO)
MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVKSRPGAS*ESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFGKARFIIINIYYVY
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVKSRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFGKARFIIINIYYVY
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	251	2.2.26 [Sep-21-2011]
Q8K4L0	874	ATP-dependent RNA helicas	yes	N/A	0.940	0.270	0.487	4e-61
Q8TDD1	881	ATP-dependent RNA helicas	yes	N/A	0.940	0.267	0.483	1e-60
Q54CD8	1091	ATP-dependent RNA helicas	yes	N/A	0.924	0.212	0.475	5e-56
Q5BFU7	936	ATP-dependent RNA helicas	yes	N/A	0.936	0.251	0.445	8e-49
A1DNG2	934	ATP-dependent RNA helicas	N/A	N/A	0.944	0.253	0.423	1e-48
Q8NJM2	869	ATP-dependent RNA helicas	yes	N/A	0.944	0.272	0.431	1e-48
A2QRY2	932	ATP-dependent RNA helicas	yes	N/A	0.940	0.253	0.437	8e-48
A3BT52	851	DEAD-box ATP-dependent RN	yes	N/A	0.916	0.270	0.393	1e-47
A2YV85	851	DEAD-box ATP-dependent RN	N/A	N/A	0.916	0.270	0.393	1e-47
Q4HZ42	897	ATP-dependent RNA helicas	yes	N/A	0.952	0.266	0.415	2e-47

>sp|Q8K4L0|DDX54_MOUSE ATP-dependent RNA helicase DDX54 OS=Mus musculus GN=Ddx54 PE=1 SV=1

 Score =  234 bits (597), Expect = 4e-61,   Method: Compositional matrix adjust.
 Identities = 117/240 (48%), Positives = 161/240 (67%), Gaps = 4/240 (1%)

Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
            TVVF ATK+H EY+ ++L   G+S  +IYS LD TARKIN AKF   K   L+VTD+AA
Sbjct: 339 QTVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAA 398

Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR 120
           RG+DIP LD VINY+FP K KLF+HRVGR ARAGRSG AYSLV+ DE+ Y LDL LFLGR
Sbjct: 399 RGLDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLVAPDEVPYLLDLHLFLGR 458

Query: 121 KPVLADDSMKGKIRH---QDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYK 177
              LA    +  +     +DG+ G++PQ +++D+ S +   +    D++G+ +  NNA +
Sbjct: 459 SVTLARPCEEPSVADAVGRDGVLGRVPQSVVDDEDSSLQTAMGASLDLQGLHRVANNAQQ 518

Query: 178 KYVKSRPGASVESVKKVKELELATMQVHPLFRN-IGSAEQEKFNLLTKMSEYRPPSTVLE 236
           +YV+SRP  S ES+K+ KEL+LA + +HPLF +     E ++  L+  +  YR  +T+ E
Sbjct: 519 QYVRSRPAPSPESIKRAKELDLAELGLHPLFSSCFEEGELQRLRLVDSIKNYRTRTTIFE 578

Has RNA-dependent ATPase activity. Represses the transcriptional activity of nuclear receptors.
Mus musculus (taxid: 10090)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 3

>sp|Q8TDD1|DDX54_HUMAN ATP-dependent RNA helicase DDX54 OS=Homo sapiens GN=DDX54 PE=1 SV=2

 Score =  233 bits (593), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 115/238 (48%), Positives = 161/238 (67%), Gaps = 2/238 (0%)

Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
            TVVF ATK+H EY+ ++L    +S  +IYS LDPTARKIN AKF  GK   L+VTD+AA
Sbjct: 340 QTVVFVATKHHAEYLTELLTTQRVSCAHIYSALDPTARKINLAKFTLGKCSTLIVTDLAA 399

Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR 120
           RG+DIP LD VINY+FP K KLF+HRVGR ARAGRSG AYSLV+ DE+ Y LDL LFLGR
Sbjct: 400 RGLDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLVAPDEIPYLLDLHLFLGR 459

Query: 121 KPVLADD-SMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKY 179
              LA        +   DGM G++PQ +++++ S + + +E   ++ G+ +  +NA ++Y
Sbjct: 460 SLTLARPLKEPSGVAGVDGMLGRVPQSVVDEEDSGLQSTLEASLELRGLARVADNAQQQY 519

Query: 180 VKSRPGASVESVKKVKELELATMQVHPLFRNIGSAEQ-EKFNLLTKMSEYRPPSTVLE 236
           V+SRP  S ES+K+ KE++L  + +HPLF +    E+ ++  L+  +  YR  +T+ E
Sbjct: 520 VRSRPAPSPESIKRAKEMDLVGLGLHPLFSSRFEEEELQRLRLVDSIKNYRSRATIFE 577

Has RNA-dependent ATPase activity. Represses the transcriptional activity of nuclear receptors.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q54CD8|DDX54_DICDI ATP-dependent RNA helicase ddx54 OS=Dictyostelium discoideum GN=helA PE=3 SV=1

 Score =  217 bits (553), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 114/240 (47%), Positives = 168/240 (70%), Gaps = 8/240 (3%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T++F +TKYHVE++H +L  AGI+STYI+  LDP ARKIN AKF++ ++ V+VVTD+AAR
Sbjct: 500 TIIFVSTKYHVEFIHILLERAGIASTYIHGYLDPVARKINLAKFRSHQVGVMVVTDLAAR 559

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           GIDIP LD VIN++FP K K+F+HRVGR ARAGRSG+AYSLVS DE+ Y +DL L+LGRK
Sbjct: 560 GIDIPLLDNVINFDFPPKEKIFIHRVGRVARAGRSGIAYSLVSPDEVPYMIDLHLYLGRK 619

Query: 122 PVLADDSMKGKIRHQD--GMFGKIPQGLMEDQISEIMNWVELDA-DMEGIQKTCNNAYKK 178
             L     +G+  +      +G IPQ ++ D+ +E +N    +  ++  + KT +NA+KK
Sbjct: 620 -FLNKFQYEGQTINDPKYSFYGTIPQTII-DRETEFVNVQRKECIELLSLTKTIHNAHKK 677

Query: 179 YVKSRPGASVESVKKVKELELATMQVHPLFRN-IGSAEQEKFNLLTKMSEYRPPSTVLEF 237
           Y+ +RPGAS ES ++ K ++ +  + HP+  + + S +Q + + +  +  +RPP TVLE 
Sbjct: 678 YLSTRPGASHESNRRAKLMDKS--KYHPMLSDHLNSNDQIRNDFIQSLKSFRPPQTVLEL 735

ATP-binding RNA helicase which may be involved in the ribosome biogenesis.

Dictyostelium discoideum (taxid: 44689)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q5BFU7|DBP10_EMENI ATP-dependent RNA helicase dbp10 OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=dbp10 PE=3 SV=1

 Score =  193 bits (491), Expect = 8e-49,   Method: Compositional matrix adjust.
 Identities = 110/247 (44%), Positives = 150/247 (60%), Gaps = 12/247 (4%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T+VF ATK+HV+Y++ +L  AG + +Y+Y  LD TARKI    F+TG   +LVVTDVAAR
Sbjct: 376 TIVFAATKHHVDYLYSLLREAGFAVSYVYGSLDQTARKIQVQNFRTGISNILVVTDVAAR 435

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           GIDIP L  VINY+FP + K+FVHRVGR ARAGR G +YSLV   +  Y LDL LFLGRK
Sbjct: 436 GIDIPILANVINYDFPSQPKIFVHRVGRTARAGRKGWSYSLVRDADAPYLLDLQLFLGRK 495

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWV----ELDADMEGIQKTCNNAYK 177
            VL  +S +     +D   G +P+    D +S+   WV    + DAD+   +       K
Sbjct: 496 LVLGRESDQVNF-AEDVAVGSLPR----DGLSQTCEWVSRVLDDDADIFAQRAVSTKGEK 550

Query: 178 KYVKSRPGASVESVKKVKELELAT--MQVHPLFRNIGSA-EQEKFNLLTKMSEYRPPSTV 234
            Y+++R  AS ES K+ K++  +     VHPLF++  S  E E+  +L ++  YRP  T+
Sbjct: 551 LYLRTRNAASAESAKRAKQVVTSDNWTAVHPLFQDEASNLEAEREKMLARIGGYRPQETI 610

Query: 235 LEFGKAR 241
            E    R
Sbjct: 611 FEVQNRR 617

ATP-binding RNA helicase involved in the biogenesis of 60S ribosomal subunits and is required for the normal formation of 25S and 5.8S rRNAs.

Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) (taxid: 227321)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|A1DNG2|DBP10_NEOFI ATP-dependent RNA helicase dbp10 OS=Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / FGSC A1164 / NRRL 181) GN=dbp10 PE=3 SV=1

 Score =  192 bits (489), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 105/248 (42%), Positives = 151/248 (60%), Gaps = 11/248 (4%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T+VF ATK+HV+Y++ +L  AG + +Y+Y  LD TARKI    F+TG   +LVVTDVAAR
Sbjct: 377 TIVFAATKHHVDYLYSLLSEAGFAVSYVYGSLDQTARKIQVQNFRTGMTNILVVTDVAAR 436

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           GIDIP L  VINY+FP + K+F+HRVGR ARAGR G +YSLV   +  Y LDL LFLGR+
Sbjct: 437 GIDIPILANVINYDFPSQPKIFIHRVGRTARAGRKGWSYSLVRDADAPYLLDLQLFLGRR 496

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWV----ELDADMEGIQKTCNNAYK 177
            V+  +        +D + G +P+    D +S+   WV    + +AD+   +       K
Sbjct: 497 LVVGREFGDQVNFAEDVVTGSLPR----DGLSQSCEWVTKVLDDNADLAAQRTVAAKGEK 552

Query: 178 KYVKSRPGASVESVKKVKELELAT--MQVHPLFRNIGSA-EQEKFNLLTKMSEYRPPSTV 234
            Y+++R  AS+ES K+ K++  +     +HPLF++  S  E E+  +L ++  YRPP T+
Sbjct: 553 LYMRTRNSASLESAKRSKQVVSSDNWTSIHPLFQDETSNLEAEREKMLARIGGYRPPETI 612

Query: 235 LEFGKARF 242
            E    R 
Sbjct: 613 FEVNNRRM 620

ATP-binding RNA helicase involved in the biogenesis of 60S ribosomal subunits and is required for the normal formation of 25S and 5.8S rRNAs.

Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / FGSC A1164 / NRRL 181) (taxid: 331117)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q8NJM2|DBP10_ASPFU ATP-dependent RNA helicase dbp10 OS=Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) GN=dbp10 PE=3 SV=1

 Score =  192 bits (489), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 107/248 (43%), Positives = 151/248 (60%), Gaps = 11/248 (4%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T+VF ATK+HV+Y++ +L  AG + +Y+Y  LD TARKI    F+TG   +LVVTDVAAR
Sbjct: 357 TIVFAATKHHVDYLYSLLCEAGFAVSYVYGSLDQTARKIQVQNFRTGMTNILVVTDVAAR 416

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           GIDIP L  VINY+FP + K+FVHRVGR ARAGR G +YSLV   +  Y LDL LFLGR+
Sbjct: 417 GIDIPILANVINYDFPSQPKIFVHRVGRTARAGRKGWSYSLVRDADAPYLLDLQLFLGRR 476

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWV----ELDADMEGIQKTCNNAYK 177
            V+  +        +D + G +P+    D +S+   WV    + +AD+   +       K
Sbjct: 477 LVVGREFGDQVNFAEDVVTGSLPR----DGLSQSCEWVTKVLDDNADLAAQRTVAAKGEK 532

Query: 178 KYVKSRPGASVESVKKVKELELAT--MQVHPLFRNIGSA-EQEKFNLLTKMSEYRPPSTV 234
            Y+++R  AS+ES K+ K++  +     VHPLF++  S  E E+  +L ++  YRPP T+
Sbjct: 533 LYMRTRNAASLESAKRSKQVVSSDNWTSVHPLFQDETSNLEAEREKMLARIGGYRPPETI 592

Query: 235 LEFGKARF 242
            E    R 
Sbjct: 593 FEVNNRRM 600

ATP-binding RNA helicase involved in the biogenesis of 60S ribosomal subunits and is required for the normal formation of 25S and 5.8S rRNAs.

Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) (taxid: 330879)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|A2QRY2|DBP10_ASPNC ATP-dependent RNA helicase dbp10 OS=Aspergillus niger (strain CBS 513.88 / FGSC A1513) GN=dbp10 PE=3 SV=1

 Score =  190 bits (483), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 108/247 (43%), Positives = 150/247 (60%), Gaps = 11/247 (4%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T++F ATK+HV+Y++ +L  AG +++Y Y  LD TARKI    F+TG   +LVVTDVAAR
Sbjct: 377 TIIFAATKHHVDYLYSLLNEAGFATSYAYGSLDQTARKIQVHNFRTGISNILVVTDVAAR 436

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           GIDIP L  VINY+FP +AK+FVHRVGR ARAGR+G +YSLV   +  Y LDL LFLGR+
Sbjct: 437 GIDIPILANVINYDFPSQAKIFVHRVGRTARAGRTGWSYSLVRDSDAPYLLDLQLFLGRR 496

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVE--LD--ADMEGIQKTCNNAYK 177
            VL  +        +D + G  P+    D +S+   WV   LD   D+   +   +   K
Sbjct: 497 LVLGREHGDQVNFAEDVVVGGFPR----DGLSQSCEWVNKVLDDTVDIAAQRSVASKGEK 552

Query: 178 KYVKSRPGASVESVKKVKELELAT--MQVHPLFRNIGSA-EQEKFNLLTKMSEYRPPSTV 234
            Y+++R  AS+ES K+ KE+  +     +HPLF +  S  E E+  +L ++  YRP  T+
Sbjct: 553 LYLRTRNAASLESAKRSKEVVSSDNWTALHPLFNDETSQLEAEREKMLARIGGYRPNETI 612

Query: 235 LEFGKAR 241
            E    R
Sbjct: 613 FEVNNRR 619

ATP-binding RNA helicase involved in the biogenesis of 60S ribosomal subunits and is required for the normal formation of 25S and 5.8S rRNAs.

Aspergillus niger (strain CBS 513.88 / FGSC A1513) (taxid: 425011)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|A3BT52|RH29_ORYSJ DEAD-box ATP-dependent RNA helicase 29 OS=Oryza sativa subsp. japonica GN=Os08g0416100 PE=2 SV=2

 Score =  189 bits (481), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 100/254 (39%), Positives = 154/254 (60%), Gaps = 24/254 (9%)

Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
            T++F +TK+HVE+++ +    G+  +  Y  +D  AR I+ +KF+  K  +L+VTDVAA
Sbjct: 294 QTIIFVSTKHHVEFLNILFREEGLEPSLSYGAMDQEARNIHISKFRARKTMILIVTDVAA 353

Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR 120
           RG+DIP LD V+N++FP K KLFVHRVGR AR GRSG AY+ V+S+++ Y LDL LFL  
Sbjct: 354 RGLDIPLLDNVVNWDFPAKPKLFVHRVGRVARQGRSGTAYTFVTSEDMAYLLDLHLFLS- 412

Query: 121 KPVLADDSMKGKIRHQDGM--------------FGKIPQ---GLMEDQISEIMNWVELDA 163
           KP+    + +  ++  +GM              +G+ PQ    L+ D I E++N      
Sbjct: 413 KPLRPAPTEEELLKDMEGMNLKIDRALANGETVYGRFPQTIIDLVSDGIKEVINGC---T 469

Query: 164 DMEGIQKTCNNAYKKYVKSRPGASVESVKKVKELELATMQVHPLFRNI-GSAEQEKFNLL 222
           D+  ++K C NA+  Y+K+RP  S ES+++VK+L    +  HP+FR++ GS E       
Sbjct: 470 DLIALEKPCTNAFHLYLKTRPMPSTESIRRVKDLPREGL--HPIFRDVLGSDELSALAFS 527

Query: 223 TKMSEYRPPSTVLE 236
            ++  +RP  T+LE
Sbjct: 528 ERLKSFRPKQTILE 541

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|A2YV85|RH29_ORYSI DEAD-box ATP-dependent RNA helicase 29 OS=Oryza sativa subsp. indica GN=OsI_028228 PE=2 SV=2

 Score =  189 bits (481), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 100/254 (39%), Positives = 154/254 (60%), Gaps = 24/254 (9%)

Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
            T++F +TK+HVE+++ +    G+  +  Y  +D  AR I+ +KF+  K  +L+VTDVAA
Sbjct: 294 QTIIFVSTKHHVEFLNILFREEGLEPSLSYGAMDQEARNIHISKFRARKTMILIVTDVAA 353

Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR 120
           RG+DIP LD V+N++FP K KLFVHRVGR AR GRSG AY+ V+S+++ Y LDL LFL  
Sbjct: 354 RGLDIPLLDNVVNWDFPAKPKLFVHRVGRVARQGRSGTAYTFVTSEDMAYLLDLHLFLS- 412

Query: 121 KPVLADDSMKGKIRHQDGM--------------FGKIPQ---GLMEDQISEIMNWVELDA 163
           KP+    + +  ++  +GM              +G+ PQ    L+ D I E++N      
Sbjct: 413 KPLRPAPTEEELLKDMEGMNLKIDRALANGETVYGRFPQTIIDLVSDGIREVINGC---T 469

Query: 164 DMEGIQKTCNNAYKKYVKSRPGASVESVKKVKELELATMQVHPLFRNI-GSAEQEKFNLL 222
           D+  ++K C NA+  Y+K+RP  S ES+++VK+L    +  HP+FR++ GS E       
Sbjct: 470 DLIALEKPCTNAFHLYLKTRPMPSTESIRRVKDLPREGL--HPIFRDVLGSDELSALAFS 527

Query: 223 TKMSEYRPPSTVLE 236
            ++  +RP  T+LE
Sbjct: 528 ERLKSFRPKQTILE 541

Oryza sativa subsp. indica (taxid: 39946)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q4HZ42|DBP10_GIBZE ATP-dependent RNA helicase DBP10 OS=Gibberella zeae (strain PH-1 / ATCC MYA-4620 / FGSC 9075 / NRRL 31084) GN=DBP10 PE=3 SV=1

 Score =  189 bits (480), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 101/243 (41%), Positives = 150/243 (61%), Gaps = 4/243 (1%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T++FTATK+HVEY+  +L  AG + +Y+Y  LD TAR+I    F+ GK  +LVVTDVAAR
Sbjct: 358 TIIFTATKHHVEYLANLLIYAGFAVSYVYGSLDQTARRIQVEDFRMGKTNILVVTDVAAR 417

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           GIDIP L  VIN++FP + K+FVHRVGR ARAG+ G +YSLV   +  Y +DL LFLG+K
Sbjct: 418 GIDIPVLANVINFDFPPQPKVFVHRVGRTARAGQRGWSYSLVRDTDAPYLIDLQLFLGKK 477

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
            V+  ++ K     +D + G + +  +E  +      +    D+  ++     A K Y++
Sbjct: 478 LVVGQET-KNPSFSEDVVVGALKRDPVEGHVEWFNKSLHESEDINALRGVAVKAEKLYLR 536

Query: 182 SRPGASVESVKKVKEL--ELATMQVHPLF-RNIGSAEQEKFNLLTKMSEYRPPSTVLEFG 238
           +R  A+ +S K+ KEL       Q+HPLF  ++  AEQ + ++L ++S +RP  T+ E G
Sbjct: 537 TRNSAASQSAKRSKELVGSQGWTQLHPLFGEDVDGAEQARVDMLARISGFRPQETIFEIG 596

Query: 239 KAR 241
             R
Sbjct: 597 GRR 599

ATP-binding RNA helicase involved in the biogenesis of 60S ribosomal subunits and is required for the normal formation of 25S and 5.8S rRNAs.

Gibberella zeae (strain PH-1 / ATCC MYA-4620 / FGSC 9075 / NRRL 31084) (taxid: 229533)

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	251
328781928	772	PREDICTED: ATP-dependent RNA helicase DD	0.928	0.301	0.563	1e-75
380029382	772	PREDICTED: ATP-dependent RNA helicase DD	0.924	0.300	0.561	2e-75
350423736	772	PREDICTED: ATP-dependent RNA helicase DD	0.924	0.300	0.561	3e-75
340723049	772	PREDICTED: LOW QUALITY PROTEIN: ATP-depe	0.924	0.300	0.556	2e-74
242015175	723	ATP-dependent RNA helicase DDX54, putati	0.944	0.327	0.567	8e-74
322787030	775	hypothetical protein SINV_10425 [Solenop	0.924	0.299	0.552	1e-73
270000966	761	hypothetical protein TcasGA2_TC011242 [T	0.920	0.303	0.588	1e-72
156552297	782	PREDICTED: ATP-dependent RNA helicase DD	0.920	0.295	0.567	2e-72
307175593	751	ATP-dependent RNA helicase DDX54 [Campon	0.924	0.308	0.544	2e-72
383849107	770	PREDICTED: ATP-dependent RNA helicase DD	0.924	0.301	0.544	6e-72

>gi|328781928|ref|XP_397101.4| PREDICTED: ATP-dependent RNA helicase DDX54-like [Apis mellifera]

 Score =  288 bits (738), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 134/238 (56%), Positives = 179/238 (75%), Gaps = 5/238 (2%)

Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
            TV+F AT +HVEY+H+IL  AGIS+TYIYS+LD +ARKINAAKFQT K+ VL+VTDVAA
Sbjct: 280 QTVIFAATMHHVEYIHQILEKAGISNTYIYSNLDASARKINAAKFQTNKVHVLIVTDVAA 339

Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR 120
           RG+DIP LD VIN+NFP K+KLFVHRVGRCARAGR+G AY++VS DE  Y LDL LFLGR
Sbjct: 340 RGLDIPHLDNVINFNFPAKSKLFVHRVGRCARAGRTGTAYNIVSPDEYAYLLDLHLFLGR 399

Query: 121 KPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYV 180
              +   S  G I++ DG+ GK+PQ ++E+++ E++NW     D++ ++K CNNAYK+Y+
Sbjct: 400 SLHIVPPS--GSIQNTDGIIGKLPQAMIEEELVELINWHNCSTDLKNMEKVCNNAYKQYI 457

Query: 181 KSRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFG 238
           +SRP AS ES+K+VK+L ++   V P + ++ S      NLL+K+  YRP  T+ E G
Sbjct: 458 RSRPAASSESIKRVKDLHISEAGVIPEYSDVSS---NTMNLLSKIVNYRPQGTIFEIG 512

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380029382|ref|XP_003698353.1| PREDICTED: ATP-dependent RNA helicase DDX54-like [Apis florea]

 Score =  288 bits (737), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 133/237 (56%), Positives = 180/237 (75%), Gaps = 5/237 (2%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           TV+F AT +HVEY+H+IL  AGIS+TYIYS+LD +ARKINAAKFQT K+ VL+VTDVAAR
Sbjct: 281 TVIFAATMHHVEYIHQILEKAGISNTYIYSNLDASARKINAAKFQTNKVHVLIVTDVAAR 340

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           G+DIP LD VIN+NFP K+KLFVHRVGRCARAGR+G AY++VS DE  Y LDL LFLGR 
Sbjct: 341 GLDIPHLDNVINFNFPAKSKLFVHRVGRCARAGRTGTAYNIVSPDEYAYLLDLHLFLGRS 400

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
             +   S  G I++ DG+ GK+PQ ++E++++E++NW     D++ ++K C+NAYK+Y++
Sbjct: 401 LHIVPSS--GSIQNTDGIIGKMPQAMIEEELAELINWHNCSTDLKNMEKVCSNAYKQYIR 458

Query: 182 SRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFG 238
           SRP AS ES+K+VK+L ++   V P + ++ S      NLL+K+  YRP  T+ E G
Sbjct: 459 SRPAASSESIKRVKDLHISEAGVIPEYSDVSS---NTMNLLSKIVNYRPQGTIFEIG 512

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350423736|ref|XP_003493575.1| PREDICTED: ATP-dependent RNA helicase DDX54-like [Bombus impatiens]

 Score =  287 bits (734), Expect = 3e-75,   Method: Compositional matrix adjust.
 Identities = 133/237 (56%), Positives = 180/237 (75%), Gaps = 5/237 (2%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           TV+F AT++HVEY+H+IL  AGIS+TYIYS+LDP+ARKINAAKF T K+RVL+VTDVAAR
Sbjct: 281 TVIFAATQHHVEYIHQILEKAGISNTYIYSNLDPSARKINAAKFHTSKVRVLIVTDVAAR 340

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           G+DIP LD VIN+NFP K+KLFVHRVGRCARAGR+G AY+++S DE  Y LDL LFLGR 
Sbjct: 341 GLDIPQLDNVINFNFPAKSKLFVHRVGRCARAGRAGTAYNIISPDEYAYLLDLHLFLGR- 399

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
           P+    S  G I + DG+ GK+PQ ++E++++E++NW     D+  ++K C+NAYK+Y++
Sbjct: 400 PLSIVPSF-GSIENTDGIVGKMPQAMIEEELAELINWHSCSTDLTSMEKVCDNAYKQYIR 458

Query: 182 SRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFG 238
           SRP  S ES+K+VKEL ++   V P + ++  +     NLL+K+  YRP  T+ E G
Sbjct: 459 SRPAPSSESIKRVKELHISEAGVIPEYSDVSLSTT---NLLSKIVNYRPQGTIFEIG 512

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340723049|ref|XP_003399911.1| PREDICTED: LOW QUALITY PROTEIN: ATP-dependent RNA helicase DDX54-like [Bombus terrestris]

 Score =  284 bits (727), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 132/237 (55%), Positives = 177/237 (74%), Gaps = 5/237 (2%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           TV+F AT++HVEY+H+IL  AGIS+TYIYS+LDP+ARKINAAKF T K+RVL+VTDVAAR
Sbjct: 281 TVIFAATQHHVEYIHQILEKAGISNTYIYSNLDPSARKINAAKFHTSKVRVLIVTDVAAR 340

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           G+DIP LD VIN+NFP K+KLFVHRVGRCARAGR G AY+++S DE  Y LDL LFLGR 
Sbjct: 341 GLDIPQLDNVINFNFPAKSKLFVHRVGRCARAGRVGTAYNIISPDEYAYLLDLHLFLGRP 400

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
             +   S  G I + DG+ GK+PQ ++E++++E++NW     D+  ++K C+NAYK+Y++
Sbjct: 401 LNIVPSS--GSIENTDGIVGKMPQAMIEEELAELINWHSCSTDLTSMEKVCDNAYKQYIR 458

Query: 182 SRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFG 238
           SRP  S ES+K+VKEL +    V P + ++  +     NLL+K+  YRP  T+ E G
Sbjct: 459 SRPLPSSESIKRVKELHIGEAGVIPEYSDVSLSTT---NLLSKIVNYRPQGTIFEIG 512

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242015175|ref|XP_002428249.1| ATP-dependent RNA helicase DDX54, putative [Pediculus humanus corporis] gi|212512810|gb|EEB15511.1| ATP-dependent RNA helicase DDX54, putative [Pediculus humanus corporis]

 Score =  282 bits (722), Expect = 8e-74,   Method: Compositional matrix adjust.
 Identities = 135/238 (56%), Positives = 174/238 (73%), Gaps = 1/238 (0%)

Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
            T++F ATK+HVEY+HKIL  A ISS+YIYSDLDPTARKINAAKFQ     VL+VTDVAA
Sbjct: 272 QTLIFVATKHHVEYIHKILEKANISSSYIYSDLDPTARKINAAKFQNKVCSVLIVTDVAA 331

Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR 120
           RG+DIP LD VINY+FP K KLFVHRVGRCARAGR+G A+SLV S+E  Y +DL LFLG+
Sbjct: 332 RGVDIPQLDYVINYHFPAKPKLFVHRVGRCARAGRTGTAFSLVCSEEFPYIIDLHLFLGK 391

Query: 121 KPVLADDSMKGKIR-HQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKY 179
           K  L D + K     +     GKIP  ++E Q SE+++W   D ++  ++K C+N YKKY
Sbjct: 392 KINLLDKTSKLTTSCNAKEALGKIPSDVIESQQSELISWHHNDEEISNLEKVCDNGYKKY 451

Query: 180 VKSRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEF 237
           +KSRPGAS+ES+K+ KEL+L  ++VHP FR+  + E+    L+ K+ +YRP  T+ E 
Sbjct: 452 LKSRPGASIESLKRAKELDLYNVEVHPFFRDHFNGEENNLELVGKIKKYRPKGTIFEL 509

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322787030|gb|EFZ13254.1| hypothetical protein SINV_10425 [Solenopsis invicta]

 Score =  281 bits (720), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 131/237 (55%), Positives = 177/237 (74%), Gaps = 5/237 (2%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T++F  T +HVEY+H+IL  AGIS+T+IYS+LDP+ARKINAAKFQ GK+RVL+VTDVAAR
Sbjct: 281 TIIFVETMHHVEYIHQILDKAGISNTFIYSNLDPSARKINAAKFQMGKVRVLIVTDVAAR 340

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           GIDIP LD VIN+NFP K+KLFVHRVGRCARAGR+G AY++VSSDE  Y LDL LFLGR 
Sbjct: 341 GIDIPHLDFVINFNFPAKSKLFVHRVGRCARAGRAGTAYNIVSSDEYPYLLDLHLFLGRP 400

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
             +   +  G   + +   GK+PQ ++E++++E++NW     D+  ++K CNNAY++YVK
Sbjct: 401 LTIVPTT--GSTENMESAVGKLPQAMIEEELAELINWHNTSTDLINMRKVCNNAYQQYVK 458

Query: 182 SRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFG 238
           SRPGAS+ESVK++KEL +    V P + +   A  +   ++++M  YRP  T+ E G
Sbjct: 459 SRPGASMESVKRIKELRINEAGVLPEYSDDSHAAAD---IISRMKNYRPQGTIFEIG 512

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270000966|gb|EEZ97413.1| hypothetical protein TcasGA2_TC011242 [Tribolium castaneum]

 Score =  278 bits (712), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 140/238 (58%), Positives = 176/238 (73%), Gaps = 7/238 (2%)

Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
            TVVF AT++HVEY+H IL   G+S+TYIYS+LDP+ARKINAAKF TGK++VLVVTDVAA
Sbjct: 277 QTVVFAATRHHVEYIHMILDRVGVSNTYIYSNLDPSARKINAAKFSTGKVKVLVVTDVAA 336

Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR 120
           RGIDIP LD VINYNFP K+KLFVHRVGRCARAGRSG AYSLV+ DE  Y LDL LFLGR
Sbjct: 337 RGIDIPQLDNVINYNFPAKSKLFVHRVGRCARAGRSGTAYSLVTPDEYPYLLDLHLFLGR 396

Query: 121 KPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYV 180
            P+    S+K +  ++ G  GKIPQ L+E+Q S ++   E + D+  ++K   NAY +YV
Sbjct: 397 -PL----SIKTRTENE-GSVGKIPQALLEEQHSALLTLHENNIDLVSMKKVTENAYLQYV 450

Query: 181 KSRPGASVESVKKVKELELATMQVHPLFRNIGS-AEQEKFNLLTKMSEYRPPSTVLEF 237
           +SRP AS +S ++VKEL  A+  +HP+F +     E+E+ NLL KM  YRP  T+ E 
Sbjct: 451 RSRPAASSDSNRRVKELAFASCGIHPIFGDYKEYVEEERENLLEKMKSYRPQGTIFEI 508

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156552297|ref|XP_001600622.1| PREDICTED: ATP-dependent RNA helicase DDX54-like [Nasonia vitripennis]

 Score =  278 bits (711), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 134/236 (56%), Positives = 173/236 (73%), Gaps = 5/236 (2%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           TV+F AT +HVEY+H+IL  AGI +T+IYS+LDP+ARKINAAKFQ GK++VLVVTDVAAR
Sbjct: 283 TVIFAATMHHVEYIHQILDQAGILNTFIYSNLDPSARKINAAKFQNGKVKVLVVTDVAAR 342

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           GIDIP LD VIN+NFP K+KLF+HRVGRCARAGRSG AY++V+ DE  Y LDL LFLGR 
Sbjct: 343 GIDIPHLDNVINFNFPAKSKLFIHRVGRCARAGRSGTAYNIVAPDEYAYLLDLHLFLGRS 402

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
             +   S    I   +G  GK+PQ ++E+++SE++ W E   D+  +Q  CNNAY++Y +
Sbjct: 403 FNIVPVSEAKNI--PEGSIGKMPQSMIEEELSELIAWHENVTDIANMQNVCNNAYQQYCR 460

Query: 182 SRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEF 237
           SRP AS ES K++KEL++    + P FR+   A  E  NLL+KM  YRP  T+ E 
Sbjct: 461 SRPPASAESNKRIKELDINRAGILPEFRD---ANDEAANLLSKMKSYRPRGTIFEI 513

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307175593|gb|EFN65503.1| ATP-dependent RNA helicase DDX54 [Camponotus floridanus]

 Score =  278 bits (711), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 129/237 (54%), Positives = 174/237 (73%), Gaps = 5/237 (2%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T++F  T +HVEY+H+IL  A IS+T+IYS+LDP ARKINAAKFQTGK++VL+VTDVAAR
Sbjct: 253 TIIFAETMHHVEYIHQILDKANISNTFIYSNLDPCARKINAAKFQTGKVKVLIVTDVAAR 312

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           GIDIP LD VIN+NFP K+KLFVHRVGRCARAGR G AY++VSSDE  Y LDL LFLGR 
Sbjct: 313 GIDIPYLDYVINFNFPAKSKLFVHRVGRCARAGRVGTAYNIVSSDEYPYLLDLHLFLGRP 372

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
             +   +  G I + +   GK+PQ ++E+++ E++NW     D+  +Q+ CNNAY++YV+
Sbjct: 373 LTIMPST--GSIENVESAVGKMPQSMIEEELGELINWHNSSTDLTNMQRVCNNAYQRYVR 430

Query: 182 SRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFG 238
           SRPGAS ESVK++KEL +    + P + ++     +   +++KM  YRP  T+ E G
Sbjct: 431 SRPGASTESVKRIKELCINEAGILPQYSDVSPTAAD---IISKMKSYRPKGTIFEIG 484

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383849107|ref|XP_003700188.1| PREDICTED: ATP-dependent RNA helicase DDX54-like [Megachile rotundata]

 Score =  276 bits (706), Expect = 6e-72,   Method: Compositional matrix adjust.
 Identities = 129/237 (54%), Positives = 173/237 (72%), Gaps = 5/237 (2%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           TV+F AT +HVEY+H +L  AGIS+T+IYS+LDP+ARKINAAKFQT K++VLVVTDVAAR
Sbjct: 281 TVIFAATMHHVEYIHMVLDKAGISNTFIYSNLDPSARKINAAKFQTNKVKVLVVTDVAAR 340

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           G+DIP LD VIN+NFP K+KLFVHRVGRCARAGR+G AY+++  DE  Y LDL LFL R 
Sbjct: 341 GLDIPHLDNVINFNFPAKSKLFVHRVGRCARAGRTGTAYNIIGPDEYAYLLDLHLFLSRP 400

Query: 122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
             +   S  G     +G  GK+PQ ++E++++E++NW     D++ ++K C NAYK+Y++
Sbjct: 401 LHIIPPS--GTAEGTEGAIGKMPQSMIEEELAELINWHNSSTDLQNMEKVCENAYKQYIR 458

Query: 182 SRPGASVESVKKVKELELATMQVHPLFRNIGSAEQEKFNLLTKMSEYRPPSTVLEFG 238
           SRP AS ES+K+VKEL +    V P + ++ S      NLL+K+  YRP  T+ E G
Sbjct: 459 SRPTASSESIKRVKELNINQAGVIPEYSDVSS---NTLNLLSKIVNYRPQGTIFEIG 512

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

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	251
UNIPROTKB|F1NTK9	822	DDX54 "Uncharacterized protein	0.980	0.299	0.465	3.7e-54
UNIPROTKB|E1BGI6	877	DDX54 "Uncharacterized protein	0.932	0.266	0.466	8.9e-52
RGD|1562539	906	Ddx54 "DEAD (Asp-Glu-Ala-Asp)	0.928	0.257	0.460	1.1e-51
MGI|MGI:1919240	874	Ddx54 "DEAD (Asp-Glu-Ala-Asp)	0.936	0.268	0.460	1.5e-51
UNIPROTKB|Q8TDD1	881	DDX54 "ATP-dependent RNA helic	0.936	0.266	0.455	3.3e-51
UNIPROTKB|F6UKZ0	569	DDX54 "Uncharacterized protein	0.928	0.409	0.457	2.8e-50
UNIPROTKB|E2QSR5	912	DDX54 "Uncharacterized protein	0.928	0.255	0.457	1.7e-49
ZFIN|ZDB-GENE-021220-2	862	ddx54 "DEAD (Asp-Glu-Ala-Asp)	0.940	0.273	0.441	2.7e-49
DICTYBASE|DDB_G0292992	1091	helA "putative RNA helicase" [	0.920	0.211	0.456	1e-47
ZFIN|ZDB-GENE-050706-47	511	zgc:111908 "zgc:111908" [Danio	0.908	0.446	0.420	7.1e-45

UNIPROTKB|F1NTK9 DDX54 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 562 (202.9 bits), Expect = 3.7e-54, P = 3.7e-54
 Identities = 116/249 (46%), Positives = 163/249 (65%)

Query:     2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
             TVVF ATK+H EY+ ++L   GI  T+IYS LD TARKIN AKF  GK +VL+VTDVAAR
Sbjct:   280 TVVFVATKHHTEYLKELLTSQGICCTHIYSSLDQTARKINIAKFAHGKCQVLLVTDVAAR 339

Query:    62 GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRK 121
             G+DIP LD VINY+FP K+KLF+HRVGR ARAGRSG AYSLV+ DE           GR 
Sbjct:   340 GLDIPMLDNVINYSFPAKSKLFLHRVGRVARAGRSGTAYSLVAPDEMPYIFDLHLFLGRP 399

Query:   122 PVLAD-DSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYV 180
              +LA    M       DG+ G++PQ L++D+   ++   E   +++ +++  +NA K+Y+
Sbjct:   400 LILAGAQEMPAGAADADGVLGRVPQSLVDDEECLLLTDHEGSLELQSLRRVADNAQKQYL 459

Query:   181 KSRPGASVESVKKVKELELATMQVHPLFR-NIGSAEQEKFNLLTKMSEYRPPSTVLEFGK 239
             +SRPG S ES+K+VKE++L+ + +HPLF  +    E E+  L+  +  Y+  +T+ E   
Sbjct:   460 RSRPGPSPESIKRVKEMDLSQLGIHPLFSAHFEDTELERLKLVDSIKAYKSKATIFEINS 519

Query:   240 -ARFIIINI 247
              AR +  +I
Sbjct:   520 TARTLASSI 528

GO:0003723 "RNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003714 "transcription corepressor activity" evidence=IEA

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

GO:0005730 "nucleolus" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0030331 "estrogen receptor binding" evidence=IEA

UNIPROTKB|E1BGI6 DDX54 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 543 (196.2 bits), Expect = 8.9e-52, P = 8.9e-52
 Identities = 111/238 (46%), Positives = 154/238 (64%)

Query:     2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
             TVVF ATK+H EY+ ++L   G+S  +IYS LD TARKIN A+F  GK   L+VTD+AAR
Sbjct:   341 TVVFVATKHHAEYLSELLATQGVSCAHIYSALDQTARKINLARFTHGKCSALIVTDLAAR 400

Query:    62 GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRK 121
             G+DIP LD VINY+FP K KLF+HRVGR ARAGRSG AYSLV+ DE           GR 
Sbjct:   401 GLDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLVAPDEVPYLLDLHLFLGRA 460

Query:   122 PVLA--DDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKY 179
               LA   +   G     DG+ G++PQG+++D+   +   +E   ++ G+ +  NNA ++Y
Sbjct:   461 LTLARPPEEPSGT-EGGDGVLGRVPQGVVDDEDCGLRTSLEASLELRGLSRVANNAQQQY 519

Query:   180 VKSRPGASVESVKKVKELELATMQVHPLFRNIGSAEQ-EKFNLLTKMSEYRPPSTVLE 236
             V+SRP  S ES+K+ KEL+LA + +HPLF +    E+ ++  L+  +  YR  +T+ E
Sbjct:   520 VRSRPAPSPESIKRAKELDLAGLGLHPLFSSRFQQEELQRLRLVDSIRNYRSRATIFE 577

GO:0030331 "estrogen receptor binding" evidence=IEA

GO:0006396 "RNA processing" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

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

GO:0003714 "transcription corepressor activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

RGD|1562539 Ddx54 "DEAD (Asp-Glu-Ala-Asp) box polypeptide 54" [Rattus norvegicus (taxid:10116)]

 Score = 543 (196.2 bits), Expect = 1.1e-51, P = 1.1e-51
 Identities = 110/239 (46%), Positives = 156/239 (65%)

Query:     3 VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
             VVF ATK+H EY+ ++L   G+S  +IYS LD TARKIN AKF   K   L+VTD+AARG
Sbjct:   341 VVFVATKHHAEYLTELLTGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAARG 400

Query:    63 IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRKP 122
             +DIP LD VINY+FP K KLF+HRVGR ARAGRSG AYSLV+ DE           GR  
Sbjct:   401 LDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLVAPDEVPYLLDLHLFLGRSV 460

Query:   123 VLA----DDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKK 178
              LA    + S  G +  +DG+ G++PQ +++D+ S +   ++   +++G+Q+  NNA ++
Sbjct:   461 TLARPHEEPSSAGAVG-RDGVLGRVPQSVVDDEDSSLQTALQASLELQGLQRVANNAQQQ 519

Query:   179 YVKSRPGASVESVKKVKELELATMQVHPLFRN-IGSAEQEKFNLLTKMSEYRPPSTVLE 236
             Y++SRP  S ES+K+ KEL+LA + +HPLF +     E ++  L+  +  YR  +T+ E
Sbjct:   520 YLRSRPAPSPESIKRAKELDLAELGLHPLFSSCFEEGELQRLRLVDSIKNYRTRTTIFE 578

GO:0003714 "transcription corepressor activity" evidence=ISO

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005102 "receptor binding" evidence=ISO

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005730 "nucleolus" evidence=ISO

GO:0006396 "RNA processing" evidence=ISO

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

GO:0016070 "RNA metabolic process" evidence=ISO

GO:0030331 "estrogen receptor binding" evidence=ISO

MGI|MGI:1919240 Ddx54 "DEAD (Asp-Glu-Ala-Asp) box polypeptide 54" [Mus musculus (taxid:10090)]

 Score = 541 (195.5 bits), Expect = 1.5e-51, P = 1.5e-51
 Identities = 110/239 (46%), Positives = 153/239 (64%)

Query:     2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
             TVVF ATK+H EY+ ++L   G+S  +IYS LD TARKIN AKF   K   L+VTD+AAR
Sbjct:   340 TVVFVATKHHAEYLTELLMGQGVSCAHIYSALDQTARKINLAKFTHNKCSTLIVTDLAAR 399

Query:    62 GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRK 121
             G+DIP LD VINY+FP K KLF+HRVGR ARAGRSG AYSLV+ DE           GR 
Sbjct:   400 GLDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLVAPDEVPYLLDLHLFLGRS 459

Query:   122 PVLADDSMKGKIRH---QDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKK 178
               LA    +  +     +DG+ G++PQ +++D+ S +   +    D++G+ +  NNA ++
Sbjct:   460 VTLARPCEEPSVADAVGRDGVLGRVPQSVVDDEDSSLQTAMGASLDLQGLHRVANNAQQQ 519

Query:   179 YVKSRPGASVESVKKVKELELATMQVHPLFRN-IGSAEQEKFNLLTKMSEYRPPSTVLE 236
             YV+SRP  S ES+K+ KEL+LA + +HPLF +     E ++  L+  +  YR  +T+ E
Sbjct:   520 YVRSRPAPSPESIKRAKELDLAELGLHPLFSSCFEEGELQRLRLVDSIKNYRTRTTIFE 578

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003714 "transcription corepressor activity" evidence=ISO

GO:0003723 "RNA binding" evidence=IEA

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

GO:0004386 "helicase activity" evidence=IEA

GO:0005102 "receptor binding" evidence=ISO

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISO

GO:0005730 "nucleolus" evidence=ISO

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0006396 "RNA processing" evidence=ISO

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

GO:0016070 "RNA metabolic process" evidence=ISO

GO:0016787 "hydrolase activity" evidence=IEA

GO:0016818 "hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides" evidence=IEA

GO:0030331 "estrogen receptor binding" evidence=ISO

UNIPROTKB|Q8TDD1 DDX54 "ATP-dependent RNA helicase DDX54" [Homo sapiens (taxid:9606)]

 Score = 538 (194.4 bits), Expect = 3.3e-51, P = 3.3e-51
 Identities = 108/237 (45%), Positives = 154/237 (64%)

Query:     2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
             TVVF ATK+H EY+ ++L    +S  +IYS LDPTARKIN AKF  GK   L+VTD+AAR
Sbjct:   341 TVVFVATKHHAEYLTELLTTQRVSCAHIYSALDPTARKINLAKFTLGKCSTLIVTDLAAR 400

Query:    62 GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRK 121
             G+DIP LD VINY+FP K KLF+HRVGR ARAGRSG AYSLV+ DE           GR 
Sbjct:   401 GLDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLVAPDEIPYLLDLHLFLGRS 460

Query:   122 PVLADDSMKGK-IRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYV 180
               LA    +   +   DGM G++PQ +++++ S + + +E   ++ G+ +  +NA ++YV
Sbjct:   461 LTLARPLKEPSGVAGVDGMLGRVPQSVVDEEDSGLQSTLEASLELRGLARVADNAQQQYV 520

Query:   181 KSRPGASVESVKKVKELELATMQVHPLFRNIGSAEQ-EKFNLLTKMSEYRPPSTVLE 236
             +SRP  S ES+K+ KE++L  + +HPLF +    E+ ++  L+  +  YR  +T+ E
Sbjct:   521 RSRPAPSPESIKRAKEMDLVGLGLHPLFSSRFEEEELQRLRLVDSIKNYRSRATIFE 577

GO:0003723 "RNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

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

GO:0003714 "transcription corepressor activity" evidence=IDA

GO:0005102 "receptor binding" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0006396 "RNA processing" evidence=IDA

GO:0016070 "RNA metabolic process" evidence=IDA

GO:0030331 "estrogen receptor binding" evidence=IDA

GO:0030520 "intracellular estrogen receptor signaling pathway" evidence=TAS

UNIPROTKB|F6UKZ0 DDX54 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 523 (189.2 bits), Expect = 2.8e-50, P = 2.8e-50
 Identities = 108/236 (45%), Positives = 152/236 (64%)

Query:     2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
             TVVF ATK+H EY+ ++L   G+S T+IYS LD TARKIN AKF   K   L+VTD+AAR
Sbjct:    34 TVVFVATKHHAEYLSELLTTQGVSCTHIYSALDQTARKINLAKFTHNKCSALIVTDLAAR 93

Query:    62 GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRK 121
             G+DIP LD VINY+FP K KLF+HRVGR ARAGRSG AYSLV+ DE           GR 
Sbjct:    94 GLDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLVAPDEVPYLLDLHLFLGRA 153

Query:   122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
                A    +G +   DG+ G++PQ +++D+ S + + +    ++ G+ +  +NA ++YV+
Sbjct:   154 LTPARPH-EGSLG-VDGVLGRVPQSVVDDEESGLQSILTSSLELGGLSRVADNAQQQYVR 211

Query:   182 SRPGASVESVKKVKELELATMQVHPLFRN-IGSAEQEKFNLLTKMSEYRPPSTVLE 236
             SRP  S ES+K+ KEL+L  + +HPLF +     E ++  L+  +  YR  +T+ E
Sbjct:   212 SRPAPSPESIKRAKELDLTGLGLHPLFSSRFEEKELQRLKLVDSIKNYRSRATIFE 267

GO:0005634 "nucleus" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|E2QSR5 DDX54 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 523 (189.2 bits), Expect = 1.7e-49, P = 1.7e-49
 Identities = 108/236 (45%), Positives = 152/236 (64%)

Query:     2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
             TVVF ATK+H EY+ ++L   G+S T+IYS LD TARKIN AKF   K   L+VTD+AAR
Sbjct:   339 TVVFVATKHHAEYLSELLTTQGVSCTHIYSALDQTARKINLAKFTHNKCSALIVTDLAAR 398

Query:    62 GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRK 121
             G+DIP LD VINY+FP K KLF+HRVGR ARAGRSG AYSLV+ DE           GR 
Sbjct:   399 GLDIPLLDNVINYSFPAKGKLFLHRVGRVARAGRSGTAYSLVAPDEVPYLLDLHLFLGRA 458

Query:   122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
                A    +G +   DG+ G++PQ +++D+ S + + +    ++ G+ +  +NA ++YV+
Sbjct:   459 LTPARPH-EGSLG-VDGVLGRVPQSVVDDEESGLQSILTSSLELGGLSRVADNAQQQYVR 516

Query:   182 SRPGASVESVKKVKELELATMQVHPLFRN-IGSAEQEKFNLLTKMSEYRPPSTVLE 236
             SRP  S ES+K+ KEL+L  + +HPLF +     E ++  L+  +  YR  +T+ E
Sbjct:   517 SRPAPSPESIKRAKELDLTGLGLHPLFSSRFEEKELQRLKLVDSIKNYRSRATIFE 572

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

GO:0005634 "nucleus" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

ZFIN|ZDB-GENE-021220-2 ddx54 "DEAD (Asp-Glu-Ala-Asp) box polypeptide 54" [Danio rerio (taxid:7955)]

 Score = 520 (188.1 bits), Expect = 2.7e-49, P = 2.7e-49
 Identities = 106/240 (44%), Positives = 150/240 (62%)

Query:     2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
             TVVF ATK+HVEY+ ++L   G+  + IYS LD TARKI+  +F   K+ +L+VTDVAAR
Sbjct:   323 TVVFVATKHHVEYLKELLSAEGVDCSCIYSALDQTARKISIGRFVHRKVMLLLVTDVAAR 382

Query:    62 GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRK 121
             GIDIP LD VINYNFPCK KLF+HRVGR ARAGR G AYSLV  DE           GR 
Sbjct:   383 GIDIPLLDNVINYNFPCKPKLFLHRVGRVARAGRGGTAYSLVCPDEVPYLYDLHLFLGRP 442

Query:   122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
               LA        +  DG+FG++PQ +++D+  +++   +   D++ +++   NAYK+Y+K
Sbjct:   443 MQLAHPE---HTQEADGVFGRVPQSVLDDEECQLITAHQNSLDLQNLRRVSENAYKQYLK 499

Query:   182 SRPGASVESVKKVKELELATMQVHPLFR-NIGSAEQEKFNLLTKMSEYRPPSTVLEFGKA 240
             SRP  S ES+K+ +  +L  M VHPL    +   E ++  ++  +  Y+  ST+ E   +
Sbjct:   500 SRPVPSAESIKRSRNTQLTDMAVHPLLGCGLEKMELDRLLMVDTIKGYKAKSTIFEINSS 559

GO:0016818 "hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0003723 "RNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

DICTYBASE|DDB_G0292992 helA "putative RNA helicase" [Dictyostelium discoideum (taxid:44689)]

 Score = 509 (184.2 bits), Expect = 1.0e-47, P = 1.0e-47
 Identities = 109/239 (45%), Positives = 160/239 (66%)

Query:     2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
             T++F +TKYHVE++H +L  AGI+STYI+  LDP ARKIN AKF++ ++ V+VVTD+AAR
Sbjct:   500 TIIFVSTKYHVEFIHILLERAGIASTYIHGYLDPVARKINLAKFRSHQVGVMVVTDLAAR 559

Query:    62 GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRK 121
             GIDIP LD VIN++FP K K+F+HRVGR ARAGRSG+AYSLVS DE           GRK
Sbjct:   560 GIDIPLLDNVINFDFPPKEKIFIHRVGRVARAGRSGIAYSLVSPDEVPYMIDLHLYLGRK 619

Query:   122 PVLADDSMKGKIRHQD--GMFGKIPQGLMEDQISEIMNWVELDA-DMEGIQKTCNNAYKK 178
               L     +G+  +      +G IPQ ++ D+ +E +N    +  ++  + KT +NA+KK
Sbjct:   620 -FLNKFQYEGQTINDPKYSFYGTIPQTII-DRETEFVNVQRKECIELLSLTKTIHNAHKK 677

Query:   179 YVKSRPGASVESVKKVKELELATMQVHPLFRN-IGSAEQEKFNLLTKMSEYRPPSTVLE 236
             Y+ +RPGAS ES ++ K ++ +  + HP+  + + S +Q + + +  +  +RPP TVLE
Sbjct:   678 YLSTRPGASHESNRRAKLMDKS--KYHPMLSDHLNSNDQIRNDFIQSLKSFRPPQTVLE 734

GO:0016818 "hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0042254 "ribosome biogenesis" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0006364 "rRNA processing" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

ZFIN|ZDB-GENE-050706-47 zgc:111908 "zgc:111908" [Danio rerio (taxid:7955)]

 Score = 472 (171.2 bits), Expect = 7.1e-45, P = 7.1e-45
 Identities = 101/240 (42%), Positives = 144/240 (60%)

Query:     2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
             TVVF ATK+HVEY+ ++L   G+  + IYS LD TARKI+   F   K+ +L+VTDVAAR
Sbjct:   175 TVVFVATKHHVEYLKELLSAEGVDCSCIYSALDQTARKISIGGFVHRKVMLLLVTDVAAR 234

Query:    62 GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRK 121
             GIDIP LD VINYNFPCK KLF+HRVGR ARAGR G AYSLV  DE           GR 
Sbjct:   235 GIDIPLLDNVINYNFPCKPKLFLHRVGRVARAGRGGTAYSLVCPDEVPYLYDLHRFLGRP 294

Query:   122 PVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVELDADMEGIQKTCNNAYKKYVK 181
               LA        +  DG+FG++PQ +++D+  +++   +   D++ +++   NAYK+Y+K
Sbjct:   295 MQLAHPE---HTQEADGVFGRVPQSVLDDEECQLITAHQNSLDLQNLRRVSENAYKQYLK 351

Query:   182 SRPGASVESVKKVKELELATMQVHPLFR-NIGSAEQEKFNLLTKMSEYRPPSTVLEFGKA 240
             S        +K+ +  +L  M VHPL    +   E ++  ++  +  Y+  ST+ E   +
Sbjct:   352 S--------IKRSRNTQLTDMAVHPLLGCGLEKMELDRLLMVDTIKGYKAKSTIFEINSS 403

GO:0005524 "ATP binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.6.4	0.691

---

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	251
COG0513	513	COG0513, SrmB, Superfamily II DNA and RNA helicase	7e-34
cd00079	131	cd00079, HELICc, Helicase superfamily c-terminal d	5e-28
PRK11776	460	PRK11776, PRK11776, ATP-dependent RNA helicase Dbp	7e-27
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	3e-25
PRK10590	456	PRK10590, PRK10590, ATP-dependent RNA helicase Rhl	3e-23
pfam00271	78	pfam00271, Helicase_C, Helicase conserved C-termin	4e-23
smart00490	82	smart00490, HELICc, helicase superfamily c-termina	5e-22
PTZ00110	545	PTZ00110, PTZ00110, helicase; Provisional	5e-18
PTZ00424	401	PTZ00424, PTZ00424, helicase 45; Provisional	4e-17
PRK01297	475	PRK01297, PRK01297, ATP-dependent RNA helicase Rhl	5e-17
PRK04537	572	PRK04537, PRK04537, ATP-dependent RNA helicase Rhl	5e-17
PRK11634	629	PRK11634, PRK11634, ATP-dependent RNA helicase Dea	2e-16
PRK04837	423	PRK04837, PRK04837, ATP-dependent RNA helicase Rhl	2e-15
COG0514	590	COG0514, RecQ, Superfamily II DNA helicase [DNA re	8e-10
COG1061	442	COG1061, SSL2, DNA or RNA helicases of superfamily	3e-08
PLN00206	518	PLN00206, PLN00206, DEAD-box ATP-dependent RNA hel	4e-07
COG1205	851	COG1205, COG1205, Distinct helicase family with a	4e-07
COG1111	542	COG1111, MPH1, ERCC4-like helicases [DNA replicati	7e-07
PRK13766	773	PRK13766, PRK13766, Hef nuclease; Provisional	8e-06
TIGR03817	742	TIGR03817, DECH_helic, helicase/secretion neighbor	2e-04
TIGR01389	591	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	0.002

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

 Score =  127 bits (320), Expect = 7e-34
 Identities = 48/106 (45%), Positives = 64/106 (60%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            +VF  TK  VE + + L   G     ++ DL    R     KF+ G++RVLV TDVAAR
Sbjct: 276 VIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAAR 335

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G+DIP +  VINY+ P   + +VHR+GR  RAGR GVA S V+ +E
Sbjct: 336 GLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAGRKGVAISFVTEEE 381

Length = 513

>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 =  103 bits (259), Expect = 5e-28
 Identities = 36/101 (35%), Positives = 57/101 (56%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            ++F  +K  ++ + ++L   GI    ++ D     R+     F+ G+I VLV TDV AR
Sbjct: 31  VLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATDVIAR 90

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSL 102
           GID+P++  VINY+ P     ++ R+GR  RAG+ G A  L
Sbjct: 91  GIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131

Length = 131

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

 Score =  107 bits (269), Expect = 7e-27
 Identities = 45/106 (42%), Positives = 60/106 (56%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            VVF  TK   + V   L   G S+  ++ DL+   R     +F      VLV TDVAAR
Sbjct: 245 CVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAAR 304

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G+DI +L+AVINY      ++ VHR+GR  RAG  G+A SLV+ +E
Sbjct: 305 GLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEE 350

Length = 460

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

 Score =  102 bits (257), Expect = 3e-25
 Identities = 42/102 (41%), Positives = 59/102 (57%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           ++VF  T+  V  +   L  AGI+  Y+  ++    R     +   G++ VLV TDVAAR
Sbjct: 248 SIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAAR 307

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLV 103
           GIDI  +  VIN++ P  A  ++HR+GR  RAGR G A SLV
Sbjct: 308 GIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISLV 349

Length = 434

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

 Score = 97.2 bits (242), Expect = 3e-23
 Identities = 47/105 (44%), Positives = 63/105 (60%)

Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           +VFT TK+   ++ + L   GI S  I+ +    AR    A F++G IRVLV TD+AARG
Sbjct: 249 LVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARG 308

Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           +DI  L  V+NY  P   + +VHR+GR  RA  +G A SLV  DE
Sbjct: 309 LDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEALSLVCVDE 353

Length = 456

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

 Score = 89.1 bits (222), Expect = 4e-23
 Identities = 32/78 (41%), Positives = 45/78 (57%)

Query: 17 KILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNF 76
          K+L   GI    ++  L    R+     F+ GK +VLV TDVA RGID+P ++ VINY+ 
Sbjct: 1  KLLRKPGIKVARLHGGLSQEEREEILEDFRNGKSKVLVATDVAGRGIDLPDVNLVINYDL 60

Query: 77 PCKAKLFVHRVGRCARAG 94
          P     ++ R+GR  RAG
Sbjct: 61 PWNPASYIQRIGRAGRAG 78

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|197757 smart00490, HELICc, helicase superfamily c-terminal domain

 Score = 86.1 bits (214), Expect = 5e-22
 Identities = 33/82 (40%), Positives = 47/82 (57%)

Query: 13 EYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI 72
          E + ++L   GI    ++  L    R+    KF  GKI+VLV TDVA RG+D+P +D VI
Sbjct: 1  EELAELLKELGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVI 60

Query: 73 NYNFPCKAKLFVHRVGRCARAG 94
           Y+ P     ++ R+GR  RAG
Sbjct: 61 IYDLPWSPASYIQRIGRAGRAG 82

Length = 82

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

 Score = 82.5 bits (204), Expect = 5e-18
 Identities = 37/105 (35%), Positives = 64/105 (60%)

Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           ++F  TK   +++ K L L G  +  I+ D     R     +F+TGK  +++ TDVA+RG
Sbjct: 381 LIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRG 440

Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           +D+  +  VIN++FP + + +VHR+GR  RAG  G +Y+ ++ D+
Sbjct: 441 LDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTPDK 485

Length = 545

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

 Score = 79.5 bits (196), Expect = 4e-17
 Identities = 36/106 (33%), Positives = 65/106 (61%)

Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           +++  T+  V+Y+ K +     + + ++ D+D   R +   +F++G  RVL+ TD+ ARG
Sbjct: 271 IIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARG 330

Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEL 108
           ID+  +  VINY+ P   + ++HR+GR  R GR GVA + V+ D++
Sbjct: 331 IDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDDI 376

Length = 401

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

 Score = 79.6 bits (196), Expect = 5e-17
 Identities = 46/119 (38%), Positives = 62/119 (52%)

Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           +VF   K  V  + + L   GI++  +  D+    R      F+ GKIRVLV TDVA RG
Sbjct: 339 MVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRG 398

Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           I I  +  VIN+  P     +VHR+GR  RAG SGV+ S    D+     ++   LGRK
Sbjct: 399 IHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFAGEDDAFQLPEIEELLGRK 457

Length = 475

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

 Score = 79.6 bits (196), Expect = 5e-17
 Identities = 41/101 (40%), Positives = 56/101 (55%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T+VF  TK  VE V + L   G     +  D+    R+    +FQ G++ +LV TDVAAR
Sbjct: 260 TMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAAR 319

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSL 102
           G+ I  +  V NY+ P  A+ +VHR+GR AR G  G A S 
Sbjct: 320 GLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISF 360

Length = 572

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

 Score = 78.0 bits (192), Expect = 2e-16
 Identities = 36/106 (33%), Positives = 61/106 (57%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            ++F  TK     V + L   G +S  +  D++   R+    + + G++ +L+ TDVAAR
Sbjct: 248 AIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAAR 307

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G+D+  +  V+NY+ P  ++ +VHR+GR  RAGR+G A   V + E
Sbjct: 308 GLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALLFVENRE 353

Length = 629

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

 Score = 74.2 bits (183), Expect = 2e-15
 Identities = 29/59 (49%), Positives = 40/59 (67%)

Query: 44  KFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSL 102
           +F  G + +LV TDVAARG+ IP++  V NY+ P   + +VHR+GR  RAG SG + SL
Sbjct: 300 EFTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISL 358

Length = 423

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

 Score = 58.1 bits (141), Expect = 8e-10
 Identities = 29/102 (28%), Positives = 48/102 (47%)

Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           +++  T+  VE + + L   GIS+   ++ L    R+     F   +I+V+V T+    G
Sbjct: 234 IIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMG 293

Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVS 104
           ID P +  VI+Y+ P   + +    GR  R G    A  L S
Sbjct: 294 IDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLPAEAILLYS 335

Length = 590

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

 Score = 53.6 bits (129), Expect = 3e-08
 Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 1/71 (1%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T++F +   H   + K+    GI    I  +     R+    +F+TG I+VLV   V   
Sbjct: 286 TLIFASDVEHAYEIAKLFLAPGIVE-AITGETPKEEREAILERFRTGGIKVLVTVKVLDE 344

Query: 62  GIDIPSLDAVI 72
           G+DIP  D +I
Sbjct: 345 GVDIPDADVLI 355

Length = 442

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

 Score = 50.2 bits (120), Expect = 4e-07
 Identities = 22/69 (31%), Positives = 38/69 (55%)

Query: 38  RKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSG 97
           R+     F  G++ V+V T V  RG+D+  +  VI ++ P   K ++H++GR +R G  G
Sbjct: 407 RREVMKSFLVGEVPVIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKG 466

Query: 98  VAYSLVSSD 106
            A   V+ +
Sbjct: 467 TAIVFVNEE 475

Length = 518

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

 Score = 50.1 bits (120), Expect = 4e-07
 Identities = 31/87 (35%), Positives = 45/87 (51%), Gaps = 2/87 (2%)

Query: 26  STYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP-CKAKLFV 84
           STY  + L    R+   A+F+ G++  ++ T+    GIDI SLDAVI Y +P      F 
Sbjct: 342 STY-RAGLHREERRRIEAEFKEGELLGVIATNALELGIDIGSLDAVIAYGYPGVSVLSFR 400

Query: 85  HRVGRCARAGRSGVAYSLVSSDELCYY 111
            R GR  R G+  +   ++ SD L  Y
Sbjct: 401 QRAGRAGRRGQESLVLVVLRSDPLDSY 427

Length = 851

>gnl|CDD|224036 COG1111, MPH1, ERCC4-like helicases [DNA replication, recombination, and repair]

 Score = 49.3 bits (118), Expect = 7e-07
 Identities = 23/64 (35%), Positives = 30/64 (46%), Gaps = 1/64 (1%)

Query: 44  KFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLV 103
           +F+ G+  VLV T V   G+DIP +D VI Y         + R GR  R  R G    LV
Sbjct: 420 QFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGR-KRKGRVVVLV 478

Query: 104 SSDE 107
           +   
Sbjct: 479 TEGT 482

Length = 542

>gnl|CDD|237496 PRK13766, PRK13766, Hef nuclease; Provisional

 Score = 46.0 bits (110), Expect = 8e-06
 Identities = 41/162 (25%), Positives = 63/162 (38%), Gaps = 17/162 (10%)

Query: 43  AKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSL 102
            KF+ G+  VLV T VA  G+DIPS+D VI Y         + R GR  R    G    L
Sbjct: 417 DKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPVPSEIRSIQRKGRTGR-QEEGRVVVL 475

Query: 103 VS---SDELCYYLDLLLFLGRKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWV 159
           ++    DE  Y+        RK    +  MK ++++  G+  K  Q L E+Q  E     
Sbjct: 476 IAKGTRDEAYYWSSR-----RK----EKKMKEELKNLKGILNKKLQELDEEQKGEEEE-- 524

Query: 160 ELDADMEGIQKTCNNAYKKYVKSRPGASVESVKKVKELELAT 201
               +   +     +  K+  +       +   +  E E   
Sbjct: 525 --KDEQLSLDDFVKSKGKEEEEEEEKEEKDKETEEDEPEGPK 564

Length = 773

>gnl|CDD|234365 TIGR03817, DECH_helic, helicase/secretion neighborhood putative DEAH-box helicase

 Score = 42.0 bits (99), Expect = 2e-04
 Identities = 21/78 (26%), Positives = 33/78 (42%)

Query: 35  PTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAG 94
           P  R+      + G++  +  T+    G+DI  LDAV+   FP        + GR  R G
Sbjct: 315 PEDRRELERALRDGELLGVATTNALELGVDISGLDAVVIAGFPGTRASLWQQAGRAGRRG 374

Query: 95  RSGVAYSLVSSDELCYYL 112
           +  +   +   D L  YL
Sbjct: 375 QGALVVLVARDDPLDTYL 392

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. Length = 742

>gnl|CDD|130456 TIGR01389, recQ, ATP-dependent DNA helicase RecQ

 Score = 39.3 bits (92), Expect = 0.002
 Identities = 27/95 (28%), Positives = 48/95 (50%), Gaps = 3/95 (3%)

Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           +++ +++  VE + + L   GIS+   ++ L    R  N   F    ++V+V T+    G
Sbjct: 228 IIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMG 287

Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSG 97
           ID P++  VI+Y+ P   + +    G   RAGR G
Sbjct: 288 IDKPNVRFVIHYDMPGNLESYYQEAG---RAGRDG 319

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 [DNA metabolism, DNA replication, recombination, and repair]. Length = 591

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	251
KOG0337|consensus	529		100.0
KOG0345|consensus	567		100.0
KOG0328|consensus	400		100.0
KOG0342|consensus	543		100.0
KOG0330|consensus	476		99.97
KOG0331|consensus	519		99.97
COG0513	513	SrmB Superfamily II DNA and RNA helicases [DNA rep	99.97
KOG0340|consensus	442		99.97
KOG0333|consensus	673		99.96
PRK04837	423	ATP-dependent RNA helicase RhlB; Provisional	99.96
KOG0326|consensus	459		99.96
KOG0348|consensus	708		99.95
KOG0332|consensus	477		99.95
KOG0343|consensus	758		99.95
PRK11776	460	ATP-dependent RNA helicase DbpA; Provisional	99.95
PRK10590	456	ATP-dependent RNA helicase RhlE; Provisional	99.95
PRK11634	629	ATP-dependent RNA helicase DeaD; Provisional	99.95
PTZ00110	545	helicase; Provisional	99.95
PRK04537	572	ATP-dependent RNA helicase RhlB; Provisional	99.95
PRK11192	434	ATP-dependent RNA helicase SrmB; Provisional	99.95
PRK01297	475	ATP-dependent RNA helicase RhlB; Provisional	99.94
KOG0338|consensus	691		99.94
PLN00206	518	DEAD-box ATP-dependent RNA helicase; Provisional	99.94
KOG0336|consensus	629		99.94
PTZ00424	401	helicase 45; Provisional	99.94
KOG0347|consensus	731		99.93
TIGR00614	470	recQ_fam ATP-dependent DNA helicase, RecQ family.	99.93
KOG0335|consensus	482		99.93
KOG0327|consensus	397		99.93
PRK11057	607	ATP-dependent DNA helicase RecQ; Provisional	99.92
KOG0341|consensus	610		99.92
PLN03137	1195	ATP-dependent DNA helicase; Q4-like; Provisional	99.92
TIGR03817	742	DECH_helic helicase/secretion neighborhood putativ	99.92
KOG0344|consensus	593		99.91
PRK04914	956	ATP-dependent helicase HepA; Validated	99.91
TIGR01389	591	recQ ATP-dependent DNA helicase RecQ. The ATP-depe	99.9
KOG0350|consensus	620		99.9
COG0514	590	RecQ Superfamily II DNA helicase [DNA replication,	99.88
KOG0346|consensus	569		99.88
KOG0349|consensus	725		99.88
KOG0339|consensus	731		99.86
KOG4284|consensus	980		99.86
KOG0334|consensus	997		99.86
COG1111	542	MPH1 ERCC4-like helicases [DNA replication, recomb	99.85
PF00271	78	Helicase_C: Helicase conserved C-terminal domain;	99.85
PRK09200	790	preprotein translocase subunit SecA; Reviewed	99.84
PRK05298	652	excinuclease ABC subunit B; Provisional	99.84
PRK13767	876	ATP-dependent helicase; Provisional	99.84
PRK12898	656	secA preprotein translocase subunit SecA; Reviewed	99.84
TIGR00580	926	mfd transcription-repair coupling factor (mfd). Al	99.83
cd00079	131	HELICc Helicase superfamily c-terminal domain; ass	99.83
TIGR00631	655	uvrb excinuclease ABC, B subunit. This family is b	99.83
PHA02653	675	RNA helicase NPH-II; Provisional	99.82
PRK10689	1147	transcription-repair coupling factor; Provisional	99.81
PRK09751	1490	putative ATP-dependent helicase Lhr; Provisional	99.81
PRK10917	681	ATP-dependent DNA helicase RecG; Provisional	99.8
TIGR01587	358	cas3_core CRISPR-associated helicase Cas3. This mo	99.8
TIGR03714	762	secA2 accessory Sec system translocase SecA2. Memb	99.8
TIGR00643	630	recG ATP-dependent DNA helicase RecG.	99.8
TIGR01970	819	DEAH_box_HrpB ATP-dependent helicase HrpB. This mo	99.8
PRK13766	773	Hef nuclease; Provisional	99.8
PRK02362	737	ski2-like helicase; Provisional	99.78
PRK11664	812	ATP-dependent RNA helicase HrpB; Provisional	99.78
TIGR00963	745	secA preprotein translocase, SecA subunit. The pro	99.77
TIGR02621	844	cas3_GSU0051 CRISPR-associated helicase Cas3, Anae	99.76
smart00490	82	HELICc helicase superfamily c-terminal domain.	99.75
PHA02558	501	uvsW UvsW helicase; Provisional	99.75
KOG0354|consensus	746		99.74
PRK12906	796	secA preprotein translocase subunit SecA; Reviewed	99.74
TIGR00603	732	rad25 DNA repair helicase rad25. All proteins in t	99.73
PRK00254	720	ski2-like helicase; Provisional	99.73
KOG0351|consensus	941		99.72
PRK01172	674	ski2-like helicase; Provisional	99.7
PRK12900	1025	secA preprotein translocase subunit SecA; Reviewed	99.7
PRK11131	1294	ATP-dependent RNA helicase HrpA; Provisional	99.7
KOG0352|consensus	641		99.67
COG1201	814	Lhr Lhr-like helicases [General function predictio	99.65
TIGR01967	1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	99.65
TIGR03158	357	cas3_cyano CRISPR-associated helicase, Cyano-type.	99.63
PLN03142	1033	Probable chromatin-remodeling complex ATPase chain	99.55
TIGR01054	1171	rgy reverse gyrase. Generally, these gyrases are e	99.54
PRK09401	1176	reverse gyrase; Reviewed	99.53
PRK14701	1638	reverse gyrase; Provisional	99.52
COG1202	830	Superfamily II helicase, archaea-specific [General	99.5
PRK09694	878	helicase Cas3; Provisional	99.47
COG1061	442	SSL2 DNA or RNA helicases of superfamily II [Trans	99.46
KOG0353|consensus	695		99.43
TIGR00595	505	priA primosomal protein N'. All proteins in this f	99.41
PRK12904	830	preprotein translocase subunit SecA; Reviewed	99.38
PRK11448	1123	hsdR type I restriction enzyme EcoKI subunit R; Pr	99.37
KOG0329|consensus	387		99.36
PRK05580	679	primosome assembly protein PriA; Validated	99.36
COG0556	663	UvrB Helicase subunit of the DNA excision repair c	99.35
COG1200	677	RecG RecG-like helicase [DNA replication, recombin	99.33
KOG0953|consensus	700		99.32
PRK13104	896	secA preprotein translocase subunit SecA; Reviewed	99.31
PRK13107	908	preprotein translocase subunit SecA; Reviewed	99.31
COG1204	766	Superfamily II helicase [General function predicti	99.22
COG1197	1139	Mfd Transcription-repair coupling factor (superfam	99.18
COG1205	851	Distinct helicase family with a unique C-terminal	99.17
KOG4150|consensus	1034		99.17
COG4098	441	comFA Superfamily II DNA/RNA helicase required for	99.13
KOG0950|consensus	1008		99.08
KOG0390|consensus	776		98.95
COG1203	733	CRISPR-associated helicase Cas3 [Defense mechanism	98.95
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	98.94
KOG0384|consensus	1373		98.9
KOG0922|consensus	674		98.84
KOG0947|consensus	1248		98.83
KOG0385|consensus	971		98.83
KOG0387|consensus	923		98.79
KOG0951|consensus	1674		98.78
KOG0392|consensus	1549		98.74
PRK12903	925	secA preprotein translocase subunit SecA; Reviewed	98.7
KOG0923|consensus	902		98.68
KOG0952|consensus	1230		98.66
COG0553	866	HepA Superfamily II DNA/RNA helicases, SNF2 family	98.62
KOG0924|consensus	1042		98.56
COG1110	1187	Reverse gyrase [DNA replication, recombination, an	98.52
KOG0920|consensus	924		98.51
KOG0948|consensus	1041		98.51
PRK12326	764	preprotein translocase subunit SecA; Reviewed	98.5
COG4096	875	HsdR Type I site-specific restriction-modification	98.39
PRK12899	970	secA preprotein translocase subunit SecA; Reviewed	98.37
KOG1002|consensus	791		98.35
TIGR01407	850	dinG_rel DnaQ family exonuclease/DinG family helic	98.34
COG1198	730	PriA Primosomal protein N' (replication factor Y)	98.31
KOG1000|consensus	689		98.3
KOG0388|consensus	1185		98.27
TIGR00348	667	hsdR type I site-specific deoxyribonuclease, HsdR	98.26
COG4581	1041	Superfamily II RNA helicase [DNA replication, reco	98.21
PRK12901	1112	secA preprotein translocase subunit SecA; Reviewed	98.21
KOG0389|consensus	941		98.19
KOG0391|consensus	1958		98.17
PF13307	167	Helicase_C_2: Helicase C-terminal domain; PDB: 4A1	98.14
PRK13103	913	secA preprotein translocase subunit SecA; Reviewed	98.13
KOG1123|consensus	776		98.08
KOG0949|consensus	1330		98.07
KOG0926|consensus	1172		98.02
CHL00122	870	secA preprotein translocase subunit SecA; Validate	97.89
KOG0386|consensus	1157		97.88
PF06862	442	DUF1253: Protein of unknown function (DUF1253); In	97.84
COG4889	1518	Predicted helicase [General function prediction on	97.79
KOG1015|consensus	1567		97.72
PRK08074	928	bifunctional ATP-dependent DNA helicase/DNA polyme	97.7
KOG4439|consensus	901		97.59
COG1199	654	DinG Rad3-related DNA helicases [Transcription / D	97.58
PF13871	278	Helicase_C_4: Helicase_C-like	97.53
PRK07246	820	bifunctional ATP-dependent DNA helicase/DNA polyme	97.51
PRK11747	697	dinG ATP-dependent DNA helicase DinG; Provisional	97.44
PRK12902	939	secA preprotein translocase subunit SecA; Reviewed	97.38
TIGR00596	814	rad1 DNA repair protein (rad1). This family is bas	97.22
smart00492	141	HELICc3 helicase superfamily c-terminal domain.	97.15
KOG0925|consensus	699		97.15
TIGR00604	705	rad3 DNA repair helicase (rad3). All proteins in t	96.97
smart00491	142	HELICc2 helicase superfamily c-terminal domain.	96.95
PRK10917	681	ATP-dependent DNA helicase RecG; Provisional	96.62
KOG1016|consensus	1387		96.53
TIGR02562	1110	cas3_yersinia CRISPR-associated helicase Cas3. The	96.52
TIGR03117	636	cas_csf4 CRISPR-associated DEAD/DEAH-box helicase	96.49
TIGR00643	630	recG ATP-dependent DNA helicase RecG.	96.22
PRK05580	679	primosome assembly protein PriA; Validated	96.16
COG0653	822	SecA Preprotein translocase subunit SecA (ATPase,	96.15
PF13959	65	DUF4217: Domain of unknown function (DUF4217)	96.01
TIGR00580	926	mfd transcription-repair coupling factor (mfd). Al	95.93
TIGR00595	505	priA primosomal protein N'. All proteins in this f	95.83
KOG1001|consensus	674		95.81
KOG0701|consensus	1606		95.71
PRK10689	1147	transcription-repair coupling factor; Provisional	95.32
COG0513	513	SrmB Superfamily II DNA and RNA helicases [DNA rep	95.24
KOG1513|consensus	1300		95.0
KOG0339|consensus	731		94.99
COG1110	1187	Reverse gyrase [DNA replication, recombination, an	94.82
KOG2340|consensus	698		94.71
PRK14873	665	primosome assembly protein PriA; Provisional	94.57
KOG0331|consensus	519		94.55
PRK14701	1638	reverse gyrase; Provisional	94.37
COG1200	677	RecG RecG-like helicase [DNA replication, recombin	94.25
PF10593	239	Z1: Z1 domain; InterPro: IPR018310 This entry repr	94.09
PRK14873	665	primosome assembly protein PriA; Provisional	93.74
PRK11776	460	ATP-dependent RNA helicase DbpA; Provisional	93.72
KOG0951|consensus	1674		93.59
TIGR01054	1171	rgy reverse gyrase. Generally, these gyrases are e	93.39
KOG0347|consensus	731		93.39
TIGR00614	470	recQ_fam ATP-dependent DNA helicase, RecQ family.	92.93
cd00268	203	DEADc DEAD-box helicases. A diverse family of prot	92.66
PF02399	824	Herpes_ori_bp: Origin of replication binding prote	92.6
PRK11634	629	ATP-dependent RNA helicase DeaD; Provisional	92.4
PRK10590	456	ATP-dependent RNA helicase RhlE; Provisional	91.94
PRK04537	572	ATP-dependent RNA helicase RhlB; Provisional	91.72
TIGR01389	591	recQ ATP-dependent DNA helicase RecQ. The ATP-depe	91.57
PRK11192	434	ATP-dependent RNA helicase SrmB; Provisional	91.53
COG1198	730	PriA Primosomal protein N' (replication factor Y)	91.28
PRK04837	423	ATP-dependent RNA helicase RhlB; Provisional	90.14
PTZ00110	545	helicase; Provisional	89.92
COG1197	1139	Mfd Transcription-repair coupling factor (superfam	89.17
KOG0921|consensus	1282		88.51
PRK11057	607	ATP-dependent DNA helicase RecQ; Provisional	88.49
PRK01297	475	ATP-dependent RNA helicase RhlB; Provisional	88.05
PRK09401	1176	reverse gyrase; Reviewed	87.45
PLN03137	1195	ATP-dependent DNA helicase; Q4-like; Provisional	87.13
KOG0334|consensus	997		84.94
PF00270	169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	83.87
KOG0335|consensus	482		83.41
COG1111	542	MPH1 ERCC4-like helicases [DNA replication, recomb	83.41
KOG0298|consensus	1394		83.19
cd01524	90	RHOD_Pyr_redox Member of the Rhodanese Homology Do	82.83
KOG0330|consensus	476		80.98

>KOG0337|consensus

Probab=100.00  E-value=1.2e-41  Score=299.37  Aligned_cols=239  Identities=45%  Similarity=0.689  Sum_probs=220.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      +++|||+|+++|+++...|+..|+.+..++|.|+++.|...+.+|+.++..+||.||+++||+|+|..+.|||||+|.++
T Consensus       263 ~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG~diplldnvinyd~p~~~  342 (529)
T KOG0337|consen  263 QTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGLDIPLLDNVINYDFPPDD  342 (529)
T ss_pred             ceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCCccceEEEehhhhccCCCccccccccccCCCCC
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccCCccccccccccccccCCCcchhhHHHHHHHHHH
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVE  160 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (251)
                      ..|+||+||++|+|+.|++|+++.+.+.+++.++..++|+++.....+..-.. ....+++..|+...+...+...++++
T Consensus       343 klFvhRVgr~aragrtg~aYs~V~~~~~~yl~DL~lflgr~~~~~~~~~e~d~-~~t~vigr~P~~~v~~~~~~~q~~~~  421 (529)
T KOG0337|consen  343 KLFVHRVGRVARAGRTGRAYSLVASTDDPYLLDLQLFLGRPLIFAISHFEYDC-DDTTVIGRSPQSLVSLESEGHQSILE  421 (529)
T ss_pred             ceEEEEecchhhccccceEEEEEecccchhhhhhhhhcCCceeeccchhhhcc-ccceeeccCcHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999987765433222 22247899999999999999999999


Q ss_pred             hhHhhHHHHHHhHHHHHHHHhcCCCCchhhhhhhhccccccccccccccccCc-cHHHHHHHHHHhcCCCCCCceeeeec
Q psy18034        161 LDADMEGIQKTCNNAYKKYVKSRPGASVESVKKVKELELATMQVHPLFRNIGS-AEQEKFNLLTKMSEYRPPSTVLEFGK  239 (251)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~y~~~r~~~~~~~i~r~k~l~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~tv~e~~~  239 (251)
                      .+.+++.+.+.+.++.+.|.+++|+++++|++|+|+++..+ +.|+.+..-.+ +|.++.+++.++++||+.+||||+++
T Consensus       422 ~~~el~~l~~~a~ka~~~y~rtr~~~s~es~kR~ke~~~~~-g~~~~~~~~~e~~e~e~~~~~~kik~~r~~~tiFe~~~  500 (529)
T KOG0337|consen  422 SNRELQVLARTADKAEMLYTRTRPSPSPESLKRAKEMISSK-GLHPRFKSFGENEEKEKLDILYKIKNYRSRETIFEINK  500 (529)
T ss_pred             hhHHHHHHHHHHHHHHHHhhccCCCCCHHHHHHHHhhhccc-CCCcccccccchhhHHhhHHHHHHhhcccchhhhhhhh
Confidence            99999999999999999999999999999999999997776 77888876443 57888999999999999999999997


Q ss_pred             cc
Q psy18034        240 AR  241 (251)
Q Consensus       240 ~~  241 (251)
                      +.
T Consensus       501 ~~  502 (529)
T KOG0337|consen  501 SD  502 (529)
T ss_pred             hH
Confidence            64

>KOG0345|consensus

Probab=100.00  E-value=1.3e-33  Score=251.63  Aligned_cols=185  Identities=28%  Similarity=0.349  Sum_probs=153.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~   78 (251)
                      |+|||++||..+++++..|...  ...+..+||.|.+.+|..++++|++....+|+|||+++||||+|++++||+||+|.
T Consensus       257 K~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl~~TDVaARGlDip~iD~VvQ~DpP~  336 (567)
T KOG0345|consen  257 KCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRKLSNGVLFCTDVAARGLDIPGIDLVVQFDPPK  336 (567)
T ss_pred             cEEEEecCcchHHHHHHHHHHHhCCCcEEEecchhcchhHHHHHHHHHhccCceEEeehhhhccCCCCCceEEEecCCCC
Confidence            6899999999999999999877  67899999999999999999999998999999999999999999999999999999


Q ss_pred             ChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhC-CCCeeccCCccccccccccccccCCCcchhhHHHHHHH
Q psy18034         79 KAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLG-RKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMN  157 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (251)
                      +++.|+||+|||||+|+.|.+++|+.+.|..|+.-+ +.-+ ..+....                .+.. .+.....+.+
T Consensus       337 ~~~~FvHR~GRTaR~gr~G~Aivfl~p~E~aYveFl-~i~~~v~le~~~----------------~e~~-~~~~~~~ir~  398 (567)
T KOG0345|consen  337 DPSSFVHRCGRTARAGREGNAIVFLNPREEAYVEFL-RIKGKVELERID----------------TEKA-SLSVYQDIRS  398 (567)
T ss_pred             ChhHHHhhcchhhhccCccceEEEecccHHHHHHHH-HhcCccchhhhc----------------cccc-chhHHHHHHH
Confidence            999999999999999999999999999888777433 2222 1111111                0111 0113444555


Q ss_pred             HHHhhHhhHHHHHHhHHHHHHHHhcCCCCchhhhhhhhccccccccccc
Q psy18034        158 WVELDADMEGIQKTCNNAYKKYVKSRPGASVESVKKVKELELATMQVHP  206 (251)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~y~~~r~~~~~~~i~r~k~l~~~~~~~~~  206 (251)
                      |..++   ++.++...+|+++|.|+|.+|.+.+|++.|+||+.+++...
T Consensus       399 ~~~~D---R~~~dkG~kAFVS~VraY~~H~cs~Ifr~kdLd~~~lA~~Y  444 (567)
T KOG0345|consen  399 IISKD---RAVLDKGLKAFVSHVRAYKKHHCSYIFRLKDLDLGKLATLY  444 (567)
T ss_pred             Hhccc---HHHHhhhHHHHHHHHHHHhhcceeEEEeecCCcHHHHHHHH
Confidence            55444   46888999999999999999999999999999999886443

>KOG0328|consensus

Probab=100.00  E-value=2.6e-33  Score=236.36  Aligned_cols=127  Identities=34%  Similarity=0.562  Sum_probs=124.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |++|||||+..+++|.+.++..++.+.++||+|++++|..++.+||.|+.+||++||+.+||+|+|.|+.|||||+|.+.
T Consensus       268 QavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~SrvLitTDVwaRGiDv~qVslviNYDLP~nr  347 (400)
T KOG0328|consen  268 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTDVWARGIDVQQVSLVINYDLPNNR  347 (400)
T ss_pred             eEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCceEEEEechhhccCCcceeEEEEecCCCccH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~  127 (251)
                      +.|+||+||.||.|++|.++.|+..+++..+.+++++++..+.++|.
T Consensus       348 e~YIHRIGRSGRFGRkGvainFVk~~d~~~lrdieq~yst~i~emp~  394 (400)
T KOG0328|consen  348 ELYIHRIGRSGRFGRKGVAINFVKSDDLRILRDIEQYYSTQIDEMPM  394 (400)
T ss_pred             HHHhhhhccccccCCcceEEEEecHHHHHHHHHHHHHHhhhcccccc
Confidence            99999999999999999999999999999999999999999988874

>KOG0342|consensus

Probab=100.00  E-value=1.9e-32  Score=245.28  Aligned_cols=179  Identities=29%  Similarity=0.419  Sum_probs=153.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+|+..+.+++++|+...++|..+||+++|..|..+..+|++.+..|||||||+|||+|+|+|+|||+||+|.++
T Consensus       332 KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~cTDVaARGlD~P~V~~VvQ~~~P~d~  411 (543)
T KOG0342|consen  332 KIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTDVAARGLDIPDVDWVVQYDPPSDP  411 (543)
T ss_pred             eEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhcccceEEecchhhccCCCCCceEEEEeCCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccCCccccccccccccccCCCcchhhHHHHHHHHHH
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMNWVE  160 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  160 (251)
                      ..|+||+|||||.|..|.+++++.+.|++++..+.   ..++..++                +|..-.++-.....++..
T Consensus       412 ~~YIHRvGRTaR~gk~G~alL~l~p~El~Flr~LK---~lpl~~~e----------------~~~~~~~~v~~~~~~li~  472 (543)
T KOG0342|consen  412 EQYIHRVGRTAREGKEGKALLLLAPWELGFLRYLK---KLPLEEFE----------------FPPLKPEDVQSQLEKLIS  472 (543)
T ss_pred             HHHHHHhccccccCCCceEEEEeChhHHHHHHHHh---hCCCcccC----------------CCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999998887   34444443                222323333444445554


Q ss_pred             hhHhhHHHHHHhHHHHHHHHhcCCCCchhhhhhhhcccccc
Q psy18034        161 LDADMEGIQKTCNNAYKKYVKSRPGASVESVKKVKELELAT  201 (251)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~y~~~r~~~~~~~i~r~k~l~~~~  201 (251)
                      ++.   ...+.+-.+|++|...|.+++...++.+..+++..
T Consensus       473 ~~y---~~~~aak~ay~syl~~y~s~slk~~~~~~~l~La~  510 (543)
T KOG0342|consen  473 KNY---SLKEAAKEAYKSYLGAYNSHSLKDIFNVNLLELAA  510 (543)
T ss_pred             HHh---hHHHHHHHHHHhhhhhccchhhhcccccchhhHHH
Confidence            443   35677889999999999999999988876666653

>KOG0330|consensus

Probab=99.97  E-value=9.5e-32  Score=235.12  Aligned_cols=125  Identities=35%  Similarity=0.544  Sum_probs=122.0

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCChh
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAK   81 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~   81 (251)
                      +||||+|+.+++.++-.|+..|+.+..+||.|++..|...+++|++|..+||||||+++||+|+|.|++|||||+|.+..
T Consensus       303 ~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~TDVaSRGLDip~Vd~VVNyDiP~~sk  382 (476)
T KOG0330|consen  303 VIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTDVASRGLDIPHVDVVVNYDIPTHSK  382 (476)
T ss_pred             EEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhccCCcEEEecchhcccCCCCCceEEEecCCCCcHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeecc
Q psy18034         82 LFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        82 ~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~  126 (251)
                      .|+||+||+||+|++|.++++++..|+..+..|+..++.+....+
T Consensus       383 DYIHRvGRtaRaGrsG~~ItlVtqyDve~~qrIE~~~gkkl~~~~  427 (476)
T KOG0330|consen  383 DYIHRVGRTARAGRSGKAITLVTQYDVELVQRIEHALGKKLPEYK  427 (476)
T ss_pred             HHHHHcccccccCCCcceEEEEehhhhHHHHHHHHHHhcCCCccC
Confidence            999999999999999999999999999999999999999886654

>KOG0331|consensus

Probab=99.97  E-value=1.7e-31  Score=245.08  Aligned_cols=125  Identities=35%  Similarity=0.544  Sum_probs=117.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+|+..|+.|...|+..++++.++||+.+|.+|..+++.|++|++.||||||+|+||||+|+|++|||||+|.++
T Consensus       343 KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdVAaRGLDi~dV~lVInydfP~~v  422 (519)
T KOG0331|consen  343 KVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDVAARGLDVPDVDLVINYDFPNNV  422 (519)
T ss_pred             cEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhcccCCcceEEEcccccccCCCccccEEEeCCCCCCH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeec
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLA  125 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~  125 (251)
                      +.|+||+|||||+|+.|.+++|++..+......+...+...-+..
T Consensus       423 EdYVHRiGRTGRa~~~G~A~tfft~~~~~~a~~l~~~l~e~~q~v  467 (519)
T KOG0331|consen  423 EDYVHRIGRTGRAGKKGTAITFFTSDNAKLARELIKVLREAGQTV  467 (519)
T ss_pred             HHHHhhcCccccCCCCceEEEEEeHHHHHHHHHHHHHHHHccCCC
Confidence            999999999999999999999999999888888777765444333

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

Probab=99.97  E-value=1.2e-30  Score=244.89  Aligned_cols=123  Identities=41%  Similarity=0.602  Sum_probs=119.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+..|+.|+..|...|+.+..+||+|+|.+|.+.++.|++|+.+||||||+++||||+|++++|||||+|.++
T Consensus       275 ~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaTDvaaRGiDi~~v~~VinyD~p~~~  354 (513)
T COG0513         275 RVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGLDIPDVSHVINYDLPLDP  354 (513)
T ss_pred             eEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEechhhccCCccccceeEEccCCCCH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCc-cHHHHHHHHHHhCCCCe
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSD-ELCYYLDLLLFLGRKPV  123 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~-e~~~~~~i~~~l~~~~~  123 (251)
                      +.|+||+|||||+|+.|.+++|+++. |...+..++..++..++
T Consensus       355 e~yvHRiGRTgRaG~~G~ai~fv~~~~e~~~l~~ie~~~~~~~~  398 (513)
T COG0513         355 EDYVHRIGRTGRAGRKGVAISFVTEEEEVKKLKRIEKRLERKLP  398 (513)
T ss_pred             HHheeccCccccCCCCCeEEEEeCcHHHHHHHHHHHHHHhcccc
Confidence            99999999999999999999999986 99999999999877754

>KOG0340|consensus

Probab=99.97  E-value=4.5e-30  Score=222.42  Aligned_cols=126  Identities=29%  Similarity=0.499  Sum_probs=123.1

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCChh
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAK   81 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~   81 (251)
                      ++||++|+.+|+.|+..|+..++.+.++||.|+|.+|...+.+|+.+..+|||||||++||+|||.|+.|||||+|.+|.
T Consensus       257 imIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaTDVAsRGLDIP~V~LVvN~diPr~P~  336 (442)
T KOG0340|consen  257 IMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNAARILIATDVASRGLDIPTVELVVNHDIPRDPK  336 (442)
T ss_pred             EEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcCccEEEEechhhcCCCCCceeEEEecCCCCCHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccC
Q psy18034         82 LFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        82 ~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~  127 (251)
                      .|+||+||++|+|+.|.+++++++.+...+..|+...|.++.+.+.
T Consensus       337 ~yiHRvGRtARAGR~G~aiSivt~rDv~l~~aiE~~igkKl~e~~~  382 (442)
T KOG0340|consen  337 DYIHRVGRTARAGRKGMAISIVTQRDVELLQAIEEEIGKKLTEYNK  382 (442)
T ss_pred             HHHHhhcchhcccCCcceEEEechhhHHHHHHHHHHHhcccccccc
Confidence            9999999999999999999999999999999999999999987763

>KOG0333|consensus

Probab=99.96  E-value=2.5e-29  Score=226.84  Aligned_cols=119  Identities=36%  Similarity=0.546  Sum_probs=113.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      .+|||+|++..|+.|++.|.+.|+.|..+||+-+|++|+..++.|+.|..+||||||+++||||+|+|++|||||++.+.
T Consensus       519 piIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~fr~~t~dIlVaTDvAgRGIDIpnVSlVinydmaksi  598 (673)
T KOG0333|consen  519 PIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQRENALADFREGTGDILVATDVAGRGIDIPNVSLVINYDMAKSI  598 (673)
T ss_pred             CEEEEEechhhHHHHHHHHhhccceEEEeeCCccHHHHHHHHHHHHhcCCCEEEEecccccCCCCCccceeeecchhhhH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLG  119 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~  119 (251)
                      ..|.||+|||||+|+.|.+++|+++.+-.-+.+|...+.
T Consensus       599 eDYtHRIGRTgRAGk~GtaiSflt~~dt~v~ydLkq~l~  637 (673)
T KOG0333|consen  599 EDYTHRIGRTGRAGKSGTAISFLTPADTAVFYDLKQALR  637 (673)
T ss_pred             HHHHHHhccccccccCceeEEEeccchhHHHHHHHHHHH
Confidence            999999999999999999999999998776666666554

>PRK04837 ATP-dependent RNA helicase RhlB; Provisional

Probab=99.96  E-value=4e-29  Score=230.08  Aligned_cols=126  Identities=30%  Similarity=0.493  Sum_probs=120.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+|+..|+.+++.|...|+.+..+||+|++.+|..++++|++|+++||||||+++||+|+|++++|||||+|.++
T Consensus       257 ~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~g~~~vLVaTdv~~rGiDip~v~~VI~~d~P~s~  336 (423)
T PRK04837        257 RAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDVAARGLHIPAVTHVFNYDLPDDC  336 (423)
T ss_pred             eEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHcCCCcEEEEechhhcCCCccccCEEEEeCCCCch
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeecc
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~  126 (251)
                      ..|+||+||+||+|+.|.+++|+++++...+..++.+++..++..+
T Consensus       337 ~~yiqR~GR~gR~G~~G~ai~~~~~~~~~~~~~i~~~~~~~~~~~~  382 (423)
T PRK04837        337 EDYVHRIGRTGRAGASGHSISLACEEYALNLPAIETYIGHSIPVSK  382 (423)
T ss_pred             hheEeccccccCCCCCeeEEEEeCHHHHHHHHHHHHHhCCCCCCcc
Confidence            9999999999999999999999999999999999999888775443

>KOG0326|consensus

Probab=99.96  E-value=3.5e-29  Score=214.49  Aligned_cols=127  Identities=31%  Similarity=0.505  Sum_probs=124.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+|||||+...+|.+++.+.+.|+.|.++|+.|.|+.|..++..|++|.++.|||||.+.||+|++.+++|||||+|.++
T Consensus       324 QsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL~TRGIDiqavNvVINFDfpk~a  403 (459)
T KOG0326|consen  324 QSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGIDIQAVNVVINFDFPKNA  403 (459)
T ss_pred             ceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhccccceeeehhhhhcccccceeeEEEecCCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~  127 (251)
                      ++|+||+||+||.|..|.++.+++-++...+..++..+|..+.++|+
T Consensus       404 EtYLHRIGRsGRFGhlGlAInLityedrf~L~~IE~eLGtEI~pip~  450 (459)
T KOG0326|consen  404 ETYLHRIGRSGRFGHLGLAINLITYEDRFNLYRIEQELGTEIKPIPS  450 (459)
T ss_pred             HHHHHHccCCccCCCcceEEEEEehhhhhhHHHHHHHhccccccCCC
Confidence            99999999999999999999999999999999999999999998874

>KOG0348|consensus

Probab=99.95  E-value=6.2e-28  Score=218.24  Aligned_cols=194  Identities=22%  Similarity=0.297  Sum_probs=150.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----------------------CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----------------------GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV   58 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----------------------~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~   58 (251)
                      |+|||+++++.|++-+..|...                      +.+...+||+|+|++|..++..|+...-.||+||||
T Consensus       427 k~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~~~~~VLLcTDV  506 (708)
T KOG0348|consen  427 KMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRRAVLLCTDV  506 (708)
T ss_pred             eeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHHHHHHHhhccccceEEEehhh
Confidence            6899999999999999988653                      345778999999999999999999999999999999


Q ss_pred             cccccccccccEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccCCcccccccccc
Q psy18034         59 AARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSMKGKIRHQDG  138 (251)
Q Consensus        59 ~~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~  138 (251)
                      ++||+|+|+|++||+||+|.++..|+||+|||+|+|.+|.+++|+.|.|..|+..+...... +...+.         ..
T Consensus       507 AaRGLDlP~V~~vVQYd~P~s~adylHRvGRTARaG~kG~alLfL~P~Eaey~~~l~~~~~~-l~q~~~---------~~  576 (708)
T KOG0348|consen  507 AARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKGEALLFLLPSEAEYVNYLKKHHIM-LLQFDM---------EI  576 (708)
T ss_pred             hhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCCceEEEecccHHHHHHHHHhhcch-hhccch---------hh
Confidence            99999999999999999999999999999999999999999999999999988776655333 222221         11


Q ss_pred             ccccCC----CcchhhHHHHHHHHHHh----hHhhHHHHHHhHHHHHHHHhcCCCCc--hhhhhhhhccccccccc
Q psy18034        139 MFGKIP----QGLMEDQISEIMNWVEL----DADMEGIQKTCNNAYKKYVKSRPGAS--VESVKKVKELELATMQV  204 (251)
Q Consensus       139 ~~~~~~----~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~y~~~r~~~~--~~~i~r~k~l~~~~~~~  204 (251)
                      ++..++    +....++.+....|..+    -.+.+.+...+.+++.+|++.|..+.  .++||.++.+.++.++-
T Consensus       577 ~l~~~~~~~~k~~~~e~~~~at~~q~~~e~~~~~~~~~~~~a~kaf~S~vr~Yath~~elk~iFnvr~lHlGH~AK  652 (708)
T KOG0348|consen  577 LLPAFKPRKDKAKTKEWQERATTLQLNLERLVVGDEAMKNLAKKAFVSWVRAYATHPSELKSIFNVRFLHLGHVAK  652 (708)
T ss_pred             hhhhcCcccccccchhhhhhHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHhhChhhhccceehhhhhhhHHHH
Confidence            111111    11112233333333222    12335678889999999999999885  67799998887776643

>KOG0332|consensus

Probab=99.95  E-value=3.1e-28  Score=212.18  Aligned_cols=126  Identities=29%  Similarity=0.498  Sum_probs=117.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC---
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP---   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P---   77 (251)
                      ++||||.|++++.+|+..|.+.|..+.++||+|.-.+|..+++.|+.|+.+|||+|++++||+|++.|+.|||||+|   
T Consensus       332 qsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTnV~ARGiDv~qVs~VvNydlP~~~  411 (477)
T KOG0332|consen  332 QSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTNVCARGIDVAQVSVVVNYDLPVKY  411 (477)
T ss_pred             heEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCcceEEEEechhhcccccceEEEEEecCCcccc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999   


Q ss_pred             ---CChhhHHHHhhhcccCCCCceEEEEecC-ccHHHHHHHHHHhCCCCeecc
Q psy18034         78 ---CKAKLFVHRVGRCARAGRSGVAYSLVSS-DELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        78 ---~~~~~y~qr~GR~gR~g~~g~~i~l~~~-~e~~~~~~i~~~l~~~~~~~~  126 (251)
                         .++++|+||+||+||+|+.|.++.|+.. +....+..|+.+.+.++....
T Consensus       412 ~~~pD~etYlHRiGRtGRFGkkG~a~n~v~~~~s~~~mn~iq~~F~~~i~~~~  464 (477)
T KOG0332|consen  412 TGEPDYETYLHRIGRTGRFGKKGLAINLVDDKDSMNIMNKIQKHFNMKIKRLD  464 (477)
T ss_pred             CCCCCHHHHHHHhcccccccccceEEEeecccCcHHHHHHHHHHHhhcceecC
Confidence               5799999999999999999999999975 456677789999887776655

>KOG0343|consensus

Probab=99.95  E-value=5.5e-28  Score=219.26  Aligned_cols=181  Identities=23%  Similarity=0.299  Sum_probs=145.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~   78 (251)
                      |+|||++||..|.++++.++..  |+++.++||.|.|..|.+++.+|-..+..||.|||+++||+|+|.|+|||++|+|.
T Consensus       315 K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~~~~vLF~TDv~aRGLDFpaVdwViQ~DCPe  394 (758)
T KOG0343|consen  315 KSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRKRAVVLFCTDVAARGLDFPAVDWVIQVDCPE  394 (758)
T ss_pred             ceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHHHHHHHHHHhcceEEEeehhhhccCCCcccceEEEecCch
Confidence            6899999999999999999988  89999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHhhhcccCCCCceEEEEecCccHHH-HHHHHHHhCCCCeeccCCccccccccccccccCCCcchhhHHHHHHH
Q psy18034         79 KAKLFVHRVGRCARAGRSGVAYSLVSSDELCY-YLDLLLFLGRKPVLADDSMKGKIRHQDGMFGKIPQGLMEDQISEIMN  157 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~-~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (251)
                      ++++|+||+||++|.+..|.++++++|.|..+ +..++.. ++++....                +.+..+.+....+..
T Consensus       395 dv~tYIHRvGRtAR~~~~G~sll~L~psEeE~~l~~Lq~k-~I~i~~i~----------------i~~~k~~~i~~~l~~  457 (758)
T KOG0343|consen  395 DVDTYIHRVGRTARYKERGESLLMLTPSEEEAMLKKLQKK-KIPIKEIK----------------IDPEKLTSIRNKLEA  457 (758)
T ss_pred             hHHHHHHHhhhhhcccCCCceEEEEcchhHHHHHHHHHHc-CCCHHhhc----------------cCHHHhhhHHHHHHH
Confidence            99999999999999999999999999998554 4444443 35444332                112223333445566


Q ss_pred             HHHhhHhhHHHHHHhHHHHHHHHhcCCCCchhhhhhhhcccccc
Q psy18034        158 WVELDADMEGIQKTCNNAYKKYVKSRPGASVESVKKVKELELAT  201 (251)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~y~~~r~~~~~~~i~r~k~l~~~~  201 (251)
                      ++.++.+   +...+.+++.+|.|+.-....+.++.+..+++..
T Consensus       458 ll~~~~e---Lk~~aqka~isY~rsi~~~rdK~~f~~~~l~~~a  498 (758)
T KOG0343|consen  458 LLAKDPE---LKEYAQKAFISYLRSIYLMRDKRVFDVEKLDIEA  498 (758)
T ss_pred             HHhhCHH---HHHHHHHHHHHHHHHHHhhccchhhcchhccHHH
Confidence            6666655   4455678888998887766666677665555443

>PRK11776 ATP-dependent RNA helicase DbpA; Provisional

Probab=99.95  E-value=8.8e-28  Score=223.35  Aligned_cols=126  Identities=39%  Similarity=0.545  Sum_probs=121.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+..++.+++.|...|+.+..+||+|++.+|..+++.|++|+.+||||||+++||+|+|++++|||||+|.++
T Consensus       244 ~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaTdv~~rGiDi~~v~~VI~~d~p~~~  323 (460)
T PRK11776        244 SCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVINYELARDP  323 (460)
T ss_pred             ceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEecccccccchhcCCeEEEecCCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeecc
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~  126 (251)
                      ..|+||+||+||+|+.|.+++|+.+.|...+..++..++..+...+
T Consensus       324 ~~yiqR~GRtGR~g~~G~ai~l~~~~e~~~~~~i~~~~~~~~~~~~  369 (460)
T PRK11776        324 EVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAIEDYLGRKLNWEP  369 (460)
T ss_pred             hHhhhhcccccCCCCcceEEEEEchhHHHHHHHHHHHhCCCCceec
Confidence            9999999999999999999999999999999999999998776544

>PRK10590 ATP-dependent RNA helicase RhlE; Provisional

Probab=99.95  E-value=9.8e-28  Score=222.82  Aligned_cols=125  Identities=39%  Similarity=0.528  Sum_probs=120.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+..++.+++.|...|+.+..+||+|++.+|..++++|++|+++||||||+++||+|+|++++|||||+|.++
T Consensus       247 ~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaTdv~~rGiDip~v~~VI~~~~P~~~  326 (456)
T PRK10590        247 QVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNYELPNVP  326 (456)
T ss_pred             cEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEccHHhcCCCcccCCEEEEeCCCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeec
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLA  125 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~  125 (251)
                      ..|+||+||+||+|..|.+++|++.+|...+..++..++.+++..
T Consensus       327 ~~yvqR~GRaGR~g~~G~ai~l~~~~d~~~~~~ie~~l~~~~~~~  371 (456)
T PRK10590        327 EDYVHRIGRTGRAAATGEALSLVCVDEHKLLRDIEKLLKKEIPRI  371 (456)
T ss_pred             HHhhhhccccccCCCCeeEEEEecHHHHHHHHHHHHHhcCCCccc
Confidence            999999999999999999999999999999999999998877433

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional

Probab=99.95  E-value=1.9e-27  Score=227.59  Aligned_cols=129  Identities=28%  Similarity=0.465  Sum_probs=123.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+.+++.|++.|...|+.+..+||+|++.+|..++++|++|+.+||||||++++|+|+|++++|||||+|.++
T Consensus       247 ~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVATdv~arGIDip~V~~VI~~d~P~~~  326 (629)
T PRK11634        247 AAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYDIPMDS  326 (629)
T ss_pred             CEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEcchHhcCCCcccCCEEEEeCCCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccCCc
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSM  129 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~~~  129 (251)
                      ..|+||+|||||+|+.|.+++|+.+.|...+..++..++..++..+.+.
T Consensus       327 e~yvqRiGRtGRaGr~G~ai~~v~~~e~~~l~~ie~~~~~~i~~~~~p~  375 (629)
T PRK11634        327 ESYVHRIGRTGRAGRAGRALLFVENRERRLLRNIERTMKLTIPEVELPN  375 (629)
T ss_pred             HHHHHHhccccCCCCcceEEEEechHHHHHHHHHHHHhCCCcceecCCc
Confidence            9999999999999999999999999999999999999999887766543

>PTZ00110 helicase; Provisional

Probab=99.95  E-value=1.3e-27  Score=226.09  Aligned_cols=120  Identities=33%  Similarity=0.589  Sum_probs=115.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+..|+.++..|+..|+.+..+||+|++.+|..++++|++|+.+||||||+++||+|+|+|++|||||+|.++
T Consensus       379 k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~G~~~ILVaTdv~~rGIDi~~v~~VI~~d~P~s~  458 (545)
T PTZ00110        379 KILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRGLDVKDVKYVINFDFPNQI  458 (545)
T ss_pred             eEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhcCCCcEEEEcchhhcCCCcccCCEEEEeCCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR  120 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~  120 (251)
                      ..|+||+||+||+|+.|.+++|+++++.....++...+..
T Consensus       459 ~~yvqRiGRtGR~G~~G~ai~~~~~~~~~~~~~l~~~l~~  498 (545)
T PTZ00110        459 EDYVHRIGRTGRAGAKGASYTFLTPDKYRLARDLVKVLRE  498 (545)
T ss_pred             HHHHHHhcccccCCCCceEEEEECcchHHHHHHHHHHHHH
Confidence            9999999999999999999999999998888888777554

>PRK04537 ATP-dependent RNA helicase RhlB; Provisional

Probab=99.95  E-value=2.5e-27  Score=225.17  Aligned_cols=126  Identities=34%  Similarity=0.496  Sum_probs=121.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+..++.+++.|...|+.+..+||+|++.+|..+++.|++|+.+||||||++++|||+|++++|||||+|+++
T Consensus       259 k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTdv~arGIDip~V~~VInyd~P~s~  338 (572)
T PRK04537        259 RTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGLHIDGVKYVYNYDLPFDA  338 (572)
T ss_pred             cEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEehhhhcCCCccCCCEEEEcCCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeecc
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~  126 (251)
                      ..|+||+||+||.|..|.+++|+++.+...+.+++.+++.++...+
T Consensus       339 ~~yvqRiGRaGR~G~~G~ai~~~~~~~~~~l~~i~~~~~~~~~~~~  384 (572)
T PRK04537        339 EDYVHRIGRTARLGEEGDAISFACERYAMSLPDIEAYIEQKIPVEP  384 (572)
T ss_pred             HHHhhhhcccccCCCCceEEEEecHHHHHHHHHHHHHHcCCCCccc
Confidence            9999999999999999999999999999999999999988775443

>PRK11192 ATP-dependent RNA helicase SrmB; Provisional

Probab=99.95  E-value=2.7e-27  Score=218.52  Aligned_cols=124  Identities=34%  Similarity=0.546  Sum_probs=119.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+++++.+++.|+..|+.+..+||+|++.+|..+++.|++|+++||||||++++|+|+|++++|||||+|.+.
T Consensus       247 ~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaTd~~~~GiDip~v~~VI~~d~p~s~  326 (434)
T PRK11192        247 RSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVINFDMPRSA  326 (434)
T ss_pred             eEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEccccccCccCCCCCEEEEECCCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCee
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVL  124 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~  124 (251)
                      ..|+||+||+||+|..|.+++++...+...+..+++++..++..
T Consensus       327 ~~yiqr~GR~gR~g~~g~ai~l~~~~d~~~~~~i~~~~~~~~~~  370 (434)
T PRK11192        327 DTYLHRIGRTGRAGRKGTAISLVEAHDHLLLGKIERYIEEPLKA  370 (434)
T ss_pred             HHHhhcccccccCCCCceEEEEecHHHHHHHHHHHHHHhccccc
Confidence            99999999999999999999999999999999999988876643

>PRK01297 ATP-dependent RNA helicase RhlB; Provisional

Probab=99.94  E-value=1e-26  Score=217.04  Aligned_cols=123  Identities=37%  Similarity=0.560  Sum_probs=119.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+++.+++.+++.|...|+.+..+||+|++++|.++++.|++|++++|||||++++|+|+|++++||+||+|.++
T Consensus       337 ~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT~~l~~GIDi~~v~~VI~~~~P~s~  416 (475)
T PRK01297        337 RVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFTLPEDP  416 (475)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEccccccCCcccCCCEEEEeCCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCe
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPV  123 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~  123 (251)
                      ..|+||+||+||.|+.|.+++|+..+|..++..++..++.++.
T Consensus       417 ~~y~Qr~GRaGR~g~~g~~i~~~~~~d~~~~~~~~~~~~~~~~  459 (475)
T PRK01297        417 DDYVHRIGRTGRAGASGVSISFAGEDDAFQLPEIEELLGRKIS  459 (475)
T ss_pred             HHHHHhhCccCCCCCCceEEEEecHHHHHHHHHHHHHhCCCCc
Confidence            9999999999999999999999999999999999999998874

>KOG0338|consensus

Probab=99.94  E-value=1.5e-26  Score=208.31  Aligned_cols=117  Identities=36%  Similarity=0.578  Sum_probs=113.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++|||+.|+..|..+.-+|--.|+.+.-+||+++|.+|.+.++.|+++++++|||||+++||+||++|..||||++|.+.
T Consensus       428 ~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsRGLDI~gV~tVINy~mP~t~  507 (691)
T KOG0338|consen  428 RTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASRGLDIEGVQTVINYAMPKTI  507 (691)
T ss_pred             ceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhccCCEEEEechhhccCCccceeEEEeccCchhH
Confidence            58999999999999999999899999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHH
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLF  117 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~  117 (251)
                      +.|+||+|||+|+|+.|.+++|+...+...++.+-..
T Consensus       508 e~Y~HRVGRTARAGRaGrsVtlvgE~dRkllK~iik~  544 (691)
T KOG0338|consen  508 EHYLHRVGRTARAGRAGRSVTLVGESDRKLLKEIIKS  544 (691)
T ss_pred             HHHHHHhhhhhhcccCcceEEEeccccHHHHHHHHhh
Confidence            9999999999999999999999999999999887654

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

Probab=99.94  E-value=9.9e-27  Score=219.10  Aligned_cols=120  Identities=24%  Similarity=0.491  Sum_probs=113.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHh-CCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGL-AGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCK   79 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~-~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~   79 (251)
                      ++||||+|+..++.++..|.. .|+.+..+||+|++.+|..++++|++|+.+||||||+++||+|+|++++|||||+|.+
T Consensus       369 ~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G~~~ILVaTdvl~rGiDip~v~~VI~~d~P~s  448 (518)
T PLN00206        369 PAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGRGVDLLRVRQVIIFDMPNT  448 (518)
T ss_pred             CEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCCCCCEEEEecHhhccCCcccCCEEEEeCCCCC
Confidence            589999999999999999975 5899999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCC
Q psy18034         80 AKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR  120 (251)
Q Consensus        80 ~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~  120 (251)
                      +..|+||+||+||.|..|.+++|+++++...+.++...+..
T Consensus       449 ~~~yihRiGRaGR~g~~G~ai~f~~~~~~~~~~~l~~~l~~  489 (518)
T PLN00206        449 IKEYIHQIGRASRMGEKGTAIVFVNEEDRNLFPELVALLKS  489 (518)
T ss_pred             HHHHHHhccccccCCCCeEEEEEEchhHHHHHHHHHHHHHH
Confidence            99999999999999999999999999988888888776654

>KOG0336|consensus

Probab=99.94  E-value=3.4e-27  Score=207.92  Aligned_cols=120  Identities=33%  Similarity=0.647  Sum_probs=114.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||..+..++.|+.-|.-.|+.+-++||+-+|.+|+..++.|+.|+++|||+||+++||+|+|+++||+|||+|.++
T Consensus       467 KvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG~vrILvaTDlaSRGlDv~DiTHV~NyDFP~nI  546 (629)
T KOG0336|consen  467 KVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGEVRILVATDLASRGLDVPDITHVYNYDFPRNI  546 (629)
T ss_pred             eEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHHhhhcCceEEEEEechhhcCCCchhcceeeccCCCccH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR  120 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~  120 (251)
                      +.|+||+||+||+|+.|.+++|++-++.....++...|.+
T Consensus       547 eeYVHRvGrtGRaGr~G~sis~lt~~D~~~a~eLI~ILe~  586 (629)
T KOG0336|consen  547 EEYVHRVGRTGRAGRTGTSISFLTRNDWSMAEELIQILER  586 (629)
T ss_pred             HHHHHHhcccccCCCCcceEEEEehhhHHHHHHHHHHHHH
Confidence            9999999999999999999999999998888877766544

>PTZ00424 helicase 45; Provisional

Probab=99.94  E-value=1.8e-26  Score=210.62  Aligned_cols=126  Identities=29%  Similarity=0.553  Sum_probs=121.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+.+++.+++.|...++.+..+||+|++.+|..++++|++|+++|||||+++++|+|+|++++||+||+|.+.
T Consensus       269 ~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~~l~~GiDip~v~~VI~~~~p~s~  348 (401)
T PTZ00424        269 QAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLPASP  348 (401)
T ss_pred             eEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEcccccCCcCcccCCEEEEECCCCCH
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeecc
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~  126 (251)
                      ..|+||+||+||.|+.|.|++++++++...+..++..++..++..+
T Consensus       349 ~~y~qr~GRagR~g~~G~~i~l~~~~~~~~~~~~e~~~~~~~~~~~  394 (401)
T PTZ00424        349 ENYIHRIGRSGRFGRKGVAINFVTPDDIEQLKEIERHYNTQIEEMP  394 (401)
T ss_pred             HHEeecccccccCCCCceEEEEEcHHHHHHHHHHHHHHCCcccccC
Confidence            9999999999999999999999999999999999999988777655

>KOG0347|consensus

Probab=99.93  E-value=2e-26  Score=209.03  Aligned_cols=123  Identities=33%  Similarity=0.457  Sum_probs=118.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++|||||+.+.+..|+-+|...+++...+|+.|.|.+|...+++|++....||||||||+||+|||+|.|||||.+|.+.
T Consensus       465 rTlVF~NsId~vKRLt~~L~~L~i~p~~LHA~M~QKqRLknLEkF~~~~~~VLiaTDVAARGLDIp~V~HVIHYqVPrts  544 (731)
T KOG0347|consen  465 RTLVFCNSIDCVKRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFKQSPSGVLIATDVAARGLDIPGVQHVIHYQVPRTS  544 (731)
T ss_pred             ceEEEechHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHhHHHHhcCCCeEEEeehhhhccCCCCCcceEEEeecCCcc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCe
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPV  123 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~  123 (251)
                      +.|+||.|||+|++..|..+.++.|.|...+..+...+.+...
T Consensus       545 eiYVHRSGRTARA~~~Gvsvml~~P~e~~~~~KL~ktL~k~~d  587 (731)
T KOG0347|consen  545 EIYVHRSGRTARANSEGVSVMLCGPQEVGPLKKLCKTLKKKED  587 (731)
T ss_pred             ceeEecccccccccCCCeEEEEeChHHhHHHHHHHHHHhhccC
Confidence            9999999999999999999999999999999999988876543

>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family

Probab=99.93  E-value=1.4e-25  Score=209.13  Aligned_cols=115  Identities=24%  Similarity=0.363  Sum_probs=110.5

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCChh
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAK   81 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~   81 (251)
                      +||||+|+++++.+++.|+..|+.+..+||+|++.+|..+++.|++|+++|||||+++++|+|+|++++|||||+|.++.
T Consensus       229 ~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~g~~~vLVaT~~~~~GID~p~V~~VI~~~~P~s~~  308 (470)
T TIGR00614       229 GIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSME  308 (470)
T ss_pred             eEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHcCCCcEEEEechhhccCCcccceEEEEeCCCCCHH
Confidence            59999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHhhhcccCCCCceEEEEecCccHHHHHHHHH
Q psy18034         82 LFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLL  116 (251)
Q Consensus        82 ~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~  116 (251)
                      .|+||+||+||.|..|.+++++++.+...+..+..
T Consensus       309 ~y~Qr~GRaGR~G~~~~~~~~~~~~d~~~~~~~~~  343 (470)
T TIGR00614       309 SYYQESGRAGRDGLPSECHLFYAPADINRLRRLLM  343 (470)
T ss_pred             HHHhhhcCcCCCCCCceEEEEechhHHHHHHHHHh
Confidence            99999999999999999999999998887766543

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

>KOG0335|consensus

Probab=99.93  E-value=8.3e-26  Score=204.78  Aligned_cols=119  Identities=35%  Similarity=0.528  Sum_probs=112.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      +++|||.|+..++.|...|...++++..+||.-++.+|.+.++.|+.|+..+||||++++||+|+|+|++|||||+|.+.
T Consensus       339 ~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg~~tq~er~~al~~Fr~g~~pvlVaT~VaaRGlDi~~V~hVInyDmP~d~  418 (482)
T KOG0335|consen  339 KTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIEREQALNDFRNGKAPVLVATNVAARGLDIPNVKHVINYDMPADI  418 (482)
T ss_pred             eEEEEeeccchhhHHHHHHhcCCCCceeecchhhhhHHHHHHHHhhcCCcceEEEehhhhcCCCCCCCceeEEeecCcch
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLG  119 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~  119 (251)
                      ..|+||+|||||.|+.|.+++|++.........+.+.+.
T Consensus       419 d~YvHRIGRTGR~Gn~G~atsf~n~~~~~i~~~L~~~l~  457 (482)
T KOG0335|consen  419 DDYVHRIGRTGRVGNGGRATSFFNEKNQNIAKALVEILT  457 (482)
T ss_pred             hhHHHhccccccCCCCceeEEEeccccchhHHHHHHHHH
Confidence            999999999999999999999999776666666665543

>KOG0327|consensus

Probab=99.93  E-value=1.2e-25  Score=196.79  Aligned_cols=127  Identities=30%  Similarity=0.545  Sum_probs=124.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      +.+|||||+..++.+...|...++.+.++||.|++.+|..++..|+.|..++||+||.++||+|+..++.|||||+|.+.
T Consensus       265 q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~gssrvlIttdl~argidv~~~slvinydlP~~~  344 (397)
T KOG0327|consen  265 QAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDLLARGIDVQQVSLVVNYDLPARK  344 (397)
T ss_pred             cceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcCCceEEeeccccccccchhhcceeeeeccccch
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~  127 (251)
                      +.|+||+||+||.|++|.++.+++.++...+.+++++++.++.++|.
T Consensus       345 ~~yihR~gr~gr~grkg~~in~v~~~d~~~lk~ie~~y~~~i~e~p~  391 (397)
T KOG0327|consen  345 ENYIHRIGRAGRFGRKGVAINFVTEEDVRDLKDIEKFYNTPIEELPS  391 (397)
T ss_pred             hhhhhhcccccccCCCceeeeeehHhhHHHHHhHHHhcCCcceeccc
Confidence            99999999999999999999999999999999999999999998884

>PRK11057 ATP-dependent DNA helicase RecQ; Provisional

Probab=99.92  E-value=5.9e-25  Score=210.51  Aligned_cols=114  Identities=20%  Similarity=0.349  Sum_probs=108.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+++++.+++.|+..|+.+..+||+|++++|..+++.|+.|+.+|||||+++++|+|+|+|++|||||+|.+.
T Consensus       238 ~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~a~~~GIDip~V~~VI~~d~P~s~  317 (607)
T PRK11057        238 SGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNI  317 (607)
T ss_pred             CEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCCCCCEEEEechhhccCCCCCcCEEEEeCCCCCH
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHH
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDL  114 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i  114 (251)
                      +.|+||+||+||.|..|.+++|+++.+...+..+
T Consensus       318 ~~y~Qr~GRaGR~G~~~~~ill~~~~d~~~~~~~  351 (607)
T PRK11057        318 ESYYQETGRAGRDGLPAEAMLFYDPADMAWLRRC  351 (607)
T ss_pred             HHHHHHhhhccCCCCCceEEEEeCHHHHHHHHHH
Confidence            9999999999999999999999998887665543

>KOG0341|consensus

Probab=99.92  E-value=2.4e-25  Score=195.20  Aligned_cols=118  Identities=36%  Similarity=0.636  Sum_probs=109.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      .++|||..+..++.++++|--.|+.++.+||+-+|++|...++.|+.|+.+||||||+++.|+|+|++.+|||||+|..+
T Consensus       423 pVLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~ai~afr~gkKDVLVATDVASKGLDFp~iqHVINyDMP~eI  502 (610)
T KOG0341|consen  423 PVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEAFRAGKKDVLVATDVASKGLDFPDIQHVINYDMPEEI  502 (610)
T ss_pred             ceEEEeccccChHHHHHHHHHccceeEEeecCcchhHHHHHHHHHhcCCCceEEEecchhccCCCccchhhccCCChHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCc-cHHHHHHHHHHh
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSD-ELCYYLDLLLFL  118 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~-e~~~~~~i~~~l  118 (251)
                      +.|+||+||+||.|+.|.+.+|+++. +...+.++...+
T Consensus       503 ENYVHRIGRTGRsg~~GiATTfINK~~~esvLlDLK~LL  541 (610)
T KOG0341|consen  503 ENYVHRIGRTGRSGKTGIATTFINKNQEESVLLDLKHLL  541 (610)
T ss_pred             HHHHHHhcccCCCCCcceeeeeecccchHHHHHHHHHHH
Confidence            99999999999999999999999864 445555554443

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

Probab=99.92  E-value=5.1e-25  Score=216.69  Aligned_cols=115  Identities=17%  Similarity=0.320  Sum_probs=109.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||.|+..++.+++.|+..|+.+..+||+|++.+|..++++|+.|+++|||||+++++|||+|+|++|||||+|.++
T Consensus       682 sgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F~~Gei~VLVATdAFGMGIDkPDVR~VIHydlPkSi  761 (1195)
T PLN03137        682 CGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSI  761 (1195)
T ss_pred             CceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHHhcCCCcEEEEechhhcCCCccCCcEEEEcCCCCCH
Confidence            36999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHH
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLL  115 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~  115 (251)
                      +.|+||+|||||.|..|.|++|++..+...+..+.
T Consensus       762 EsYyQriGRAGRDG~~g~cILlys~~D~~~~~~lI  796 (1195)
T PLN03137        762 EGYHQECGRAGRDGQRSSCVLYYSYSDYIRVKHMI  796 (1195)
T ss_pred             HHHHhhhcccCCCCCCceEEEEecHHHHHHHHHHH
Confidence            99999999999999999999999887766555443

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

Probab=99.92  E-value=1.1e-24  Score=212.34  Aligned_cols=125  Identities=18%  Similarity=0.231  Sum_probs=114.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC--------CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA--------GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~--------~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI   72 (251)
                      |+||||+|+..++.++..|+..        +..+..+||+|++++|..+.++|++|++++|||||++++|||+|++++||
T Consensus       273 ~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~G~i~vLVaTd~lerGIDI~~vd~VI  352 (742)
T TIGR03817       273 RTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRDGELLGVATTNALELGVDISGLDAVV  352 (742)
T ss_pred             CEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHcCCceEEEECchHhccCCcccccEEE
Confidence            6899999999999999998764        56788999999999999999999999999999999999999999999999


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEec--CccHHHHHHHHHHhCCCCeec
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVS--SDELCYYLDLLLFLGRKPVLA  125 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~--~~e~~~~~~i~~~l~~~~~~~  125 (251)
                      |||+|.+..+|+||+||+||.|+.|.+++++.  +.+..++..++.+++.+++..
T Consensus       353 ~~~~P~s~~~y~qRiGRaGR~G~~g~ai~v~~~~~~d~~~~~~~~~~~~~~~e~~  407 (742)
T TIGR03817       353 IAGFPGTRASLWQQAGRAGRRGQGALVVLVARDDPLDTYLVHHPEALFDRPVEAT  407 (742)
T ss_pred             EeCCCCCHHHHHHhccccCCCCCCcEEEEEeCCChHHHHHHhCHHHHhcCCCccc
Confidence            99999999999999999999999999999986  456667777888888776543

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.

>KOG0344|consensus

Probab=99.91  E-value=3.1e-24  Score=196.32  Aligned_cols=117  Identities=31%  Similarity=0.524  Sum_probs=111.4

Q ss_pred             EEEEcCcHHHHHHHHHHH-HhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          2 TVVFTATKYHVEYVHKIL-GLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L-~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||+.+.+.+.+|+..| .-.++.+.++||+.++.+|...+++||.|++++|||||+++||+|+.+++.|||||+|.+.
T Consensus       390 ~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTdll~RGiDf~gvn~VInyD~p~s~  469 (593)
T KOG0344|consen  390 VLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMERFRIGKIWVLICTDLLARGIDFKGVNLVINYDFPQSD  469 (593)
T ss_pred             eEEEEecHHHHHHHHHHhhhccCcceeeEecccchhHHHHHHHHHhccCeeEEEehhhhhccccccCcceEEecCCCchh
Confidence            689999999999999999 5668999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHh
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFL  118 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l  118 (251)
                      -+|+||+||+||+|+.|.||+|++..+.+++..+...+
T Consensus       470 ~syihrIGRtgRag~~g~Aitfytd~d~~~ir~iae~~  507 (593)
T KOG0344|consen  470 LSYIHRIGRTGRAGRSGKAITFYTDQDMPRIRSIAEVM  507 (593)
T ss_pred             HHHHHHhhccCCCCCCcceEEEeccccchhhhhHHHHH
Confidence            99999999999999999999999999988887766543

>PRK04914 ATP-dependent helicase HepA; Validated

Probab=99.91  E-value=1.3e-23  Score=207.28  Aligned_cols=126  Identities=17%  Similarity=0.211  Sum_probs=112.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHH-hCCCcEEEEcCCCCHHHHHHHHHHHhcC--CceEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILG-LAGISSTYIYSDLDPTARKINAAKFQTG--KIRVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~-~~~~~~~~i~g~~~~~~r~~~~~~F~~g--~~~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |+||||+++.+++.+.+.|+ ..|+.+..+||+|++.+|.++++.|+++  ..+|||||+++++|+|++.+++|||||+|
T Consensus       495 KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~VLIsTdvgseGlNlq~a~~VInfDlP  574 (956)
T PRK04914        495 KVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDGAQVLLCSEIGSEGRNFQFASHLVLFDLP  574 (956)
T ss_pred             eEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCCCCccEEEechhhccCCCcccccEEEEecCC
Confidence            68999999999999999994 5699999999999999999999999985  69999999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeecc
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~  126 (251)
                      |||..|+||+||+||.|+++.+..++...+-.....+...+..++..++
T Consensus       575 ~nP~~~eQRIGR~~RiGQ~~~V~i~~~~~~~t~~e~i~~~~~~~l~ife  623 (956)
T PRK04914        575 FNPDLLEQRIGRLDRIGQKHDIQIHVPYLEGTAQERLFRWYHEGLNAFE  623 (956)
T ss_pred             CCHHHHHHHhcccccCCCCceEEEEEccCCCCHHHHHHHHHhhhcCcee
Confidence            9999999999999999999987777665555556667777777665444

>TIGR01389 recQ ATP-dependent DNA helicase RecQ

Probab=99.90  E-value=1.6e-23  Score=200.33  Aligned_cols=114  Identities=25%  Similarity=0.395  Sum_probs=108.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+..++.+++.|...|+.+..+||+|++++|..+++.|+.|+.+|||||+++++|+|+|++++||+||+|.+.
T Consensus       226 ~~IIf~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g~~~vlVaT~a~~~GID~p~v~~VI~~~~p~s~  305 (591)
T TIGR01389       226 SGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHYDMPGNL  305 (591)
T ss_pred             CEEEEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEechhhccCcCCCCCEEEEcCCCCCH
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHH
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDL  114 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i  114 (251)
                      +.|.||+||+||.|..|.+++++.+.+...+..+
T Consensus       306 ~~y~Q~~GRaGR~G~~~~~il~~~~~d~~~~~~~  339 (591)
T TIGR01389       306 ESYYQEAGRAGRDGLPAEAILLYSPADIALLKRR  339 (591)
T ss_pred             HHHhhhhccccCCCCCceEEEecCHHHHHHHHHH
Confidence            9999999999999999999999988776655443

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.

>KOG0350|consensus

Probab=99.90  E-value=1.1e-23  Score=189.56  Aligned_cols=120  Identities=33%  Similarity=0.484  Sum_probs=112.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHH----hCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecC
Q psy18034          1 MTVVFTATKYHVEYVHKILG----LAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNF   76 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~----~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~   76 (251)
                      ++|+|+++...+..++..|+    ..++.+.++.|++....|...+++|+.|++++|||||+++||+|+-++++|||||+
T Consensus       431 r~lcf~~S~~sa~Rl~~~L~v~~~~~~~~~s~~t~~l~~k~r~k~l~~f~~g~i~vLIcSD~laRGiDv~~v~~VINYd~  510 (620)
T KOG0350|consen  431 RTLCFVNSVSSANRLAHVLKVEFCSDNFKVSEFTGQLNGKRRYKMLEKFAKGDINVLICSDALARGIDVNDVDNVINYDP  510 (620)
T ss_pred             eEEEEecchHHHHHHHHHHHHHhccccchhhhhhhhhhHHHHHHHHHHHhcCCceEEEehhhhhcCCcccccceEeecCC
Confidence            58999999999999999987    23677888999999999999999999999999999999999999999999999999


Q ss_pred             CCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCC
Q psy18034         77 PCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR  120 (251)
Q Consensus        77 P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~  120 (251)
                      |.+..+|+||+|||||+|+.|.|++++..++...+.++....+.
T Consensus       511 P~~~ktyVHR~GRTARAgq~G~a~tll~~~~~r~F~klL~~~~~  554 (620)
T KOG0350|consen  511 PASDKTYVHRAGRTARAGQDGYAITLLDKHEKRLFSKLLKKTNL  554 (620)
T ss_pred             CchhhHHHHhhcccccccCCceEEEeeccccchHHHHHHHHhcc
Confidence            99999999999999999999999999999999988888776654

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

Probab=99.88  E-value=4.5e-22  Score=185.99  Aligned_cols=114  Identities=26%  Similarity=0.415  Sum_probs=108.9

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCChh
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAK   81 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~   81 (251)
                      .||||.|+..++.+++.|...|+.+..+||+|+.++|..+.++|..++..|+|||.++++|||-|+|++|||||+|.|.+
T Consensus       233 GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~~~~~iiVAT~AFGMGIdKpdVRfViH~~lP~s~E  312 (590)
T COG0514         233 GIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVRFVIHYDLPGSIE  312 (590)
T ss_pred             eEEEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhcCCCcEEEEeccccCccCCCCceEEEEecCCCCHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHhhhcccCCCCceEEEEecCccHHHHHHHH
Q psy18034         82 LFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLL  115 (251)
Q Consensus        82 ~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~  115 (251)
                      .|.|-+||+||.|.+..|++|+.+.+......+.
T Consensus       313 sYyQE~GRAGRDG~~a~aill~~~~D~~~~~~~i  346 (590)
T COG0514         313 SYYQETGRAGRDGLPAEAILLYSPEDIRWQRYLI  346 (590)
T ss_pred             HHHHHHhhccCCCCcceEEEeeccccHHHHHHHH
Confidence            9999999999999999999999998866554443

>KOG0346|consensus

Probab=99.88  E-value=1.1e-22  Score=180.78  Aligned_cols=120  Identities=30%  Similarity=0.434  Sum_probs=112.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc----------------------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV----------------------   58 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~----------------------   58 (251)
                      |+|||+||.+.+..|.-.|+..|++.+.+.|.||...|..++++|..|..+++||||.                      
T Consensus       270 KsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~YdivIAtD~s~~~~~~eee~kgk~~e~~~kn  349 (569)
T KOG0346|consen  270 KSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGLYDIVIATDDSADGDKLEEEVKGKSDEKNPKN  349 (569)
T ss_pred             ceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCcceeEEEEccCccchhhhhccccccccccCCCC
Confidence            6899999999999999999999999999999999999999999999999999999992                      


Q ss_pred             -------------cccccccccccEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCC
Q psy18034         59 -------------AARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR  120 (251)
Q Consensus        59 -------------~~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~  120 (251)
                                   .+||||+.+|.+|+|||+|.++..|+||+|||||+|++|.+++|+.+.|..-...++..+.-
T Consensus       350 dkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRTaRg~n~GtalSfv~P~e~~g~~~le~~~~d  424 (569)
T KOG0346|consen  350 DKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRTARGNNKGTALSFVSPKEEFGKESLESILKD  424 (569)
T ss_pred             ccccccccCchhchhccccchheeeeeecCCCCchHHHHHhccccccCCCCCceEEEecchHHhhhhHHHHHHhh
Confidence                         34999999999999999999999999999999999999999999999988866777766544

>KOG0349|consensus

Probab=99.88  E-value=1.1e-21  Score=174.40  Aligned_cols=133  Identities=32%  Similarity=0.490  Sum_probs=122.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC---CcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG---ISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~---~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |+||||.|+..|+.|.+.++..|   +.|.++||+..+.+|.+.++.|+.+.++.|||||+++||+|+..+..+||..+|
T Consensus       507 kaiifcrtk~dcDnLer~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk~dvkflictdvaargldi~g~p~~invtlp  586 (725)
T KOG0349|consen  507 KAIIFCRTKQDCDNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKKFDVKFLICTDVAARGLDITGLPFMINVTLP  586 (725)
T ss_pred             ceEEEEeccccchHHHHHHHHcCCccceeEEEecCCChhHHHHHHHhhhhcCeEEEEEehhhhccccccCCceEEEEecC
Confidence            68999999999999999999884   689999999999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCceEEEEecC--------------------------------ccHHHHHHHHHHhCCCCeec
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVAYSLVSS--------------------------------DELCYYLDLLLFLGRKPVLA  125 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~i~l~~~--------------------------------~e~~~~~~i~~~l~~~~~~~  125 (251)
                      .+...|+||+||+||+.+.|.+|+++..                                +|-..+.+++..++..++..
T Consensus       587 d~k~nyvhrigrvgraermglaislvat~~ekvwyh~c~srgr~c~nt~l~e~~gc~iwyne~~llaeve~hln~ti~qv  666 (725)
T KOG0349|consen  587 DDKTNYVHRIGRVGRAERMGLAISLVATVPEKVWYHWCKSRGRSCNNTNLTEVRGCCIWYNEPNLLAEVEDHLNITIQQV  666 (725)
T ss_pred             cccchhhhhhhccchhhhcceeEEEeeccchheeehhhhccCCcccCCccccccceEEEeCchhHHHHHHHhhcceeeee
Confidence            9999999999999999999999999852                                45667889999999999888


Q ss_pred             cCCccccc
Q psy18034        126 DDSMKGKI  133 (251)
Q Consensus       126 ~~~~~~~~  133 (251)
                      ++.+...+
T Consensus       667 ~~~~~vpv  674 (725)
T KOG0349|consen  667 DKTMDVPV  674 (725)
T ss_pred             CCCCCCcc
Confidence            76655443

>KOG0339|consensus

Probab=99.86  E-value=7.7e-22  Score=178.02  Aligned_cols=118  Identities=37%  Similarity=0.584  Sum_probs=112.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++|||+.-+..++.++..|...|+.|..+||+|+|.+|.+++.+|+.+...|||+||+++||+|+|++..|||||+-.++
T Consensus       470 kvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKkk~~~VlvatDvaargldI~~ikTVvnyD~ardI  549 (731)
T KOG0339|consen  470 KVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATDVAARGLDIPSIKTVVNYDFARDI  549 (731)
T ss_pred             cEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHHHhhcCCceEEEeeHhhcCCCccccceeecccccchh
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHh
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFL  118 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l  118 (251)
                      +.|.||+||+||+|.+|.+++++++.+..+.-.|...|
T Consensus       550 dththrigrtgRag~kGvayTlvTeKDa~fAG~LVnnL  587 (731)
T KOG0339|consen  550 DTHTHRIGRTGRAGEKGVAYTLVTEKDAEFAGHLVNNL  587 (731)
T ss_pred             HHHHHHhhhcccccccceeeEEechhhHHHhhHHHHHH
Confidence            99999999999999999999999998887766665544

>KOG4284|consensus

Probab=99.86  E-value=9.4e-22  Score=181.59  Aligned_cols=108  Identities=28%  Similarity=0.511  Sum_probs=104.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+....|+-++.+|...|++|.++.|.|.|.+|..+++++++-.++|||+||+.+||||-|+++.|||.|.|.+-
T Consensus       274 QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~~rILVsTDLtaRGIDa~~vNLVVNiD~p~d~  353 (980)
T KOG4284|consen  274 QALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFRVRILVSTDLTARGIDADNVNLVVNIDAPADE  353 (980)
T ss_pred             HHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhhceEEEEEecchhhccCCccccceEEecCCCcch
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccH
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDEL  108 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~  108 (251)
                      .+|.||+||+||+|..|.+++++...+.
T Consensus       354 eTY~HRIGRAgRFG~~G~aVT~~~~~~e  381 (980)
T KOG4284|consen  354 ETYFHRIGRAGRFGAHGAAVTLLEDERE  381 (980)
T ss_pred             HHHHHHhhhcccccccceeEEEeccchh
Confidence            9999999999999999999999876543

>KOG0334|consensus

Probab=99.86  E-value=1.7e-21  Score=188.16  Aligned_cols=118  Identities=35%  Similarity=0.567  Sum_probs=115.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||..+..|+.+.+.|.+.|+.|..+||+-++.+|..+++.|+++.+++||||++++||+|++.+..|||||+|...
T Consensus       615 ~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~~~~~LLvaTsvvarGLdv~~l~Lvvnyd~pnh~  694 (997)
T KOG0334|consen  615 KTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNGVVNLLVATSVVARGLDVKELILVVNYDFPNHY  694 (997)
T ss_pred             CEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHhccCceEEEehhhhhcccccccceEEEEcccchhH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHh
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFL  118 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l  118 (251)
                      ..|+||+|||||+|++|.|++|+.+++..+.-+|..++
T Consensus       695 edyvhR~gRTgragrkg~AvtFi~p~q~~~a~dl~~al  732 (997)
T KOG0334|consen  695 EDYVHRVGRTGRAGRKGAAVTFITPDQLKYAGDLCKAL  732 (997)
T ss_pred             HHHHHHhcccccCCccceeEEEeChHHhhhHHHHHHHH
Confidence            99999999999999999999999999999999998888

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

Probab=99.85  E-value=8.4e-21  Score=171.77  Aligned_cols=105  Identities=30%  Similarity=0.418  Sum_probs=97.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEE-EEc--------CCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISST-YIY--------SDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAV   71 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~-~i~--------g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~V   71 (251)
                      ++|||++++++++.+...|...|..+. .+-        .||+|.++.+++++|++|.+++||||+++.+|+|+|+++.|
T Consensus       368 RvIVFT~yRdTae~i~~~L~~~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~Ge~nVLVaTSVgEEGLDIp~vDlV  447 (542)
T COG1111         368 RVIVFTEYRDTAEEIVNFLKKIGIKARVRFIGQASREGDKGMSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLV  447 (542)
T ss_pred             eEEEEehhHhHHHHHHHHHHhcCCcceeEEeeccccccccccCHHHHHHHHHHHhcCCceEEEEcccccccCCCCcccEE
Confidence            589999999999999999999987774 333        37999999999999999999999999999999999999999


Q ss_pred             EEecCCCChhhHHHHhhhcccCCCCceEEEEecCc
Q psy18034         72 INYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSD  106 (251)
Q Consensus        72 I~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~  106 (251)
                      |.|++-.|+..++||.|||||. +.|.++++++.+
T Consensus       448 ifYEpvpSeIR~IQR~GRTGR~-r~Grv~vLvt~g  481 (542)
T COG1111         448 IFYEPVPSEIRSIQRKGRTGRK-RKGRVVVLVTEG  481 (542)
T ss_pred             EEecCCcHHHHHHHhhCccccC-CCCeEEEEEecC
Confidence            9999999999999999999995 899999999865

>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=99.85  E-value=4.5e-21  Score=135.58  Aligned_cols=78  Identities=37%  Similarity=0.658  Sum_probs=75.6

Q ss_pred             HHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCChhhHHHHhhhcccCC
Q psy18034         17 KILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAG   94 (251)
Q Consensus        17 ~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR~gR~g   94 (251)
                      +.|+..|+.+..+||+|++.+|..+++.|+.+...|||||+++++|+|+|.+++||++++||++..|.|++||++|.|
T Consensus         1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~g   78 (78)
T PF00271_consen    1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGEIRVLIATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRIG   78 (78)
T ss_dssp             HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTTT
T ss_pred             CChHHCCCcEEEEECCCCHHHHHHHHHHhhccCceEEEeeccccccccccccccccccccCCCHHHHHHHhhcCCCCC
Confidence            368889999999999999999999999999999999999999999999999999999999999999999999999986

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 ....

>PRK09200 preprotein translocase subunit SecA; Reviewed

Probab=99.84  E-value=1e-20  Score=183.05  Aligned_cols=105  Identities=27%  Similarity=0.315  Sum_probs=98.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccccccccc---cccc-----EEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDI---PSLD-----AVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi---~~v~-----~VI   72 (251)
                      ++||||+|+..++.++..|...|+++..+||.+++.++..+..+++.|  +|+||||+++||+|+   |.|.     +||
T Consensus       430 pvLIf~~t~~~se~l~~~L~~~gi~~~~L~~~~~~~e~~~i~~ag~~g--~VlIATdmAgRG~DI~l~~~V~~~GGL~VI  507 (790)
T PRK09200        430 PVLIGTGSIEQSETFSKLLDEAGIPHNLLNAKNAAKEAQIIAEAGQKG--AVTVATNMAGRGTDIKLGEGVHELGGLAVI  507 (790)
T ss_pred             CEEEEeCcHHHHHHHHHHHHHCCCCEEEecCCccHHHHHHHHHcCCCC--eEEEEccchhcCcCCCcccccccccCcEEE
Confidence            489999999999999999999999999999999998888888887766  799999999999999   7998     999


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      |||+|.+.+.|.||+|||||.|.+|.+++|++.+|
T Consensus       508 ~~d~p~s~r~y~qr~GRtGR~G~~G~s~~~is~eD  542 (790)
T PRK09200        508 GTERMESRRVDLQLRGRSGRQGDPGSSQFFISLED  542 (790)
T ss_pred             eccCCCCHHHHHHhhccccCCCCCeeEEEEEcchH
Confidence            99999999999999999999999999999998755

>PRK05298 excinuclease ABC subunit B; Provisional

Probab=99.84  E-value=4.2e-20  Score=178.05  Aligned_cols=127  Identities=23%  Similarity=0.294  Sum_probs=116.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecC----
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNF----   76 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~----   76 (251)
                      ++||||+|+..++.+++.|...|+++..+||+|++.+|..+++.|+.|++.|||||+++++|+|+|++++||++|.    
T Consensus       448 ~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~g~i~vlV~t~~L~rGfdlp~v~lVii~d~eifG  527 (652)
T PRK05298        448 RVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDIPEVSLVAILDADKEG  527 (652)
T ss_pred             EEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHcCCceEEEEeCHHhCCccccCCcEEEEeCCcccc
Confidence            5899999999999999999999999999999999999999999999999999999999999999999999999885    


Q ss_pred             -CCChhhHHHHhhhcccCCCCceEEEEecC---------ccHHHHHHHHHHhCCCCeeccCC
Q psy18034         77 -PCKAKLFVHRVGRCARAGRSGVAYSLVSS---------DELCYYLDLLLFLGRKPVLADDS  128 (251)
Q Consensus        77 -P~~~~~y~qr~GR~gR~g~~g~~i~l~~~---------~e~~~~~~i~~~l~~~~~~~~~~  128 (251)
                       |.+...|+||+||+||. ..|.++++++.         .|....++++..++.+....|..
T Consensus       528 ~~~~~~~yiqr~GR~gR~-~~G~~i~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~  588 (652)
T PRK05298        528 FLRSERSLIQTIGRAARN-VNGKVILYADKITDSMQKAIDETERRREIQIAYNEEHGITPKT  588 (652)
T ss_pred             cCCCHHHHHHHhccccCC-CCCEEEEEecCCCHHHHHHHHHHHHHHHHHHHhhhccCCCChh
Confidence             78999999999999995 78999999984         56777788888888877766643

>PRK13767 ATP-dependent helicase; Provisional

Probab=99.84  E-value=2.6e-20  Score=184.83  Aligned_cols=103  Identities=25%  Similarity=0.296  Sum_probs=93.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC------CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEe
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA------GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINY   74 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~------~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~   74 (251)
                      ++||||+|+..|+.++..|+..      +..+.++||+|++++|..+.+.|++|+.++||||+++++|+|+|++++||+|
T Consensus       286 ~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls~~~R~~ve~~fk~G~i~vLVaTs~Le~GIDip~Vd~VI~~  365 (876)
T PRK13767        286 TTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLSREVRLEVEEKLKRGELKVVVSSTSLELGIDIGYIDLVVLL  365 (876)
T ss_pred             CEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCCHHHHHHHHHHHHcCCCeEEEECChHHhcCCCCCCcEEEEe
Confidence            5899999999999999999873      4679999999999999999999999999999999999999999999999999


Q ss_pred             cCCCChhhHHHHhhhcccC-CCCceEEEEe
Q psy18034         75 NFPCKAKLFVHRVGRCARA-GRSGVAYSLV  103 (251)
Q Consensus        75 d~P~~~~~y~qr~GR~gR~-g~~g~~i~l~  103 (251)
                      +.|.++..|+||+||+||. |..+.++.+.
T Consensus       366 ~~P~sv~~ylQRiGRaGR~~g~~~~g~ii~  395 (876)
T PRK13767        366 GSPKSVSRLLQRIGRAGHRLGEVSKGRIIV  395 (876)
T ss_pred             CCCCCHHHHHHhcccCCCCCCCCCcEEEEE
Confidence            9999999999999999986 4334444443

>PRK12898 secA preprotein translocase subunit SecA; Reviewed

Probab=99.84  E-value=1.5e-20  Score=178.64  Aligned_cols=105  Identities=25%  Similarity=0.302  Sum_probs=94.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccc---ccc-----EEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIP---SLD-----AVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~---~v~-----~VI   72 (251)
                      .+||||+|+..++.++..|...|+++..+||.++  +|+..+..|+.++..|+||||+++||+||+   +|.     +||
T Consensus       475 pvLIft~t~~~se~L~~~L~~~gi~~~~Lhg~~~--~rE~~ii~~ag~~g~VlVATdmAgRGtDI~l~~~V~~~GGLhVI  552 (656)
T PRK12898        475 PVLVGTRSVAASERLSALLREAGLPHQVLNAKQD--AEEAAIVARAGQRGRITVATNMAGRGTDIKLEPGVAARGGLHVI  552 (656)
T ss_pred             CEEEEeCcHHHHHHHHHHHHHCCCCEEEeeCCcH--HHHHHHHHHcCCCCcEEEEccchhcccCcCCccchhhcCCCEEE
Confidence            3799999999999999999999999999999865  455556666666778999999999999999   666     999


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      |||+|.+...|.||+|||||.|.+|.+++|++.+|
T Consensus       553 ~~d~P~s~r~y~hr~GRTGRqG~~G~s~~~is~eD  587 (656)
T PRK12898        553 LTERHDSARIDRQLAGRCGRQGDPGSYEAILSLED  587 (656)
T ss_pred             EcCCCCCHHHHHHhcccccCCCCCeEEEEEechhH
Confidence            99999999999999999999999999999999755

>TIGR00580 mfd transcription-repair coupling factor (mfd)

Probab=99.83  E-value=2.4e-20  Score=184.49  Aligned_cols=117  Identities=18%  Similarity=0.181  Sum_probs=105.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~   78 (251)
                      |++|||+++++++.+++.|+..  ++.+..+||+|++.+|..++++|++|+.+|||||+++++|+|+|++++||+++.|.
T Consensus       662 qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~iie~GIDIp~v~~VIi~~a~~  741 (926)
T TIGR00580       662 QVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNANTIIIERADK  741 (926)
T ss_pred             eEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECChhhcccccccCCEEEEecCCC
Confidence            5899999999999999999985  78999999999999999999999999999999999999999999999999999874


Q ss_pred             -ChhhHHHHhhhcccCCCCceEEEEecCc------cHHHHHHHHHH
Q psy18034         79 -KAKLFVHRVGRCARAGRSGVAYSLVSSD------ELCYYLDLLLF  117 (251)
Q Consensus        79 -~~~~y~qr~GR~gR~g~~g~~i~l~~~~------e~~~~~~i~~~  117 (251)
                       +...|.||+||+||.|+.|.|++++.+.      ....+..++.+
T Consensus       742 ~gls~l~Qr~GRvGR~g~~g~aill~~~~~~l~~~~~~RL~~~~~~  787 (926)
T TIGR00580       742 FGLAQLYQLRGRVGRSKKKAYAYLLYPHQKALTEDAQKRLEAIQEF  787 (926)
T ss_pred             CCHHHHHHHhcCCCCCCCCeEEEEEECCcccCCHHHHHHHHHHHHh
Confidence             6778999999999999999999998643      34455555554

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.

>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=99.83  E-value=2.8e-20  Score=142.96  Aligned_cols=101  Identities=35%  Similarity=0.601  Sum_probs=97.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||++...++.+++.|...+..+..+||++++.+|..+++.|+++...+|++|.++++|+|+|.+++||.++.||+.
T Consensus        30 ~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~ili~t~~~~~G~d~~~~~~vi~~~~~~~~  109 (131)
T cd00079          30 KVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATDVIARGIDLPNVSVVINYDLPWSP  109 (131)
T ss_pred             cEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCCCcEEEEcChhhcCcChhhCCEEEEeCCCCCH
Confidence            58999999999999999999988999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEE
Q psy18034         81 KLFVHRVGRCARAGRSGVAYS  101 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~  101 (251)
                      ..+.|++||++|.|+.|.++.
T Consensus       110 ~~~~Q~~GR~~R~~~~~~~~~  130 (131)
T cd00079         110 SSYLQRIGRAGRAGQKGTAIL  130 (131)
T ss_pred             HHheecccccccCCCCceEEe
Confidence            999999999999999888765

>TIGR00631 uvrb excinuclease ABC, B subunit

Probab=99.83  E-value=6.3e-20  Score=176.24  Aligned_cols=116  Identities=22%  Similarity=0.278  Sum_probs=109.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEec-----
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYN-----   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d-----   75 (251)
                      ++||||+|+..++.+++.|...|+.+..+||+|++.+|.++++.|+.|++.|||||+++++|+|+|++++|+++|     
T Consensus       444 ~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~G~i~VLV~t~~L~rGfDiP~v~lVvi~DadifG  523 (655)
T TIGR00631       444 RVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKEG  523 (655)
T ss_pred             EEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhcCCceEEEEcChhcCCeeeCCCcEEEEeCccccc
Confidence            589999999999999999999999999999999999999999999999999999999999999999999999999     


Q ss_pred             CCCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHH
Q psy18034         76 FPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLF  117 (251)
Q Consensus        76 ~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~  117 (251)
                      +|.+..+|+||+||+||. ..|.+++++...+......+...
T Consensus       524 ~p~~~~~~iqriGRagR~-~~G~vi~~~~~~~~~~~~ai~~~  564 (655)
T TIGR00631       524 FLRSERSLIQTIGRAARN-VNGKVIMYADKITDSMQKAIEET  564 (655)
T ss_pred             CCCCHHHHHHHhcCCCCC-CCCEEEEEEcCCCHHHHHHHHHH
Confidence            899999999999999997 68999999998777776666655

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

>PHA02653 RNA helicase NPH-II; Provisional

Probab=99.82  E-value=5.6e-20  Score=176.48  Aligned_cols=110  Identities=17%  Similarity=0.131  Sum_probs=97.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHH-hcCCceEEEeccccccccccccccEEEEec--
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKF-QTGKIRVLVVTDVAARGIDIPSLDAVINYN--   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F-~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d--   75 (251)
                      ++||||+++..++.+++.|+..  ++.+..+||+|++.  ++.+++| ++|+.+||||||+++||+|+|+|++||++|  
T Consensus       397 ~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~Lsq~--eq~l~~ff~~gk~kILVATdIAERGIDIp~V~~VID~G~~  474 (675)
T PHA02653        397 SGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGKVPNI--DEILEKVYSSKNPSIIISTPYLESSVTIRNATHVYDTGRV  474 (675)
T ss_pred             cEEEEECcHHHHHHHHHHHHhhcCCceEEeccCCcCHH--HHHHHHHhccCceeEEeccChhhccccccCeeEEEECCCc
Confidence            4899999999999999999987  78999999999975  5667887 789999999999999999999999999999  


Q ss_pred             -CCC---------ChhhHHHHhhhcccCCCCceEEEEecCccHHHHHH
Q psy18034         76 -FPC---------KAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLD  113 (251)
Q Consensus        76 -~P~---------~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~  113 (251)
                       .|.         |..+|+||+||+||. ++|.|+.|+++++...+..
T Consensus       475 k~p~~~~g~~~~iSkasa~QRaGRAGR~-~~G~c~rLyt~~~~~pI~r  521 (675)
T PHA02653        475 YVPEPFGGKEMFISKSMRTQRKGRVGRV-SPGTYVYFYDLDLLKPIKR  521 (675)
T ss_pred             cCCCcccCcccccCHHHHHHhccCcCCC-CCCeEEEEECHHHhHHHHH
Confidence             565         788999999999999 7999999999876543333

>PRK10689 transcription-repair coupling factor; Provisional

Probab=99.81  E-value=8.5e-20  Score=184.02  Aligned_cols=117  Identities=15%  Similarity=0.130  Sum_probs=100.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC-
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP-   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P-   77 (251)
                      |++|||+++..++.+++.|...  +..+.++||+|++.+|.+++.+|++|+.+|||||+++++|+|+|++++||..+.+ 
T Consensus       811 qv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTdIierGIDIP~v~~VIi~~ad~  890 (1147)
T PRK10689        811 QVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADH  890 (1147)
T ss_pred             eEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECchhhcccccccCCEEEEecCCC
Confidence            5899999999999999999987  7899999999999999999999999999999999999999999999999944332 


Q ss_pred             CChhhHHHHhhhcccCCCCceEEEEecCc------cHHHHHHHHHH
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVAYSLVSSD------ELCYYLDLLLF  117 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~i~l~~~~------e~~~~~~i~~~  117 (251)
                      .+...|+||+||+||.|+.|.|++++.+.      ....+..++.+
T Consensus       891 fglaq~~Qr~GRvGR~g~~g~a~ll~~~~~~~~~~~~~rl~~~~~~  936 (1147)
T PRK10689        891 FGLAQLHQLRGRVGRSHHQAYAWLLTPHPKAMTTDAQKRLEAIASL  936 (1147)
T ss_pred             CCHHHHHHHhhccCCCCCceEEEEEeCCCcccCHHHHHHHHHHHHh
Confidence            34557999999999999999999987542      23444555544

>PRK09751 putative ATP-dependent helicase Lhr; Provisional

Probab=99.81  E-value=1.6e-19  Score=183.85  Aligned_cols=126  Identities=18%  Similarity=0.204  Sum_probs=101.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC---------------------------------CcEEEEcCCCCHHHHHHHHHHHhc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG---------------------------------ISSTYIYSDLDPTARKINAAKFQT   47 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~---------------------------------~~~~~i~g~~~~~~r~~~~~~F~~   47 (251)
                      ++||||||+..|+.++..|+...                                 ..+.++||+|++++|..+.+.|++
T Consensus       246 stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~fK~  325 (1490)
T PRK09751        246 STIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQALKS  325 (1490)
T ss_pred             CEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHHHHh
Confidence            58999999999999999997641                                 125688999999999999999999


Q ss_pred             CCceEEEeccccccccccccccEEEEecCCCChhhHHHHhhhcccC-CCCceEEEEecCccHHHH---HHHHHHhCCCCe
Q psy18034         48 GKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARA-GRSGVAYSLVSSDELCYY---LDLLLFLGRKPV  123 (251)
Q Consensus        48 g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR~gR~-g~~g~~i~l~~~~e~~~~---~~i~~~l~~~~~  123 (251)
                      |++++||||+.+++|||++++++||||+.|.+..+|+||+||+||. |..+.++.+.. +....+   .-++.++...++
T Consensus       326 G~LrvLVATssLELGIDIg~VDlVIq~gsP~sVas~LQRiGRAGR~~gg~s~gli~p~-~r~dlle~~~~ve~~l~g~iE  404 (1490)
T PRK09751        326 GELRCVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQVGGVSKGLFFPR-TRRDLVDSAVIVECMFAGRLE  404 (1490)
T ss_pred             CCceEEEeCcHHHccCCcccCCEEEEeCCCCCHHHHHHHhCCCCCCCCCccEEEEEeC-cHHHHHhhHHHHHHHhcCCCC
Confidence            9999999999999999999999999999999999999999999996 33344443322 222222   236667777766


Q ss_pred             eccC
Q psy18034        124 LADD  127 (251)
Q Consensus       124 ~~~~  127 (251)
                      ....
T Consensus       405 ~~~~  408 (1490)
T PRK09751        405 NLTP  408 (1490)
T ss_pred             ccCC
Confidence            5543

>PRK10917 ATP-dependent DNA helicase RecG; Provisional

Probab=99.80  E-value=4.6e-19  Score=171.89  Aligned_cols=104  Identities=20%  Similarity=0.247  Sum_probs=94.6

Q ss_pred             CEEEEcCc--------HHHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccE
Q psy18034          1 MTVVFTAT--------KYHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t--------~~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~   70 (251)
                      |++|||++        ...++.+++.|...  ++.+..+||+|++.+|..++++|++|+.+|||||+++++|+|+|++++
T Consensus       473 q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GiDip~v~~  552 (681)
T PRK10917        473 QAYVVCPLIEESEKLDLQSAEETYEELQEAFPELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATTVIEVGVDVPNATV  552 (681)
T ss_pred             cEEEEEcccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECcceeeCcccCCCcE
Confidence            58999985        44567778888766  578999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCC-ChhhHHHHhhhcccCCCCceEEEEec
Q psy18034         71 VINYNFPC-KAKLFVHRVGRCARAGRSGVAYSLVS  104 (251)
Q Consensus        71 VI~~d~P~-~~~~y~qr~GR~gR~g~~g~~i~l~~  104 (251)
                      ||++|.|. ....|.||+||+||.|..|.|+++..
T Consensus       553 VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~ill~~  587 (681)
T PRK10917        553 MVIENAERFGLAQLHQLRGRVGRGAAQSYCVLLYK  587 (681)
T ss_pred             EEEeCCCCCCHHHHHHHhhcccCCCCceEEEEEEC
Confidence            99999996 57888999999999999999999995

>TIGR01587 cas3_core CRISPR-associated helicase Cas3

Probab=99.80  E-value=2.6e-19  Score=161.27  Aligned_cols=101  Identities=20%  Similarity=0.235  Sum_probs=88.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCC--cEEEEcCCCCHHHHHH----HHHHHhcCCceEEEeccccccccccccccEEEEe
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGI--SSTYIYSDLDPTARKI----NAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINY   74 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~--~~~~i~g~~~~~~r~~----~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~   74 (251)
                      ++||||+|+++++.+++.|+..+.  .+..+||+|++.+|..    +++.|++|+..+||||+++++|+|++ +++||++
T Consensus       224 ~~lVf~~t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~~~~~GiDi~-~~~vi~~  302 (358)
T TIGR01587       224 KIAIIVNTVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQVIEASLDIS-ADVMITE  302 (358)
T ss_pred             eEEEEECCHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECcchhceeccC-CCEEEEc
Confidence            589999999999999999988765  4899999999999976    48999999999999999999999996 8899999


Q ss_pred             cCCCChhhHHHHhhhcccCCCCc----eEEEEec
Q psy18034         75 NFPCKAKLFVHRVGRCARAGRSG----VAYSLVS  104 (251)
Q Consensus        75 d~P~~~~~y~qr~GR~gR~g~~g----~~i~l~~  104 (251)
                      +.|  +++|+||+||+||.|+.+    ..+++..
T Consensus       303 ~~~--~~~~iqr~GR~gR~g~~~~~~~~~~v~~~  334 (358)
T TIGR01587       303 LAP--IDSLIQRLGRLHRYGRKNGENFEVYIITI  334 (358)
T ss_pred             CCC--HHHHHHHhccccCCCCCCCCCCeEEEEee
Confidence            877  789999999999998643    4555543

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.

>TIGR03714 secA2 accessory Sec system translocase SecA2

Probab=99.80  E-value=2.5e-19  Score=172.27  Aligned_cols=104  Identities=24%  Similarity=0.269  Sum_probs=96.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccc---------cccEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIP---------SLDAV   71 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~---------~v~~V   71 (251)
                      ++||||+|+..++.++..|...|+++..+||.+++.++..+.++|+.|  .|+||||+++||+|+|         ++.+|
T Consensus       426 pvLIft~s~~~se~ls~~L~~~gi~~~~L~a~~~~~E~~ii~~ag~~g--~VlIATdmAgRGtDI~l~~~v~~~GGL~vI  503 (762)
T TIGR03714       426 PVLLITGSVEMSEIYSELLLREGIPHNLLNAQNAAKEAQIIAEAGQKG--AVTVATSMAGRGTDIKLGKGVAELGGLAVI  503 (762)
T ss_pred             CEEEEECcHHHHHHHHHHHHHCCCCEEEecCCChHHHHHHHHHcCCCC--eEEEEccccccccCCCCCccccccCCeEEE
Confidence            489999999999999999999999999999999999988877777666  7999999999999999         99999


Q ss_pred             EEecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         72 INYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        72 I~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      ++|++|..... .||+|||||.|.+|.+++|++.+|
T Consensus       504 it~~~ps~rid-~qr~GRtGRqG~~G~s~~~is~eD  538 (762)
T TIGR03714       504 GTERMENSRVD-LQLRGRSGRQGDPGSSQFFVSLED  538 (762)
T ss_pred             EecCCCCcHHH-HHhhhcccCCCCceeEEEEEccch
Confidence            99999988766 999999999999999999998765

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.

>TIGR00643 recG ATP-dependent DNA helicase RecG

Probab=99.80  E-value=6.3e-19  Score=169.73  Aligned_cols=103  Identities=16%  Similarity=0.207  Sum_probs=94.1

Q ss_pred             CEEEEcCcH--------HHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccE
Q psy18034          1 MTVVFTATK--------YHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~--------~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~   70 (251)
                      +++|||++.        ..++.+++.|...  ++.+..+||+|++.+|..++++|++|+.+|||||+++++|+|+|++++
T Consensus       450 q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GvDiP~v~~  529 (630)
T TIGR00643       450 QAYVVYPLIEESEKLDLKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEVGVDVPNATV  529 (630)
T ss_pred             cEEEEEccccccccchHHHHHHHHHHHHhhCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECceeecCcccCCCcE
Confidence            578999865        4567778888764  778999999999999999999999999999999999999999999999


Q ss_pred             EEEecCCC-ChhhHHHHhhhcccCCCCceEEEEe
Q psy18034         71 VINYNFPC-KAKLFVHRVGRCARAGRSGVAYSLV  103 (251)
Q Consensus        71 VI~~d~P~-~~~~y~qr~GR~gR~g~~g~~i~l~  103 (251)
                      ||++|.|. +...|.||+||+||.|+.|.|+++.
T Consensus       530 VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~il~~  563 (630)
T TIGR00643       530 MVIEDAERFGLSQLHQLRGRVGRGDHQSYCLLVY  563 (630)
T ss_pred             EEEeCCCcCCHHHHHHHhhhcccCCCCcEEEEEE
Confidence            99999986 6788899999999999999999998

>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB

Probab=99.80  E-value=2e-19  Score=176.22  Aligned_cols=108  Identities=21%  Similarity=0.329  Sum_probs=98.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHh---CCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGL---AGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~---~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      ++||||+++..++.+++.|+.   .++.+..+||+|++++|..+++.|++|+.+||||||++++|||+|+|++|||+++|
T Consensus       211 ~iLVFlpg~~eI~~l~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G~rkVlVATnIAErgItIp~V~~VID~Gl~  290 (819)
T TIGR01970       211 SILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLATNIAETSLTIEGIRVVIDSGLA  290 (819)
T ss_pred             cEEEEECCHHHHHHHHHHHHhhcCCCcEEEEecCCCCHHHHHHHHhhcccCCeEEEEecchHhhcccccCceEEEEcCcc
Confidence            489999999999999999987   37889999999999999999999999999999999999999999999999999998


Q ss_pred             CC------------------hhhHHHHhhhcccCCCCceEEEEecCccHH
Q psy18034         78 CK------------------AKLFVHRVGRCARAGRSGVAYSLVSSDELC  109 (251)
Q Consensus        78 ~~------------------~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~  109 (251)
                      ..                  ..+|.||+||+||. ++|.||.+++..+..
T Consensus       291 r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~-~~G~cyrL~t~~~~~  339 (819)
T TIGR01970       291 RVARFDPKTGITRLETVRISQASATQRAGRAGRL-EPGVCYRLWSEEQHQ  339 (819)
T ss_pred             cccccccccCCceeeEEEECHHHHHhhhhhcCCC-CCCEEEEeCCHHHHH
Confidence            53                  34589999999998 799999999876543

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.

>PRK13766 Hef nuclease; Provisional

Probab=99.80  E-value=4.5e-19  Score=174.60  Aligned_cols=104  Identities=30%  Similarity=0.417  Sum_probs=98.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCC--------CCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSD--------LDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~--------~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI   72 (251)
                      |+||||++++++++|++.|...|+.+..+||.        |++.+|..++++|++|+.++||+|+++++|+|+|.+++||
T Consensus       367 kvlIF~~~~~t~~~L~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~g~~~vLvaT~~~~eGldi~~~~~VI  446 (773)
T PRK13766        367 RIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQIEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVI  446 (773)
T ss_pred             eEEEEeCcHHHHHHHHHHHHhCCCceEEEEccccccccCCCCHHHHHHHHHHHHcCCCCEEEECChhhcCCCcccCCEEE
Confidence            68999999999999999999999999999986        9999999999999999999999999999999999999999


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEecC
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSS  105 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~  105 (251)
                      +||+||++..|+||+||+||.|. |.++.++..
T Consensus       447 ~yd~~~s~~r~iQR~GR~gR~~~-~~v~~l~~~  478 (773)
T PRK13766        447 FYEPVPSEIRSIQRKGRTGRQEE-GRVVVLIAK  478 (773)
T ss_pred             EeCCCCCHHHHHHHhcccCcCCC-CEEEEEEeC
Confidence            99999999999999999999864 888888864

>PRK02362 ski2-like helicase; Provisional

Probab=99.78  E-value=1.6e-18  Score=169.82  Aligned_cols=106  Identities=24%  Similarity=0.358  Sum_probs=96.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC------------------------------------CCcEEEEcCCCCHHHHHHHHHH
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA------------------------------------GISSTYIYSDLDPTARKINAAK   44 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~------------------------------------~~~~~~i~g~~~~~~r~~~~~~   44 (251)
                      ++||||+|+..++.++..|...                                    ..++.++||+|++.+|..+.+.
T Consensus       245 ~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~L~~~l~~gva~hHagl~~~eR~~ve~~  324 (737)
T PRK02362        245 QCLVFVSSRRNAEGFAKRAASALKKTLTAAERAELAELAEEIREVSDTETSKDLADCVAKGAAFHHAGLSREHRELVEDA  324 (737)
T ss_pred             CeEEEEeCHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhccCccccHHHHHHHHhCEEeecCCCCHHHHHHHHHH
Confidence            6899999999999998887643                                    1368899999999999999999


Q ss_pred             HhcCCceEEEeccccccccccccccEEEE----ec-----CCCChhhHHHHhhhcccCCCC--ceEEEEecCc
Q psy18034         45 FQTGKIRVLVVTDVAARGIDIPSLDAVIN----YN-----FPCKAKLFVHRVGRCARAGRS--GVAYSLVSSD  106 (251)
Q Consensus        45 F~~g~~~iLv~Td~~~~Gldi~~v~~VI~----~d-----~P~~~~~y~qr~GR~gR~g~~--g~~i~l~~~~  106 (251)
                      |++|.++|||||+.+++|+|+|.+++||+    ||     .|.++..|.||+|||||.|..  |.+++++...
T Consensus       325 Fr~G~i~VLvaT~tla~GvnlPa~~VVI~~~~~yd~~~g~~~~s~~~y~Qm~GRAGR~g~d~~G~~ii~~~~~  397 (737)
T PRK02362        325 FRDRLIKVISSTPTLAAGLNLPARRVIIRDYRRYDGGAGMQPIPVLEYHQMAGRAGRPGLDPYGEAVLLAKSY  397 (737)
T ss_pred             HHcCCCeEEEechhhhhhcCCCceEEEEecceeecCCCCceeCCHHHHHHHhhcCCCCCCCCCceEEEEecCc
Confidence            99999999999999999999999999997    77     689999999999999999875  8899988664

>PRK11664 ATP-dependent RNA helicase HrpB; Provisional

Probab=99.78  E-value=5.3e-19  Score=173.42  Aligned_cols=107  Identities=17%  Similarity=0.300  Sum_probs=98.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHh---CCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGL---AGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~---~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      ++||||+++..++.+++.|+.   .++.+..+||+|++.+|..+++.|++|+.+||||||++++|+|+|+|++|||+++|
T Consensus       214 ~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G~rkVlvATnIAErsLtIp~V~~VID~Gl~  293 (812)
T PRK11664        214 SLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLE  293 (812)
T ss_pred             CEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccCCCeEEEEecchHHhcccccCceEEEECCCc
Confidence            489999999999999999987   57889999999999999999999999999999999999999999999999998877


Q ss_pred             CC------------------hhhHHHHhhhcccCCCCceEEEEecCccH
Q psy18034         78 CK------------------AKLFVHRVGRCARAGRSGVAYSLVSSDEL  108 (251)
Q Consensus        78 ~~------------------~~~y~qr~GR~gR~g~~g~~i~l~~~~e~  108 (251)
                      ..                  ..+|.||+||+||. ++|.||.+++..+.
T Consensus       294 r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~-~~G~cyrL~t~~~~  341 (812)
T PRK11664        294 RVARFDPKTGLTRLVTQRISQASMTQRAGRAGRL-EPGICLHLYSKEQA  341 (812)
T ss_pred             ccccccccCCcceeEEEeechhhhhhhccccCCC-CCcEEEEecCHHHH
Confidence            53                  35799999999998 69999999986543

>TIGR00963 secA preprotein translocase, SecA subunit

Probab=99.77  E-value=2.2e-18  Score=165.01  Aligned_cols=105  Identities=22%  Similarity=0.208  Sum_probs=100.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccccccccccc-------ccEEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPS-------LDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~-------v~~VI~   73 (251)
                      .+||||+|...++.++..|...|+++..+||.  +.+|+..+.+|+.+...|+||||+++||+||+.       .-+||+
T Consensus       407 pvLV~t~si~~se~ls~~L~~~gi~~~~Lna~--q~~rEa~ii~~ag~~g~VtIATnmAgRGtDI~l~~V~~~GGl~VI~  484 (745)
T TIGR00963       407 PVLVGTTSVEKSELLSNLLKERGIPHNVLNAK--NHEREAEIIAQAGRKGAVTIATNMAGRGTDIKLEEVKELGGLYVIG  484 (745)
T ss_pred             CEEEEeCcHHHHHHHHHHHHHcCCCeEEeeCC--hHHHHHHHHHhcCCCceEEEEeccccCCcCCCccchhhcCCcEEEe
Confidence            37999999999999999999999999999998  889999999999999999999999999999998       459999


Q ss_pred             ecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         74 YNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        74 ~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      +++|.|...|.||.||+||.|.+|.+..+++.++
T Consensus       485 t~~p~s~ri~~q~~GRtGRqG~~G~s~~~ls~eD  518 (745)
T TIGR00963       485 TERHESRRIDNQLRGRSGRQGDPGSSRFFLSLED  518 (745)
T ss_pred             cCCCCcHHHHHHHhccccCCCCCcceEEEEeccH
Confidence            9999999999999999999999999999998765

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.

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

Probab=99.76  E-value=3.1e-18  Score=166.30  Aligned_cols=100  Identities=24%  Similarity=0.292  Sum_probs=88.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHH-----HHHHHHhc----CC-------ceEEEeccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARK-----INAAKFQT----GK-------IRVLVVTDVAARGID   64 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~-----~~~~~F~~----g~-------~~iLv~Td~~~~Gld   64 (251)
                      ++||||||++.++.+++.|+..++  ..+||+|++.+|.     .++++|+.    |+       ..|||||+++++|+|
T Consensus       274 ~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~~ILVATdVaerGLD  351 (844)
T TIGR02621       274 AILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGTVYLVCTSAGEVGVN  351 (844)
T ss_pred             cEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccceEEeccchhhhccc
Confidence            589999999999999999998886  8999999999999     78999987    44       689999999999999


Q ss_pred             cccccEEEEecCCCChhhHHHHhhhcccCCCC-ceEEEEecC
Q psy18034         65 IPSLDAVINYNFPCKAKLFVHRVGRCARAGRS-GVAYSLVSS  105 (251)
Q Consensus        65 i~~v~~VI~~d~P~~~~~y~qr~GR~gR~g~~-g~~i~l~~~  105 (251)
                      ++. ++||++..|  .+.|+||+||+||.|+. +.+++++..
T Consensus       352 Id~-d~VI~d~aP--~esyIQRiGRtgR~G~~~~~~i~vv~~  390 (844)
T TIGR02621       352 ISA-DHLVCDLAP--FESMQQRFGRVNRFGELQACQIAVVHL  390 (844)
T ss_pred             CCc-ceEEECCCC--HHHHHHHhcccCCCCCCCCceEEEEee
Confidence            986 899998877  58999999999999986 444666643

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.

>smart00490 HELICc helicase superfamily c-terminal domain

Probab=99.75  E-value=5.7e-18  Score=119.50  Aligned_cols=81  Identities=40%  Similarity=0.680  Sum_probs=77.6

Q ss_pred             HHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCChhhHHHHhhhcccC
Q psy18034         14 YVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARA   93 (251)
Q Consensus        14 ~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR~gR~   93 (251)
                      .+++.|+..++.+..+||+|++.+|..+++.|+.+...+|++|+++++|+|+|.+++||.+++|+++..|.|++||++|.
T Consensus         2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~~gR~~R~   81 (82)
T smart00490        2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRA   81 (82)
T ss_pred             HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECChhhCCcChhcCCEEEEeCCCCCHHHHHHhhcccccC
Confidence            56788888899999999999999999999999999999999999999999999999999999999999999999999997


Q ss_pred             C
Q psy18034         94 G   94 (251)
Q Consensus        94 g   94 (251)
                      |
T Consensus        82 g   82 (82)
T smart00490       82 G   82 (82)
T ss_pred             C
Confidence            5

>PHA02558 uvsW UvsW helicase; Provisional

Probab=99.75  E-value=7.9e-18  Score=158.20  Aligned_cols=99  Identities=21%  Similarity=0.187  Sum_probs=92.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEec-cccccccccccccEEEEecCCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVT-DVAARGIDIPSLDAVINYNFPCK   79 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~T-d~~~~Gldi~~v~~VI~~d~P~~   79 (251)
                      +++|||.+.++++.+++.|+..|.++..+||+|++++|..+++.|+.|+..+|||| +++++|+|+|++++||++++|.+
T Consensus       346 ~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~~~vLvaT~~~l~eG~Dip~ld~vIl~~p~~s  425 (501)
T PHA02558        346 NTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGKGIIIVASYGVFSTGISIKNLHHVIFAHPSKS  425 (501)
T ss_pred             CEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCCCeEEEEEcceeccccccccccEEEEecCCcc
Confidence            47899999999999999999999999999999999999999999999999999998 99999999999999999999999


Q ss_pred             hhhHHHHhhhcccCCCCceE
Q psy18034         80 AKLFVHRVGRCARAGRSGVA   99 (251)
Q Consensus        80 ~~~y~qr~GR~gR~g~~g~~   99 (251)
                      ...|+||+||++|.+..+..
T Consensus       426 ~~~~~QriGR~~R~~~~K~~  445 (501)
T PHA02558        426 KIIVLQSIGRVLRKHGSKSI  445 (501)
T ss_pred             hhhhhhhhhccccCCCCCce
Confidence            99999999999998765433

>KOG0354|consensus

Probab=99.74  E-value=1.3e-17  Score=158.25  Aligned_cols=111  Identities=30%  Similarity=0.428  Sum_probs=96.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC---CCcEEEEcC--------CCCHHHHHHHHHHHhcCCceEEEecccccccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA---GISSTYIYS--------DLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~---~~~~~~i~g--------~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~   69 (251)
                      ++||||.++..|+.|..+|...   |+....+-|        +|++.++.+++++|++|++++||||+++++|+|++.|+
T Consensus       415 R~IIFve~R~sa~~l~~~l~~~~~~~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G~~NvLVATSV~EEGLDI~ec~  494 (746)
T KOG0354|consen  415 RTIIFVETRESALALKKWLLQLHELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRDGEINVLVATSVAEEGLDIGECN  494 (746)
T ss_pred             cEEEEEehHHHHHHHHHHHHhhhhcccccceeeeccccccccccCHHHHHHHHHHHhCCCccEEEEecchhccCCccccc
Confidence            6899999999999999999832   445555544        79999999999999999999999999999999999999


Q ss_pred             EEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHH
Q psy18034         70 AVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLD  113 (251)
Q Consensus        70 ~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~  113 (251)
                      .||-||.-.++...+||.|| ||+ +.|.++++.+..+...++.
T Consensus       495 lVIcYd~~snpIrmIQrrGR-gRa-~ns~~vll~t~~~~~~~E~  536 (746)
T KOG0354|consen  495 LVICYDYSSNPIRMVQRRGR-GRA-RNSKCVLLTTGSEVIEFER  536 (746)
T ss_pred             EEEEecCCccHHHHHHHhcc-ccc-cCCeEEEEEcchhHHHHHH
Confidence            99999999999999999999 996 4688888887655544443

>PRK12906 secA preprotein translocase subunit SecA; Reviewed

Probab=99.74  E-value=9.6e-18  Score=161.82  Aligned_cols=105  Identities=25%  Similarity=0.275  Sum_probs=97.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccc---ccc-----EEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIP---SLD-----AVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~---~v~-----~VI   72 (251)
                      .+||||+|+..++.++..|...|+++..+||.+.+.++..+.++++.|.  |+|||++++||+||+   .|.     +||
T Consensus       442 pvLI~t~si~~se~ls~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~g~--VtIATnmAGRGtDI~l~~~V~~~GGLhVI  519 (796)
T PRK12906        442 PVLVGTVAIESSERLSHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQRGA--VTIATNMAGRGTDIKLGPGVKELGGLAVI  519 (796)
T ss_pred             CEEEEeCcHHHHHHHHHHHHHCCCCeeEecCCcHHHHHHHHHhcCCCce--EEEEeccccCCCCCCCCcchhhhCCcEEE
Confidence            4799999999999999999999999999999999888887777777776  999999999999994   888     999


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      +++.|.+.+.|.|+.||+||.|.+|.+..+++.++
T Consensus       520 ~te~pes~ri~~Ql~GRtGRqG~~G~s~~~~sleD  554 (796)
T PRK12906        520 GTERHESRRIDNQLRGRSGRQGDPGSSRFYLSLED  554 (796)
T ss_pred             eeecCCcHHHHHHHhhhhccCCCCcceEEEEeccc
Confidence            99999999999999999999999999999998764

>TIGR00603 rad25 DNA repair helicase rad25

Probab=99.73  E-value=2.4e-17  Score=158.44  Aligned_cols=104  Identities=26%  Similarity=0.406  Sum_probs=93.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC-CceEEEeccccccccccccccEEEEecCCC-
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG-KIRVLVVTDVAARGIDIPSLDAVINYNFPC-   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g-~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~-   78 (251)
                      |+||||.+..+++.++..|   +  +..+||++++.+|..++++|+.| .+++||+|+++++|+|+|++++||+++.|. 
T Consensus       498 kiLVF~~~~~~l~~~a~~L---~--~~~I~G~ts~~ER~~il~~Fr~~~~i~vLv~SkVgdeGIDlP~a~vvI~~s~~~g  572 (732)
T TIGR00603       498 KIIVFSDNVFALKEYAIKL---G--KPFIYGPTSQQERMQILQNFQHNPKVNTIFLSKVGDTSIDLPEANVLIQISSHYG  572 (732)
T ss_pred             eEEEEeCCHHHHHHHHHHc---C--CceEECCCCHHHHHHHHHHHHhCCCccEEEEecccccccCCCCCCEEEEeCCCCC
Confidence            6899999999999998887   2  56799999999999999999975 889999999999999999999999999984 


Q ss_pred             ChhhHHHHhhhcccCCCCceE-------EEEecCccHH
Q psy18034         79 KAKLFVHRVGRCARAGRSGVA-------YSLVSSDELC  109 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~g~~-------i~l~~~~e~~  109 (251)
                      |...|+||+||++|.+..|.+       |+|++.+...
T Consensus       573 S~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT~E  610 (732)
T TIGR00603       573 SRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQE  610 (732)
T ss_pred             CHHHHHHHhcccccCCCCCccccccceEEEEecCCchH
Confidence            999999999999999876654       8898875433

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).

>PRK00254 ski2-like helicase; Provisional

Probab=99.73  E-value=2.9e-17  Score=160.52  Aligned_cols=107  Identities=21%  Similarity=0.329  Sum_probs=92.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC---------------------------------CCcEEEEcCCCCHHHHHHHHHHHhc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA---------------------------------GISSTYIYSDLDPTARKINAAKFQT   47 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~---------------------------------~~~~~~i~g~~~~~~r~~~~~~F~~   47 (251)
                      ++||||+|+..++.++..|...                                 ..++.++||+|++++|..+.+.|++
T Consensus       240 ~vLVF~~sr~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~hHagl~~~eR~~ve~~F~~  319 (720)
T PRK00254        240 GALVFVNTRRSAEKEALELAKKIKRFLTKPELRALKELADSLEENPTNEKLKKALRGGVAFHHAGLGRTERVLIEDAFRE  319 (720)
T ss_pred             CEEEEEcChHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhcCCCcHHHHHHHhhCEEEeCCCCCHHHHHHHHHHHHC
Confidence            5899999999998877666321                                 2358999999999999999999999


Q ss_pred             CCceEEEeccccccccccccccEEEE-------ecCCC-ChhhHHHHhhhcccCC--CCceEEEEecCcc
Q psy18034         48 GKIRVLVVTDVAARGIDIPSLDAVIN-------YNFPC-KAKLFVHRVGRCARAG--RSGVAYSLVSSDE  107 (251)
Q Consensus        48 g~~~iLv~Td~~~~Gldi~~v~~VI~-------~d~P~-~~~~y~qr~GR~gR~g--~~g~~i~l~~~~e  107 (251)
                      |.++|||||+.+++|+|+|.+++||.       ++.|. +...|.||+||+||.|  ..|.+++++...+
T Consensus       320 G~i~VLvaT~tLa~Gvnipa~~vVI~~~~~~~~~~~~~~~~~~~~Qm~GRAGR~~~d~~G~~ii~~~~~~  389 (720)
T PRK00254        320 GLIKVITATPTLSAGINLPAFRVIIRDTKRYSNFGWEDIPVLEIQQMMGRAGRPKYDEVGEAIIVATTEE  389 (720)
T ss_pred             CCCeEEEeCcHHhhhcCCCceEEEECCceEcCCCCceeCCHHHHHHhhhccCCCCcCCCceEEEEecCcc
Confidence            99999999999999999999999994       56554 4678999999999975  5699999987655

>KOG0351|consensus

Probab=99.72  E-value=1.5e-17  Score=163.41  Aligned_cols=114  Identities=25%  Similarity=0.405  Sum_probs=109.3

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCChh
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAK   81 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~   81 (251)
                      +||||.++..|+.++..|+..|..+..+|++|++.+|..+..+|..++++|+|||=++++|||.|+|+.||||.+|.+.+
T Consensus       488 ~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~~~~~VivATVAFGMGIdK~DVR~ViH~~lPks~E  567 (941)
T KOG0351|consen  488 GIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDKIRVIVATVAFGMGIDKPDVRFVIHYSLPKSFE  567 (941)
T ss_pred             eEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHHHhcCCCeEEEEEeeccCCCCCCceeEEEECCCchhHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHhhhcccCCCCceEEEEecCccHHHHHHHH
Q psy18034         82 LFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLL  115 (251)
Q Consensus        82 ~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~  115 (251)
                      .|.|-+||+||.|....|++|+...+...+..+.
T Consensus       568 ~YYQE~GRAGRDG~~s~C~l~y~~~D~~~l~~ll  601 (941)
T KOG0351|consen  568 GYYQEAGRAGRDGLPSSCVLLYGYADISELRRLL  601 (941)
T ss_pred             HHHHhccccCcCCCcceeEEecchhHHHHHHHHH
Confidence            9999999999999999999999988777665543

>PRK01172 ski2-like helicase; Provisional

Probab=99.70  E-value=9.9e-17  Score=155.84  Aligned_cols=106  Identities=20%  Similarity=0.324  Sum_probs=89.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-------------------------CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEe
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-------------------------GISSTYIYSDLDPTARKINAAKFQTGKIRVLVV   55 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-------------------------~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~   55 (251)
                      ++||||+|+..++.++..|...                         ..++.++||+|++++|..+.+.|++|.++||||
T Consensus       238 ~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f~~g~i~VLva  317 (674)
T PRK01172        238 QVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRNRYIKVIVA  317 (674)
T ss_pred             cEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHHHcCCCeEEEe
Confidence            5899999999999999888653                         124788999999999999999999999999999


Q ss_pred             ccccccccccccccEEEEecC---------CCChhhHHHHhhhcccCCC--CceEEEEecCcc
Q psy18034         56 TDVAARGIDIPSLDAVINYNF---------PCKAKLFVHRVGRCARAGR--SGVAYSLVSSDE  107 (251)
Q Consensus        56 Td~~~~Gldi~~v~~VI~~d~---------P~~~~~y~qr~GR~gR~g~--~g~~i~l~~~~e  107 (251)
                      |+++++|+|+|...+|| +|.         |.++..|.||+|||||.|.  .|.++.++...+
T Consensus       318 T~~la~Gvnipa~~VII-~~~~~~~~~~~~~~s~~~~~Qm~GRAGR~g~d~~g~~~i~~~~~~  379 (674)
T PRK01172        318 TPTLAAGVNLPARLVIV-RDITRYGNGGIRYLSNMEIKQMIGRAGRPGYDQYGIGYIYAASPA  379 (674)
T ss_pred             cchhhccCCCcceEEEE-cCceEeCCCCceeCCHHHHHHHhhcCCCCCCCCcceEEEEecCcc
Confidence            99999999999875554 443         5688899999999999985  577777765443

>PRK12900 secA preprotein translocase subunit SecA; Reviewed

Probab=99.70  E-value=4.5e-17  Score=158.68  Aligned_cols=106  Identities=21%  Similarity=0.212  Sum_probs=98.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccc---ccc-----EEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIP---SLD-----AVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~---~v~-----~VI   72 (251)
                      .+||||+|+..++.|+..|...|+++..+|+  .+.+|+..+.+|+.+...|+|||++|+||+||+   .|.     +||
T Consensus       600 pVLIft~Sve~sE~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG~~g~VtIATNMAGRGtDIkl~~~V~~vGGL~VI  677 (1025)
T PRK12900        600 PVLVGTASVEVSETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAGQKGAVTIATNMAGRGTDIKLGEGVRELGGLFIL  677 (1025)
T ss_pred             CEEEEeCcHHHHHHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCCCCeEEEeccCcCCCCCcCCccchhhhCCceee
Confidence            4899999999999999999999999999997  688999999999999999999999999999999   554     459


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEecCccH
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEL  108 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~  108 (251)
                      +++.|.+...|.||.|||||.|.+|.++.|++.++.
T Consensus       678 gterhes~Rid~Ql~GRtGRqGdpGsS~ffvSleD~  713 (1025)
T PRK12900        678 GSERHESRRIDRQLRGRAGRQGDPGESVFYVSLEDE  713 (1025)
T ss_pred             CCCCCchHHHHHHHhhhhhcCCCCcceEEEechhHH
Confidence            999999999999999999999999999999987653

>PRK11131 ATP-dependent RNA helicase HrpA; Provisional

Probab=99.70  E-value=3.9e-17  Score=164.25  Aligned_cols=105  Identities=20%  Similarity=0.367  Sum_probs=93.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCc---EEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEec--
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGIS---STYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYN--   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~---~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d--   75 (251)
                      ++||||+++..++.+++.|+..+++   +..+||+|++.+|..+++.  .|..+||||||++++|+|+|+|++|||++  
T Consensus       288 dILVFLpg~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~--~g~rkIIVATNIAEtSITIpgI~yVID~Gl~  365 (1294)
T PRK11131        288 DILIFMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQS--HSGRRIVLATNVAETSLTVPGIKYVIDPGTA  365 (1294)
T ss_pred             CEEEEcCCHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhcc--cCCeeEEEeccHHhhccccCcceEEEECCCc
Confidence            4899999999999999999988765   6789999999999999886  47889999999999999999999999986  


Q ss_pred             -------------CC---CChhhHHHHhhhcccCCCCceEEEEecCccH
Q psy18034         76 -------------FP---CKAKLFVHRVGRCARAGRSGVAYSLVSSDEL  108 (251)
Q Consensus        76 -------------~P---~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~  108 (251)
                                   +|   .|..+|.||+|||||. ++|.||.+++..+.
T Consensus       366 k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~-~~G~c~rLyte~d~  413 (1294)
T PRK11131        366 RISRYSYRTKVQRLPIEPISQASANQRKGRCGRV-SEGICIRLYSEDDF  413 (1294)
T ss_pred             cccccccccCcccCCeeecCHhhHhhhccccCCC-CCcEEEEeCCHHHH
Confidence                         34   4557899999999998 69999999997553

>KOG0352|consensus

Probab=99.67  E-value=1.9e-16  Score=141.04  Aligned_cols=111  Identities=22%  Similarity=0.286  Sum_probs=105.7

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCChh
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAK   81 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~   81 (251)
                      .||||.|++.|+.++-.|...|+++..+|.++...+|.++.++|.+++..|+++|..+++|+|-|+|+.|||+|+|.|..
T Consensus       258 GIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~PvI~AT~SFGMGVDKp~VRFViHW~~~qn~A  337 (641)
T KOG0352|consen  258 GIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNNEIPVIAATVSFGMGVDKPDVRFVIHWSPSQNLA  337 (641)
T ss_pred             eEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHHHhcCCCCEEEEEeccccccCCcceeEEEecCchhhhH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHhhhcccCCCCceEEEEecCccHHHHH
Q psy18034         82 LFVHRVGRCARAGRSGVAYSLVSSDELCYYL  112 (251)
Q Consensus        82 ~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~  112 (251)
                      .|.|-.||+||.|...+|-+.++.++...+.
T Consensus       338 gYYQESGRAGRDGk~SyCRLYYsR~D~~~i~  368 (641)
T KOG0352|consen  338 GYYQESGRAGRDGKRSYCRLYYSRQDKNALN  368 (641)
T ss_pred             HHHHhccccccCCCccceeeeecccchHHHH
Confidence            9999999999999999999998877655443

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

Probab=99.65  E-value=2.2e-15  Score=145.90  Aligned_cols=105  Identities=24%  Similarity=0.326  Sum_probs=97.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC-CcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG-ISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCK   79 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~-~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~   79 (251)
                      .++||+||+..++.++..|+..+ ..+..+||+++.+.|..+-++|++|+.+++|||.-++.|||+.+++.||+|..|.+
T Consensus       255 ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~lravV~TSSLELGIDiG~vdlVIq~~SP~s  334 (814)
T COG1201         255 TTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLELGIDIGDIDLVIQLGSPKS  334 (814)
T ss_pred             cEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhcCCceEEEEccchhhccccCCceEEEEeCCcHH
Confidence            48999999999999999999986 88999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHhhhccc-CCCCceEEEEecC
Q psy18034         80 AKLFVHRVGRCAR-AGRSGVAYSLVSS  105 (251)
Q Consensus        80 ~~~y~qr~GR~gR-~g~~g~~i~l~~~  105 (251)
                      ...++||+||+|+ .|....++.+...
T Consensus       335 V~r~lQRiGRsgHr~~~~Skg~ii~~~  361 (814)
T COG1201         335 VNRFLQRIGRAGHRLGEVSKGIIIAED  361 (814)
T ss_pred             HHHHhHhccccccccCCcccEEEEecC
Confidence            9999999999996 4655677666655

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA

Probab=99.65  E-value=4.9e-16  Score=156.75  Aligned_cols=105  Identities=19%  Similarity=0.328  Sum_probs=91.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC---CcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG---ISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~---~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      ++|||++++.+++.+++.|+..+   +.+..+||+|++++|..+++.+  +..+|+|||+++++|+|+|+|++||++++|
T Consensus       281 dILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~--~~rkIVLATNIAEtSLTIpgV~yVIDsGl~  358 (1283)
T TIGR01967       281 DILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH--SGRRIVLATNVAETSLTVPGIHYVIDTGTA  358 (1283)
T ss_pred             CEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC--CCceEEEeccHHHhccccCCeeEEEeCCCc
Confidence            48999999999999999999874   4588999999999999986654  246899999999999999999999999854


Q ss_pred             ------------------CChhhHHHHhhhcccCCCCceEEEEecCccH
Q psy18034         78 ------------------CKAKLFVHRVGRCARAGRSGVAYSLVSSDEL  108 (251)
Q Consensus        78 ------------------~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~  108 (251)
                                        .|..+|.||+||+||.| +|.||.+++..+.
T Consensus       359 r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~-~G~cyRLyte~~~  406 (1283)
T TIGR01967       359 RISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA-PGICIRLYSEEDF  406 (1283)
T ss_pred             cccccccccCccccCCccCCHHHHHHHhhhhCCCC-CceEEEecCHHHH
Confidence                              35679999999999997 9999999986543

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.

>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type

Probab=99.63  E-value=7.6e-16  Score=139.01  Aligned_cols=82  Identities=18%  Similarity=0.198  Sum_probs=72.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC--CcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG--ISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~--~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~   78 (251)
                      |+||||+|+..++.++..|+..+  +.+..+||.|++.+|.+.      ++.+||||||+++||+|+|.+ +|| ++ |.
T Consensus       274 k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~------~~~~iLVaTdv~~rGiDi~~~-~vi-~~-p~  344 (357)
T TIGR03158       274 RGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRERA------MQFDILLGTSTVDVGVDFKRD-WLI-FS-AR  344 (357)
T ss_pred             eEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHHHh------ccCCEEEEecHHhcccCCCCc-eEE-EC-CC
Confidence            58999999999999999999864  578889999999988753      478999999999999999987 666 56 89


Q ss_pred             ChhhHHHHhhhcc
Q psy18034         79 KAKLFVHRVGRCA   91 (251)
Q Consensus        79 ~~~~y~qr~GR~g   91 (251)
                      +.+.|+||+||+|
T Consensus       345 ~~~~yiqR~GR~g  357 (357)
T TIGR03158       345 DAAAFWQRLGRLG  357 (357)
T ss_pred             CHHHHhhhcccCC
Confidence            9999999999987

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.

>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional

Probab=99.55  E-value=2.8e-14  Score=142.07  Aligned_cols=106  Identities=17%  Similarity=0.266  Sum_probs=96.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC---CceEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG---KIRVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g---~~~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |+|||+......+.|...|...|+....++|+++..+|...++.|+..   ..-+|++|.+++.|||++.+++||+||+|
T Consensus       489 KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAGGlGINLt~Ad~VIiyD~d  568 (1033)
T PLN03142        489 RVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLGINLATADIVILYDSD  568 (1033)
T ss_pred             eEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEeccccccCCchhhCCEEEEeCCC
Confidence            689999999999999999999999999999999999999999999764   34578999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCceE--EEEecCc
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVA--YSLVSSD  106 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~--i~l~~~~  106 (251)
                      |||....|++||+.|.|+...+  +.|++.+
T Consensus       569 WNP~~d~QAidRaHRIGQkk~V~VyRLIt~g  599 (1033)
T PLN03142        569 WNPQVDLQAQDRAHRIGQKKEVQVFRFCTEY  599 (1033)
T ss_pred             CChHHHHHHHHHhhhcCCCceEEEEEEEeCC
Confidence            9999999999999999997644  5556654

>TIGR01054 rgy reverse gyrase

Probab=99.54  E-value=2.2e-14  Score=145.57  Aligned_cols=74  Identities=20%  Similarity=0.323  Sum_probs=69.1

Q ss_pred             CEEEEcCcH---HHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEe----cccccccccccc-ccEEE
Q psy18034          1 MTVVFTATK---YHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVV----TDVAARGIDIPS-LDAVI   72 (251)
Q Consensus         1 k~iIF~~t~---~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~----Td~~~~Gldi~~-v~~VI   72 (251)
                      ++||||+|+   +.|+.+++.|+..|+++..+||+|++    ..+++|++|+++||||    ||+++||||+|+ +++||
T Consensus       328 ~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~~----~~l~~Fr~G~~~vLVata~~tdv~aRGIDip~~V~~vI  403 (1171)
T TIGR01054       328 GGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKPK----EDYEKFAEGEIDVLIGVASYYGTLVRGLDLPERVRYAV  403 (1171)
T ss_pred             CEEEEEeccccHHHHHHHHHHHHhCCceEEEEeCCCCH----HHHHHHHcCCCCEEEEeccccCcccccCCCCccccEEE
Confidence            479999999   99999999999999999999999974    6899999999999999    599999999999 89999


Q ss_pred             EecCCC
Q psy18034         73 NYNFPC   78 (251)
Q Consensus        73 ~~d~P~   78 (251)
                      |||+|.
T Consensus       404 ~~~~P~  409 (1171)
T TIGR01054       404 FLGVPK  409 (1171)
T ss_pred             EECCCC
Confidence            999883

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.

>PRK09401 reverse gyrase; Reviewed

Probab=99.53  E-value=1.3e-14  Score=147.02  Aligned_cols=87  Identities=25%  Similarity=0.322  Sum_probs=79.8

Q ss_pred             CEEEEcCcHHH---HHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEe----cccccccccccc-ccEEE
Q psy18034          1 MTVVFTATKYH---VEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVV----TDVAARGIDIPS-LDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~---~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~----Td~~~~Gldi~~-v~~VI   72 (251)
                      ++||||+|+..   ++.+++.|+..|+.+..+||+|     ...+++|++|+++||||    ||+++||||+|+ +++||
T Consensus       330 ~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l-----~~~l~~F~~G~~~VLVatas~tdv~aRGIDiP~~IryVI  404 (1176)
T PRK09401        330 GGLIFVPSDKGKEYAEELAEYLEDLGINAELAISGF-----ERKFEKFEEGEVDVLVGVASYYGVLVRGIDLPERIRYAI  404 (1176)
T ss_pred             CEEEEEecccChHHHHHHHHHHHHCCCcEEEEeCcH-----HHHHHHHHCCCCCEEEEecCCCCceeecCCCCcceeEEE
Confidence            47999999777   9999999999999999999999     23459999999999999    699999999999 89999


Q ss_pred             EecCCC------ChhhHHHHhhhccc
Q psy18034         73 NYNFPC------KAKLFVHRVGRCAR   92 (251)
Q Consensus        73 ~~d~P~------~~~~y~qr~GR~gR   92 (251)
                      |||+|.      ....+.||+||+..
T Consensus       405 ~y~vP~~~~~~~~~~~~~~~~~r~~~  430 (1176)
T PRK09401        405 FYGVPKFKFSLEEELAPPFLLLRLLS  430 (1176)
T ss_pred             EeCCCCEEEeccccccCHHHHHHHHh
Confidence            999998      77889999999964

>PRK14701 reverse gyrase; Provisional

Probab=99.52  E-value=1.2e-14  Score=150.57  Aligned_cols=107  Identities=18%  Similarity=0.242  Sum_probs=90.8

Q ss_pred             CEEEEcCcHHH---HHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEec----ccccccccccc-ccEEE
Q psy18034          1 MTVVFTATKYH---VEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVT----DVAARGIDIPS-LDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~---~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~T----d~~~~Gldi~~-v~~VI   72 (251)
                      ++||||+|+..   |+.+++.|...|+.+..+||+     |...+++|++|+++|||||    |+++||||+|+ |++||
T Consensus       332 ~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~-----R~~~l~~F~~G~~~VLVaT~s~~gvaaRGIDiP~~Vryvi  406 (1638)
T PRK14701        332 GGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK-----NKKGFDLFEEGEIDYLIGVATYYGTLVRGLDLPERIRFAV  406 (1638)
T ss_pred             CeEEEEeccccchHHHHHHHHHHHCCCeEEEecch-----HHHHHHHHHcCCCCEEEEecCCCCeeEecCccCCccCEEE
Confidence            47999999876   489999999999999999995     8899999999999999999    59999999998 99999


Q ss_pred             EecCCC---ChhhHHHHh-------------hhcccCCCCceEEEEecCccHHHHH
Q psy18034         73 NYNFPC---KAKLFVHRV-------------GRCARAGRSGVAYSLVSSDELCYYL  112 (251)
Q Consensus        73 ~~d~P~---~~~~y~qr~-------------GR~gR~g~~g~~i~l~~~~e~~~~~  112 (251)
                      |||+|.   +.+.|.|-.             ||+||.|..+.++..........++
T Consensus       407 ~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~  462 (1638)
T PRK14701        407 FYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIPIEGVLDVFPEDVEFLR  462 (1638)
T ss_pred             EeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCcchhHHHhHHHHHHHHH
Confidence            999999   888776655             9999998877776444444444333

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

Probab=99.50  E-value=3.7e-14  Score=130.51  Aligned_cols=106  Identities=23%  Similarity=0.349  Sum_probs=94.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEE---ecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVIN---YNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~---~d~P   77 (251)
                      |||||++|+..|.+++..|...|+++..+|++|+..+|..+-.+|.++++.++|+|-+++-|+|+|.-.+|+.   .+.-
T Consensus       442 QtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~q~l~~VVTTAAL~AGVDFPASQVIFEsLaMG~~  521 (830)
T COG1202         442 QTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAALAAGVDFPASQVIFESLAMGIE  521 (830)
T ss_pred             ceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhcCCcceEeehhhhhcCCCCchHHHHHHHHHcccc
Confidence            7999999999999999999999999999999999999999999999999999999999999999997665542   2222


Q ss_pred             -CChhhHHHHhhhcccCCC--CceEEEEecCc
Q psy18034         78 -CKAKLFVHRVGRCARAGR--SGVAYSLVSSD  106 (251)
Q Consensus        78 -~~~~~y~qr~GR~gR~g~--~g~~i~l~~~~  106 (251)
                       -++..|.|++||+||.+-  .|.+|+++.+.
T Consensus       522 WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg  553 (830)
T COG1202         522 WLSVREFQQMLGRAGRPDYHDRGKVYLLVEPG  553 (830)
T ss_pred             cCCHHHHHHHhcccCCCCcccCceEEEEecCC
Confidence             479999999999999875  58999998753

>PRK09694 helicase Cas3; Provisional

Probab=99.47  E-value=2.1e-13  Score=134.44  Aligned_cols=92  Identities=22%  Similarity=0.318  Sum_probs=81.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC---CcEEEEcCCCCHHHH----HHHHHHH-hcCC---ceEEEecccccccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG---ISSTYIYSDLDPTAR----KINAAKF-QTGK---IRVLVVTDVAARGIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~---~~~~~i~g~~~~~~r----~~~~~~F-~~g~---~~iLv~Td~~~~Gldi~~v~   69 (251)
                      +++|||||++.+..+++.|+..+   ..+..+||.+++.+|    .++++.| ++|+   ..|||||+++++|+|+ +++
T Consensus       562 ~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDI-d~D  640 (878)
T PRK09694        562 QVCLICNLVDDAQKLYQRLKELNNTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVATQVVEQSLDL-DFD  640 (878)
T ss_pred             EEEEEECCHHHHHHHHHHHHhhCCCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECcchhheeec-CCC
Confidence            47999999999999999999764   679999999999998    4678889 6665   4799999999999999 589


Q ss_pred             EEEEecCCCChhhHHHHhhhcccCCC
Q psy18034         70 AVINYNFPCKAKLFVHRVGRCARAGR   95 (251)
Q Consensus        70 ~VI~~d~P~~~~~y~qr~GR~gR~g~   95 (251)
                      ++|....|  .+.++||+||++|.++
T Consensus       641 vlItdlaP--idsLiQRaGR~~R~~~  664 (878)
T PRK09694        641 WLITQLCP--VDLLFQRLGRLHRHHR  664 (878)
T ss_pred             eEEECCCC--HHHHHHHHhccCCCCC
Confidence            99998888  6899999999999875

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

Probab=99.46  E-value=6.2e-13  Score=123.24  Aligned_cols=92  Identities=30%  Similarity=0.476  Sum_probs=88.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      +++|||.+..+++.++..+...|+ +..++|..++.+|..+++.|+.|+.++||++.++.+|+|+|+++++|....+.|+
T Consensus       285 ~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr~g~~~~lv~~~vl~EGvDiP~~~~~i~~~~t~S~  363 (442)
T COG1061         285 KTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFRTGGIKVLVTVKVLDEGVDIPDADVLIILRPTGSR  363 (442)
T ss_pred             cEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHHHHHHHHHHcCCCCEEEEeeeccceecCCCCcEEEEeCCCCcH
Confidence            589999999999999999998887 8899999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccC
Q psy18034         81 KLFVHRVGRCARA   93 (251)
Q Consensus        81 ~~y~qr~GR~gR~   93 (251)
                      ..|.||+||.-|.
T Consensus       364 ~~~~Q~lGR~LR~  376 (442)
T COG1061         364 RLFIQRLGRGLRP  376 (442)
T ss_pred             HHHHHHhhhhccC
Confidence            9999999999993

>KOG0353|consensus

Probab=99.43  E-value=1.7e-13  Score=120.96  Aligned_cols=111  Identities=21%  Similarity=0.294  Sum_probs=104.0

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCChh
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAK   81 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~   81 (251)
                      .||||-++..++.++..|+..|+.+..+|..|.+++|...-+.|..|+++|+|+|-++++|+|-|+|+.||+..+|.+.+
T Consensus       320 giiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq~w~a~eiqvivatvafgmgidkpdvrfvihhsl~ksie  399 (695)
T KOG0353|consen  320 GIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIAGEIQVIVATVAFGMGIDKPDVRFVIHHSLPKSIE  399 (695)
T ss_pred             ceEEEeccccHHHHHHHHHhcCccccccccccCccccccccccccccceEEEEEEeeecccCCCCCeeEEEecccchhHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHH-------------------------------------------HhhhcccCCCCceEEEEecCccHHHHH
Q psy18034         82 LFVH-------------------------------------------RVGRCARAGRSGVAYSLVSSDELCYYL  112 (251)
Q Consensus        82 ~y~q-------------------------------------------r~GR~gR~g~~g~~i~l~~~~e~~~~~  112 (251)
                      .|.|                                           -.||+||.+.+..|++.+.-.++....
T Consensus       400 nyyqasarillrmtkqknksdtggstqinilevctnfkiffavfsekesgragrd~~~a~cilyy~~~difk~s  473 (695)
T KOG0353|consen  400 NYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEKESGRAGRDDMKADCILYYGFADIFKIS  473 (695)
T ss_pred             HHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccceeeeeeecchhccccccCCCcccEEEEechHHHHhHH
Confidence            9999                                           679999999999999998766554443

>TIGR00595 priA primosomal protein N'

Probab=99.41  E-value=1.1e-12  Score=123.32  Aligned_cols=93  Identities=25%  Similarity=0.296  Sum_probs=79.0

Q ss_pred             HHHHHHHHHhC--CCcEEEEcCCCCHHHH--HHHHHHHhcCCceEEEeccccccccccccccEEE--EecC----CC---
Q psy18034         12 VEYVHKILGLA--GISSTYIYSDLDPTAR--KINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI--NYNF----PC---   78 (251)
Q Consensus        12 ~~~l~~~L~~~--~~~~~~i~g~~~~~~r--~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI--~~d~----P~---   78 (251)
                      ++.+.+.|...  +.++..+|+++++..+  ..++++|++|+.+|||+|+++++|+|+|+++.|+  ++|.    |.   
T Consensus       271 te~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~i~kG~d~~~v~lV~vl~aD~~l~~pd~ra  350 (505)
T TIGR00595       271 TEQVEEELAKLFPGARIARIDSDTTSRKGAHEALLNQFANGKADILIGTQMIAKGHHFPNVTLVGVLDADSGLHSPDFRA  350 (505)
T ss_pred             HHHHHHHHHhhCCCCcEEEEecccccCccHHHHHHHHHhcCCCCEEEeCcccccCCCCCcccEEEEEcCcccccCcccch
Confidence            57778888776  7889999999987665  8999999999999999999999999999999874  6765    32   


Q ss_pred             ---ChhhHHHHhhhcccCCCCceEEEEec
Q psy18034         79 ---KAKLFVHRVGRCARAGRSGVAYSLVS  104 (251)
Q Consensus        79 ---~~~~y~qr~GR~gR~g~~g~~i~l~~  104 (251)
                         ....|+|++||+||.+..|.++....
T Consensus       351 ~E~~~~ll~q~~GRagR~~~~g~viiqt~  379 (505)
T TIGR00595       351 AERGFQLLTQVAGRAGRAEDPGQVIIQTY  379 (505)
T ss_pred             HHHHHHHHHHHHhccCCCCCCCEEEEEeC
Confidence               24678999999999999999886543

All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK12904 preprotein translocase subunit SecA; Reviewed

Probab=99.38  E-value=2.9e-12  Score=124.71  Aligned_cols=105  Identities=23%  Similarity=0.210  Sum_probs=96.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccc------------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSL------------   68 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v------------   68 (251)
                      .+||||+|+..++.++..|...|+++..+||.  +.+|+..+.+|+.+...|+||||+|+||+||+--            
T Consensus       432 pVLIft~Si~~se~Ls~~L~~~gi~~~vLnak--q~eREa~Iia~Ag~~g~VtIATNmAGRGtDI~LgGn~~~~~~~~~~  509 (830)
T PRK12904        432 PVLVGTVSIEKSELLSKLLKKAGIPHNVLNAK--NHEREAEIIAQAGRPGAVTIATNMAGRGTDIKLGGNPEMLAAALLE  509 (830)
T ss_pred             CEEEEeCcHHHHHHHHHHHHHCCCceEeccCc--hHHHHHHHHHhcCCCceEEEecccccCCcCccCCCchhhhhhhhhh
Confidence            48999999999999999999999999999995  8899999999999999999999999999999743            


Q ss_pred             --------------------------cEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         69 --------------------------DAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        69 --------------------------~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                                                =+||-...|.|..---|-.||+||-|.+|.+-.+++-++
T Consensus       510 ~~~~~~~~~~~~~~~~~~~~v~~~GGLhVigTerhesrRid~QlrGRagRQGdpGss~f~lSleD  574 (830)
T PRK12904        510 EETEEQIAKIKAEWQEEHEEVLEAGGLHVIGTERHESRRIDNQLRGRSGRQGDPGSSRFYLSLED  574 (830)
T ss_pred             hhhhHHHHHHHHHHhhhhhhHHHcCCCEEEecccCchHHHHHHhhcccccCCCCCceeEEEEcCc
Confidence                                      178888899999999999999999999999988887554

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

Probab=99.37  E-value=3.8e-12  Score=128.73  Aligned_cols=92  Identities=24%  Similarity=0.377  Sum_probs=81.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC------C---CcEEEEcCCCCHHHHHHHHHHHhcCCc-eEEEeccccccccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA------G---ISSTYIYSDLDPTARKINAAKFQTGKI-RVLVVTDVAARGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~------~---~~~~~i~g~~~~~~r~~~~~~F~~g~~-~iLv~Td~~~~Gldi~~v~~   70 (251)
                      |+||||.++.|++.+.+.|...      +   ..+..+||+++  ++..++++|+++.. .|+|++|++.+|+|+|.|.+
T Consensus       700 KtiIF~~s~~HA~~i~~~L~~~f~~~~~~~~~~~v~~itg~~~--~~~~li~~Fk~~~~p~IlVsvdmL~TG~DvP~v~~  777 (1123)
T PRK11448        700 KTLIFAATDAHADMVVRLLKEAFKKKYGQVEDDAVIKITGSID--KPDQLIRRFKNERLPNIVVTVDLLTTGIDVPSICN  777 (1123)
T ss_pred             cEEEEEcCHHHHHHHHHHHHHHHHhhcCCcCccceEEEeCCcc--chHHHHHHHhCCCCCeEEEEecccccCCCcccccE
Confidence            7999999999999999887753      2   24567899986  46789999999987 69999999999999999999


Q ss_pred             EEEecCCCChhhHHHHhhhcccCC
Q psy18034         71 VINYNFPCKAKLFVHRVGRCARAG   94 (251)
Q Consensus        71 VI~~d~P~~~~~y~qr~GR~gR~g   94 (251)
                      ||.+++|.|...|+|++||+.|..
T Consensus       778 vVf~rpvkS~~lf~QmIGRgtR~~  801 (1123)
T PRK11448        778 LVFLRRVRSRILYEQMLGRATRLC  801 (1123)
T ss_pred             EEEecCCCCHHHHHHHHhhhccCC
Confidence            999999999999999999999964

>KOG0329|consensus

Probab=99.36  E-value=2.2e-13  Score=114.56  Aligned_cols=74  Identities=30%  Similarity=0.451  Sum_probs=63.0

Q ss_pred             EEeccccccccccccccEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCcc-HHHHHHHHHHhCCCCeecc
Q psy18034         53 LVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE-LCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        53 Lv~Td~~~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e-~~~~~~i~~~l~~~~~~~~  126 (251)
                      +|+|++++||+|+..++.|+|||+|.++++|.||+||+||.|.+|.+++|++..+ ...+..+.......+..+|
T Consensus       302 ~vat~lfgrgmdiervNi~~NYdmp~~~DtYlHrv~rAgrfGtkglaitfvs~e~da~iLn~vqdRf~v~i~eLp  376 (387)
T KOG0329|consen  302 LVATDLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNPVQDRFEVNIKELP  376 (387)
T ss_pred             hHHhhhhccccCcccceeeeccCCCCCchHHHHHhhhhhccccccceeehhcchhhHHHhchhhHhhhccHhhcC
Confidence            8999999999999999999999999999999999999999999999999998654 4455556655555555444

>PRK05580 primosome assembly protein PriA; Validated

Probab=99.36  E-value=3.7e-12  Score=123.72  Aligned_cols=99  Identities=22%  Similarity=0.223  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHHHhC--CCcEEEEcCCCCH--HHHHHHHHHHhcCCceEEEeccccccccccccccEEE--EecCCCC---
Q psy18034          9 KYHVEYVHKILGLA--GISSTYIYSDLDP--TARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI--NYNFPCK---   79 (251)
Q Consensus         9 ~~~~~~l~~~L~~~--~~~~~~i~g~~~~--~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI--~~d~P~~---   79 (251)
                      ...++.+.+.|+..  +.++..+|+++.+  .+++.++++|++|+.+|||+|+++++|+|+|+++.|+  +.|.+-+   
T Consensus       436 g~G~e~~~e~l~~~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~iakG~d~p~v~lV~il~aD~~l~~pd  515 (679)
T PRK05580        436 GPGTERLEEELAELFPEARILRIDRDTTRRKGALEQLLAQFARGEADILIGTQMLAKGHDFPNVTLVGVLDADLGLFSPD  515 (679)
T ss_pred             eccHHHHHHHHHHhCCCCcEEEEeccccccchhHHHHHHHHhcCCCCEEEEChhhccCCCCCCcCEEEEEcCchhccCCc
Confidence            34677888888876  7899999999874  6789999999999999999999999999999999985  5555533   


Q ss_pred             -------hhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         80 -------AKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        80 -------~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                             ...|+|++||+||.+..|.++......+
T Consensus       516 fra~Er~~~~l~q~~GRagR~~~~g~viiqT~~p~  550 (679)
T PRK05580        516 FRASERTFQLLTQVAGRAGRAEKPGEVLIQTYHPE  550 (679)
T ss_pred             cchHHHHHHHHHHHHhhccCCCCCCEEEEEeCCCC
Confidence                   2679999999999999999987765444

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

Probab=99.35  E-value=8.5e-12  Score=114.31  Aligned_cols=113  Identities=24%  Similarity=0.316  Sum_probs=100.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEec-----
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYN-----   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d-----   75 (251)
                      +++|-+-|++.++.|.++|...|+++.++|++.+.-+|.+++.+.|.|.++|||.-+++-+|+|+|.|+.|--+|     
T Consensus       448 RvLVTtLTKkmAEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G~~DvLVGINLLREGLDiPEVsLVAIlDADKeG  527 (663)
T COG0556         448 RVLVTTLTKKMAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKEG  527 (663)
T ss_pred             eEEEEeehHHHHHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhcCCccEEEeehhhhccCCCcceeEEEEeecCccc
Confidence            578889999999999999999999999999999999999999999999999999999999999999999998877     


Q ss_pred             CCCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHH
Q psy18034         76 FPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDL  114 (251)
Q Consensus        76 ~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i  114 (251)
                      +..|..+++|-+|||+| +-.|.++.....-...+-..+
T Consensus       528 FLRse~SLIQtIGRAAR-N~~GkvIlYAD~iT~sM~~Ai  565 (663)
T COG0556         528 FLRSERSLIQTIGRAAR-NVNGKVILYADKITDSMQKAI  565 (663)
T ss_pred             cccccchHHHHHHHHhh-ccCCeEEEEchhhhHHHHHHH
Confidence            56899999999999999 568999988765433333333

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

Probab=99.33  E-value=1e-11  Score=117.11  Aligned_cols=98  Identities=18%  Similarity=0.236  Sum_probs=87.5

Q ss_pred             HHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC-CChhhHHHH
Q psy18034         10 YHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP-CKAKLFVHR   86 (251)
Q Consensus        10 ~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P-~~~~~y~qr   86 (251)
                      ..++.+++.|+..  +..+..+||.|+..++.+++++|++|+++|||||.|.+-|+|+|+.+++|-.|.- ...+++.|-
T Consensus       492 ~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTVIEVGVdVPnATvMVIe~AERFGLaQLHQL  571 (677)
T COG1200         492 QAAEELYEELKSFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQL  571 (677)
T ss_pred             hhHHHHHHHHHHHcccceeEEEecCCChHHHHHHHHHHHcCCCcEEEEeeEEEecccCCCCeEEEEechhhhhHHHHHHh
Confidence            3567788888755  5679999999999999999999999999999999999999999999999988754 567889999


Q ss_pred             hhhcccCCCCceEEEEecCcc
Q psy18034         87 VGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        87 ~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      .||+||.+..+.|+++..+..
T Consensus       572 RGRVGRG~~qSyC~Ll~~~~~  592 (677)
T COG1200         572 RGRVGRGDLQSYCVLLYKPPL  592 (677)
T ss_pred             ccccCCCCcceEEEEEeCCCC
Confidence            999999999999999998765

>KOG0953|consensus

Probab=99.32  E-value=1.2e-11  Score=113.58  Aligned_cols=148  Identities=21%  Similarity=0.275  Sum_probs=103.7

Q ss_pred             cCcHHHHHHHHHHHHhCCCc-EEEEcCCCCHHHHHHHHHHHhc--CCceEEEeccccccccccccccEEEEecC------
Q psy18034          6 TATKYHVEYVHKILGLAGIS-STYIYSDLDPTARKINAAKFQT--GKIRVLVVTDVAARGIDIPSLDAVINYNF------   76 (251)
Q Consensus         6 ~~t~~~~~~l~~~L~~~~~~-~~~i~g~~~~~~r~~~~~~F~~--g~~~iLv~Td~~~~Gldi~~v~~VI~~d~------   76 (251)
                      |-|++..-.+...+...|.. ++++||++|++.|.+....|.+  ++++||||||+.++|+|+ +++.||.|++      
T Consensus       363 ~FSkk~I~~~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~dvlVAsDAIGMGLNL-~IrRiiF~sl~Kysg~  441 (700)
T KOG0953|consen  363 AFSKKDIFTVKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSNECDVLVASDAIGMGLNL-NIRRIIFYSLIKYSGR  441 (700)
T ss_pred             EeehhhHHHHHHHHHHhcCcceEEEecCCCCchhHHHHHHhCCCCCccceEEeeccccccccc-ceeEEEEeecccCCcc
Confidence            44567788888888888665 9999999999999999999998  799999999999999999 7788888775      


Q ss_pred             ---CCChhhHHHHhhhcccCCCC---ceEEEEecCccHHHHHHHHHHhCCCCeeccCCc-cccccccccccccCCCcchh
Q psy18034         77 ---PCKAKLFVHRVGRCARAGRS---GVAYSLVSSDELCYYLDLLLFLGRKPVLADDSM-KGKIRHQDGMFGKIPQGLME  149 (251)
Q Consensus        77 ---P~~~~~y~qr~GR~gR~g~~---g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  149 (251)
                         |-+..+..|-+||+||.|..   |.+.++ ..+++..+   .+.+..+.+.+.... -......+.+...+|+....
T Consensus       442 e~~~it~sqikQIAGRAGRf~s~~~~G~vTtl-~~eDL~~L---~~~l~~p~epi~~agl~pt~eqie~fa~~~Pd~t~s  517 (700)
T KOG0953|consen  442 ETEDITVSQIKQIAGRAGRFGSKYPQGEVTTL-HSEDLKLL---KRILKRPVEPIKNAGLWPTDEQIELFAYHLPDATPS  517 (700)
T ss_pred             cceeccHHHHHHHhhcccccccCCcCceEEEe-eHhhHHHH---HHHHhCCchHHHhccCCccHHHHHHHHHhCCCccHH
Confidence               45678889999999998742   554444 34445544   445555554432110 01111234455567776655


Q ss_pred             hHHHHHHHH
Q psy18034        150 DQISEIMNW  158 (251)
Q Consensus       150 ~~~~~~~~~  158 (251)
                      ..++.+.+.
T Consensus       518 nLld~f~~~  526 (700)
T KOG0953|consen  518 NLLDIFVKL  526 (700)
T ss_pred             HHHHHHHHH
Confidence            544444433

>PRK13104 secA preprotein translocase subunit SecA; Reviewed

Probab=99.31  E-value=1.1e-11  Score=120.95  Aligned_cols=104  Identities=21%  Similarity=0.246  Sum_probs=95.2

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccc-------------
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSL-------------   68 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v-------------   68 (251)
                      +||||+|.+.++.++..|...|+++..+|+.+++.++..+.++|+.|.  |+|||++|+||+||.--             
T Consensus       447 VLVgt~Sie~sE~ls~~L~~~gi~h~vLnak~~q~Ea~iia~Ag~~G~--VtIATNmAGRGtDI~Lggn~~~~~~~~~~~  524 (896)
T PRK13104        447 VLVGTVSIEASEFLSQLLKKENIKHQVLNAKFHEKEAQIIAEAGRPGA--VTIATNMAGRGTDIVLGGSLAADLANLPAD  524 (896)
T ss_pred             EEEEeCcHHHHHHHHHHHHHcCCCeEeecCCCChHHHHHHHhCCCCCc--EEEeccCccCCcceecCCchhhhhhccccc
Confidence            799999999999999999999999999999999999999999999995  99999999999998621             


Q ss_pred             -------------------------cEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         69 -------------------------DAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        69 -------------------------~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                                               =+||--..+.|..-=-|-.||+||-|.+|.+-.|++-++
T Consensus       525 ~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerhesrRID~QLrGRaGRQGDPGss~f~lSleD  588 (896)
T PRK13104        525 ASEQEKEAVKKEWQKRHDEVIAAGGLRIIGSERHESRRIDNQLRGRAGRQGDPGSSRFYLSLED  588 (896)
T ss_pred             hhhHHHHHHHHHhhhhhhHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCceEEEEEcCc
Confidence                                     178888889999989999999999999999988887544

>PRK13107 preprotein translocase subunit SecA; Reviewed

Probab=99.31  E-value=2.1e-11  Score=118.97  Aligned_cols=105  Identities=20%  Similarity=0.220  Sum_probs=96.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccc------------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSL------------   68 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v------------   68 (251)
                      .+||||+|...++.++..|...|+++..+|+.+++.++..+.++|+.|.  |+|||++++||+||.--            
T Consensus       451 pVLV~t~sv~~se~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~G~--VtIATnmAGRGTDIkLggn~~~~~~~~~~  528 (908)
T PRK13107        451 PVLVGTVSIEQSELLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRTGA--VTIATNMAGRGTDIVLGGNWNMEIEALEN  528 (908)
T ss_pred             CEEEEeCcHHHHHHHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCCCc--EEEecCCcCCCcceecCCchHHhhhhhcc
Confidence            4899999999999999999999999999999999999999999999998  99999999999998621            


Q ss_pred             -------------------------cEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         69 -------------------------DAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        69 -------------------------~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                                               =+||-...|.|..-=-|-.||+||-|.+|.+-.|++-++
T Consensus       529 ~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerheSrRID~QLrGRaGRQGDPGss~f~lSlED  592 (908)
T PRK13107        529 PTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHESRRIDNQLRGRAGRQGDAGSSRFYLSMED  592 (908)
T ss_pred             hhhHHHHHHHHHHHhhHHHHHHcCCCEEEecccCchHHHHhhhhcccccCCCCCceeEEEEeCc
Confidence                                     178888899999999999999999999999998888655

>COG1204 Superfamily II helicase [General function prediction only]

Probab=99.22  E-value=3.5e-11  Score=117.59  Aligned_cols=111  Identities=29%  Similarity=0.423  Sum_probs=93.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-------------------------------------CCcEEEEcCCCCHHHHHHHHH
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-------------------------------------GISSTYIYSDLDPTARKINAA   43 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-------------------------------------~~~~~~i~g~~~~~~r~~~~~   43 (251)
                      |++|||+|+..+...++.|+..                                     -..++++|++|+.+.|..+-+
T Consensus       255 qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHhAGL~~~~R~~vE~  334 (766)
T COG1204         255 QVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPREDRQLVED  334 (766)
T ss_pred             eEEEEEecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccccCCCHHHHHHHHH
Confidence            6899999999999999988731                                     024678999999999999999


Q ss_pred             HHhcCCceEEEeccccccccccccccEEE----Eec-----CCCChhhHHHHhhhcccCCC--CceEEEEe-cCccHHHH
Q psy18034         44 KFQTGKIRVLVVTDVAARGIDIPSLDAVI----NYN-----FPCKAKLFVHRVGRCARAGR--SGVAYSLV-SSDELCYY  111 (251)
Q Consensus        44 ~F~~g~~~iLv~Td~~~~Gldi~~v~~VI----~~d-----~P~~~~~y~qr~GR~gR~g~--~g~~i~l~-~~~e~~~~  111 (251)
                      .|+.|+++||+||+.++.|+|+|.-.+||    -||     .+-++-.+.|+.|||||.|-  .|.++.+. +..+..++
T Consensus       335 ~Fr~g~ikVlv~TpTLA~GVNLPA~~VIIk~~~~y~~~~g~~~i~~~dv~QM~GRAGRPg~d~~G~~~i~~~~~~~~~~~  414 (766)
T COG1204         335 AFRKGKIKVLVSTPTLAAGVNLPARTVIIKDTRRYDPKGGIVDIPVLDVLQMAGRAGRPGYDDYGEAIILATSHDELEYL  414 (766)
T ss_pred             HHhcCCceEEEechHHhhhcCCcceEEEEeeeEEEcCCCCeEECchhhHhhccCcCCCCCcCCCCcEEEEecCccchhHH
Confidence            99999999999999999999999888877    477     66789999999999999875  46777777 34444444

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

Probab=99.18  E-value=1.5e-10  Score=114.87  Aligned_cols=115  Identities=17%  Similarity=0.155  Sum_probs=96.3

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC-C
Q psy18034          2 TVVFTATKYHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP-C   78 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P-~   78 (251)
                      +-.-+|..++.+.+++.|+..  ...+++.||.|+..+-+.++.+|-+|+.+|||||.+.+-|||+|+++.+|--+.- .
T Consensus       806 vfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIPnANTiIIe~AD~f  885 (1139)
T COG1197         806 VFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANTIIIERADKF  885 (1139)
T ss_pred             EEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcCCCCEEEEeeeeecCcCCCCCceEEEeccccc
Confidence            334467788888888888877  5678999999999999999999999999999999999999999999988854432 4


Q ss_pred             ChhhHHHHhhhcccCCCCceEEEEecCc------cHHHHHHHHH
Q psy18034         79 KAKLFVHRVGRCARAGRSGVAYSLVSSD------ELCYYLDLLL  116 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~g~~i~l~~~~------e~~~~~~i~~  116 (251)
                      ..+++.|-.||+||.++.+.||.++.+.      -...+..|..
T Consensus       886 GLsQLyQLRGRVGRS~~~AYAYfl~p~~k~lT~~A~kRL~aI~~  929 (1139)
T COG1197         886 GLAQLYQLRGRVGRSNKQAYAYFLYPPQKALTEDAEKRLEAIAS  929 (1139)
T ss_pred             cHHHHHHhccccCCccceEEEEEeecCccccCHHHHHHHHHHHh
Confidence            5788999999999999999999999753      2445555554

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

Probab=99.17  E-value=5.5e-11  Score=117.59  Aligned_cols=119  Identities=29%  Similarity=0.431  Sum_probs=100.6

Q ss_pred             CEEEEcCcHHHHHHHH----HHHHhCC----CcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEE
Q psy18034          1 MTVVFTATKYHVEYVH----KILGLAG----ISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~----~~L~~~~----~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI   72 (251)
                      |+|+|+.++..++.++    +.+...+    ..+...+|+|...+|..+..+|+.|+..++++|.++.-|+|+.+++.||
T Consensus       308 ~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~g~~~~~~st~AlelgidiG~ldavi  387 (851)
T COG1205         308 QTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELLGVIATNALELGIDIGSLDAVI  387 (851)
T ss_pred             eEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCHHHHHHHHHHHhcCCccEEecchhhhhceeehhhhhHh
Confidence            6899999999999997    4444445    5688899999999999999999999999999999999999999999999


Q ss_pred             EecCCC-ChhhHHHHhhhcccCCCCceEEEEecCc--cHHHHHHHHHHhC
Q psy18034         73 NYNFPC-KAKLFVHRVGRCARAGRSGVAYSLVSSD--ELCYYLDLLLFLG  119 (251)
Q Consensus        73 ~~d~P~-~~~~y~qr~GR~gR~g~~g~~i~l~~~~--e~~~~~~i~~~l~  119 (251)
                      .+..|. +..+++||.||+||.++.+..+.+...+  +..+...-+.+..
T Consensus       388 ~~g~P~~s~~~~~Q~~GRaGR~~~~~l~~~v~~~~~~d~yy~~~p~~~~~  437 (851)
T COG1205         388 AYGYPGVSVLSFRQRAGRAGRRGQESLVLVVLRSDPLDSYYLRHPEELLE  437 (851)
T ss_pred             hcCCCCchHHHHHHhhhhccCCCCCceEEEEeCCCccchhhhhCcHhhhh
Confidence            999999 8999999999999999777777766533  3334444444444

>KOG4150|consensus

Probab=99.17  E-value=4.7e-11  Score=110.18  Aligned_cols=124  Identities=19%  Similarity=0.226  Sum_probs=100.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----C----CcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----G----ISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~----~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI   72 (251)
                      +||-||.++..|+.+....+..    +    -.+..+.|+...++|..+-...-.|+..-+|+|+++..|||+..++.|+
T Consensus       527 R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G~L~giIaTNALELGIDIG~LDAVl  606 (1034)
T KOG4150|consen  527 RCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALELGIDIGHLDAVL  606 (1034)
T ss_pred             cEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhCCeeeEEEecchhhhccccccceeEE
Confidence            5899999999999876655543    2    1245677999999999998888899999999999999999999999999


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEec--CccHHHHHHHHHHhCCCCee
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVS--SDELCYYLDLLLFLGRKPVL  124 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~--~~e~~~~~~i~~~l~~~~~~  124 (251)
                      +.++|.|...+.|+.||+||.+++..++.++.  |-+..|+..-...++.+-.+
T Consensus       607 ~~GFP~S~aNl~QQ~GRAGRRNk~SLavyva~~~PVDQ~Y~~HP~~l~~~pN~E  660 (1034)
T KOG4150|consen  607 HLGFPGSIANLWQQAGRAGRRNKPSLAVYVAFLGPVDQYYMSHPDKLFGSPNEE  660 (1034)
T ss_pred             EccCchhHHHHHHHhccccccCCCceEEEEEeccchhhHhhcCcHHHhCCCcce
Confidence            99999999999999999999999888766654  55666665555555544433

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

Probab=99.13  E-value=8.5e-10  Score=96.60  Aligned_cols=100  Identities=22%  Similarity=0.323  Sum_probs=81.6

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC-C-CcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEE-ecCC-
Q psy18034          2 TVVFTATKYHVEYVHKILGLA-G-ISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVIN-YNFP-   77 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~-~-~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~-~d~P-   77 (251)
                      ++||+++....+.+++.|+.. + ..++++|+.  ...|.+.+++||+|+..+||+|.+++||+.+|+|++.+- -.-+ 
T Consensus       308 ~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~--d~~R~EkV~~fR~G~~~lLiTTTILERGVTfp~vdV~Vlgaeh~v  385 (441)
T COG4098         308 VLIFFPEIETMEQVAAALKKKLPKETIASVHSE--DQHRKEKVEAFRDGKITLLITTTILERGVTFPNVDVFVLGAEHRV  385 (441)
T ss_pred             EEEEecchHHHHHHHHHHHhhCCccceeeeecc--CccHHHHHHHHHcCceEEEEEeehhhcccccccceEEEecCCccc
Confidence            689999999999999999544 3 345788887  357899999999999999999999999999999997653 3322 


Q ss_pred             CChhhHHHHhhhcccCCC--CceEEEEe
Q psy18034         78 CKAKLFVHRVGRCARAGR--SGVAYSLV  103 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~--~g~~i~l~  103 (251)
                      .+.+.++|.+||+||.-.  .|..+.|-
T Consensus       386 fTesaLVQIaGRvGRs~~~PtGdv~FFH  413 (441)
T COG4098         386 FTESALVQIAGRVGRSLERPTGDVLFFH  413 (441)
T ss_pred             ccHHHHHHHhhhccCCCcCCCCcEEEEe
Confidence            678999999999999643  46655553

>KOG0950|consensus

Probab=99.08  E-value=5.2e-10  Score=108.44  Aligned_cols=114  Identities=26%  Similarity=0.371  Sum_probs=96.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC--------------------------------------CCcEEEEcCCCCHHHHHHHH
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA--------------------------------------GISSTYIYSDLDPTARKINA   42 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~--------------------------------------~~~~~~i~g~~~~~~r~~~~   42 (251)
                      ++||||+++..|+.++..+...                                      ...++++|.+++.++|+.+-
T Consensus       462 ~~lvfc~sk~~ce~~a~~~~~~vpk~~~~e~~~~~~~~~s~s~~lr~~~~~ld~Vl~~ti~~GvAyHhaGLT~eER~~iE  541 (1008)
T KOG0950|consen  462 SVLVFCPSKKNCENVASLIAKKVPKHIKSEKRLGLWELLSISNLLRRIPGILDPVLAKTIPYGVAYHHAGLTSEEREIIE  541 (1008)
T ss_pred             eEEEEcCcccchHHHHHHHHHHhhHhhhhhhhhhHHHHHHHHhHhhcCCcccchHHheeccccceecccccccchHHHHH
Confidence            4899999999999888655321                                      14688999999999999999


Q ss_pred             HHHhcCCceEEEeccccccccccccccEEEEecC----CCChhhHHHHhhhcccCCC--CceEEEEecCccHHHHHHH
Q psy18034         43 AKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNF----PCKAKLFVHRVGRCARAGR--SGVAYSLVSSDELCYYLDL  114 (251)
Q Consensus        43 ~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~----P~~~~~y~qr~GR~gR~g~--~g~~i~l~~~~e~~~~~~i  114 (251)
                      ..|+.|.+.|++||+.++-|+|+|...+++-.-.    +-+.-.|.|++|||||+|-  .|.+++++.+.|...+.++
T Consensus       542 ~afr~g~i~vl~aTSTlaaGVNLPArRVIiraP~~g~~~l~~~~YkQM~GRAGR~gidT~GdsiLI~k~~e~~~~~~l  619 (1008)
T KOG0950|consen  542 AAFREGNIFVLVATSTLAAGVNLPARRVIIRAPYVGREFLTRLEYKQMVGRAGRTGIDTLGDSILIIKSSEKKRVREL  619 (1008)
T ss_pred             HHHHhcCeEEEEecchhhccCcCCcceeEEeCCccccchhhhhhHHhhhhhhhhcccccCcceEEEeeccchhHHHHH
Confidence            9999999999999999999999999998886432    3567889999999999975  5899999999988777643

>KOG0390|consensus

Probab=98.95  E-value=5e-09  Score=101.22  Aligned_cols=104  Identities=12%  Similarity=0.214  Sum_probs=90.3

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCce---EEEeccccccccccccccEEEEecCCC
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIR---VLVVTDVAARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~---iLv~Td~~~~Gldi~~v~~VI~~d~P~   78 (251)
                      +++..+.+.+.+.+...++..|..+..+||.|+..+|..+++.|.+....   .|.+|-+++.||++-+.+.||.||.+|
T Consensus       598 ~v~Isny~~tldl~e~~~~~~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~dW  677 (776)
T KOG0390|consen  598 SVLISNYTQTLDLFEQLCRWRGYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDPDW  677 (776)
T ss_pred             EEEeccHHHHHHHHHHHHhhcCceEEEEcCCCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCCCC
Confidence            44555777777778888888899999999999999999999999986433   678889999999999999999999999


Q ss_pred             ChhhHHHHhhhcccCCCCceE--EEEecC
Q psy18034         79 KAKLFVHRVGRCARAGRSGVA--YSLVSS  105 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~g~~--i~l~~~  105 (251)
                      ||..-.|.++|+.|.||+-.|  |-|++.
T Consensus       678 NPa~d~QAmaR~~RdGQKk~v~iYrLlat  706 (776)
T KOG0390|consen  678 NPAVDQQAMARAWRDGQKKPVYIYRLLAT  706 (776)
T ss_pred             CchhHHHHHHHhccCCCcceEEEEEeecC
Confidence            999999999999999998765  556653

>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]

Probab=98.95  E-value=4.8e-09  Score=103.00  Aligned_cols=106  Identities=20%  Similarity=0.247  Sum_probs=88.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHH----hcCCceEEEeccccccccccccccEEEEecC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKF----QTGKIRVLVVTDVAARGIDIPSLDAVINYNF   76 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F----~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~   76 (251)
                      |++|-|||...|..+++.|+..+..+..+||.+....|.+..+..    +.+...|+|+|.+.+-|+|+. .+++|-=  
T Consensus       442 kvlvI~NTV~~Aie~Y~~Lk~~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQVIEagvDid-fd~mITe--  518 (733)
T COG1203         442 KVLVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQVIEAGVDID-FDVLITE--  518 (733)
T ss_pred             cEEEEEecHHHHHHHHHHHHhcCCCEEEEecccchhhHHHHHHHHHHHHhccCCeEEEEeeEEEEEeccc-cCeeeec--
Confidence            589999999999999999999987799999999999998877754    456788999999999999994 7766643  


Q ss_pred             CCChhhHHHHhhhcccCC--CCceEEEEecCccHH
Q psy18034         77 PCKAKLFVHRVGRCARAG--RSGVAYSLVSSDELC  109 (251)
Q Consensus        77 P~~~~~y~qr~GR~gR~g--~~g~~i~l~~~~e~~  109 (251)
                      +...++.+||+||++|-|  ..|..+.+......+
T Consensus       519 ~aPidSLIQR~GRv~R~g~~~~~~~~v~~~~~~~~  553 (733)
T COG1203         519 LAPIDSLIQRAGRVNRHGKKENGKIYVYNDEERGP  553 (733)
T ss_pred             CCCHHHHHHHHHHHhhcccccCCceeEeecccCCC
Confidence            455889999999999999  567777776654433

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

Probab=98.94  E-value=2e-09  Score=105.62  Aligned_cols=104  Identities=24%  Similarity=0.394  Sum_probs=92.2

Q ss_pred             EEEEcCcHHHHHHHHHHHHh----CCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecC-
Q psy18034          2 TVVFTATKYHVEYVHKILGL----AGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNF-   76 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~----~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~-   76 (251)
                      ++||.+.....+...+.|+.    ....+..+||.|+.+++.++++.-..|+.+|+++|++++.+|.+|++.+||.-++ 
T Consensus       262 ILvFLpG~~EI~~~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~rvF~p~~~~~RKVVlATNIAETSLTI~gIr~VIDsG~a  341 (845)
T COG1643         262 ILVFLPGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLA  341 (845)
T ss_pred             EEEECCcHHHHHHHHHHHHhccccCCcEEeeccccCCHHHHHhhcCCCCCCcceEEEEccccccceeeCCeEEEecCCcc
Confidence            68999999999999999998    3578999999999999999888887787779999999999999999999996443 


Q ss_pred             -----------------CCChhhHHHHhhhcccCCCCceEEEEecCc
Q psy18034         77 -----------------PCKAKLFVHRVGRCARAGRSGVAYSLVSSD  106 (251)
Q Consensus        77 -----------------P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~  106 (251)
                                       |-|-.+..||.||+||-+ +|.||-+++.+
T Consensus       342 k~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR~~-pGicyRLyse~  387 (845)
T COG1643         342 KEKRYDPRTGLTRLETEPISKASADQRAGRAGRTG-PGICYRLYSEE  387 (845)
T ss_pred             cccccccccCceeeeEEEechhhhhhhccccccCC-CceEEEecCHH
Confidence                             567788899999999965 89999999853

>KOG0384|consensus

Probab=98.90  E-value=1.2e-08  Score=101.13  Aligned_cols=106  Identities=18%  Similarity=0.296  Sum_probs=99.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC---CceEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG---KIRVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g---~~~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |+|||..-....+-|+++|..++++---+-|.+..+-|.+.++.|...   ..-+|+||-+.+.|||+-.++.||-||--
T Consensus       701 rVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTRAGGLGINLatADTVIIFDSD  780 (1373)
T KOG0384|consen  701 RVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAGGLGINLATADTVIIFDSD  780 (1373)
T ss_pred             eEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCCCceEEEEecccCcccccccccceEEEeCCC
Confidence            689999999999999999999999999999999999999999999876   45699999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCc--eEEEEecCc
Q psy18034         78 CKAKLFVHRVGRCARAGRSG--VAYSLVSSD  106 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g--~~i~l~~~~  106 (251)
                      |||..=+|...||.|.||+.  .+|-|++.+
T Consensus       781 WNPQNDLQAqARaHRIGQkk~VnVYRLVTk~  811 (1373)
T KOG0384|consen  781 WNPQNDLQAQARAHRIGQKKHVNVYRLVTKN  811 (1373)
T ss_pred             CCcchHHHHHHHHHhhcccceEEEEEEecCC
Confidence            99999999999999999976  458888865

>KOG0922|consensus

Probab=98.84  E-value=7.2e-09  Score=97.48  Aligned_cols=106  Identities=22%  Similarity=0.338  Sum_probs=92.2

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC----C--C--cEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEE
Q psy18034          2 TVVFTATKYHVEYVHKILGLA----G--I--SSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVIN   73 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~----~--~--~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~   73 (251)
                      ++||-...+.++.+++.|.+.    +  .  -+..+||+|+.+++.++++.-..|..+|+++|++++.-+.||++.+||.
T Consensus       261 ILvFLtGqeEIe~~~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rvF~p~p~g~RKvIlsTNIAETSlTI~GI~YVVD  340 (674)
T KOG0922|consen  261 ILVFLTGQEEIEAACELLRERAKSLPEDCPELILPLYGALPSEEQSRVFDPAPPGKRKVILSTNIAETSLTIDGIRYVVD  340 (674)
T ss_pred             EEEEeCCHHHHHHHHHHHHHHhhhccccCcceeeeecccCCHHHhhccccCCCCCcceEEEEcceeeeeEEecceEEEEc
Confidence            689999999999999999876    1  1  2467999999999999999988899999999999999999999999996


Q ss_pred             ecC------------------CCChhhHHHHhhhcccCCCCceEEEEecCccH
Q psy18034         74 YNF------------------PCKAKLFVHRVGRCARAGRSGVAYSLVSSDEL  108 (251)
Q Consensus        74 ~d~------------------P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~  108 (251)
                      -++                  |-|..+-.||.||+||.| +|.|+-+++..+.
T Consensus       341 sG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~-pGkcyRLYte~~~  392 (674)
T KOG0922|consen  341 SGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTG-PGKCYRLYTESAY  392 (674)
T ss_pred             CCceEEEeeccccCccceeEEechHHHHhhhcccCCCCC-CceEEEeeeHHHH
Confidence            332                  567888899999999965 8999999987654

>KOG0947|consensus

Probab=98.83  E-value=3.8e-08  Score=95.71  Aligned_cols=115  Identities=20%  Similarity=0.259  Sum_probs=89.6

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCC---------------------------------------CcEEEEcCCCCHHHHHHHH
Q psy18034          2 TVVFTATKYHVEYVHKILGLAG---------------------------------------ISSTYIYSDLDPTARKINA   42 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~---------------------------------------~~~~~i~g~~~~~~r~~~~   42 (251)
                      +||||-++..|++.++.|...+                                       -+++++||++-+--++-+-
T Consensus       570 ~VvFvFSkkrCde~a~~L~~~nL~~~~EKseV~lfl~k~~~rLk~~DR~LPQvl~m~~ll~RGiaVHH~GlLPivKE~VE  649 (1248)
T KOG0947|consen  570 VVVFVFSKKRCDEYADYLTNLNLTDSKEKSEVHLFLSKAVARLKGEDRNLPQVLSMRSLLLRGIAVHHGGLLPIVKEVVE  649 (1248)
T ss_pred             eEEEEEccccHHHHHHHHhccCcccchhHHHHHHHHHHHHHhcChhhccchHHHHHHHHHhhcchhhcccchHHHHHHHH
Confidence            6899999999999999996442                                       2367789999888888777


Q ss_pred             HHHhcCCceEEEeccccccccccccccEEEEe----c----CCCChhhHHHHhhhcccCCC--CceEEEEecCccHHHHH
Q psy18034         43 AKFQTGKIRVLVVTDVAARGIDIPSLDAVINY----N----FPCKAKLFVHRVGRCARAGR--SGVAYSLVSSDELCYYL  112 (251)
Q Consensus        43 ~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~----d----~P~~~~~y~qr~GR~gR~g~--~g~~i~l~~~~e~~~~~  112 (251)
                      --|..|-++||.||..+++|+|.|.-++|+.-    |    ---.|-.|.|++|||||.|-  .|.++.+... ..+-..
T Consensus       650 ~LFqrGlVKVLFATETFAMGVNMPARtvVF~Sl~KhDG~efR~L~PGEytQMAGRAGRRGlD~tGTVii~~~~-~vp~~a  728 (1248)
T KOG0947|consen  650 LLFQRGLVKVLFATETFAMGVNMPARTVVFSSLRKHDGNEFRELLPGEYTQMAGRAGRRGLDETGTVIIMCKD-SVPSAA  728 (1248)
T ss_pred             HHHhcCceEEEeehhhhhhhcCCCceeEEeeehhhccCcceeecCChhHHhhhccccccccCcCceEEEEecC-CCCCHH
Confidence            88999999999999999999999988888741    1    11357899999999999985  4666665543 344444


Q ss_pred             HHHHH
Q psy18034        113 DLLLF  117 (251)
Q Consensus       113 ~i~~~  117 (251)
                      .+...
T Consensus       729 ~l~~l  733 (1248)
T KOG0947|consen  729 TLKRL  733 (1248)
T ss_pred             HHhhH
Confidence            55443

>KOG0385|consensus

Probab=98.83  E-value=2e-08  Score=95.75  Aligned_cols=107  Identities=17%  Similarity=0.286  Sum_probs=97.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCC---ceEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGK---IRVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~---~~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |++||..-....+-|-.++.-+|+..+.+.|+++.++|...++.|....   .=.|++|-+.+-|||+...+.||.||--
T Consensus       489 RVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~aADtVIlyDSD  568 (971)
T KOG0385|consen  489 RVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLTAADTVILYDSD  568 (971)
T ss_pred             eEEEeHHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEeccccccccccccccEEEEecCC
Confidence            6899999999999999999999999999999999999999999998875   3488999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCce--EEEEecCcc
Q psy18034         78 CKAKLFVHRVGRCARAGRSGV--AYSLVSSDE  107 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~--~i~l~~~~e  107 (251)
                      |||..=.|.+-||.|.|+...  ++-|++.+.
T Consensus       569 WNPQ~DLQAmDRaHRIGQ~K~V~V~RLitent  600 (971)
T KOG0385|consen  569 WNPQVDLQAMDRAHRIGQKKPVVVYRLITENT  600 (971)
T ss_pred             CCchhhhHHHHHHHhhCCcCceEEEEEeccch
Confidence            999999999999999999764  456676553

>KOG0387|consensus

Probab=98.79  E-value=2.6e-08  Score=95.17  Aligned_cols=115  Identities=17%  Similarity=0.263  Sum_probs=99.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHH-hCCCcEEEEcCCCCHHHHHHHHHHHhcCCc--eEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILG-LAGISSTYIYSDLDPTARKINAAKFQTGKI--RVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~-~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~--~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      ++++|..|+...+.+-..|. ..|+....+.|..+...|...+++|.++..  -.|++|-|.+.|+|+-.++.||-||+-
T Consensus       548 rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPd  627 (923)
T KOG0387|consen  548 RVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTTRVGGLGLNLTGANRVIIFDPD  627 (923)
T ss_pred             EEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhhcCCCceEEEEEEecccccccccccCceEEEECCC
Confidence            58999999999999999998 579999999999999999999999998854  378999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCce--EEEEecC---ccHHHHHHHH
Q psy18034         78 CKAKLFVHRVGRCARAGRSGV--AYSLVSS---DELCYYLDLL  115 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~--~i~l~~~---~e~~~~~~i~  115 (251)
                      |||++=.|..-|+.|.|++..  +|-|++.   +|.-|.+++.
T Consensus       628 WNPStD~QAreRawRiGQkkdV~VYRL~t~gTIEEkiY~rQI~  670 (923)
T KOG0387|consen  628 WNPSTDNQARERAWRIGQKKDVVVYRLMTAGTIEEKIYHRQIF  670 (923)
T ss_pred             CCCccchHHHHHHHhhcCccceEEEEEecCCcHHHHHHHHHHH
Confidence            999999999999999999754  3556654   3444444443

>KOG0951|consensus

Probab=98.78  E-value=2.8e-08  Score=98.83  Aligned_cols=115  Identities=23%  Similarity=0.370  Sum_probs=95.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-------------------------------------CCcEEEEcCCCCHHHHHHHHH
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-------------------------------------GISSTYIYSDLDPTARKINAA   43 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-------------------------------------~~~~~~i~g~~~~~~r~~~~~   43 (251)
                      |+|||+.+++.+...++.++..                                     .++.+..|.||+..+|..+-+
T Consensus       548 qVLVFVHsRkET~ktA~aIRd~~le~dtls~fmre~s~s~eilrtea~~~kn~dLkdLLpygfaIHhAGl~R~dR~~~Ed  627 (1674)
T KOG0951|consen  548 QVLVFVHSRKETAKTARAIRDKALEEDTLSRFMREDSASREILRTEAGQAKNPDLKDLLPYGFAIHHAGLNRKDRELVED  627 (1674)
T ss_pred             cEEEEEEechHHHHHHHHHHHHHhhhhHHHHHHhcccchhhhhhhhhhcccChhHHHHhhccceeeccCCCcchHHHHHH
Confidence            6899999998888777777621                                     145778999999999999999


Q ss_pred             HHhcCCceEEEeccccccccccccccEEEE----ecC------CCChhhHHHHhhhcccCC--CCceEEEEecCccHHHH
Q psy18034         44 KFQTGKIRVLVVTDVAARGIDIPSLDAVIN----YNF------PCKAKLFVHRVGRCARAG--RSGVAYSLVSSDELCYY  111 (251)
Q Consensus        44 ~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~----~d~------P~~~~~y~qr~GR~gR~g--~~g~~i~l~~~~e~~~~  111 (251)
                      -|++|.+++||+|-.++.|+|+|.-+++|-    ||+      +-+|..-.||.||+||.+  +.|..+.+....|+.++
T Consensus       628 Lf~~g~iqvlvstatlawgvnlpahtViikgtqvy~pekg~w~elsp~dv~qmlgragrp~~D~~gegiiit~~se~qyy  707 (1674)
T KOG0951|consen  628 LFADGHIQVLVSTATLAWGVNLPAHTVIIKGTQVYDPEKGRWTELSPLDVMQMLGRAGRPQYDTCGEGIIITDHSELQYY  707 (1674)
T ss_pred             HHhcCceeEEEeehhhhhhcCCCcceEEecCccccCcccCccccCCHHHHHHHHhhcCCCccCcCCceeeccCchHhhhh
Confidence            999999999999999999999999988883    664      467899999999999975  45777777777777776


Q ss_pred             HHHH
Q psy18034        112 LDLL  115 (251)
Q Consensus       112 ~~i~  115 (251)
                      ..++
T Consensus       708 ls~m  711 (1674)
T KOG0951|consen  708 LSLM  711 (1674)
T ss_pred             HHhh
Confidence            5543

>KOG0392|consensus

Probab=98.74  E-value=4.7e-08  Score=96.98  Aligned_cols=107  Identities=22%  Similarity=0.321  Sum_probs=92.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCC-cEE--EEcCCCCHHHHHHHHHHHhcC-CceEE-EeccccccccccccccEEEEec
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGI-SST--YIYSDLDPTARKINAAKFQTG-KIRVL-VVTDVAARGIDIPSLDAVINYN   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~-~~~--~i~g~~~~~~r~~~~~~F~~g-~~~iL-v~Td~~~~Gldi~~v~~VI~~d   75 (251)
                      |++|||.-+...+.+.+-|.+... .+.  .+.|+.++.+|.+++++|.++ .+++| ++|-|.+-|+|+-+.+.||.++
T Consensus      1342 RiLIFcQlK~mlDlVekDL~k~~mpsVtymRLDGSVpp~~R~kiV~~FN~DptIDvLlLTThVGGLGLNLTGADTVVFvE 1421 (1549)
T KOG0392|consen 1342 RILIFCQLKSMLDLVEKDLFKKYMPSVTYMRLDGSVPPGDRQKIVERFNEDPTIDVLLLTTHVGGLGLNLTGADTVVFVE 1421 (1549)
T ss_pred             eeEEeeeHHHHHHHHHHHHhhhhcCceeEEEecCCCCcHHHHHHHHHhcCCCceeEEEEeeeccccccccCCCceEEEEe
Confidence            689999999999999887766533 343  678999999999999999999 77766 6778999999999999999999


Q ss_pred             CCCChhhHHHHhhhcccCCCCce--EEEEecCcc
Q psy18034         76 FPCKAKLFVHRVGRCARAGRSGV--AYSLVSSDE  107 (251)
Q Consensus        76 ~P~~~~~y~qr~GR~gR~g~~g~--~i~l~~~~e  107 (251)
                      --|||..=+|.+.||.|.|++..  ++-+++..-
T Consensus      1422 HDWNPMrDLQAMDRAHRIGQKrvVNVyRlItrGT 1455 (1549)
T KOG0392|consen 1422 HDWNPMRDLQAMDRAHRIGQKRVVNVYRLITRGT 1455 (1549)
T ss_pred             cCCCchhhHHHHHHHHhhcCceeeeeeeehhccc
Confidence            99999999999999999999864  466666543

>PRK12903 secA preprotein translocase subunit SecA; Reviewed

Probab=98.70  E-value=1e-07  Score=93.02  Aligned_cols=103  Identities=25%  Similarity=0.298  Sum_probs=86.2

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC-CceEEEecccccccccccccc--------EEE
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG-KIRVLVVTDVAARGIDIPSLD--------AVI   72 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g-~~~iLv~Td~~~~Gldi~~v~--------~VI   72 (251)
                      +||.|.|....+.|+..|...|++...++..-  .+++..+-+ ..| .-.|.|||++|+||.||.--.        +||
T Consensus       429 VLVgT~SIe~SE~ls~~L~~~gi~h~vLNAk~--~e~EA~IIa-~AG~~GaVTIATNMAGRGTDI~Lg~~V~~~GGLhVI  505 (925)
T PRK12903        429 ILIGTAQVEDSETLHELLLEANIPHTVLNAKQ--NAREAEIIA-KAGQKGAITIATNMAGRGTDIKLSKEVLELGGLYVL  505 (925)
T ss_pred             EEEEeCcHHHHHHHHHHHHHCCCCceeecccc--hhhHHHHHH-hCCCCCeEEEecccccCCcCccCchhHHHcCCcEEE
Confidence            79999999999999999999999999998863  344444433 455 456999999999999996332        899


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      ....|.|..---|-.||+||.|.+|.+-.+++-++
T Consensus       506 gTerheSrRIDnQLrGRaGRQGDpGss~f~lSLeD  540 (925)
T PRK12903        506 GTDKAESRRIDNQLRGRSGRQGDVGESRFFISLDD  540 (925)
T ss_pred             ecccCchHHHHHHHhcccccCCCCCcceEEEecch
Confidence            99999999999999999999999999888877543

>KOG0923|consensus

Probab=98.68  E-value=4e-08  Score=92.41  Aligned_cols=103  Identities=23%  Similarity=0.358  Sum_probs=88.0

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC---------CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEE
Q psy18034          2 TVVFTATKYHVEYVHKILGLA---------GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI   72 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~---------~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI   72 (251)
                      +|||....+..+...+.|...         .+-++.+|+.+|.+.+..+++.--.|..+|++||++|...+.|+++.+||
T Consensus       476 ILVFltGQeEIEt~~e~l~~~~~~LGski~eliv~PiYaNLPselQakIFePtP~gaRKVVLATNIAETSlTIdgI~yVi  555 (902)
T KOG0923|consen  476 ILVFLTGQEEIETVKENLKERCRRLGSKIRELIVLPIYANLPSELQAKIFEPTPPGARKVVLATNIAETSLTIDGIKYVI  555 (902)
T ss_pred             EEEEeccHHHHHHHHHHHHHHHHHhccccceEEEeeccccCChHHHHhhcCCCCCCceeEEEeecchhhceeecCeEEEe
Confidence            588888888777776666544         24578899999999999999999999999999999999999999999999


Q ss_pred             EecC------------------CCChhhHHHHhhhcccCCCCceEEEEecC
Q psy18034         73 NYNF------------------PCKAKLFVHRVGRCARAGRSGVAYSLVSS  105 (251)
Q Consensus        73 ~~d~------------------P~~~~~y~qr~GR~gR~g~~g~~i~l~~~  105 (251)
                      .-++                  |.|..+-.||+||+||.| +|.|+-+++.
T Consensus       556 DpGf~K~nsynprtGmesL~v~piSKAsA~QRaGRAGRtg-PGKCfRLYt~  605 (902)
T KOG0923|consen  556 DPGFVKQNSYNPRTGMESLLVTPISKASANQRAGRAGRTG-PGKCFRLYTA  605 (902)
T ss_pred             cCccccccCcCCCcCceeEEEeeechhhhhhhccccCCCC-CCceEEeech
Confidence            6433                  667788899999999987 8999999984

>KOG0952|consensus

Probab=98.66  E-value=1.1e-07  Score=93.36  Aligned_cols=115  Identities=23%  Similarity=0.346  Sum_probs=92.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----C-------------------CcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----G-------------------ISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~-------------------~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      +++|||.++..+-..++.|.+.    |                   ......|.||...+|..+-+.|..|-++||+||.
T Consensus       351 qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~E~~F~~G~i~vL~cTa  430 (1230)
T KOG0952|consen  351 QVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVEKEFKEGHIKVLCCTA  430 (1230)
T ss_pred             eEEEEEecChHHHHHHHHHHHHHHhcCcccccCCChhhHHHHHHHHhhhhhcccccchhhHHHHHHHHhcCCceEEEecc
Confidence            5899999998888888877544    1                   2356789999999999999999999999999999


Q ss_pred             ccccccccccccEEEE----ecCCC------ChhhHHHHhhhcccC--CCCceEEEEecCccHHHHHHHH
Q psy18034         58 VAARGIDIPSLDAVIN----YNFPC------KAKLFVHRVGRCARA--GRSGVAYSLVSSDELCYYLDLL  115 (251)
Q Consensus        58 ~~~~Gldi~~v~~VI~----~d~P~------~~~~y~qr~GR~gR~--g~~g~~i~l~~~~e~~~~~~i~  115 (251)
                      .++-|+|+|.--++|-    ||.-.      +.-..+|..|||||.  +..|.++.+.+.+-+..+..+.
T Consensus       431 TLAwGVNLPA~aViIKGT~~ydsskg~f~dlgilDVlQifGRAGRPqFd~~G~giIiTt~dkl~~Y~sLl  500 (1230)
T KOG0952|consen  431 TLAWGVNLPAYAVIIKGTQVYDSSKGSFVDLGILDVLQIFGRAGRPQFDSSGEGIIITTRDKLDHYESLL  500 (1230)
T ss_pred             eeeeccCCcceEEEecCCcccccccCceeeehHHHHHHHHhccCCCCCCCCceEEEEecccHHHHHHHHH
Confidence            9999999998766663    44322      345678999999996  5679999998887777766543

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

Probab=98.62  E-value=2.9e-07  Score=91.66  Aligned_cols=106  Identities=15%  Similarity=0.262  Sum_probs=95.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC--CceEEEeccccccccccccccEEEEecCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG--KIRVLVVTDVAARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g--~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~   78 (251)
                      |++||++.....+-+...|+..++....++|+++...|...++.|.++  ..-++++|.+++.|+|+...++||.||..|
T Consensus       713 kvlifsq~t~~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~v~lls~kagg~glnLt~a~~vi~~d~~w  792 (866)
T COG0553         713 KVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLKAGGLGLNLTGADTVILFDPWW  792 (866)
T ss_pred             cEEEEeCcHHHHHHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHhhcCCCCceEEEEecccccceeecccceEEEecccc
Confidence            689999999999999999999998899999999999999999999996  445777788999999999999999999999


Q ss_pred             ChhhHHHHhhhcccCCCCceE--EEEecCc
Q psy18034         79 KAKLFVHRVGRCARAGRSGVA--YSLVSSD  106 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~g~~--i~l~~~~  106 (251)
                      ++....|...|+.|.|+...+  +-+++.+
T Consensus       793 np~~~~Qa~dRa~RigQ~~~v~v~r~i~~~  822 (866)
T COG0553         793 NPAVELQAIDRAHRIGQKRPVKVYRLITRG  822 (866)
T ss_pred             ChHHHHHHHHHHHHhcCcceeEEEEeecCC
Confidence            999999999999999987654  4555544

>KOG0924|consensus

Probab=98.56  E-value=8.2e-08  Score=90.66  Aligned_cols=103  Identities=24%  Similarity=0.411  Sum_probs=84.5

Q ss_pred             EEEEcCcHHHHHHHHHHHH----hC------CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEE
Q psy18034          2 TVVFTATKYHVEYVHKILG----LA------GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAV   71 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~----~~------~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~V   71 (251)
                      ++||....+.++..+..+.    ..      ++.+..+|+.|++.-+.++++.--.|..+++|||++|...+.+|++.+|
T Consensus       566 ilIfmtGqediE~t~~~i~~~l~ql~~~~~~~L~vlpiYSQLp~dlQ~kiFq~a~~~vRK~IvATNIAETSLTi~gI~yV  645 (1042)
T KOG0924|consen  566 ILIFMTGQEDIECTCDIIKEKLEQLDSAPTTDLAVLPIYSQLPADLQAKIFQKAEGGVRKCIVATNIAETSLTIPGIRYV  645 (1042)
T ss_pred             EEEecCCCcchhHHHHHHHHHHHhhhcCCCCceEEEeehhhCchhhhhhhcccCCCCceeEEEeccchhhceeecceEEE
Confidence            5788877665555444443    32      5788999999999999888888888889999999999999999999999


Q ss_pred             EEecC------------------CCChhhHHHHhhhcccCCCCceEEEEecC
Q psy18034         72 INYNF------------------PCKAKLFVHRVGRCARAGRSGVAYSLVSS  105 (251)
Q Consensus        72 I~~d~------------------P~~~~~y~qr~GR~gR~g~~g~~i~l~~~  105 (251)
                      |..++                  |-|...-.||.||+||.| +|.||-+++.
T Consensus       646 ID~Gy~K~kvyn~~~G~D~L~~~pIS~AnA~QRaGRAGRt~-pG~cYRlYTe  696 (1042)
T KOG0924|consen  646 IDTGYCKLKVYNPRIGMDALQIVPISQANADQRAGRAGRTG-PGTCYRLYTE  696 (1042)
T ss_pred             EecCceeeeecccccccceeEEEechhccchhhccccCCCC-Ccceeeehhh
Confidence            97543                  667777789999999976 8999999885

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

Probab=98.52  E-value=4.9e-07  Score=88.85  Aligned_cols=71  Identities=25%  Similarity=0.500  Sum_probs=64.2

Q ss_pred             EEEEcCc---HHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEec----cccccccccc-cccEEEE
Q psy18034          2 TVVFTAT---KYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVT----DVAARGIDIP-SLDAVIN   73 (251)
Q Consensus         2 ~iIF~~t---~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~T----d~~~~Gldi~-~v~~VI~   73 (251)
                      .|||++.   ++.++++++.|+..|+.+..+|+.     ....++.|..|++++||..    .++-||+|+| .+.++|.
T Consensus       338 gLIfV~~d~G~e~aeel~e~Lr~~Gi~a~~~~a~-----~~~~le~F~~GeidvLVGvAsyYG~lVRGlDLP~rirYaIF  412 (1187)
T COG1110         338 GLIFVPIDYGREKAEELAEYLRSHGINAELIHAE-----KEEALEDFEEGEVDVLVGVASYYGVLVRGLDLPHRIRYAVF  412 (1187)
T ss_pred             eEEEEEcHHhHHHHHHHHHHHHhcCceEEEeecc-----chhhhhhhccCceeEEEEecccccceeecCCchhheeEEEE
Confidence            5899999   999999999999999999999984     2677999999999999874    5899999999 6789999


Q ss_pred             ecCC
Q psy18034         74 YNFP   77 (251)
Q Consensus        74 ~d~P   77 (251)
                      |+.|
T Consensus       413 ~GvP  416 (1187)
T COG1110         413 YGVP  416 (1187)
T ss_pred             ecCC
Confidence            9998

>KOG0920|consensus

Probab=98.51  E-value=1.8e-07  Score=92.08  Aligned_cols=104  Identities=19%  Similarity=0.302  Sum_probs=89.7

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC-------CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEE-
Q psy18034          2 TVVFTATKYHVEYVHKILGLA-------GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVIN-   73 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~-------~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~-   73 (251)
                      +|||-+....+..+.+.|...       .+-+..+|+.|+..++..++..--.|..+|+++|++|+-.|.|++|-+||. 
T Consensus       416 ILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~VF~~pp~g~RKIIlaTNIAETSITIdDVvyVIDs  495 (924)
T KOG0920|consen  416 ILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAVFKRPPKGTRKIILATNIAETSITIDDVVYVIDS  495 (924)
T ss_pred             EEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHhcCCCCCCcchhhhhhhhHhhcccccCeEEEEec
Confidence            689999999999999999753       256788999999999999999999999999999999999999999999996 


Q ss_pred             -------ecCCC----------ChhhHHHHhhhcccCCCCceEEEEecCc
Q psy18034         74 -------YNFPC----------KAKLFVHRVGRCARAGRSGVAYSLVSSD  106 (251)
Q Consensus        74 -------~d~P~----------~~~~y~qr~GR~gR~g~~g~~i~l~~~~  106 (251)
                             ||.-.          +...-.||.||+||. +.|.||.+++..
T Consensus       496 G~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGRv-~~G~cy~L~~~~  544 (924)
T KOG0920|consen  496 GLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGRV-RPGICYHLYTRS  544 (924)
T ss_pred             CeeeeeeecccCCcchhheeeccccchHHhcccccCc-cCCeeEEeechh
Confidence                   55432          344457999999996 689999999853

>KOG0948|consensus

Probab=98.51  E-value=1.3e-07  Score=90.10  Aligned_cols=105  Identities=20%  Similarity=0.333  Sum_probs=86.1

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCC---------------------------------------CcEEEEcCCCCHHHHHHHH
Q psy18034          2 TVVFTATKYHVEYVHKILGLAG---------------------------------------ISSTYIYSDLDPTARKINA   42 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~---------------------------------------~~~~~i~g~~~~~~r~~~~   42 (251)
                      +|||+-+++.|+.++-.+....                                       -++...|||+-+--++-+-
T Consensus       386 VIvFSFSkkeCE~~Alqm~kldfN~deEk~~V~~iF~nAi~~LseeDr~LPqie~iLPLL~RGIGIHHsGLLPIlKE~IE  465 (1041)
T KOG0948|consen  386 VIVFSFSKKECEAYALQMSKLDFNTDEEKELVETIFNNAIDQLSEEDRELPQIENILPLLRRGIGIHHSGLLPILKEVIE  465 (1041)
T ss_pred             eEEEEecHhHHHHHHHhhccCcCCChhHHHHHHHHHHHHHHhcChhhccchHHHHHHHHHHhccccccccchHHHHHHHH
Confidence            7999999999999998886441                                       1356789999888877777


Q ss_pred             HHHhcCCceEEEeccccccccccccccEEEE----ecCC----CChhhHHHHhhhcccCCC--CceEEEEecCc
Q psy18034         43 AKFQTGKIRVLVVTDVAARGIDIPSLDAVIN----YNFP----CKAKLFVHRVGRCARAGR--SGVAYSLVSSD  106 (251)
Q Consensus        43 ~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~----~d~P----~~~~~y~qr~GR~gR~g~--~g~~i~l~~~~  106 (251)
                      --|..|-+++|.||..++.|+|.|.-++|+-    ||--    -+.-.|+|+.|||||.|-  .|.+|+++...
T Consensus       466 ILFqEGLvKvLFATETFsiGLNMPAkTVvFT~~rKfDG~~fRwissGEYIQMSGRAGRRG~DdrGivIlmiDek  539 (1041)
T KOG0948|consen  466 ILFQEGLVKVLFATETFSIGLNMPAKTVVFTAVRKFDGKKFRWISSGEYIQMSGRAGRRGIDDRGIVILMIDEK  539 (1041)
T ss_pred             HHHhccHHHHHHhhhhhhhccCCcceeEEEeeccccCCcceeeecccceEEecccccccCCCCCceEEEEecCc
Confidence            7899999999999999999999998887773    3321    356789999999999986  58888888753

>PRK12326 preprotein translocase subunit SecA; Reviewed

Probab=98.50  E-value=9.2e-07  Score=85.24  Aligned_cols=103  Identities=26%  Similarity=0.221  Sum_probs=84.6

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC-CceEEEeccccccccccccc------------
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG-KIRVLVVTDVAARGIDIPSL------------   68 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g-~~~iLv~Td~~~~Gldi~~v------------   68 (251)
                      +||.|.|....+.++..|.+.|+++..++..-...+- +++.+  .| .-.|-|||++|+||.||.--            
T Consensus       430 VLVgt~sI~~SE~ls~~L~~~gI~h~vLNAk~~~~EA-~IIa~--AG~~gaVTIATNMAGRGTDIkLg~~~~~~~~~V~~  506 (764)
T PRK12326        430 VLVGTHDVAESEELAERLRAAGVPAVVLNAKNDAEEA-RIIAE--AGKYGAVTVSTQMAGRGTDIRLGGSDEADRDRVAE  506 (764)
T ss_pred             EEEEeCCHHHHHHHHHHHHhCCCcceeeccCchHhHH-HHHHh--cCCCCcEEEEecCCCCccCeecCCCcccchHHHHH
Confidence            7899999999999999999999999999887443332 22222  34 34689999999999998622            


Q ss_pred             ---cEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         69 ---DAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        69 ---~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                         =+||-...|.|...--|-.||+||-|.+|.+-.|++-++
T Consensus       507 ~GGLhVIgTerheSrRID~QLrGRaGRQGDpGss~f~lSleD  548 (764)
T PRK12326        507 LGGLHVIGTGRHRSERLDNQLRGRAGRQGDPGSSVFFVSLED  548 (764)
T ss_pred             cCCcEEEeccCCchHHHHHHHhcccccCCCCCceeEEEEcch
Confidence               179999999999999999999999999999988887554

>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]

Probab=98.39  E-value=9.7e-07  Score=85.30  Aligned_cols=91  Identities=22%  Similarity=0.294  Sum_probs=76.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-----CCcEEEEcCCCCHHHHHHHHHHHhcC--CceEEEeccccccccccccccEEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-----GISSTYIYSDLDPTARKINAAKFQTG--KIRVLVVTDVAARGIDIPSLDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-----~~~~~~i~g~~~~~~r~~~~~~F~~g--~~~iLv~Td~~~~Gldi~~v~~VI~   73 (251)
                      ||||||.+..||+.+.+.|...     |--+..|+|+-.+.  ...++.|...  --+|.|+.|++..|+|+|.|.+++.
T Consensus       428 KTIvFa~n~dHAe~i~~~~~~~ype~~~~~a~~IT~d~~~~--q~~Id~f~~ke~~P~IaitvdlL~TGiDvpev~nlVF  505 (875)
T COG4096         428 KTIVFAKNHDHAERIREALVNEYPEYNGRYAMKITGDAEQA--QALIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNLVF  505 (875)
T ss_pred             ceEEEeeCcHHHHHHHHHHHHhCccccCceEEEEeccchhh--HHHHHHHHhcCCCCceEEehhhhhcCCCchheeeeee
Confidence            7999999999999999999876     34467788875543  4446666653  3468888899999999999999999


Q ss_pred             ecCCCChhhHHHHhhhcccC
Q psy18034         74 YNFPCKAKLFVHRVGRCARA   93 (251)
Q Consensus        74 ~d~P~~~~~y~qr~GR~gR~   93 (251)
                      +-.-.|...|.|++||.-|.
T Consensus       506 ~r~VrSktkF~QMvGRGTRl  525 (875)
T COG4096         506 DRKVRSKTKFKQMVGRGTRL  525 (875)
T ss_pred             hhhhhhHHHHHHHhcCcccc
Confidence            99999999999999998885

>PRK12899 secA preprotein translocase subunit SecA; Reviewed

Probab=98.37  E-value=3e-06  Score=83.69  Aligned_cols=103  Identities=26%  Similarity=0.269  Sum_probs=84.4

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC-CceEEEecccccccccccc---cc-----EEE
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG-KIRVLVVTDVAARGIDIPS---LD-----AVI   72 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g-~~~iLv~Td~~~~Gldi~~---v~-----~VI   72 (251)
                      +||-|.|....+.++..|...|++...++..-.  +++..+-+ ..| .-.|.|||++++||.||.-   |.     +||
T Consensus       571 vLigt~si~~se~ls~~L~~~gi~h~vLNak~~--~~Ea~iia-~AG~~g~VTIATNmAGRGTDIkl~~~v~~~GGLhVI  647 (970)
T PRK12899        571 ILIGTESVEVSEKLSRILRQNRIEHTVLNAKNH--AQEAEIIA-GAGKLGAVTVATNMAGRGTDIKLDEEAVAVGGLYVI  647 (970)
T ss_pred             EEEEeCcHHHHHHHHHHHHHcCCcceecccchh--hhHHHHHH-hcCCCCcEEEeeccccCCcccccCchHHhcCCcEEE
Confidence            789999999999999999999999988888633  33322222 234 3468999999999999852   22     789


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      -...|.|...--|-.||+||-|.+|.+-.|++-++
T Consensus       648 gTer~es~Rid~Ql~GRagRQGdpGss~f~lSlED  682 (970)
T PRK12899        648 GTSRHQSRRIDRQLRGRCARLGDPGAAKFFLSFED  682 (970)
T ss_pred             eeccCchHHHHHHHhcccccCCCCCceeEEEEcch
Confidence            99999999999999999999999999998888654

>KOG1002|consensus

Probab=98.35  E-value=1.8e-06  Score=79.31  Aligned_cols=107  Identities=17%  Similarity=0.234  Sum_probs=93.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC-CceEE-EeccccccccccccccEEEEecCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG-KIRVL-VVTDVAARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g-~~~iL-v~Td~~~~Gldi~~v~~VI~~d~P~   78 (251)
                      |.|||.......+.+...|.+.|+.|+.+-|+|++.+|...++.|++. .++|+ ++-.+.+-.+|+-..++|+..|+-|
T Consensus       640 KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~vfLvSLkAGGVALNLteASqVFmmDPWW  719 (791)
T KOG1002|consen  640 KSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCRVFLVSLKAGGVALNLTEASQVFMMDPWW  719 (791)
T ss_pred             hhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeEEEEEEeccCceEeeechhceeEeecccc
Confidence            578999999999999999999999999999999999999999999987 66655 5557777789999999999999999


Q ss_pred             ChhhHHHHhhhcccCCCC--ceEEEEecCcc
Q psy18034         79 KAKLFVHRVGRCARAGRS--GVAYSLVSSDE  107 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~--g~~i~l~~~~e  107 (251)
                      +|.--.|...|..|.|+.  -.++.|+..+.
T Consensus       720 NpaVe~Qa~DRiHRIGQ~rPvkvvrf~iEns  750 (791)
T KOG1002|consen  720 NPAVEWQAQDRIHRIGQYRPVKVVRFCIENS  750 (791)
T ss_pred             cHHHHhhhhhhHHhhcCccceeEEEeehhcc
Confidence            999999999999999974  45667765543

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

Probab=98.34  E-value=3.8e-06  Score=84.11  Aligned_cols=74  Identities=18%  Similarity=0.286  Sum_probs=59.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccccccccccccc--EEEEe
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLD--AVINY   74 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~--~VI~~   74 (251)
                      +++|||+|....+.++..|...    ++.+  +..+.. ..|..++++|+.++..||++|+.+.||+|+|+..  +||-.
T Consensus       676 ~~LVlftS~~~l~~v~~~L~~~~~~~~~~~--l~q~~~-~~r~~ll~~F~~~~~~iLlgt~sf~EGVD~~g~~l~~viI~  752 (850)
T TIGR01407       676 KILVLFTSYEMLHMVYDMLNELPEFEGYEV--LAQGIN-GSRAKIKKRFNNGEKAILLGTSSFWEGVDFPGNGLVCLVIP  752 (850)
T ss_pred             CEEEEeCCHHHHHHHHHHHhhhccccCceE--EecCCC-ccHHHHHHHHHhCCCeEEEEcceeecccccCCCceEEEEEe
Confidence            5899999999999999999752    3333  333333 5788999999999999999999999999999665  56656


Q ss_pred             cCC
Q psy18034         75 NFP   77 (251)
Q Consensus        75 d~P   77 (251)
                      .+|
T Consensus       753 ~LP  755 (850)
T TIGR01407       753 RLP  755 (850)
T ss_pred             CCC
Confidence            655

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.

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

Probab=98.31  E-value=3.3e-06  Score=82.13  Aligned_cols=100  Identities=24%  Similarity=0.282  Sum_probs=75.7

Q ss_pred             HHHHHHHHHhC--CCcEEEEcCCCCH--HHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecC------C----
Q psy18034         12 VEYVHKILGLA--GISSTYIYSDLDP--TARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNF------P----   77 (251)
Q Consensus        12 ~~~l~~~L~~~--~~~~~~i~g~~~~--~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~------P----   77 (251)
                      ++.+.+.|...  +.++..+.++.+.  ..-...++.|.+|+.+|||.|.+++.|.|+|+++.|.-.|.      |    
T Consensus       493 terieeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfRA  572 (730)
T COG1198         493 TERIEEELKRLFPGARIIRIDSDTTRRKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRA  572 (730)
T ss_pred             HHHHHHHHHHHCCCCcEEEEccccccchhhHHHHHHHHhCCCCCeeecchhhhcCCCcccceEEEEEechhhhcCCCcch
Confidence            45556666555  6788888888654  33567899999999999999999999999999997664432      2    


Q ss_pred             --CChhhHHHHhhhcccCCCCceEEEEecCccHHHH
Q psy18034         78 --CKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYY  111 (251)
Q Consensus        78 --~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~  111 (251)
                        .....+.|-.||+||.+.+|.++.-....+.+.+
T Consensus       573 ~Er~fqll~QvaGRAgR~~~~G~VvIQT~~P~hp~i  608 (730)
T COG1198         573 SERTFQLLMQVAGRAGRAGKPGEVVIQTYNPDHPAI  608 (730)
T ss_pred             HHHHHHHHHHHHhhhccCCCCCeEEEEeCCCCcHHH
Confidence              2355678999999999999998876655443333

>KOG1000|consensus

Probab=98.30  E-value=3.7e-06  Score=77.20  Aligned_cols=118  Identities=17%  Similarity=0.233  Sum_probs=96.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCC-ceE-EEeccccccccccccccEEEEecCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGK-IRV-LVVTDVAARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~-~~i-Lv~Td~~~~Gldi~~v~~VI~~d~P~   78 (251)
                      |.+|||.-....+.+...+...+++...|.|..+..+|....+.|+..+ +.| +++-.+++.|+++...+.|+...+||
T Consensus       494 KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt~tAa~~VVFaEL~w  573 (689)
T KOG1000|consen  494 KFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVVFAELHW  573 (689)
T ss_pred             eEEEEehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHHHHHhccccceEEEEEEEeecccceeeeccceEEEEEecC
Confidence            6799999999999999999999999999999999999999999998773 333 34456889999999999999999999


Q ss_pred             ChhhHHHHhhhcccCCCCceE--EEEecC--ccHHHHHHHHHHh
Q psy18034         79 KAKLFVHRVGRCARAGRSGVA--YSLVSS--DELCYYLDLLLFL  118 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~g~~--i~l~~~--~e~~~~~~i~~~l  118 (251)
                      +|.-++|.-.|+.|.|++..+  +.|+.+  .+...+..+...+
T Consensus       574 nPgvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l~~KL  617 (689)
T KOG1000|consen  574 NPGVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWPMLQQKL  617 (689)
T ss_pred             CCceEEechhhhhhccccceeeEEEEEecCchHHHHHHHHHHHH
Confidence            999999999999999997644  233333  3344444555444

>KOG0388|consensus

Probab=98.27  E-value=4.3e-06  Score=79.63  Aligned_cols=104  Identities=17%  Similarity=0.280  Sum_probs=93.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCc-eEEEeccccccccccccccEEEEecCCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKI-RVLVVTDVAARGIDIPSLDAVINYNFPCK   79 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~-~iLv~Td~~~~Gldi~~v~~VI~~d~P~~   79 (251)
                      ++++|+.-....+.+-++|...|+.-..+.|+....+|..++..|+..++ -.|++|.+.+.|||+...+.||.||-.|+
T Consensus      1046 RvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~sdiFvFLLSTRAGGLGINLTAADTViFYdSDWN 1125 (1185)
T KOG0388|consen 1046 RVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQASDIFVFLLSTRAGGLGINLTAADTVIFYDSDWN 1125 (1185)
T ss_pred             eEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccCCceEEEEEecccCcccccccccceEEEecCCCC
Confidence            47899999999999999999999999999999999999999999998755 47899999999999999999999999999


Q ss_pred             hhhHHHHhhhcccCCCCce--EEEEec
Q psy18034         80 AKLFVHRVGRCARAGRSGV--AYSLVS  104 (251)
Q Consensus        80 ~~~y~qr~GR~gR~g~~g~--~i~l~~  104 (251)
                      |..-.|.+.|+.|.|+...  +|-+++
T Consensus      1126 PT~D~QAMDRAHRLGQTrdvtvyrl~~ 1152 (1185)
T KOG0388|consen 1126 PTADQQAMDRAHRLGQTRDVTVYRLIT 1152 (1185)
T ss_pred             cchhhHHHHHHHhccCccceeeeeecc
Confidence            9999999999999998654  455544

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

Probab=98.26  E-value=1.3e-05  Score=78.29  Aligned_cols=103  Identities=16%  Similarity=0.209  Sum_probs=77.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-----CCcEEEEcCCCCHH---------------------HHHHHHHHHhc-CCceEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-----GISSTYIYSDLDPT---------------------ARKINAAKFQT-GKIRVL   53 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-----~~~~~~i~g~~~~~---------------------~r~~~~~~F~~-g~~~iL   53 (251)
                      |++|||.++.+|..+++.|...     +.....++++.+..                     .....+++|++ +..+||
T Consensus       516 kamvv~~sr~~a~~~~~~l~~~~~~~~~~~~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~~~~~il  595 (667)
T TIGR00348       516 KAMVVAISRYACVEEKNALDEELNEKFEASAIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKEENPKLL  595 (667)
T ss_pred             ceeEEEecHHHHHHHHHHHHhhcccccCCeeEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCCCCceEE
Confidence            6899999999999999988665     23455666654332                     22468889977 578999


Q ss_pred             EeccccccccccccccEEEEecCCCChhhHHHHhhhcccC-C--C-CceEEEEec
Q psy18034         54 VVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARA-G--R-SGVAYSLVS  104 (251)
Q Consensus        54 v~Td~~~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR~gR~-g--~-~g~~i~l~~  104 (251)
                      |++|.+..|.|.|.+++++-.-+-.+ ..++|.+||+.|. +  + .|..+-++.
T Consensus       596 IVvdmllTGFDaP~l~tLyldKplk~-h~LlQai~R~nR~~~~~K~~g~IvDy~g  649 (667)
T TIGR00348       596 IVVDMLLTGFDAPILNTLYLDKPLKY-HGLLQAIARTNRIDGKDKTFGLIVDYRG  649 (667)
T ss_pred             EEEcccccccCCCccceEEEeccccc-cHHHHHHHHhccccCCCCCCEEEEECcC
Confidence            99999999999999998887664454 4689999999994 3  2 244444444

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

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

Probab=98.21  E-value=1.7e-05  Score=79.25  Aligned_cols=83  Identities=22%  Similarity=0.332  Sum_probs=69.5

Q ss_pred             EEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEE----Eec----CCCChhhHHHHhhhcccCCCC-
Q psy18034         26 STYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI----NYN----FPCKAKLFVHRVGRCARAGRS-   96 (251)
Q Consensus        26 ~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI----~~d----~P~~~~~y~qr~GR~gR~g~~-   96 (251)
                      +...|++|=+..+..+-.-|..|.++|+.+|.+++.|+|.|.-++|+    .+|    -+-++..|.|..||+||.|.. 
T Consensus       447 iavHH~GlLP~~K~~vE~Lfq~GLvkvvFaTeT~s~GiNmPartvv~~~l~K~dG~~~r~L~~gEy~QmsGRAGRRGlD~  526 (1041)
T COG4581         447 IAVHHAGLLPAIKELVEELFQEGLVKVVFATETFAIGINMPARTVVFTSLSKFDGNGHRWLSPGEYTQMSGRAGRRGLDV  526 (1041)
T ss_pred             hhhhccccchHHHHHHHHHHhccceeEEeehhhhhhhcCCcccceeeeeeEEecCCceeecChhHHHHhhhhhccccccc
Confidence            44789999999999999999999999999999999999999877766    233    245789999999999999874 


Q ss_pred             -ceEEEEecCccH
Q psy18034         97 -GVAYSLVSSDEL  108 (251)
Q Consensus        97 -g~~i~l~~~~e~  108 (251)
                       |.++++..+.+.
T Consensus       527 ~G~vI~~~~~~~~  539 (1041)
T COG4581         527 LGTVIVIEPPFES  539 (1041)
T ss_pred             cceEEEecCCCCC
Confidence             777777655443

>PRK12901 secA preprotein translocase subunit SecA; Reviewed

Probab=98.21  E-value=5.5e-06  Score=82.33  Aligned_cols=104  Identities=23%  Similarity=0.249  Sum_probs=84.4

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccc---cc-----cEEEE
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIP---SL-----DAVIN   73 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~---~v-----~~VI~   73 (251)
                      +||-|.|.+..+.|++.|...|++.-.++......+-..+-++=  ..-.|-|||++|+||.||.   .|     =+||-
T Consensus       631 VLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK~h~~EAeIVA~AG--~~GaVTIATNMAGRGTDIkLg~~V~e~GGL~VIg  708 (1112)
T PRK12901        631 VLVGTTSVEISELLSRMLKMRKIPHNVLNAKLHQKEAEIVAEAG--QPGTVTIATNMAGRGTDIKLSPEVKAAGGLAIIG  708 (1112)
T ss_pred             EEEEeCcHHHHHHHHHHHHHcCCcHHHhhccchhhHHHHHHhcC--CCCcEEEeccCcCCCcCcccchhhHHcCCCEEEE
Confidence            68999999999999999999999988888775544433333332  2345889999999999996   22     27888


Q ss_pred             ecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         74 YNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        74 ~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      -..|.|..---|-.||+||-|.+|.+-.|++-++
T Consensus       709 TerheSrRID~QLrGRaGRQGDPGsS~f~lSLED  742 (1112)
T PRK12901        709 TERHESRRVDRQLRGRAGRQGDPGSSQFYVSLED  742 (1112)
T ss_pred             ccCCCcHHHHHHHhcccccCCCCCcceEEEEccc
Confidence            9999999999999999999999999988887544

>KOG0389|consensus

Probab=98.19  E-value=1.1e-05  Score=77.55  Aligned_cols=109  Identities=17%  Similarity=0.269  Sum_probs=97.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCC--ceEEEeccccccccccccccEEEEecCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGK--IRVLVVTDVAARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~--~~iLv~Td~~~~Gldi~~v~~VI~~d~P~   78 (251)
                      |++||.......+-|-..|...++.-..+-|...-..|+.++++|...+  .-+|++|-+.+-|||+-..++||-+|+..
T Consensus       779 RVLiFSQFTqmLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKAGG~GINLt~An~VIihD~dF  858 (941)
T KOG0389|consen  779 RVLIFSQFTQMLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKAGGFGINLTCANTVIIHDIDF  858 (941)
T ss_pred             EEEEeeHHHHHHHHHHHHHHhcCceEEeecCCccchHHHHHHHhhccCCceEEEEEeeccCcceecccccceEEEeecCC
Confidence            5899999999999999999999999999999999999999999998774  34789999999999999999999999999


Q ss_pred             ChhhHHHHhhhcccCCCCc--eEEEEecCccHH
Q psy18034         79 KAKLFVHRVGRCARAGRSG--VAYSLVSSDELC  109 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~g--~~i~l~~~~e~~  109 (251)
                      +|-.=.|.-.||.|.|+..  .++.|++..-+.
T Consensus       859 NP~dD~QAEDRcHRvGQtkpVtV~rLItk~TIE  891 (941)
T KOG0389|consen  859 NPYDDKQAEDRCHRVGQTKPVTVYRLITKSTIE  891 (941)
T ss_pred             CCcccchhHHHHHhhCCcceeEEEEEEecCcHH
Confidence            9999999999999999865  456778776543

>KOG0391|consensus

Probab=98.17  E-value=1.5e-05  Score=79.53  Aligned_cols=106  Identities=18%  Similarity=0.341  Sum_probs=93.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCC--ceEEEeccccccccccccccEEEEecCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGK--IRVLVVTDVAARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~--~~iLv~Td~~~~Gldi~~v~~VI~~d~P~   78 (251)
                      +++||+.-....+-|-..|..+|+.-..+.|...-++|...++.|+...  ...+++|-..+-|||+-+.+.||.||--|
T Consensus      1278 RvLIfTQMtkmLDVLeqFLnyHgylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSggvGiNLtgADTVvFYDsDw 1357 (1958)
T KOG0391|consen 1278 RVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSGGVGINLTGADTVVFYDSDW 1357 (1958)
T ss_pred             eEEehhHHHHHHHHHHHHHhhcceEEEEecCCccHHHHHHHHHHhcCCCceEEEEEeccCCccccccccCceEEEecCCC
Confidence            5899999999999999999999999999999999999999999998874  35778899999999999999999999999


Q ss_pred             ChhhHHHHhhhcccCCCCc--eEEEEecCc
Q psy18034         79 KAKLFVHRVGRCARAGRSG--VAYSLVSSD  106 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~g--~~i~l~~~~  106 (251)
                      |+.---|.-.|+.|.|+..  ..|-|++..
T Consensus      1358 NPtMDaQAQDrChRIGqtRDVHIYRLISe~ 1387 (1958)
T KOG0391|consen 1358 NPTMDAQAQDRCHRIGQTRDVHIYRLISER 1387 (1958)
T ss_pred             CchhhhHHHHHHHhhcCccceEEEEeeccc
Confidence            9988888888888888754  446777654

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

Probab=98.14  E-value=8.2e-06  Score=65.94  Aligned_cols=74  Identities=26%  Similarity=0.341  Sum_probs=55.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC----CcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc--cccccccccc--ccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG----ISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD--VAARGIDIPS--LDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~----~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td--~~~~Gldi~~--v~~VI   72 (251)
                      .++||++|....+.+.+.++..+    +.+ ...   +..++...++.|+.+.-.||+++.  .+.+|+|+|+  ++.||
T Consensus        11 ~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v-~~q---~~~~~~~~l~~~~~~~~~il~~v~~g~~~EGiD~~~~~~r~vi   86 (167)
T PF13307_consen   11 GVLVFFPSYRRLEKVYERLKERLEEKGIPV-FVQ---GSKSRDELLEEFKRGEGAILLAVAGGSFSEGIDFPGDLLRAVI   86 (167)
T ss_dssp             EEEEEESSHHHHHHHHTT-TSS-E-ETSCE-EES---TCCHHHHHHHHHCCSSSEEEEEETTSCCGSSS--ECESEEEEE
T ss_pred             CEEEEeCCHHHHHHHHHHHHhhccccccee-eec---CcchHHHHHHHHHhccCeEEEEEecccEEEeecCCCchhheee
Confidence            37999999999999999998763    322 222   245778899999999999999998  9999999994  77899


Q ss_pred             EecCCC
Q psy18034         73 NYNFPC   78 (251)
Q Consensus        73 ~~d~P~   78 (251)
                      -..+|.
T Consensus        87 i~glPf   92 (167)
T PF13307_consen   87 IVGLPF   92 (167)
T ss_dssp             EES---
T ss_pred             ecCCCC
Confidence            888873

>PRK13103 secA preprotein translocase subunit SecA; Reviewed

Probab=98.13  E-value=9.1e-06  Score=80.16  Aligned_cols=103  Identities=23%  Similarity=0.267  Sum_probs=83.6

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC-CceEEEeccccccccccc--------------
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG-KIRVLVVTDVAARGIDIP--------------   66 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g-~~~iLv~Td~~~~Gldi~--------------   66 (251)
                      +||-|.|....+.|+..|...|++.-.++....  +++..+-+ +.| .-.|-|||++|+||.||.              
T Consensus       452 VLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk~~--~~EA~IIa-~AG~~GaVTIATNMAGRGTDIkLg~n~~~~~~~~~~  528 (913)
T PRK13103        452 VLVGTATIETSEHMSNLLKKEGIEHKVLNAKYH--EKEAEIIA-QAGRPGALTIATNMAGRGTDILLGGNWEVEVAALEN  528 (913)
T ss_pred             EEEEeCCHHHHHHHHHHHHHcCCcHHHhccccc--hhHHHHHH-cCCCCCcEEEeccCCCCCCCEecCCchHHHHHhhhh
Confidence            789999999999999999999999887877644  33333333 345 446899999999999994              


Q ss_pred             ------------------cc-----cEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         67 ------------------SL-----DAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        67 ------------------~v-----~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                                        .|     =+||--..|.|..-=-|-.||+||-|.+|.+-.|++-++
T Consensus       529 ~~~~~~~~~~~~~~~~~e~V~e~GGLhVIgTerheSrRID~QLrGRaGRQGDPGsS~f~lSlED  592 (913)
T PRK13103        529 PTPEQIAQIKADWQKRHQQVIEAGGLHVIASERHESRRIDNQLRGRAGRQGDPGSSRFYLSLED  592 (913)
T ss_pred             hhHHHHHHHHHHHHhHHHHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCceEEEEEcCc
Confidence                              11     178888899999999999999999999999988887644

>KOG1123|consensus

Probab=98.08  E-value=2.6e-05  Score=71.97  Aligned_cols=106  Identities=25%  Similarity=0.401  Sum_probs=83.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC-CceEEEeccccccccccccccEEEEecCC-C
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG-KIRVLVVTDVAARGIDIPSLDAVINYNFP-C   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g-~~~iLv~Td~~~~Gldi~~v~~VI~~d~P-~   78 (251)
                      |+|||..........+-.|     .-.+++|..+|.+|.++++.|+-. .++-+..+.|+...+|+|..+++|+..-- .
T Consensus       545 KiIVFsDnvfALk~YAikl-----~KpfIYG~Tsq~ERm~ILqnFq~n~~vNTIFlSKVgDtSiDLPEAnvLIQISSH~G  619 (776)
T KOG1123|consen  545 KIIVFSDNVFALKEYAIKL-----GKPFIYGPTSQNERMKILQNFQTNPKVNTIFLSKVGDTSIDLPEANVLIQISSHGG  619 (776)
T ss_pred             eEEEEeccHHHHHHHHHHc-----CCceEECCCchhHHHHHHHhcccCCccceEEEeeccCccccCCcccEEEEEccccc
Confidence            6899987766555555544     345899999999999999999976 67888888899999999999999997754 5


Q ss_pred             ChhhHHHHhhhcccCCCC------ceEEEEecCccHHHH
Q psy18034         79 KAKLFVHRVGRCARAGRS------GVAYSLVSSDELCYY  111 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~------g~~i~l~~~~e~~~~  111 (251)
                      |...-.||.||.-|+.+.      ...|++++.+...++
T Consensus       620 SRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTqEM~  658 (776)
T KOG1123|consen  620 SRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQEMY  658 (776)
T ss_pred             chHHHHHHHHHHHHHhhcCccccceeeeeeeecchHHHH
Confidence            677788999999997432      356888887654433

>KOG0949|consensus

Probab=98.07  E-value=1.2e-05  Score=78.95  Aligned_cols=80  Identities=20%  Similarity=0.287  Sum_probs=68.2

Q ss_pred             EEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEec-CCCChhhHHHHhhhcccCCC--CceEEEE
Q psy18034         26 STYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYN-FPCKAKLFVHRVGRCARAGR--SGVAYSL  102 (251)
Q Consensus        26 ~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d-~P~~~~~y~qr~GR~gR~g~--~g~~i~l  102 (251)
                      +.+.|++|....|..+---||.|...||++|..++.|||.|.-++|+--| +--+|-.|-|++|||||.|-  .|.++.+
T Consensus       965 iG~HHaglNr~yR~~VEvLFR~g~L~VlfaT~TLsLGiNMPCrTVvF~gDsLQL~plny~QmaGRAGRRGFD~lGnV~Fm 1044 (1330)
T KOG0949|consen  965 IGVHHAGLNRKYRSLVEVLFRQGHLQVLFATETLSLGINMPCRTVVFAGDSLQLDPLNYKQMAGRAGRRGFDTLGNVVFM 1044 (1330)
T ss_pred             ccccccccchHHHHHHHHHhhcCceEEEEEeeehhcccCCCceeEEEeccccccCchhHHhhhccccccccccccceEEE
Confidence            45689999999999999999999999999999999999999888888766 45678999999999999885  4666554


Q ss_pred             ecC
Q psy18034        103 VSS  105 (251)
Q Consensus       103 ~~~  105 (251)
                      --|
T Consensus      1045 giP 1047 (1330)
T KOG0949|consen 1045 GIP 1047 (1330)
T ss_pred             eCc
Confidence            333

>KOG0926|consensus

Probab=98.02  E-value=2.3e-06  Score=82.36  Aligned_cols=80  Identities=28%  Similarity=0.380  Sum_probs=68.0

Q ss_pred             cEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEE--------ecCCCC----------hhhHHHH
Q psy18034         25 SSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVIN--------YNFPCK----------AKLFVHR   86 (251)
Q Consensus        25 ~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~--------~d~P~~----------~~~y~qr   86 (251)
                      -|..+|+-++.+++.++++.--.|..-++|+|+||...+.||++.+||.        ||--..          ..+--||
T Consensus       606 yvLPLYSLLs~~~Q~RVF~~~p~g~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASadQR  685 (1172)
T KOG0926|consen  606 YVLPLYSLLSTEKQMRVFDEVPKGERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASADQR  685 (1172)
T ss_pred             EEeehhhhcCHHHhhhhccCCCCCceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccchh
Confidence            3778899999999999999999999999999999999999999999996        443332          3334599


Q ss_pred             hhhcccCCCCceEEEEecC
Q psy18034         87 VGRCARAGRSGVAYSLVSS  105 (251)
Q Consensus        87 ~GR~gR~g~~g~~i~l~~~  105 (251)
                      +||+||.| .|.||-+++.
T Consensus       686 AGRAGRtg-pGHcYRLYSS  703 (1172)
T KOG0926|consen  686 AGRAGRTG-PGHCYRLYSS  703 (1172)
T ss_pred             ccccCCCC-CCceeehhhh
Confidence            99999987 8999999874

>CHL00122 secA preprotein translocase subunit SecA; Validated

Probab=97.89  E-value=9.6e-05  Score=72.80  Aligned_cols=63  Identities=22%  Similarity=0.276  Sum_probs=49.3

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHH-HHHHHHhcC-CceEEEeccccccccccc
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARK-INAAKFQTG-KIRVLVVTDVAARGIDIP   66 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~-~~~~~F~~g-~~~iLv~Td~~~~Gldi~   66 (251)
                      +||-|.|....+.++..|...|++...++..-...+++ +++.+  .| .-.|-|||++|+||.||.
T Consensus       427 VLIgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIA~--AG~~G~VTIATNMAGRGTDI~  491 (870)
T CHL00122        427 ILIGTTTIEKSELLSQLLKEYRLPHQLLNAKPENVRRESEIVAQ--AGRKGSITIATNMAGRGTDII  491 (870)
T ss_pred             EEEeeCCHHHHHHHHHHHHHcCCccceeeCCCccchhHHHHHHh--cCCCCcEEEeccccCCCcCee
Confidence            78999999999999999999999999999863222233 23333  34 446899999999999984

>KOG0386|consensus

Probab=97.88  E-value=5.2e-05  Score=74.73  Aligned_cols=103  Identities=14%  Similarity=0.158  Sum_probs=91.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCc---eEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKI---RVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~---~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      +++.||.-..-.+-+-.+|.-.++.-..+-|....++|-..++.|..-..   -+|..|.+.+.|+|++..+.||-||.-
T Consensus       728 RVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadtviifdsd  807 (1157)
T KOG0386|consen  728 RVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADTVIIFDSD  807 (1157)
T ss_pred             chhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeeecccccccchhhcceEEEecCC
Confidence            46788888888888888998889999999999999999999999998754   478999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCceEEEEe
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVAYSLV  103 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~i~l~  103 (251)
                      |+|....|+--|+.|.|+...+-++.
T Consensus       808 wnp~~d~qaqdrahrigq~~evRv~r  833 (1157)
T KOG0386|consen  808 WNPHQDLQAQDRAHRIGQKKEVRVLR  833 (1157)
T ss_pred             CCchhHHHHHHHHHHhhchhheeeee
Confidence            99999999999999999976654443

>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=97.84  E-value=0.00037  Score=64.41  Aligned_cols=112  Identities=16%  Similarity=0.162  Sum_probs=94.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc--cccccccccccEEEEecCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV--AARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~--~~~Gldi~~v~~VI~~d~P~   78 (251)
                      ++|||++|--+--.|..+|+..++..+.+|--.++.+..+.-..|..|+.++|+.|.=  .=+-..+.++.+||.|.+|.
T Consensus       302 ~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G~~~iLL~TER~HFfrRy~irGi~~viFY~~P~  381 (442)
T PF06862_consen  302 GTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFHGRKPILLYTERFHFFRRYRIRGIRHVIFYGPPE  381 (442)
T ss_pred             cEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcCCceEEEEEhHHhhhhhceecCCcEEEEECCCC
Confidence            5899999999999999999999999999999999999999999999999999999963  23456678899999999999


Q ss_pred             ChhhHHHHhhhcccCCC------CceEEEEecCccHHHHH
Q psy18034         79 KAKLFVHRVGRCARAGR------SGVAYSLVSSDELCYYL  112 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~------~g~~i~l~~~~e~~~~~  112 (251)
                      .|.-|...++-.+....      ...+.++++.-+.-.++
T Consensus       382 ~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk~D~~~LE  421 (442)
T PF06862_consen  382 NPQFYSELLNMLDESSGGEVDAADATVTVLYSKYDALRLE  421 (442)
T ss_pred             ChhHHHHHHhhhcccccccccccCceEEEEecHhHHHHHH
Confidence            99999988876655433      46778888876655443

; GO: 0005634 nucleus

>COG4889 Predicted helicase [General function prediction only]

Probab=97.79  E-value=2.6e-05  Score=76.07  Aligned_cols=101  Identities=18%  Similarity=0.312  Sum_probs=74.2

Q ss_pred             EEEcCcHHHHHHHHHHHHh-----------C--CCcEEE--EcCCCCHHHHHHHHH---HHhcCCceEEEeccccccccc
Q psy18034          3 VVFTATKYHVEYVHKILGL-----------A--GISSTY--IYSDLDPTARKINAA---KFQTGKIRVLVVTDVAARGID   64 (251)
Q Consensus         3 iIF~~t~~~~~~l~~~L~~-----------~--~~~~~~--i~g~~~~~~r~~~~~---~F~~g~~~iLv~Td~~~~Gld   64 (251)
                      |-||.+.++...+++.+..           .  ++.+.+  +.|.|...+|...+.   .|...+++||---.++++|+|
T Consensus       464 IaF~k~I~tSK~i~~sFe~Vve~Y~~Elk~d~~nL~iSi~HvDGtmNal~R~~l~~l~~~~~~neckIlSNaRcLSEGVD  543 (1518)
T COG4889         464 IAFAKDIKTSKQIAESFETVVEAYDEELKKDFKNLKISIDHVDGTMNALERLDLLELKNTFEPNECKILSNARCLSEGVD  543 (1518)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEeecccccccHHHHHHHHhccCCCCcchheeeccchhhhcCCC
Confidence            4567666665555554432           1  444544  558899988855443   356678999999999999999


Q ss_pred             cccccEEEEecCCCChhhHHHHhhhcccC--CC-CceEEEEe
Q psy18034         65 IPSLDAVINYNFPCKAKLFVHRVGRCARA--GR-SGVAYSLV  103 (251)
Q Consensus        65 i~~v~~VI~~d~P~~~~~y~qr~GR~gR~--g~-~g~~i~l~  103 (251)
                      +|.++.||.+|+-.+.-..+|.+||+-|-  |+ .|..|+-+
T Consensus       544 VPaLDsViFf~pr~smVDIVQaVGRVMRKa~gK~yGYIILPI  585 (1518)
T COG4889         544 VPALDSVIFFDPRSSMVDIVQAVGRVMRKAKGKKYGYIILPI  585 (1518)
T ss_pred             ccccceEEEecCchhHHHHHHHHHHHHHhCcCCccceEEEEe
Confidence            99999999999999999999999999994  32 35555443

>KOG1015|consensus

Probab=97.72  E-value=0.00016  Score=71.18  Aligned_cols=101  Identities=19%  Similarity=0.264  Sum_probs=86.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----------------------CCcEEEEcCCCCHHHHHHHHHHHhcCC----ceEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----------------------GISSTYIYSDLDPTARKINAAKFQTGK----IRVLV   54 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----------------------~~~~~~i~g~~~~~~r~~~~~~F~~g~----~~iLv   54 (251)
                      |.|||..+....+.+-..|...                      |..-..+.|.....+|....+.|.+-.    .-.||
T Consensus      1144 KlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k~~~~FNdp~NlRaRl~LI 1223 (1567)
T KOG1015|consen 1144 KLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKKWAEEFNDPTNLRARLFLI 1223 (1567)
T ss_pred             eeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHHHHHHHHhcCcccceeEEEEE
Confidence            6899999999998888888643                      344566788999999999999998753    23889


Q ss_pred             eccccccccccccccEEEEecCCCChhhHHHHhhhcccCCCCceEEE
Q psy18034         55 VTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYS  101 (251)
Q Consensus        55 ~Td~~~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~  101 (251)
                      +|-+.+.|+|+-..+.||-||..|+|.--.|-+=|+-|+|+..-+|.
T Consensus      1224 STRAGsLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtKPvyi 1270 (1567)
T KOG1015|consen 1224 STRAGSLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTKPVYI 1270 (1567)
T ss_pred             eeccCccccceeecceEEEEecccCCccchHHHHHHHhhcCcCceee
Confidence            99999999999999999999999999999999999999999765543

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

Probab=97.70  E-value=0.00029  Score=71.36  Aligned_cols=78  Identities=18%  Similarity=0.166  Sum_probs=60.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCC--cEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccccccccccc--ccEEEEecC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGI--SSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPS--LDAVINYNF   76 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~--~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~--v~~VI~~d~   76 (251)
                      +++||++|....+.+++.|.....  ....+.-+++...|..++++|+.++-.||++|+.+.+|+|+|+  +.+||-..+
T Consensus       754 ~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~~~iLlG~~sFwEGVD~pg~~l~~viI~kL  833 (928)
T PRK08074        754 RMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFDKAILLGTSSFWEGIDIPGDELSCLVIVRL  833 (928)
T ss_pred             CEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcCCeEEEecCcccCccccCCCceEEEEEecC
Confidence            489999999999999999976422  1222222444456788999999998899999999999999995  578887766


Q ss_pred             CC
Q psy18034         77 PC   78 (251)
Q Consensus        77 P~   78 (251)
                      |.
T Consensus       834 PF  835 (928)
T PRK08074        834 PF  835 (928)
T ss_pred             CC
Confidence            63

>KOG4439|consensus

Probab=97.59  E-value=0.0004  Score=66.52  Aligned_cols=88  Identities=17%  Similarity=0.203  Sum_probs=74.9

Q ss_pred             HHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC--CceEEE-eccccccccccccccEEEEecCCCChhhHHHHhhh
Q psy18034         13 EYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG--KIRVLV-VTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGR   89 (251)
Q Consensus        13 ~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g--~~~iLv-~Td~~~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR   89 (251)
                      .-+...|...|..-..+||....++|..+++.|...  ..+|++ .=.+.+-|+|+-+.+|+|..|+-|+|..--|.+.|
T Consensus       760 niv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlilvDlHWNPaLEqQAcDR  839 (901)
T KOG4439|consen  760 NIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLILVDLHWNPALEQQACDR  839 (901)
T ss_pred             HHHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEEEecccCHHHHHHHHHH
Confidence            444567777788999999999999999999999864  355554 44677889999999999999999999999999999


Q ss_pred             cccCCCCceEE
Q psy18034         90 CARAGRSGVAY  100 (251)
Q Consensus        90 ~gR~g~~g~~i  100 (251)
                      .-|.|++..++
T Consensus       840 IYR~GQkK~V~  850 (901)
T KOG4439|consen  840 IYRMGQKKDVF  850 (901)
T ss_pred             HHHhcccCceE
Confidence            99999976553

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

Probab=97.58  E-value=0.00081  Score=65.58  Aligned_cols=101  Identities=19%  Similarity=0.185  Sum_probs=74.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCc-EEEEcCCCCHHHHHHHHHHHhcCCc-eEEEeccccccccccc--cccEEEEecC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGIS-STYIYSDLDPTARKINAAKFQTGKI-RVLVVTDVAARGIDIP--SLDAVINYNF   76 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~-~~~i~g~~~~~~r~~~~~~F~~g~~-~iLv~Td~~~~Gldi~--~v~~VI~~d~   76 (251)
                      +++|||+|....+.+++.+...... ....+|.   ..+...+++|+.+.- .++|+|..+++|+|+|  .+..||-..+
T Consensus       481 ~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~---~~~~~~l~~f~~~~~~~~lv~~gsf~EGVD~~g~~l~~vvI~~l  557 (654)
T COG1199         481 GVLVLFPSYEYLKRVAERLKDERSTLPVLTQGE---DEREELLEKFKASGEGLILVGGGSFWEGVDFPGDALRLVVIVGL  557 (654)
T ss_pred             CEEEEeccHHHHHHHHHHHhhcCccceeeecCC---CcHHHHHHHHHHhcCCeEEEeeccccCcccCCCCCeeEEEEEec
Confidence            4899999999999999999877542 3344444   344588899988766 8999999999999999  4467887776


Q ss_pred             CC------------------------------ChhhHHHHhhhcccCCCCceEEEEec
Q psy18034         77 PC------------------------------KAKLFVHRVGRCARAGRSGVAYSLVS  104 (251)
Q Consensus        77 P~------------------------------~~~~y~qr~GR~gR~g~~g~~i~l~~  104 (251)
                      |.                              -.....|.+||+=|.....-++.++.
T Consensus       558 Pfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~ivllD  615 (654)
T COG1199         558 PFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIVLLD  615 (654)
T ss_pred             CCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEEEec
Confidence            63                              24456788999888544433334443

>PF13871 Helicase_C_4: Helicase_C-like

Probab=97.53  E-value=0.00027  Score=61.53  Aligned_cols=77  Identities=18%  Similarity=0.349  Sum_probs=58.6

Q ss_pred             HHHHHHhcCCceEEEecccccccccccc--------ccEEEEecCCCChhhHHHHhhhcccCCCC-ceEEEEecC---cc
Q psy18034         40 INAAKFQTGKIRVLVVTDVAARGIDIPS--------LDAVINYNFPCKAKLFVHRVGRCARAGRS-GVAYSLVSS---DE  107 (251)
Q Consensus        40 ~~~~~F~~g~~~iLv~Td~~~~Gldi~~--------v~~VI~~d~P~~~~~y~qr~GR~gR~g~~-g~~i~l~~~---~e  107 (251)
                      ...+.|.+|+..|+|.|++++.|+-+..        -++-|-..+||+....+|..||+.|.|+. .-.|.++..   .|
T Consensus        52 ~e~~~F~~g~k~v~iis~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~t~~~gE  131 (278)
T PF13871_consen   52 AEKQAFMDGEKDVAIISDAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLVTDLPGE  131 (278)
T ss_pred             HHHHHHhCCCceEEEEecccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEeecCCHHH
Confidence            5677899999999999999999998862        23667789999999999999999999985 444544432   34


Q ss_pred             HHHHHHHHH
Q psy18034        108 LCYYLDLLL  116 (251)
Q Consensus       108 ~~~~~~i~~  116 (251)
                      ..+...+.+
T Consensus       132 ~Rfas~va~  140 (278)
T PF13871_consen  132 RRFASTVAR  140 (278)
T ss_pred             HHHHHHHHH
Confidence            444444333

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

Probab=97.51  E-value=0.0014  Score=65.62  Aligned_cols=74  Identities=16%  Similarity=0.153  Sum_probs=56.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccc--cccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIP--SLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~--~v~~VI~~d~P   77 (251)
                      +++|+++|.+..+.+++.|......+ ...|...  .+..++++|+.++..||++|+.+.+|+|+|  ....||-..+|
T Consensus       649 ~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~~~vLlG~~sFwEGVD~p~~~~~~viI~kLP  724 (820)
T PRK07246        649 PILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGEQQILLGLGSFWEGVDFVQADRMIEVITRLP  724 (820)
T ss_pred             CEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCCCeEEEecchhhCCCCCCCCCeEEEEEecCC
Confidence            58999999999999999997665555 4444222  245689999999899999999999999997  34555555555

>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional

Probab=97.44  E-value=0.0016  Score=64.05  Aligned_cols=73  Identities=25%  Similarity=0.329  Sum_probs=56.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-CCcEEEEcCCCCHHHHHHHHHHHhc----CCceEEEecccccccccccc--ccEEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-GISSTYIYSDLDPTARKINAAKFQT----GKIRVLVVTDVAARGIDIPS--LDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-~~~~~~i~g~~~~~~r~~~~~~F~~----g~~~iLv~Td~~~~Gldi~~--v~~VI~   73 (251)
                      .++||++|....+.++..|... +.. ...+|..   .+..+++.|++    ++..||++|..+.+|+|+|+  +++||-
T Consensus       536 g~LVlFtSy~~l~~v~~~l~~~~~~~-ll~Q~~~---~~~~ll~~f~~~~~~~~~~VL~g~~sf~EGVD~pGd~l~~vII  611 (697)
T PRK11747        536 GSLVLFASRRQMQKVADLLPRDLRLM-LLVQGDQ---PRQRLLEKHKKRVDEGEGSVLFGLQSFAEGLDLPGDYLTQVII  611 (697)
T ss_pred             CEEEEeCcHHHHHHHHHHHHHhcCCc-EEEeCCc---hHHHHHHHHHHHhccCCCeEEEEeccccccccCCCCceEEEEE
Confidence            3799999999999999998753 333 3456643   46677777764    67789999999999999995  788888


Q ss_pred             ecCC
Q psy18034         74 YNFP   77 (251)
Q Consensus        74 ~d~P   77 (251)
                      ..+|
T Consensus       612 ~kLP  615 (697)
T PRK11747        612 TKIP  615 (697)
T ss_pred             EcCC
Confidence            7766

>PRK12902 secA preprotein translocase subunit SecA; Reviewed

Probab=97.38  E-value=0.0012  Score=65.43  Aligned_cols=63  Identities=27%  Similarity=0.341  Sum_probs=49.3

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHH-HHHHHhcC-CceEEEeccccccccccc
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKI-NAAKFQTG-KIRVLVVTDVAARGIDIP   66 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~-~~~~F~~g-~~~iLv~Td~~~~Gldi~   66 (251)
                      +||-|.|.+..+.++..|...|++...++..-...+++. ++.+  .| .-.|-|||++|+||.||.
T Consensus       442 VLIgT~SVe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIa~--AG~~GaVTIATNMAGRGTDIk  506 (939)
T PRK12902        442 VLVGTTSVEKSELLSALLQEQGIPHNLLNAKPENVEREAEIVAQ--AGRKGAVTIATNMAGRGTDII  506 (939)
T ss_pred             EEEeeCCHHHHHHHHHHHHHcCCchheeeCCCcchHhHHHHHHh--cCCCCcEEEeccCCCCCcCEe
Confidence            789999999999999999999999999998632223333 3333  44 346899999999999985

>TIGR00596 rad1 DNA repair protein (rad1)

Probab=97.22  E-value=0.00074  Score=67.07  Aligned_cols=48  Identities=23%  Similarity=0.087  Sum_probs=36.8

Q ss_pred             Eecccccccccccc----------------------c----------cEEEEecCCCChhhHHH--HhhhcccCCCCceE
Q psy18034         54 VVTDVAARGIDIPS----------------------L----------DAVINYNFPCKAKLFVH--RVGRCARAGRSGVA   99 (251)
Q Consensus        54 v~Td~~~~Gldi~~----------------------v----------~~VI~~d~P~~~~~y~q--r~GR~gR~g~~g~~   99 (251)
                      ++|.+...|+|+|.                      +          ++||.|++-.+...-+|  |.||+||   ++.+
T Consensus       431 ~~~~~~~e~~d~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~L~e~~P~~VImYEP~~sfIR~IEvyra~r~~r---~~rV  507 (814)
T TIGR00596       431 FEIIDEENDIDIYSGAEFDNLPQHITHFLWGERDEYVLRCSLEELMPRYVIMYEPDISFIRQLEVYKASRPLR---PLRV  507 (814)
T ss_pred             ccccccccccccchhhccccccceeeeecccccchhhHHHHHhhhCCCEEEEECCChHHHHHHHHHHccCCCC---CcEE
Confidence            67888889999997                      5          89999997666666666  7776666   4677


Q ss_pred             EEEec
Q psy18034        100 YSLVS  104 (251)
Q Consensus       100 i~l~~  104 (251)
                      |.++.
T Consensus       508 yfL~y  512 (814)
T TIGR00596       508 YFLYY  512 (814)
T ss_pred             EEEEE
Confidence            77765

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

>smart00492 HELICc3 helicase superfamily c-terminal domain

Probab=97.15  E-value=0.0075  Score=47.35  Aligned_cols=67  Identities=22%  Similarity=0.251  Sum_probs=46.4

Q ss_pred             HHHHHHHHHhCCC------cEEEEcCCCCHHHHHHHHHHHhcCC-ceEEEecccccccccccc--ccEEEEecCCC
Q psy18034         12 VEYVHKILGLAGI------SSTYIYSDLDPTARKINAAKFQTGK-IRVLVVTDVAARGIDIPS--LDAVINYNFPC   78 (251)
Q Consensus        12 ~~~l~~~L~~~~~------~~~~i~g~~~~~~r~~~~~~F~~g~-~~iLv~Td~~~~Gldi~~--v~~VI~~d~P~   78 (251)
                      .+.++..+...+.      .-..+.-+.+..+...++++|+... ..||++|.-.++|+|+|+  +++||-..+|.
T Consensus         4 m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~iL~~~~~~~EGiD~~g~~~r~vii~glPf   79 (141)
T smart00492        4 MESFVQYWKENGILENINKNLLLLVQGEDGKETGKLLEKYVEACENAILLATARFSEGVDFPGDYLRAVIIDGLPF   79 (141)
T ss_pred             HHHHHHHHHHcCchhhHhcCCeEEEeCCChhHHHHHHHHHHHcCCCEEEEEccceecceecCCCCeeEEEEEecCC
Confidence            3455556655543      1223333455556788999999765 379999988999999995  56888888773

>KOG0925|consensus

Probab=97.15  E-value=0.00095  Score=61.70  Aligned_cols=99  Identities=22%  Similarity=0.362  Sum_probs=73.4

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC---------CCcEEEEcCCCCHHHHHHHHHHHh---cC--CceEEEecccccccccccc
Q psy18034          2 TVVFTATKYHVEYVHKILGLA---------GISSTYIYSDLDPTARKINAAKFQ---TG--KIRVLVVTDVAARGIDIPS   67 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~---------~~~~~~i~g~~~~~~r~~~~~~F~---~g--~~~iLv~Td~~~~Gldi~~   67 (251)
                      ++||....+..+...+.+...         ...|..+|    +.+...+++.-.   +|  ..+|+|+|.++...+.+++
T Consensus       256 ilvFLtgeeeIe~aC~~i~re~~~L~~~~g~l~v~PLy----P~~qq~iFep~p~~~~~~~~RkvVvstniaetsltidg  331 (699)
T KOG0925|consen  256 ILVFLTGEEEIEDACRKISREVDNLGPQVGPLKVVPLY----PAQQQRIFEPAPEKRNGAYGRKVVVSTNIAETSLTIDG  331 (699)
T ss_pred             EEEEecCHHHHHHHHHHHHHHHHhhccccCCceEEecC----chhhccccCCCCcccCCCccceEEEEecchheeeeecc
Confidence            689999988888877777643         24677777    333333333221   12  4579999999999999999


Q ss_pred             ccEEEEecC------------------CCChhhHHHHhhhcccCCCCceEEEEecC
Q psy18034         68 LDAVINYNF------------------PCKAKLFVHRVGRCARAGRSGVAYSLVSS  105 (251)
Q Consensus        68 v~~VI~~d~------------------P~~~~~y~qr~GR~gR~g~~g~~i~l~~~  105 (251)
                      +.+||.-++                  |-|..+-.||.||+||. ++|.|+-++++
T Consensus       332 iv~VIDpGf~kqkVYNPRIRvesllv~PISkasA~qR~gragrt-~pGkcfrLYte  386 (699)
T KOG0925|consen  332 IVFVIDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRT-RPGKCFRLYTE  386 (699)
T ss_pred             EEEEecCchhhhcccCcceeeeeeeeccchHhHHHHHhhhccCC-CCCceEEeecH
Confidence            999997443                  67788888999999984 68999999874

>TIGR00604 rad3 DNA repair helicase (rad3)

Probab=96.97  E-value=0.0084  Score=59.14  Aligned_cols=76  Identities=22%  Similarity=0.294  Sum_probs=57.3

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCC-------cEEEEcCCCCHHHHHHHHHHHhc----CCceEEEec--ccccccccccc-
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGI-------SSTYIYSDLDPTARKINAAKFQT----GKIRVLVVT--DVAARGIDIPS-   67 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~-------~~~~i~g~~~~~~r~~~~~~F~~----g~~~iLv~T--d~~~~Gldi~~-   67 (251)
                      ++||++|....+.+++.+...|.       ....+-+. ...++..++++|+.    |.-.||.++  ..+++|||+++ 
T Consensus       525 ~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~-~~~~~~~~l~~f~~~~~~~~gavL~av~gGk~sEGIDf~~~  603 (705)
T TIGR00604       525 IVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETK-DAQETSDALERYKQAVSEGRGAVLLSVAGGKVSEGIDFCDD  603 (705)
T ss_pred             EEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCC-CcchHHHHHHHHHHHHhcCCceEEEEecCCcccCccccCCC
Confidence            79999999999999988876532       12222222 12577889999965    455699998  88999999995 


Q ss_pred             -ccEEEEecCCC
Q psy18034         68 -LDAVINYNFPC   78 (251)
Q Consensus        68 -v~~VI~~d~P~   78 (251)
                       +++||-..+|.
T Consensus       604 ~~r~ViivGlPf  615 (705)
T TIGR00604       604 LGRAVIMVGIPY  615 (705)
T ss_pred             CCcEEEEEccCC
Confidence             78899899885

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).

>smart00491 HELICc2 helicase superfamily c-terminal domain

Probab=96.95  E-value=0.01  Score=46.68  Aligned_cols=66  Identities=24%  Similarity=0.312  Sum_probs=44.3

Q ss_pred             HHHHHHHHHhCCC----cEEEEcCCCCHHHHHHHHHHHhcCCc---eEEEeccc--ccccccccc--ccEEEEecCCC
Q psy18034         12 VEYVHKILGLAGI----SSTYIYSDLDPTARKINAAKFQTGKI---RVLVVTDV--AARGIDIPS--LDAVINYNFPC   78 (251)
Q Consensus        12 ~~~l~~~L~~~~~----~~~~i~g~~~~~~r~~~~~~F~~g~~---~iLv~Td~--~~~Gldi~~--v~~VI~~d~P~   78 (251)
                      .+.+++.++..+.    ....+-+. ...+....+++|+....   .||+++.-  +++|+|+|+  +++||-..+|.
T Consensus         4 m~~v~~~~~~~~~~~~~~~i~~e~~-~~~~~~~~l~~f~~~~~~~g~iL~~v~~G~~~EGiD~~g~~~r~vii~glPf   80 (142)
T smart00491        4 LEQVVEYWKENGILEINKPVFIEGK-DSGETEELLEKYSAACEARGALLLAVARGKVSEGIDFPDDLGRAVIIVGIPF   80 (142)
T ss_pred             HHHHHHHHHhcCccccCceEEEECC-CCchHHHHHHHHHHhcCCCCEEEEEEeCCeeecceecCCCccEEEEEEecCC
Confidence            4566666765543    22233232 23345788999998654   68888876  899999995  67888888773

>PRK10917 ATP-dependent DNA helicase RecG; Provisional

Probab=96.62  E-value=0.0077  Score=59.19  Aligned_cols=73  Identities=16%  Similarity=0.210  Sum_probs=62.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-cccccccccccEEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-AARGIDIPSLDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-~~~Gldi~~v~~VI~   73 (251)
                      |++|.++|+.-+.+.++.++..    |+.+..+||+++..+|...++...+|+.+|+|+|.. +...+.+.++.+||-
T Consensus       312 q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~v~~~~l~lvVI  389 (681)
T PRK10917        312 QAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQDDVEFHNLGLVII  389 (681)
T ss_pred             eEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcccchhcccceEEE
Confidence            5899999999998887776654    789999999999999999999999999999999974 444677888888774

>KOG1016|consensus

Probab=96.53  E-value=0.01  Score=57.81  Aligned_cols=102  Identities=16%  Similarity=0.190  Sum_probs=85.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCc------------------EEEEcCCCCHHHHHHHHHHHhcC---CceEEEecccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGIS------------------STYIYSDLDPTARKINAAKFQTG---KIRVLVVTDVA   59 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~------------------~~~i~g~~~~~~r~~~~~~F~~g---~~~iLv~Td~~   59 (251)
                      |+|||.......+.+-+.|....++                  -.-+.|..+..+|++.+++|...   ..-+|++|.+.
T Consensus       721 kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN~e~~lsWlfllstrag  800 (1387)
T KOG1016|consen  721 KILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFNSEPGLSWLFLLSTRAG  800 (1387)
T ss_pred             eEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhccCCCCceeeeeehhccc
Confidence            5799999999999999988776222                  22456778889999999999875   23478889999


Q ss_pred             ccccccccccEEEEecCCCChhhHHHHhhhcccCCCCceEEEE
Q psy18034         60 ARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSL  102 (251)
Q Consensus        60 ~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l  102 (251)
                      ..|+|+-..+.++-||.-|++..-.|.+-|+-|.|+...|++.
T Consensus       801 ~lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvY  843 (1387)
T KOG1016|consen  801 SLGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVY  843 (1387)
T ss_pred             cccceeeccceEEEEEeecCccccchhhhhhhhhcCcCceeEE
Confidence            9999999999999999999999999999999999997766544

>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3

Probab=96.52  E-value=0.014  Score=58.91  Aligned_cols=91  Identities=16%  Similarity=0.133  Sum_probs=61.8

Q ss_pred             EEEcCcHHHHHHHHHHHHhC----C--CcEEEEcCCCCHHHHHHHHHH---H-------------------hc----CCc
Q psy18034          3 VVFTATKYHVEYVHKILGLA----G--ISSTYIYSDLDPTARKINAAK---F-------------------QT----GKI   50 (251)
Q Consensus         3 iIF~~t~~~~~~l~~~L~~~----~--~~~~~i~g~~~~~~r~~~~~~---F-------------------~~----g~~   50 (251)
                      +|=+++...+-.++..|-..    +  +.+.++|+..+...|..+-+.   +                   ++    +..
T Consensus       760 liR~anI~p~V~~A~~L~~~~~~~~~~i~~~~yHSr~~l~~Rs~~E~~Ld~~L~R~~~~~~~~~~~i~~~l~~~~~~~~~  839 (1110)
T TIGR02562       760 LIRVANIDPLIRLAQFLYALLAEEKYQIHLCCYHAQDPLLLRSYIERRLDQLLTRHKPEQLFQDDEIIDLMQNSPALNHL  839 (1110)
T ss_pred             EEEEcCchHHHHHHHHHHhhccccCCceeEEEecccChHHHHHHHHHHHHHHhcccChhhhhchHHHHHHHhcccccCCC
Confidence            44555556666666665544    3  447788998866655443222   1                   12    356


Q ss_pred             eEEEeccccccccccccccEEEEecCCCChhhHHHHhhhcccCCCC
Q psy18034         51 RVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRS   96 (251)
Q Consensus        51 ~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR~gR~g~~   96 (251)
                      .|+|+|.+.+-|+|+ +.+++|-  -|.+..+.+||+||+.|.|..
T Consensus       840 ~i~v~Tqv~E~g~D~-dfd~~~~--~~~~~~sliQ~aGR~~R~~~~  882 (1110)
T TIGR02562       840 FIVLATPVEEVGRDH-DYDWAIA--DPSSMRSIIQLAGRVNRHRLE  882 (1110)
T ss_pred             eEEEEeeeEEEEecc-cCCeeee--ccCcHHHHHHHhhcccccccC
Confidence            799999999999998 4555543  367799999999999997753

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.

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

Probab=96.49  E-value=0.032  Score=54.21  Aligned_cols=78  Identities=22%  Similarity=0.186  Sum_probs=59.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcC----CceEEEecccccccccc--------c--
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTG----KIRVLVVTDVAARGIDI--------P--   66 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g----~~~iLv~Td~~~~Gldi--------~--   66 (251)
                      +++|.+.|....+.+++.|...---...+.|+.+  .+...+++|+..    ...||++|+.+-+|+|+        |  
T Consensus       472 ~~lvLfTS~~~~~~~~~~l~~~l~~~~l~qg~~~--~~~~l~~~f~~~~~~~~~~vL~gt~sfweGvDv~~~~~~p~~G~  549 (636)
T TIGR03117       472 GTLVLTTAFSHISAIGQLVELGIPAEIVIQSEKN--RLASAEQQFLALYANGIQPVLIAAGGAWTGIDLTHKPVSPDKDN  549 (636)
T ss_pred             CEEEEechHHHHHHHHHHHHhhcCCCEEEeCCCc--cHHHHHHHHHHhhcCCCCcEEEeCCccccccccCCccCCCCCCC
Confidence            4789999999999999999764212345556543  356678889884    78999999999999999        2  


Q ss_pred             cccEEEEecCCCCh
Q psy18034         67 SLDAVINYNFPCKA   80 (251)
Q Consensus        67 ~v~~VI~~d~P~~~   80 (251)
                      .+++||-.-+|..+
T Consensus       550 ~Ls~ViI~kLPF~~  563 (636)
T TIGR03117       550 LLTDLIITCAPFGL  563 (636)
T ss_pred             cccEEEEEeCCCCc
Confidence            58889988877433

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.

>TIGR00643 recG ATP-dependent DNA helicase RecG

Probab=96.22  E-value=0.017  Score=56.25  Aligned_cols=73  Identities=21%  Similarity=0.223  Sum_probs=61.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc-ccccccccccEEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA-ARGIDIPSLDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~-~~Gldi~~v~~VI~   73 (251)
                      +++|.++|+.-+.++++.++..    |+.+..+||+++..+|...++...+|+.+|+|+|... ...+.+.++.+||-
T Consensus       286 qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~~~~~~~l~lvVI  363 (630)
T TIGR00643       286 QVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQEKVEFKRLALVII  363 (630)
T ss_pred             cEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhccccccccceEEE
Confidence            5899999999999888777654    7899999999999999999999999999999999754 34577778887773

>PRK05580 primosome assembly protein PriA; Validated

Probab=96.16  E-value=0.024  Score=55.73  Aligned_cols=74  Identities=15%  Similarity=0.110  Sum_probs=61.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEec
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYN   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d   75 (251)
                      ++||.++++..+.++.+.|+.. |..+..+||+++..+|.+.+.+...|+.+|+|+|..+.. +.+.++..||--+
T Consensus       192 ~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~-~p~~~l~liVvDE  266 (679)
T PRK05580        192 QALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSALF-LPFKNLGLIIVDE  266 (679)
T ss_pred             eEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc-ccccCCCEEEEEC
Confidence            5899999999999999999874 788999999999999999999999999999999974322 4456777777433

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

Probab=96.15  E-value=0.0076  Score=59.44  Aligned_cols=102  Identities=25%  Similarity=0.225  Sum_probs=74.2

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccccccccccccc-----------E
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLD-----------A   70 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~-----------~   70 (251)
                      +||-+.+.+..+.+++.|.+.|++...+...-.  +++..+-++.-..-.+-|||++|+||.||.--.           +
T Consensus       432 vLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h--~~EA~Iia~AG~~gaVTiATNMAGRGTDIkLg~~~~~V~~lGGL~  509 (822)
T COG0653         432 VLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNH--AREAEIIAQAGQPGAVTIATNMAGRGTDIKLGGNPEFVMELGGLH  509 (822)
T ss_pred             EEEcCcceecchhHHHHHHhcCCCceeeccccH--HHHHHHHhhcCCCCccccccccccCCcccccCCCHHHHHHhCCcE
Confidence            688889999999999999999999888877755  444444444333335779999999999985222           3


Q ss_pred             EEEecCCCChhhHHHHhhhcccCCCCceEEEEecC
Q psy18034         71 VINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSS  105 (251)
Q Consensus        71 VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~  105 (251)
                      ||--.--.|..---|-.||+||.|-+|.+--+++-
T Consensus       510 VIgTERhESRRIDnQLRGRsGRQGDpG~S~F~lSl  544 (822)
T COG0653         510 VIGTERHESRRIDNQLRGRAGRQGDPGSSRFYLSL  544 (822)
T ss_pred             EEecccchhhHHHHHhhcccccCCCcchhhhhhhh
Confidence            55444444444445889999999999987666553

>PF13959 DUF4217: Domain of unknown function (DUF4217)

Probab=96.01  E-value=0.0042  Score=42.07  Aligned_cols=47  Identities=19%  Similarity=0.409  Sum_probs=39.0

Q ss_pred             HHHHHHHhhHhhHHHHHHhHHHHHHHHhcCCCC-chhhhhhhhcccccccc
Q psy18034        154 EIMNWVELDADMEGIQKTCNNAYKKYVKSRPGA-SVESVKKVKELELATMQ  203 (251)
Q Consensus       154 ~~~~~~~~~~~~~~~~~~~~~~~~~y~~~r~~~-~~~~i~r~k~l~~~~~~  203 (251)
                      .+..++.++.   .+.+.|.+|+++|.|++..+ ..+.|++++++|++.++
T Consensus         5 ~l~~~~~~d~---~l~~lA~~Af~SyvraY~~~~~~k~iF~~~~L~l~~~A   52 (65)
T PF13959_consen    5 KLEKLVAKDR---ELKELAQKAFVSYVRAYASHKELKDIFNVKKLDLGHLA   52 (65)
T ss_pred             HHHHHHHhCH---HHHHHHHHHHHHHHHHHHHHhhhhhhCCcccCCHHHHH
Confidence            3455555544   57888999999999999999 89999999999998775

>TIGR00580 mfd transcription-repair coupling factor (mfd)

Probab=95.93  E-value=0.029  Score=56.88  Aligned_cols=73  Identities=12%  Similarity=0.158  Sum_probs=62.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-ccccccccccccEEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-VAARGIDIPSLDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-~~~~Gldi~~v~~VI~   73 (251)
                      |++|.++|+.-+.+.++.++..    ++.+..++|..+..++...++.++.|+.+|+|+|. .+...+.+.++.+||-
T Consensus       502 qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll~~~v~f~~L~llVI  579 (926)
T TIGR00580       502 QVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLLQKDVKFKDLGLLII  579 (926)
T ss_pred             eEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHhhCCCCcccCCEEEe
Confidence            5899999999999998877764    67788899999999999999999999999999996 4445677888887774

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.

>TIGR00595 priA primosomal protein N'

Probab=95.83  E-value=0.038  Score=52.45  Aligned_cols=72  Identities=17%  Similarity=0.153  Sum_probs=60.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~   73 (251)
                      ++||.+++...+.++++.|+.. |..+..+||+++..+|.+.+.+...|+.+|+|+|..+.. ..++++..||-
T Consensus        27 ~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVGTrsalf-~p~~~l~lIIV   99 (505)
T TIGR00595        27 SVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEILVVIGTRSALF-LPFKNLGLIIV   99 (505)
T ss_pred             eEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCCEEECChHHHc-CcccCCCEEEE
Confidence            5799999999999999999865 778999999999999999999999999999999975432 34567777774

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).

>KOG1001|consensus

Probab=95.81  E-value=0.0019  Score=62.85  Aligned_cols=99  Identities=13%  Similarity=0.163  Sum_probs=87.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCC-ce-EEEeccccccccccccccEEEEecCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGK-IR-VLVVTDVAARGIDIPSLDAVINYNFPC   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~-~~-iLv~Td~~~~Gldi~~v~~VI~~d~P~   78 (251)
                      |++||+.-..-++.+...|...++....+.|.|....|...+..|..+. .. .+++.-+.+-|+++-..++|+-.|+-|
T Consensus       541 kiiifsq~~~~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s~~~~~~~~~~~vll~Slkag~~glnlt~a~~v~~~d~~w  620 (674)
T KOG1001|consen  541 KIVIFSQLIWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDFPCDPLVTALLMSLKAGKVGLNLTAASHVLLMDPWW  620 (674)
T ss_pred             ceeeehhHHHHHHHhhhhhhhcccccchhhhhhHHHHHHhhhcccccCccHHHHHHHHHHhhhhhchhhhhHHHhhchhc
Confidence            5799999888888888888888888889999999999999999999663 23 456778899999999999999999999


Q ss_pred             ChhhHHHHhhhcccCCCCceE
Q psy18034         79 KAKLFVHRVGRCARAGRSGVA   99 (251)
Q Consensus        79 ~~~~y~qr~GR~gR~g~~g~~   99 (251)
                      +|..-.|.+-|+.|.|+...+
T Consensus       621 np~~eeQaidR~hrigq~k~v  641 (674)
T KOG1001|consen  621 NPAVEEQAIDRAHRIGQTKPV  641 (674)
T ss_pred             ChHHHHHHHHHHHHhccccee
Confidence            999999999999999987654

>KOG0701|consensus

Probab=95.71  E-value=0.0065  Score=63.68  Aligned_cols=93  Identities=17%  Similarity=0.346  Sum_probs=76.2

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCC-CcEEEEcCCCC-----------HHHHHHHHHHHhcCCceEEEecccccccccccccc
Q psy18034          2 TVVFTATKYHVEYVHKILGLAG-ISSTYIYSDLD-----------PTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLD   69 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~-~~~~~i~g~~~-----------~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~   69 (251)
                      .|+||+-...+..+.+.++... ..+..+.|.+.           +..+.+++..|....+++|++|.++.+|+|++.++
T Consensus       295 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~k~~~~~~~~~~~~vl~~~~~~~ln~L~~~~~~~e~~d~~~~~  374 (1606)
T KOG0701|consen  295 GIIFVDQRYTAYVLLELLREIFSNDPLFVTGASGANLWKSFKNELELRQAEVLRRFHFHELNLLIATSVLEEGVDVPKCN  374 (1606)
T ss_pred             heeecccchHHHHHHHHHHHhhccCcceeeccccCccchhhHHHHHhhhHHHHHHHhhhhhhHHHHHHHHHhhcchhhhh
Confidence            4789999888888888877662 23334555433           22467889999999999999999999999999999


Q ss_pred             EEEEecCCCChhhHHHHhhhcccCC
Q psy18034         70 AVINYNFPCKAKLFVHRVGRCARAG   94 (251)
Q Consensus        70 ~VI~~d~P~~~~~y~qr~GR~gR~g   94 (251)
                      .|+.++.|..-..|+|+.||+-+.+
T Consensus       375 ~~~~~~~~~~~~~~vq~~~r~~~~~  399 (1606)
T KOG0701|consen  375 LVVLFDAPTYYRSYVQKKGRARAAD  399 (1606)
T ss_pred             hheeccCcchHHHHHHhhcccccch
Confidence            9999999999999999999976543

>PRK10689 transcription-repair coupling factor; Provisional

Probab=95.32  E-value=0.062  Score=55.74  Aligned_cols=73  Identities=14%  Similarity=0.085  Sum_probs=61.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-ccccccccccccEEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-VAARGIDIPSLDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-~~~~Gldi~~v~~VI~   73 (251)
                      |++|.|+|+.-+.++++.++..    ++.+..++|..+..++..+++..++|..+|+|+|. .+...+.+.++.++|-
T Consensus       651 qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL~~~v~~~~L~lLVI  728 (1147)
T PRK10689        651 QVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLLQSDVKWKDLGLLIV  728 (1147)
T ss_pred             eEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHHhCCCCHhhCCEEEE
Confidence            5899999999999998888753    56788899999999999999999999999999996 4444567778887763

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

Probab=95.24  E-value=0.064  Score=51.02  Aligned_cols=68  Identities=15%  Similarity=0.361  Sum_probs=54.5

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC-----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----ccccc-cccccccE
Q psy18034          2 TVVFTATKYHVEYVHKILGLA-----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAARG-IDIPSLDA   70 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~-----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~G-ldi~~v~~   70 (251)
                      +||.++|++.|.++++.+...     ++.+..++|+++...+..   +++.| .+|+|+|+     .+.+| +++..+.+
T Consensus       102 aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~~---~l~~~-~~ivVaTPGRllD~i~~~~l~l~~v~~  177 (513)
T COG0513         102 ALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIE---ALKRG-VDIVVATPGRLLDLIKRGKLDLSGVET  177 (513)
T ss_pred             eEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHHH---HHhcC-CCEEEECccHHHHHHHcCCcchhhcCE
Confidence            799999999999999988765     466889999998776664   44446 99999997     45556 88888888


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      +|.
T Consensus       178 lVl  180 (513)
T COG0513         178 LVL  180 (513)
T ss_pred             EEe
Confidence            774

>KOG1513|consensus

Probab=95.00  E-value=0.043  Score=53.87  Aligned_cols=64  Identities=23%  Similarity=0.446  Sum_probs=52.1

Q ss_pred             HHHHHhcCCceEEEeccccccccccccccEE--------EEecCCCChhhHHHHhhhcccCCCC-ceEEEEec
Q psy18034         41 NAAKFQTGKIRVLVVTDVAARGIDIPSLDAV--------INYNFPCKAKLFVHRVGRCARAGRS-GVAYSLVS  104 (251)
Q Consensus        41 ~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~V--------I~~d~P~~~~~y~qr~GR~gR~g~~-g~~i~l~~  104 (251)
                      --++|-.|+..|-|.+.+++-||-++.=..|        |-..+||+.+.-+|..||+.|.++- +--|+|+-
T Consensus       849 EKqrFM~GeK~vAIISEAaSSGiSLQsDrRv~NqRRRvHiTLELPWSADrAIQQFGRTHRSNQVsaPEYvFlI  921 (1300)
T KOG1513|consen  849 EKQRFMDGEKLVAIISEAASSGISLQSDRRVQNQRRRVHITLELPWSADRAIQQFGRTHRSNQVSAPEYVFLI  921 (1300)
T ss_pred             HHhhhccccceeeeeehhhccCceeecchhhhhhhheEEEEEECCcchhHHHHHhcccccccccCCCeEEEEe
Confidence            3567999999999999999999999855444        4478999999999999999999873 44555543

>KOG0339|consensus

Probab=94.99  E-value=0.27  Score=46.18  Aligned_cols=67  Identities=10%  Similarity=0.160  Sum_probs=51.0

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc------ccccccccccccEE
Q psy18034          2 TVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD------VAARGIDIPSLDAV   71 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td------~~~~Gldi~~v~~V   71 (251)
                      .+|.|+|++.+.++....++.    |+.+.++||+++..++...++    -...|+|||+      +--.|+|+..++++
T Consensus       299 ~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~k~Lk----~g~EivVaTPgRlid~VkmKatn~~rvS~L  374 (731)
T KOG0339|consen  299 GVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELK----EGAEIVVATPGRLIDMVKMKATNLSRVSYL  374 (731)
T ss_pred             EEEEeccHHHHHHHHHHHHHhhhhccceEEEeecCCcHHHHHHhhh----cCCeEEEechHHHHHHHHhhcccceeeeEE
Confidence            478999999999887766655    889999999999877665444    3467999996      22246778777766


Q ss_pred             E
Q psy18034         72 I   72 (251)
Q Consensus        72 I   72 (251)
                      |
T Consensus       375 V  375 (731)
T KOG0339|consen  375 V  375 (731)
T ss_pred             E
Confidence            5

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

Probab=94.82  E-value=0.076  Score=53.46  Aligned_cols=59  Identities=15%  Similarity=0.158  Sum_probs=50.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC-----CcEEE-EcCCCCHHHHHHHHHHHhcCCceEEEecccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG-----ISSTY-IYSDLDPTARKINAAKFQTGKIRVLVVTDVA   59 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~-----~~~~~-i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~   59 (251)
                      ++++.++|..-+.+.++.|....     ..+.. +||.|+.++++..+++|.+|..+|||+|...
T Consensus       127 r~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~F  191 (1187)
T COG1110         127 RVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQF  191 (1187)
T ss_pred             eEEEEecCHHHHHHHHHHHHHHHhhcCCcceeeeeccccchHHHHHHHHHHhcCCccEEEEeHHH
Confidence            57888999999999998887762     33333 8999999999999999999999999999753

>KOG2340|consensus

Probab=94.71  E-value=0.18  Score=47.60  Aligned_cols=110  Identities=15%  Similarity=0.179  Sum_probs=81.2

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc--ccccccccccEEEEecCCCC
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA--ARGIDIPSLDAVINYNFPCK   79 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~--~~Gldi~~v~~VI~~d~P~~   79 (251)
                      ++||.++.-.--.+..+++..++.-..+|--.++..-.+.-+-|-.|..++|+-|.-+  -|-.++.+|..||.|.+|.+
T Consensus       555 ~LiyIPSYfDFVRvRNy~K~e~i~F~~i~EYssk~~vsRAR~lF~qgr~~vlLyTER~hffrR~~ikGVk~vVfYqpP~~  634 (698)
T KOG2340|consen  555 ILIYIPSYFDFVRVRNYMKKEEISFVMINEYSSKSKVSRARELFFQGRKSVLLYTERAHFFRRYHIKGVKNVVFYQPPNN  634 (698)
T ss_pred             eEEEecchhhHHHHHHHhhhhhcchHHHhhhhhHhhhhHHHHHHHhcCceEEEEehhhhhhhhheecceeeEEEecCCCC
Confidence            6899999998888999999887666666655555555666678999999999999753  46788899999999999999


Q ss_pred             hhhHH---HHhhhcccCCC----CceEEEEecCccHHHH
Q psy18034         80 AKLFV---HRVGRCARAGR----SGVAYSLVSSDELCYY  111 (251)
Q Consensus        80 ~~~y~---qr~GR~gR~g~----~g~~i~l~~~~e~~~~  111 (251)
                      |.=|.   .+.||+.-.|+    .-.|..++++-+.-.+
T Consensus       635 P~FYsEiinm~~k~~~~gn~d~d~~t~~ilytKyD~i~L  673 (698)
T KOG2340|consen  635 PHFYSEIINMSDKTTSQGNTDLDIFTVRILYTKYDRIRL  673 (698)
T ss_pred             cHHHHHHHhhhhhhhccCCccccceEEEEEeechhhHHH
Confidence            87765   45566544332    1245566666554433

>PRK14873 primosome assembly protein PriA; Provisional

Probab=94.57  E-value=0.21  Score=48.93  Aligned_cols=82  Identities=11%  Similarity=0.064  Sum_probs=52.7

Q ss_pred             HHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc----ccccccccccccEEEEecC------C--
Q psy18034         12 VEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD----VAARGIDIPSLDAVINYNF------P--   77 (251)
Q Consensus        12 ~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td----~~~~Gldi~~v~~VI~~d~------P--   77 (251)
                      ++.+.+.|...  +.++..+.+       ..+++.|. ++.+|||+|.    +++     ++++.|+..|.      |  
T Consensus       440 ter~eeeL~~~FP~~~V~r~d~-------d~~l~~~~-~~~~IlVGTqgaepm~~-----g~~~lV~ildaD~~L~~pDf  506 (665)
T PRK14873        440 ARRTAEELGRAFPGVPVVTSGG-------DQVVDTVD-AGPALVVATPGAEPRVE-----GGYGAALLLDAWALLGRQDL  506 (665)
T ss_pred             HHHHHHHHHHHCCCCCEEEECh-------HHHHHhhc-cCCCEEEECCCCccccc-----CCceEEEEEcchhhhcCCCc
Confidence            34445555443  445554332       24788996 5999999998    555     35566654442      3  


Q ss_pred             ----CChhhHHHHhhhcccCCCCceEEEEecCc
Q psy18034         78 ----CKAKLFVHRVGRCARAGRSGVAYSLVSSD  106 (251)
Q Consensus        78 ----~~~~~y~qr~GR~gR~g~~g~~i~l~~~~  106 (251)
                          .....+.|-.||+||.+..|.++....++
T Consensus       507 RA~Er~~qll~qvagragr~~~~G~V~iq~~p~  539 (665)
T PRK14873        507 RAAEDTLRRWMAAAALVRPRADGGQVVVVAESS  539 (665)
T ss_pred             ChHHHHHHHHHHHHHhhcCCCCCCEEEEEeCCC
Confidence                12455678999999988889888765443

>KOG0331|consensus

Probab=94.55  E-value=0.19  Score=47.42  Aligned_cols=104  Identities=13%  Similarity=0.218  Sum_probs=75.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----ccccc-cccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAARG-IDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~G-ldi~~v~~   70 (251)
                      .+||-++|++-+.++...+...    ++.+.|++|+.+...+...+++    .+.|+|+|+     .+.+| +|+..|++
T Consensus       167 ~vLVL~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~~Q~~~l~~----gvdiviaTPGRl~d~le~g~~~l~~v~y  242 (519)
T KOG0331|consen  167 IVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQLRDLER----GVDVVIATPGRLIDLLEEGSLNLSRVTY  242 (519)
T ss_pred             eEEEEcCcHHHHHHHHHHHHHHcCCCCccEEEEeCCCCccHHHHHHhc----CCcEEEeCChHHHHHHHcCCccccceeE
Confidence            3799999999999999988877    4568999999987765554432    368999995     45555 77888888


Q ss_pred             EEE--------ecCCCChhhHHHHhhhcccCCCCceEEEEecCccHHHH
Q psy18034         71 VIN--------YNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYY  111 (251)
Q Consensus        71 VI~--------~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~  111 (251)
                      +|-        .++-.++...+++++|..|   .-...+..-+.+...+
T Consensus       243 lVLDEADrMldmGFe~qI~~Il~~i~~~~r---Qtlm~saTwp~~v~~l  288 (519)
T KOG0331|consen  243 LVLDEADRMLDMGFEPQIRKILSQIPRPDR---QTLMFSATWPKEVRQL  288 (519)
T ss_pred             EEeccHHhhhccccHHHHHHHHHhcCCCcc---cEEEEeeeccHHHHHH
Confidence            773        4455678888888888777   2334444446665555

>PRK14701 reverse gyrase; Provisional

Probab=94.37  E-value=0.12  Score=55.32  Aligned_cols=58  Identities=16%  Similarity=0.195  Sum_probs=51.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC------CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA------GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV   58 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~------~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~   58 (251)
                      +++|.++|+.-+.++++.|+..      ++.+..+||+++..++...++.+++|+.+|||+|+-
T Consensus       124 ~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPg  187 (1638)
T PRK14701        124 KCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQ  187 (1638)
T ss_pred             eEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCc
Confidence            5899999999999999988873      466788999999999999999999999999999974

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

Probab=94.25  E-value=0.19  Score=48.68  Aligned_cols=73  Identities=25%  Similarity=0.323  Sum_probs=60.5

Q ss_pred             CEEEEcCcH----HHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-cccccccccccEEEE
Q psy18034          1 MTVVFTATK----YHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-AARGIDIPSLDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~----~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-~~~Gldi~~v~~VI~   73 (251)
                      |+...++|-    .|.+.+.++|...|+.+..+.|.+...+|.+++++..+|+++++|.|-+ +...+++.++..||-
T Consensus       313 Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~V~F~~LgLVIi  390 (677)
T COG1200         313 QAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDKVEFHNLGLVII  390 (677)
T ss_pred             eeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhhcceeecceeEEEE
Confidence            456667774    5566667777777999999999999999999999999999999999975 455788888887774

>PF10593 Z1: Z1 domain; InterPro: IPR018310 This entry represents the Z1 domain of unknown function that is found in a group of putative endonucleases

Probab=94.09  E-value=0.3  Score=41.80  Aligned_cols=96  Identities=11%  Similarity=0.156  Sum_probs=66.7

Q ss_pred             HHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCC----ceEEEeccccccccccccccEEEEecCCCChhhHHHHhh
Q psy18034         13 EYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGK----IRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVG   88 (251)
Q Consensus        13 ~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~----~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~~y~qr~G   88 (251)
                      +.|...+.. ++.+..+.|+.+...     -.|..+.    ..|+|.-+.++||+.++++.+.....-|.+.+++.||.=
T Consensus       101 ~~l~~~~~~-~~~v~~vNS~~~~~~-----ldy~~~~~~~~~~I~VGGn~LsRGlTleGL~vsYf~R~s~~~DTL~QmgR  174 (239)
T PF10593_consen  101 PELPKAISD-GIEVVVVNSGSSDDS-----LDYDDGENLGLNVIAVGGNKLSRGLTLEGLTVSYFLRNSKQYDTLMQMGR  174 (239)
T ss_pred             HHHHHHHhc-CceEEEEeCCCcccc-----ccccccccCCceEEEECCccccCceeECCcEEEEecCCCchHHHHHHHhh
Confidence            344444444 689999998765533     3454553    789999999999999999999999999999999998864


Q ss_pred             hcc-cCCCCceEEEEecCccHHHHHHH
Q psy18034         89 RCA-RAGRSGVAYSLVSSDELCYYLDL  114 (251)
Q Consensus        89 R~g-R~g~~g~~i~l~~~~e~~~~~~i  114 (251)
                      --| |.|-.+.|=.+.+++-...+..+
T Consensus       175 wFGYR~gY~dl~Ri~~~~~l~~~f~~i  201 (239)
T PF10593_consen  175 WFGYRPGYEDLCRIYMPEELYDWFRHI  201 (239)
T ss_pred             cccCCcccccceEEecCHHHHHHHHHH
Confidence            444 44445566555554444444333

This domain is found associated with a helicase domain of superfamily type II [].

>PRK14873 primosome assembly protein PriA; Provisional

Probab=93.74  E-value=0.23  Score=48.77  Aligned_cols=74  Identities=20%  Similarity=0.209  Sum_probs=60.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-C-CcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEec
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-G-ISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYN   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-~-~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d   75 (251)
                      ++||.++....+..+.+.|+.. | ..+..+|+++++.+|.+.+.+...|+.+|+|.|-.+.- .-+++...||-.+
T Consensus       190 ~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRSAvF-aP~~~LgLIIvdE  265 (665)
T PRK14873        190 GALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRSAVF-APVEDLGLVAIWD  265 (665)
T ss_pred             eEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcceeEE-eccCCCCEEEEEc
Confidence            5799999999999999999876 4 67999999999999999999999999999999965321 2344666666544

>PRK11776 ATP-dependent RNA helicase DbpA; Provisional

Probab=93.72  E-value=0.18  Score=47.04  Aligned_cols=69  Identities=13%  Similarity=0.139  Sum_probs=52.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----cccc-cccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAAR-GIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~-Gldi~~v~   69 (251)
                      +++|.|+|++-+.++++.++..     +..+..++|+.+...+...++    +..+|+|+|+     .+.+ .+++.+++
T Consensus        74 ~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~~~~l~----~~~~IvV~Tp~rl~~~l~~~~~~l~~l~  149 (460)
T PRK11776         74 QALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLE----HGAHIIVGTPGRILDHLRKGTLDLDALN  149 (460)
T ss_pred             eEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCChHHHHHHhc----CCCCEEEEChHHHHHHHHcCCccHHHCC
Confidence            4799999999999999887754     578889999998766554333    5678999994     3333 47788888


Q ss_pred             EEEE
Q psy18034         70 AVIN   73 (251)
Q Consensus        70 ~VI~   73 (251)
                      +||-
T Consensus       150 ~lVi  153 (460)
T PRK11776        150 TLVL  153 (460)
T ss_pred             EEEE
Confidence            8874

>KOG0951|consensus

Probab=93.59  E-value=0.48  Score=49.03  Aligned_cols=109  Identities=19%  Similarity=0.244  Sum_probs=77.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----------------------CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----------------------GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV   58 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----------------------~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~   58 (251)
                      .++||++++++|..++.-|-..                      ..++..=|-+|+......+-.-|..|.++++|...-
T Consensus      1361 ~~~vf~p~rk~~~~~a~~~~~~s~~~~~~~l~~~~e~~~~~l~e~l~~gvg~e~~s~~d~~iv~~l~e~g~i~v~v~s~~ 1440 (1674)
T KOG0951|consen 1361 PAIVFLPTRKHARLVAVDLVTFSHADEPDYLLSELEECDETLRESLKHGVGHEGLSSNDQEIVQQLFEAGAIQVCVMSRD 1440 (1674)
T ss_pred             CeEEEeccchhhhhhhhccchhhccCcHHHHHHHHhcchHhhhhcccccccccccCcchHHHHHHHHhcCcEEEEEEEcc
Confidence            3789999999998877655321                      112222278899888888889999999999987644


Q ss_pred             cccccccccccEEE----Eec------CCCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHH
Q psy18034         59 AARGIDIPSLDAVI----NYN------FPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLD  113 (251)
Q Consensus        59 ~~~Gldi~~v~~VI----~~d------~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~  113 (251)
                       ..|+-...--+|+    -||      .+.......|++|++.|   .|.|+.+.......++++
T Consensus      1441 -~~~~~~~~~lVvvmgt~~ydg~e~~~~~y~i~~ll~m~G~a~~---~~k~vi~~~~~~k~yykk 1501 (1674)
T KOG0951|consen 1441 -CYGTKLKAHLVVVMGTQYYDGKEHSYEDYPIAELLQMVGLASG---AGKCVIMCHTPKKEYYKK 1501 (1674)
T ss_pred             -cccccccceEEEEecceeecccccccccCchhHHHHHhhhhcC---CccEEEEecCchHHHHHH
Confidence             5555543222222    244      35668899999999988   478999988888777755

>TIGR01054 rgy reverse gyrase

Probab=93.39  E-value=0.22  Score=51.98  Aligned_cols=58  Identities=17%  Similarity=0.228  Sum_probs=49.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcE---EEEcCCCCHHHHHHHHHHHhcCCceEEEeccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISS---TYIYSDLDPTARKINAAKFQTGKIRVLVVTDV   58 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~---~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~   58 (251)
                      +++|.++|+.-+.++++.++..    |+.+   ..+||+++..++...++.+.+|..+|+|+|+-
T Consensus       123 ~vLIL~PTreLa~Qi~~~l~~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~  187 (1171)
T TIGR01054       123 RCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTM  187 (1171)
T ss_pred             eEEEEeCHHHHHHHHHHHHHHHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHH
Confidence            5899999999999998888765    4443   35899999999999999999999999999973

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.

>KOG0347|consensus

Probab=93.39  E-value=0.19  Score=47.63  Aligned_cols=52  Identities=19%  Similarity=0.159  Sum_probs=46.4

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          2 TVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      .+|+++|++-+.++...|...    |+.+..+.|||....+++++.+    .-+|+|||+
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            689999999999999998766    8999999999999988888877    457999996

>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family

Probab=92.93  E-value=0.42  Score=44.89  Aligned_cols=58  Identities=26%  Similarity=0.305  Sum_probs=53.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV   58 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~   58 (251)
                      .+||.+++++-+......|...|+.+..++|+.+..++..++.....+..+++++|+-
T Consensus        53 ~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe  110 (470)
T TIGR00614        53 ITLVISPLISLMEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPE  110 (470)
T ss_pred             cEEEEecHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHH
Confidence            3789999999999999999999999999999999999999999999999999999963

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

>cd00268 DEADc DEAD-box helicases

Probab=92.66  E-value=0.59  Score=38.11  Aligned_cols=68  Identities=12%  Similarity=0.195  Sum_probs=48.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-----cccc-cccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-----AARG-IDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-----~~~G-ldi~~v~~   70 (251)
                      ++||.|+++..+.+....++..    +..+..++|+.+..+....+.    +..+|+|+|.-     +.++ .++++++.
T Consensus        71 ~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~iiv~T~~~l~~~l~~~~~~~~~l~~  146 (203)
T cd00268          71 QALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLK----RGPHIVVATPGRLLDLLERGKLDLSKVKY  146 (203)
T ss_pred             eEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhc----CCCCEEEEChHHHHHHHHcCCCChhhCCE
Confidence            4799999999998887766555    678888999988766543332    66789999952     2222 45666666


Q ss_pred             EE
Q psy18034         71 VI   72 (251)
Q Consensus        71 VI   72 (251)
                      +|
T Consensus       147 lI  148 (203)
T cd00268         147 LV  148 (203)
T ss_pred             EE
Confidence            66

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.

>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein

Probab=92.60  E-value=0.72  Score=45.85  Aligned_cols=89  Identities=18%  Similarity=0.141  Sum_probs=66.2

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccc--cEEEEecCC--
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSL--DAVINYNFP--   77 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v--~~VI~~d~P--   77 (251)
                      +-||++|..-++.+++.....+..+..++|.-+..+.    +.  .++.+|++=|.+..-|+++...  +-|.-|=-|  
T Consensus       285 IcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~dv----~~--W~~~~VviYT~~itvG~Sf~~~HF~~~f~yvk~~~  358 (824)
T PF02399_consen  285 ICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLEDV----ES--WKKYDVVIYTPVITVGLSFEEKHFDSMFAYVKPMS  358 (824)
T ss_pred             EEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCcccc----cc--ccceeEEEEeceEEEEeccchhhceEEEEEecCCC
Confidence            5589999999999999999888888888887655522    22  5788999999999999999743  444444222  


Q ss_pred             --CChhhHHHHhhhcccCCCC
Q psy18034         78 --CKAKLFVHRVGRCARAGRS   96 (251)
Q Consensus        78 --~~~~~y~qr~GR~gR~g~~   96 (251)
                        .+..+..|++||+-.....
T Consensus       359 ~gpd~~s~~Q~lgRvR~l~~~  379 (824)
T PF02399_consen  359 YGPDMVSVYQMLGRVRSLLDN  379 (824)
T ss_pred             CCCcHHHHHHHHHHHHhhccC
Confidence              3445678999997665543

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

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional

Probab=92.40  E-value=0.4  Score=46.85  Aligned_cols=68  Identities=16%  Similarity=0.220  Sum_probs=50.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----ccccc-ccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAARG-IDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~G-ldi~~v~   69 (251)
                      ++||.|+|++-+.++++.+...     ++.+..+||+.+...+...+   + ...+|+|+|+     .+.++ +++.++.
T Consensus        76 ~~LIL~PTreLa~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~q~~~l---~-~~~~IVVgTPgrl~d~l~r~~l~l~~l~  151 (629)
T PRK11634         76 QILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRAL---R-QGPQIVVGTPGRLLDHLKRGTLDLSKLS  151 (629)
T ss_pred             eEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEECCcCHHHHHHHh---c-CCCCEEEECHHHHHHHHHcCCcchhhce
Confidence            4799999999999998877654     68889999998766544333   2 3578999994     33443 6777887


Q ss_pred             EEE
Q psy18034         70 AVI   72 (251)
Q Consensus        70 ~VI   72 (251)
                      +||
T Consensus       152 ~lV  154 (629)
T PRK11634        152 GLV  154 (629)
T ss_pred             EEE
Confidence            776

>PRK10590 ATP-dependent RNA helicase RhlE; Provisional

Probab=91.94  E-value=0.67  Score=43.30  Aligned_cols=69  Identities=13%  Similarity=0.249  Sum_probs=51.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc------ccccccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD------VAARGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td------~~~~Gldi~~v~~   70 (251)
                      ++||.|+|++-+.++.+.++..    ++.+..++|+.+.......   + .+..+|+|+|.      .....+++..+++
T Consensus        77 ~aLil~PtreLa~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~---l-~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~  152 (456)
T PRK10590         77 RALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMK---L-RGGVDVLVATPGRLLDLEHQNAVKLDQVEI  152 (456)
T ss_pred             eEEEEeCcHHHHHHHHHHHHHHhccCCCEEEEEECCcCHHHHHHH---H-cCCCcEEEEChHHHHHHHHcCCcccccceE
Confidence            4799999999999988877654    6778889999887654332   2 35779999995      1234567788887


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||-
T Consensus       153 lVi  155 (456)
T PRK10590        153 LVL  155 (456)
T ss_pred             EEe
Confidence            774

>PRK04537 ATP-dependent RNA helicase RhlB; Provisional

Probab=91.72  E-value=0.49  Score=45.65  Aligned_cols=68  Identities=12%  Similarity=0.197  Sum_probs=50.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----cccc--cccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAAR--GIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~--Gldi~~v~   69 (251)
                      ++||.++|++.+.++++.+...    ++.+..+||+.+...+...+    .+..+|+|+|.     .+.+  .+++..+.
T Consensus        86 raLIl~PTreLa~Qi~~~~~~l~~~~~i~v~~l~Gg~~~~~q~~~l----~~~~dIiV~TP~rL~~~l~~~~~~~l~~v~  161 (572)
T PRK04537         86 RALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELL----QQGVDVIIATPGRLIDYVKQHKVVSLHACE  161 (572)
T ss_pred             eEEEEeCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHH----hCCCCEEEECHHHHHHHHHhccccchhhee
Confidence            4799999999999998877654    67789999998876655444    34678999995     2222  35666777


Q ss_pred             EEE
Q psy18034         70 AVI   72 (251)
Q Consensus        70 ~VI   72 (251)
                      +||
T Consensus       162 ~lV  164 (572)
T PRK04537        162 ICV  164 (572)
T ss_pred             eeE
Confidence            665

>TIGR01389 recQ ATP-dependent DNA helicase RecQ

Probab=91.57  E-value=0.82  Score=44.23  Aligned_cols=57  Identities=21%  Similarity=0.315  Sum_probs=52.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      .++|.++++.-+..-...|+..|+.+..+||+++..++..++.....|..++|++|+
T Consensus        55 ~~lVisPl~sL~~dq~~~l~~~gi~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tp  111 (591)
T TIGR01389        55 LTVVISPLISLMKDQVDQLRAAGVAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAP  111 (591)
T ss_pred             cEEEEcCCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEECh
Confidence            378899999999888889999999999999999999999999999999999999885

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.

>PRK11192 ATP-dependent RNA helicase SrmB; Provisional

Probab=91.53  E-value=0.73  Score=42.60  Aligned_cols=69  Identities=12%  Similarity=0.054  Sum_probs=50.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc------cccccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV------AARGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~------~~~Gldi~~v~~   70 (251)
                      ++||.++|++-+.++++.+...    ++.+..++|+.+...+...+    .+..+|+|+|+-      ....+++..+++
T Consensus        75 ~~lil~Pt~eLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l----~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~  150 (434)
T PRK11192         75 RILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVF----SENQDIVVATPGRLLQYIKEENFDCRAVET  150 (434)
T ss_pred             eEEEECCcHHHHHHHHHHHHHHHccCCcEEEEEECCCCHHHHHHHh----cCCCCEEEEChHHHHHHHHcCCcCcccCCE
Confidence            4799999999998887766543    78899999998876655433    346789999961      224567778887


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||.
T Consensus       151 lVi  153 (434)
T PRK11192        151 LIL  153 (434)
T ss_pred             EEE
Confidence            774

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

Probab=91.28  E-value=0.32  Score=48.03  Aligned_cols=71  Identities=18%  Similarity=0.168  Sum_probs=56.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI   72 (251)
                      ++||-++-......+...|+.. |.++..+|+++++.+|...+.+.+.|+.+|+|.|-.+- =.-++++..||
T Consensus       247 qvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAl-F~Pf~~LGLII  318 (730)
T COG1198         247 QVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRGEARVVIGTRSAL-FLPFKNLGLII  318 (730)
T ss_pred             EEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcCCceEEEEechhh-cCchhhccEEE
Confidence            4788888888888887777766 88999999999999999999999999999999986432 12233555555

>PRK04837 ATP-dependent RNA helicase RhlB; Provisional

Probab=90.14  E-value=1.2  Score=41.05  Aligned_cols=69  Identities=13%  Similarity=0.138  Sum_probs=49.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-----c-ccccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-----A-ARGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-----~-~~Gldi~~v~~   70 (251)
                      ++||.++|++-|.++++.+...    |+.+..++|+.+.......+    .+..+|+|+|.-     + ...+++..+.+
T Consensus        85 ~~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l----~~~~~IlV~TP~~l~~~l~~~~~~l~~v~~  160 (423)
T PRK04837         85 RALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVL----ESGVDILIGTTGRLIDYAKQNHINLGAIQV  160 (423)
T ss_pred             eEEEECCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHh----cCCCCEEEECHHHHHHHHHcCCcccccccE
Confidence            4799999999999987766543    78889999987765544332    245789999962     2 22467778887


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      +|-
T Consensus       161 lVi  163 (423)
T PRK04837        161 VVL  163 (423)
T ss_pred             EEE
Confidence            774

>PTZ00110 helicase; Provisional

Probab=89.92  E-value=1  Score=43.23  Aligned_cols=68  Identities=10%  Similarity=0.191  Sum_probs=50.1

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----ccccc-cccccccEE
Q psy18034          2 TVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAARG-IDIPSLDAV   71 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~G-ldi~~v~~V   71 (251)
                      +||.++|++-|.++.+.+...    ++.+.+++|+.+.......   .+. ..+|+|+|+     .+.++ +++..+++|
T Consensus       206 ~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~gg~~~~~q~~~---l~~-~~~IlVaTPgrL~d~l~~~~~~l~~v~~l  281 (545)
T PTZ00110        206 VLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYA---LRR-GVEILIACPGRLIDFLESNVTNLRRVTYL  281 (545)
T ss_pred             EEEECChHHHHHHHHHHHHHHhcccCccEEEEeCCCCHHHHHHH---HHc-CCCEEEECHHHHHHHHHcCCCChhhCcEE
Confidence            799999999999998888775    4678889999876554433   333 478999995     34444 567788877


Q ss_pred             EE
Q psy18034         72 IN   73 (251)
Q Consensus        72 I~   73 (251)
                      |-
T Consensus       282 Vi  283 (545)
T PTZ00110        282 VL  283 (545)
T ss_pred             Ee
Confidence            64

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

Probab=89.17  E-value=1.7  Score=44.89  Aligned_cols=72  Identities=11%  Similarity=0.132  Sum_probs=61.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEec-cccccccccccccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVT-DVAARGIDIPSLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~T-d~~~~Gldi~~v~~VI   72 (251)
                      |+.|.|+|.=-|++-++-++.+    .+.+..+..=-+.++..++++..++|+++|+|.| -+++.++-+.++..+|
T Consensus       645 QVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrLL~kdv~FkdLGLlI  721 (1139)
T COG1197         645 QVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRLLSKDVKFKDLGLLI  721 (1139)
T ss_pred             eEEEEcccHHhHHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEEEechHhhCCCcEEecCCeEE
Confidence            6889999987777777777665    5667778777889999999999999999999999 5778888888888777

>KOG0921|consensus

Probab=88.51  E-value=0.43  Score=47.74  Aligned_cols=102  Identities=20%  Similarity=0.212  Sum_probs=77.3

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC-------CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEe
Q psy18034          2 TVVFTATKYHVEYVHKILGLA-------GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINY   74 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~-------~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~   74 (251)
                      +++|-+-....-.|...|...       ...+...|+.++..+..++.+....|..++++.|..+.--+.+.++..|+.-
T Consensus       646 ilvflpgwa~i~~L~~~ll~~~~fg~~~~y~ilp~Hsq~~~~eqrkvf~~~p~gv~kii~stniaetsiTidd~v~vid~  725 (1282)
T KOG0921|consen  646 VLVFLPGWAEIMTLCNRLLEHQEFGQANKYEILPLHSQLTSQEQRKVFEPVPEGVTKIILSTNIAETSITIDDVVYVIDS  725 (1282)
T ss_pred             eeeecCchHHhhhhhhhhhhhhhhccchhcccccchhhcccHhhhhccCcccccccccccccceeeEeeeecceeEEEee
Confidence            467777777777777666544       3567778998888888888999989999999999999888888877666643


Q ss_pred             cC------------------CCChhhHHHHhhhcccCCCCceEEEEec
Q psy18034         75 NF------------------PCKAKLFVHRVGRCARAGRSGVAYSLVS  104 (251)
Q Consensus        75 d~------------------P~~~~~y~qr~GR~gR~g~~g~~i~l~~  104 (251)
                      +.                  -.+.-..+||.||+||. ++|.|..+.+
T Consensus       726 cka~~~~~~s~nn~~~~Atvw~sktn~eqr~gr~grv-R~G~~f~lcs  772 (1282)
T KOG0921|consen  726 CKAKEKLFTSHNNMTHYATVWASKTNLEQRKGRAGRV-RPGFCFHLCS  772 (1282)
T ss_pred             eeeeeeeeccccceeeeeeecccccchHhhcccCcee-cccccccccH
Confidence            32                  13566778999999985 5777777765

>PRK11057 ATP-dependent DNA helicase RecQ; Provisional

Probab=88.49  E-value=2  Score=41.84  Aligned_cols=57  Identities=18%  Similarity=0.189  Sum_probs=52.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      .+||.++++.-+......|+..|+.+.++++.++..++..++...+.|+.+++++|+
T Consensus        67 ~tlVisPl~sL~~dqv~~l~~~gi~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tP  123 (607)
T PRK11057         67 LTLVVSPLISLMKDQVDQLLANGVAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAP  123 (607)
T ss_pred             CEEEEecHHHHHHHHHHHHHHcCCcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEECh
Confidence            478999999999999999999999999999999999999999999999999999884

>PRK01297 ATP-dependent RNA helicase RhlB; Provisional

Probab=88.05  E-value=2.3  Score=39.95  Aligned_cols=70  Identities=13%  Similarity=0.180  Sum_probs=50.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-----ccc-ccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-----AAR-GIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-----~~~-Gldi~~v~~   70 (251)
                      ++||.++|++-+.++++.++..    ++.+..++|+.+.....   +.+..+..+|+|+|.-     ..+ .+.+..+++
T Consensus       164 ~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~---~~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~  240 (475)
T PRK01297        164 RALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQL---KQLEARFCDILVATPGRLLDFNQRGEVHLDMVEV  240 (475)
T ss_pred             eEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEEEccCChHHHH---HHHhCCCCCEEEECHHHHHHHHHcCCcccccCce
Confidence            4799999999999988877654    67888999998755433   4555677899999962     122 355666776


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||-
T Consensus       241 lVi  243 (475)
T PRK01297        241 MVL  243 (475)
T ss_pred             EEe
Confidence            663

>PRK09401 reverse gyrase; Reviewed

Probab=87.45  E-value=1.4  Score=46.09  Aligned_cols=57  Identities=21%  Similarity=0.265  Sum_probs=46.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEE--cCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYI--YSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i--~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      +++|.++|+.-+.++++.++..    ++.+..+  ||+++..++.+..+.+..|..+|+|+|.
T Consensus       125 ~alIL~PTreLa~Qi~~~l~~l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp  187 (1176)
T PRK09401        125 KSYIIFPTRLLVEQVVEKLEKFGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTS  187 (1176)
T ss_pred             eEEEEeccHHHHHHHHHHHHHHhhhcCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECH
Confidence            5899999999999999998876    3444444  4556677888888999999999999995

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

Probab=87.13  E-value=2.4  Score=44.01  Aligned_cols=56  Identities=16%  Similarity=0.115  Sum_probs=49.3

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhc--CCceEEEecc
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQT--GKIRVLVVTD   57 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~--g~~~iLv~Td   57 (251)
                      +||.++++.-+..-...|...|+.+..+.|+++..++..++..+..  |+.+||++|+
T Consensus       503 TLVISPLiSLmqDQV~~L~~~GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTP  560 (1195)
T PLN03137        503 TLVISPLVSLIQDQIMNLLQANIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTP  560 (1195)
T ss_pred             EEEEeCHHHHHHHHHHHHHhCCCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEECh
Confidence            7999999998875556677789999999999999999999998877  8999999997

>KOG0334|consensus

Probab=84.94  E-value=2  Score=43.56  Aligned_cols=58  Identities=22%  Similarity=0.367  Sum_probs=45.8

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccccccccc
Q psy18034          2 TVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDI   65 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi   65 (251)
                      +||.|+|+..+.++.+.++..    |+.+++++|+....   +.+...+.| ..|+|||.  +|-+|+
T Consensus       441 ~li~aPtrela~QI~r~~~kf~k~l~ir~v~vygg~~~~---~qiaelkRg-~eIvV~tp--GRmiD~  502 (997)
T KOG0334|consen  441 ALILAPTRELAMQIHREVRKFLKLLGIRVVCVYGGSGIS---QQIAELKRG-AEIVVCTP--GRMIDI  502 (997)
T ss_pred             EEEEcCCHHHHHHHHHHHHHHHhhcCceEEEecCCccHH---HHHHHHhcC-CceEEecc--chhhhh
Confidence            689999999999998877655    89999999997654   456677788 88999985  444444

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

Probab=83.87  E-value=4.9  Score=31.27  Aligned_cols=69  Identities=13%  Similarity=0.149  Sum_probs=47.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHH-HHHHHHHHHhcCCceEEEeccc-----cc-ccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPT-ARKINAAKFQTGKIRVLVVTDV-----AA-RGIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~-~r~~~~~~F~~g~~~iLv~Td~-----~~-~Gldi~~v~   69 (251)
                      ++|+.++++..++.+.+.+...    +..+..+||+.+.. +....+    .+..+|+|+|.-     .. ..+++..++
T Consensus        46 ~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~ilv~T~~~l~~~~~~~~~~~~~~~  121 (169)
T PF00270_consen   46 RVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLHGGQSISEDQREVL----SNQADILVTTPEQLLDLISNGKINISRLS  121 (169)
T ss_dssp             EEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEESTTSCHHHHHHHHH----HTTSSEEEEEHHHHHHHHHTTSSTGTTES
T ss_pred             eEEEEeecccccccccccccccccccccccccccccccccccccccc----cccccccccCcchhhccccccccccccce
Confidence            4789999999999998888776    35788899998754 222222    677899999952     11 123555566


Q ss_pred             EEEE
Q psy18034         70 AVIN   73 (251)
Q Consensus        70 ~VI~   73 (251)
                      +||-
T Consensus       122 ~iVi  125 (169)
T PF00270_consen  122 LIVI  125 (169)
T ss_dssp             EEEE
T ss_pred             eecc
Confidence            5553

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 ....

>KOG0335|consensus

Probab=83.41  E-value=2.7  Score=39.46  Aligned_cols=68  Identities=19%  Similarity=0.307  Sum_probs=48.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----ccccc-cccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAARG-IDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~G-ldi~~v~~   70 (251)
                      .++|..+|++-|++++..-++.    ++.+...+|+.+-.    ....+-...++|||||.     ++.+| +.++.+.+
T Consensus       154 ~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~~----~q~~~~~~gcdIlvaTpGrL~d~~e~g~i~l~~~k~  229 (482)
T KOG0335|consen  154 RALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDLG----AQLRFIKRGCDILVATPGRLKDLIERGKISLDNCKF  229 (482)
T ss_pred             ceEEEeCcHHHhhHHHHHHHhhcccccceeeeeeCCcchh----hhhhhhccCccEEEecCchhhhhhhcceeehhhCcE
Confidence            4799999999999999988766    56788889984332    23345567889999995     45555 55556654


Q ss_pred             EE
Q psy18034         71 VI   72 (251)
Q Consensus        71 VI   72 (251)
                      ++
T Consensus       230 ~v  231 (482)
T KOG0335|consen  230 LV  231 (482)
T ss_pred             EE
Confidence            44

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

Probab=83.41  E-value=28  Score=33.11  Aligned_cols=122  Identities=18%  Similarity=0.168  Sum_probs=81.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-CC---cEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc------ccccccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-GI---SSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD------VAARGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-~~---~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td------~~~~Gldi~~v~~   70 (251)
                      |+|+..+|+--+.+-++.+... |+   .++.++|..++++|...+..     .+|.++|+      +.+--+|+.++.+
T Consensus        60 kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~ltGev~p~~R~~~w~~-----~kVfvaTPQvveNDl~~Grid~~dv~~  134 (542)
T COG1111          60 KVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELWAK-----KKVFVATPQVVENDLKAGRIDLDDVSL  134 (542)
T ss_pred             eEEEecCCchHHHHHHHHHHHHhCCChhheeeecCCCChHHHHHHHhh-----CCEEEeccHHHHhHHhcCccChHHceE
Confidence            5788899998888887777665 44   57799999999999876544     57899985      3444489999998


Q ss_pred             EEEecCCC--ChhhHHHHhhhcccCCCCce--EEEEecCccHHHHHHHHHHhCCCCeeccC
Q psy18034         71 VINYNFPC--KAKLFVHRVGRCARAGRSGV--AYSLVSSDELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        71 VI~~d~P~--~~~~y~qr~GR~gR~g~~g~--~i~l~~~~e~~~~~~i~~~l~~~~~~~~~  127 (251)
                      +|.=..-.  .--.|+.-+-.--|....-.  +++--...+.....++...||..-.....
T Consensus       135 lifDEAHRAvGnyAYv~Va~~y~~~~k~~~ilgLTASPGs~~ekI~eV~~nLgIe~vevrT  195 (542)
T COG1111         135 LIFDEAHRAVGNYAYVFVAKEYLRSAKNPLILGLTASPGSDLEKIQEVVENLGIEKVEVRT  195 (542)
T ss_pred             EEechhhhccCcchHHHHHHHHHHhccCceEEEEecCCCCCHHHHHHHHHhCCcceEEEec
Confidence            88543322  22235555544445443322  23333456788888898888876655443

>KOG0298|consensus

Probab=83.19  E-value=1.5  Score=45.52  Aligned_cols=93  Identities=13%  Similarity=0.093  Sum_probs=69.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCce-EEEeccccccccccccccEEEEecCCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIR-VLVVTDVAARGIDIPSLDAVINYNFPCK   79 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~-iLv~Td~~~~Gldi~~v~~VI~~d~P~~   79 (251)
                      |+|+|+.=-...+.+...+...++....--+   .+.-...+..|+.  ++ .|+-+...+-|+|+-...+|+..++--+
T Consensus      1223 kvIvfsqws~~ldV~e~~~~~N~I~~~~~~~---t~d~~dc~~~fk~--I~clll~~~~~~~GLNL~eA~Hvfl~ePiLN 1297 (1394)
T KOG0298|consen 1223 KVIVFSQWSVVLDVKELRYLMNLIKKQLDGE---TEDFDDCIICFKS--IDCLLLFVSKGSKGLNLIEATHVFLVEPILN 1297 (1394)
T ss_pred             eEEEEEehHHHHHHHHHHHHhhhhHhhhccC---Ccchhhhhhhccc--ceEEEEEeccCcccccHHhhhhhheeccccC
Confidence            5788887777777777777666665433322   2234456677765  44 4566778889999999999999999999


Q ss_pred             hhhHHHHhhhcccCCCCce
Q psy18034         80 AKLFVHRVGRCARAGRSGV   98 (251)
Q Consensus        80 ~~~y~qr~GR~gR~g~~g~   98 (251)
                      +..-.|.+||+.|.|+.-.
T Consensus      1298 ~~~E~QAigRvhRiGQ~~p 1316 (1394)
T KOG0298|consen 1298 PGDEAQAIGRVHRIGQKRP 1316 (1394)
T ss_pred             chHHHhhhhhhhhcccccc
Confidence            9999999999999998654

>cd01524 RHOD_Pyr_redox Member of the Rhodanese Homology Domain superfamily

Probab=82.83  E-value=2.1  Score=30.14  Aligned_cols=34  Identities=15%  Similarity=0.170  Sum_probs=28.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLD   34 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~   34 (251)
                      ++++||.+-..+...+..|+..|+.+..+.|++.
T Consensus        53 ~vvl~c~~g~~a~~~a~~L~~~G~~v~~l~GG~~   86 (90)
T cd01524          53 EIIVYCAVGLRGYIAARILTQNGFKVKNLDGGYK   86 (90)
T ss_pred             cEEEEcCCChhHHHHHHHHHHCCCCEEEecCCHH
Confidence            4688998877788888999999988888999874

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.

>KOG0330|consensus

Probab=80.98  E-value=5.1  Score=36.74  Aligned_cols=82  Identities=15%  Similarity=0.257  Sum_probs=55.6

Q ss_pred             EEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc-------ccccccccccE
Q psy18034          2 TVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA-------ARGIDIPSLDA   70 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~-------~~Gldi~~v~~   70 (251)
                      ++|.++|++-+.++++.+...    |+.+.++-|||+....  ....+  .+.+|||||+-.       ..|..+..+.+
T Consensus       132 ~lVLtPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~q--~~~L~--kkPhilVaTPGrL~dhl~~Tkgf~le~lk~  207 (476)
T KOG0330|consen  132 ALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQ--ANQLS--KKPHILVATPGRLWDHLENTKGFSLEQLKF  207 (476)
T ss_pred             EEEecCcHHHHHHHHHHHHHhccccCeEEEEEecCchHHHH--HHHhh--cCCCEEEeCcHHHHHHHHhccCccHHHhHH
Confidence            789999999999999988877    6889999999975432  23333  356789999732       35666655544


Q ss_pred             --------EEEecCCCChhhHHHHh
Q psy18034         71 --------VINYNFPCKAKLFVHRV   87 (251)
Q Consensus        71 --------VI~~d~P~~~~~y~qr~   87 (251)
                              +++-|+-...+.++-++
T Consensus       208 LVlDEADrlLd~dF~~~ld~ILk~i  232 (476)
T KOG0330|consen  208 LVLDEADRLLDMDFEEELDYILKVI  232 (476)
T ss_pred             HhhchHHhhhhhhhHHHHHHHHHhc
Confidence                    44555544444444333

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	251
2hyi_C	413	Structure Of The Human Exon Junction Complex With A		1e-17
2hxy_A	391	Crystal Structure Of Human Apo-Eif4aiii Length = 39		2e-17
2xb2_A	411	Crystal Structure Of The Core Mago-Y14-Eif4aiii-Bar		2e-17
2j0q_A	410	The Crystal Structure Of The Exon Junction Complex		2e-17
2j0u_B	374	The Crystal Structure Of Eif4aiii-Barentsz Complex		2e-17
2j0u_A	374	The Crystal Structure Of Eif4aiii-Barentsz Complex		2e-17
2yjt_D	170	Crystal Structure Of E. Coli Dead-Box Protein Srmb		7e-17
1hv8_A	367	Crystal Structure Of A Dead Box Protein From The Hy		4e-15
2p6n_A	191	Human Dead-box Rna Helicase Ddx41, Helicase Domain		5e-15
2wax_A	193	Structure Of The Human Ddx6 C-Terminal Domain In Co		1e-14
2hjv_A	163	Structure Of The Second Domain (Residues 207-368) O		2e-14
3pey_A	395	S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3 Length		3e-14
3pew_A	395	S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3		3e-14
2kbf_A	187	Solution Structure Of Carboxyl-Terminal Domain Of D		5e-14
3gfp_A	189	Structure Of The C-Terminal Domain Of The Dead-Box		5e-14
3peu_A	188	S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To		6e-14
1s2m_A	400	Crystal Structure Of The Dead Box Protein Dhh1p Len		6e-14
2db3_A	434	Structural Basis For Rna Unwinding By The Dead-Box		6e-14
2jgn_A	185	Ddx3 Helicase Domain Length = 185		6e-14
2i4i_A	417	Crystal Structure Of Human Dead-Box Rna Helicase Dd		9e-14
2z0m_A	337	Crystal Structure Of Hypothetical Atp-Dependent Rna		1e-12
3eaq_A	212	Novel Dimerization Motif In The Dead Box Rna Helica		1e-12
3i32_A	300	Dimeric Structure Of A Hera Helicase Fragment Inclu		2e-12
2rb4_A	175	Crystal Structure Of The Helicase Domain Of Human D		1e-11
3eiq_A	414	Crystal Structure Of Pdcd4-eif4a Length = 414		4e-10
2zu6_A	388	Crystal Structure Of The Eif4a-Pdcd4 Complex Length		4e-10
3fho_B	508	Structure Of S. Pombe Dbp5 Length = 508		4e-10
3ews_A	445	Human Dead-Box Rna-Helicase Ddx19 In Complex With A		5e-10
3g0h_A	424	Human Dead-box Rna Helicase Ddx19, In Complex With		5e-10
3fht_A	412	Crystal Structure Of Human Dbp5 In Complex With Amp		5e-10
3fmp_B	479	Crystal Structure Of The Nucleoporin Nup214 In Comp		5e-10
2vso_A	395	Crystal Structure Of A Translation Initiation Compl		1e-09
1fuk_A	165	Crystal Structure Of The Carboxy Terminal Domain Of		1e-09
1fuu_A	394	Yeast Initiation Factor 4a Length = 394		1e-09
3i5x_A	563	Structure Of Mss116p Bound To Ssrna And Amp-Pnp Len		1e-08
3sqx_A	512	Structure Of Mss116p (Nte And C-Tail Double Deletio		1e-08
3sqw_A	579	Structure Of Mss116p (Nte Deletion) Bound To Ssrna		1e-08
4db2_A	257	Mss116p Dead-Box Helicase Domain 2 Bound To An Rna		2e-08
4db4_A	256	Mss116p Dead-Box Helicase Domain 2 Bound To A Chima		2e-08
4db2_C	257	Mss116p Dead-Box Helicase Domain 2 Bound To An Rna		2e-08
1t5i_A	172	Crystal Structure Of The C-Terminal Domain Of Uap56		2e-07
1xtk_A	390	Structure Of Decd To Dead Mutation Of Human Uap56 L		3e-07
1xtj_A	386	Structure Of Human Uap56 In Complex With Adp Length		3e-07
1xti_A	391	Structure Of Wildtype Human Uap56 Length = 391		3e-07
4gl2_A	699	Structural Basis For Dsrna Duplex Backbone Recognit		1e-04

>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 = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 66/105 (62%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           V+F  TK  V+++ + +  A  + + ++ D+    R+    +F++G  RVL+ TDV ARG
Sbjct: 281 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 340
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           +D+P +  +INY+ P   +L++HR+GR  R GR GVA + V +D+
Sbjct: 341 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDD 385

>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii Length = 391

Iteration: 1
 Score = 86.3 bits (212), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 66/105 (62%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           V+F  TK  V+++ + +  A  + + ++ D+    R+    +F++G  RVL+ TDV ARG
Sbjct: 259 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 318
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           +D+P +  +INY+ P   +L++HR+GR  R GR GVA + V +D+
Sbjct: 319 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDD 363

>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 = 86.3 bits (212), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 66/105 (62%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           V+F  TK  V+++ + +  A  + + ++ D+    R+    +F++G  RVL+ TDV ARG
Sbjct: 281 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 340
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           +D+P +  +INY+ P   +L++HR+GR  R GR GVA + V +D+
Sbjct: 341 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDD 385

>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2 A Resolution Length = 410

Iteration: 1
 Score = 86.3 bits (212), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 66/105 (62%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           V+F  TK  V+++ + +  A  + + ++ D+    R+    +F++G  RVL+ TDV ARG
Sbjct: 280 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 339
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           +D+P +  +INY+ P   +L++HR+GR  R GR GVA + V +D+
Sbjct: 340 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDD 384

>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0 A Resolution Length = 374

Iteration: 1
 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 66/105 (62%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           V+F  TK  V+++ + +  A  + + ++ D+    R+    +F++G  RVL+ TDV ARG
Sbjct: 244 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 303
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           +D+P +  +INY+ P   +L++HR+GR  R GR GVA + V +D+
Sbjct: 304 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDD 348

>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0 A Resolution Length = 374

Iteration: 1
 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 38/105 (36%), Positives = 66/105 (62%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           V+F  TK  V+++ + +  A  + + ++ D+    R+    +F++G  RVL+ TDV ARG
Sbjct: 244 VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARG 303
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           +D+P +  +INY+ P   +L++HR+GR  R GR GVA + V +D+
Sbjct: 304 LDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDD 348

>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound To Regulator Of Ribonuclease Activity A (Rraa) Length = 170

Iteration: 1
 Score = 84.0 bits (206), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 41/106 (38%), Positives = 61/106 (57%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           ++VF   +  V  +   L  AGI++ Y+  ++    R     +   G++ VLV TDVAAR
Sbjct: 33  SIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAAR 92
Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           GIDIP +  V N++ P     ++HR+GR ARAGR G A SLV + +
Sbjct: 93  GIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHD 138

>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The Hyperthermophile Methanococcus Jannaschii Length = 367

Iteration: 1
 Score = 78.2 bits (191), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 39/105 (37%), Positives = 60/105 (57%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           +VF  TK   + +   L   G  +  I+ DL  + R+     F+  KIR+L+ TDV +RG
Sbjct: 242 LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRG 301
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           ID+  L+ VINY+ P   + + HR+GR  RAG+ G A S+++  E
Sbjct: 302 IDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRRE 346

>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain Length = 191

Iteration: 1
 Score = 77.8 bits (190), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 36/102 (35%), Positives = 61/102 (59%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           ++F   K  V+ +H+ L L G+ +  I+   D   R      F+ GK  VLV TDVA++G
Sbjct: 58  LIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKG 117
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVS 104
           +D P++  VINY+ P + + +VHR+GR   +G +G+A + ++
Sbjct: 118 LDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFIN 159

>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 = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 37/106 (34%), Positives = 62/106 (58%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           +++F  +   VE + K +   G S  YI++ +    R      F+ G  R LV TD+  R
Sbjct: 47  SIIFCNSSQRVELLAKKISQLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTR 106
Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           GIDI +++ VIN++FP  A+ ++HR+GR  R G  G+A +L++ D+
Sbjct: 107 GIDIQAVNVVINFDFPKLAETYLHRIGRSGRFGHLGLAINLITYDD 152

>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The Bacillus Subtilis Yxin Protein Length = 163

Iteration: 1
 Score = 76.3 bits (186), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 42/105 (40%), Positives = 58/105 (55%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           ++F  TK HV  +   L   G     I+  +    R     +F+ G+ R LV TDVAARG
Sbjct: 39  IIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARG 98
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           IDI ++  VINY+ P + + +VHR GR  RAG  G A S V++ E
Sbjct: 99  IDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFE 143

>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3 Length = 395

Iteration: 1
 Score = 75.5 bits (184), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 39/108 (36%), Positives = 59/108 (54%), Gaps = 6/108 (5%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           +++F ATK     ++  L   G   + ++ DL    R      F+ G+ +VL+ T+V AR
Sbjct: 246 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 305
Query: 62  GIDIPSLDAVINYNFPCKAK------LFVHRVGRCARAGRSGVAYSLV 103
           GIDIP++  V+NY+ P  A        ++HR+GR  R GR GVA S V
Sbjct: 306 GIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 353

>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3 Length = 395

Iteration: 1
 Score = 75.5 bits (184), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 39/108 (36%), Positives = 59/108 (54%), Gaps = 6/108 (5%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           +++F ATK     ++  L   G   + ++ DL    R      F+ G+ +VL+ T+V AR
Sbjct: 246 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 305
Query: 62  GIDIPSLDAVINYNFPCKAK------LFVHRVGRCARAGRSGVAYSLV 103
           GIDIP++  V+NY+ P  A        ++HR+GR  R GR GVA S V
Sbjct: 306 GIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 353

>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p Length = 187

Iteration: 1
 Score = 74.7 bits (182), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 39/108 (36%), Positives = 59/108 (54%), Gaps = 6/108 (5%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           +++F ATK     ++  L   G   + ++ DL    R      F+ G+ +VL+ T+V AR
Sbjct: 38  SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 97
Query: 62  GIDIPSLDAVINYNFPCKAK------LFVHRVGRCARAGRSGVAYSLV 103
           GIDIP++  V+NY+ P  A        ++HR+GR  R GR GVA S V
Sbjct: 98  GIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 145

>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein Dbp5 Length = 189

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 39/108 (36%), Positives = 59/108 (54%), Gaps = 6/108 (5%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           +++F ATK     ++  L   G   + ++ DL    R      F+ G+ +VL+ T+V AR
Sbjct: 40  SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 99
Query: 62  GIDIPSLDAVINYNFPCKAK------LFVHRVGRCARAGRSGVAYSLV 103
           GIDIP++  V+NY+ P  A        ++HR+GR  R GR GVA S V
Sbjct: 100 GIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 147

>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1 H337r And Ip6 Length = 188

Iteration: 1
 Score = 74.3 bits (181), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 39/108 (36%), Positives = 59/108 (54%), Gaps = 6/108 (5%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           +++F ATK     ++  L   G   + ++ DL    R      F+ G+ +VL+ T+V AR
Sbjct: 39  SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 98
Query: 62  GIDIPSLDAVINYNFPCKAK------LFVHRVGRCARAGRSGVAYSLV 103
           GIDIP++  V+NY+ P  A        ++HR+GR  R GR GVA S V
Sbjct: 99  GIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFV 146

>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p Length = 400

Iteration: 1
 Score = 74.3 bits (181), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 35/105 (33%), Positives = 63/105 (60%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           ++F  +   VE + K +   G S  Y ++ +    R     +F+ GK+R LV +D+  RG
Sbjct: 262 IIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRG 321
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           IDI +++ VIN++FP  A+ ++HR+GR  R G  G+A +L++ ++
Sbjct: 322 IDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWND 366

>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein Drosophila Vasa Length = 434

Iteration: 1
 Score = 74.3 bits (181), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 37/106 (34%), Positives = 59/106 (55%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T+VF  TK   +++   L      +T I+ D   + R+     F+ G ++VL+ T VA+R
Sbjct: 303 TIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASR 362
Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G+DI ++  VINY+ P K   +VHR+GR  R G +G A S    ++
Sbjct: 363 GLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEK 408

>pdb|2JGN|A Chain A, Ddx3 Helicase Domain Length = 185

Iteration: 1
 Score = 74.3 bits (181), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 38/104 (36%), Positives = 59/104 (56%)
Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
           +T+VF  TK   + +   L   G + T I+ D     R+    +F++GK  +LV T VAA
Sbjct: 48  LTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAA 107
Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVS 104
           RG+DI ++  VIN++ P   + +VHR+GR  R G  G+A S  +
Sbjct: 108 RGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFN 151

>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x Length = 417

Iteration: 1
 Score = 73.6 bits (179), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 38/104 (36%), Positives = 59/104 (56%)
Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
           +T+VF  TK   + +   L   G + T I+ D     R+    +F++GK  +LV T VAA
Sbjct: 278 LTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAA 337
Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVS 104
           RG+DI ++  VIN++ P   + +VHR+GR  R G  G+A S  +
Sbjct: 338 RGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFN 381

>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna Helicase From Sulfolobus Tokodaii Length = 337

Iteration: 1
 Score = 70.1 bits (170), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 60/104 (57%), Gaps = 4/104 (3%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           +VF  T+  V  + ++      ++  +  DL  + R  N   F+ G+  +L+ TDVA+RG
Sbjct: 224 IVFVRTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRG 279
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSD 106
           +DIP ++ VIN++ P   + ++HR+GR  R GR G A + + ++
Sbjct: 280 LDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNE 323

>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 = 70.1 bits (170), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 50/149 (33%), Positives = 75/149 (50%), Gaps = 5/149 (3%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            +VFT TK   E + + L   G  +  ++ DL    R+     F+ G++RVLV TDVAAR
Sbjct: 34  AMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAAR 93
Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRK 121
           G+DIP +D V++Y  P +A+ + HR GR  RAGR G    L    E           GR+
Sbjct: 94  GLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGRR 153
Query: 122 -----PVLADDSMKGKIRHQDGMFGKIPQ 145
                P   ++ ++ K RH      ++P+
Sbjct: 154 FKRVNPPTPEEVLEAKWRHLLARLARVPE 182

>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 = 69.3 bits (168), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 75/149 (50%), Gaps = 5/149 (3%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            +VFT TK   E + + L   G  +  ++ D+    R+     F+ G++RVLV TDVAAR
Sbjct: 31  AMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAAR 90
Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEXXXXXXXXXXXGRK 121
           G+DIP +D V++Y  P +A+ + HR GR  RAGR G    L    E           GR+
Sbjct: 91  GLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGRR 150
Query: 122 -----PVLADDSMKGKIRHQDGMFGKIPQ 145
                P   ++ ++ K RH      ++P+
Sbjct: 151 FKRVNPPTPEEVLEAKWRHLLARLARVPE 179

>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25 Rna Helicase Length = 175

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/111 (27%), Positives = 62/111 (55%), Gaps = 6/111 (5%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           ++F  T+ + +++   +   G   + +  +L    R     +F+ GK +VL+ T+V ARG
Sbjct: 38  IIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARG 97
Query: 63  IDIPSLDAVINYNFPCKA------KLFVHRVGRCARAGRSGVAYSLVSSDE 107
           ID+  +  V+N++ P K       + ++HR+GR  R G+ G+A++++  DE
Sbjct: 98  IDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDE 148

>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a Length = 414

Iteration: 1
 Score = 61.6 bits (148), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 35/105 (33%), Positives = 65/105 (61%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           V+F  T+  V+++ + +     + + ++ D+D   R +   +F++G  RVL+ TD+ ARG
Sbjct: 284 VIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARG 343
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           ID+  +  VINY+ P   + ++HR+GR  R GR GVA ++V+ ++
Sbjct: 344 IDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEED 388

>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex Length = 388

Iteration: 1
 Score = 61.6 bits (148), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 35/105 (33%), Positives = 65/105 (61%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           V+F  T+  V+++ + +     + + ++ D+D   R +   +F++G  RVL+ TD+ ARG
Sbjct: 258 VIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARG 317
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           ID+  +  VINY+ P   + ++HR+GR  R GR GVA ++V+ ++
Sbjct: 318 IDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEED 362

>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp Length = 445

Iteration: 1
 Score = 61.2 bits (147), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 56/109 (51%), Gaps = 6/109 (5%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           ++F  T+    ++   L   G     +  ++    R     +F+ GK +VLV T+V ARG
Sbjct: 307 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 366
Query: 63  IDIPSLDAVINYNFPCKA------KLFVHRVGRCARAGRSGVAYSLVSS 105
           ID+  +  VIN++ P         + ++HR+GR  R G+ G+A ++V S
Sbjct: 367 IDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDS 415

>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An Atp-analogue And Rna Length = 424

Iteration: 1
 Score = 61.2 bits (147), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 56/109 (51%), Gaps = 6/109 (5%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           ++F  T+    ++   L   G     +  ++    R     +F+ GK +VLV T+V ARG
Sbjct: 286 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 345
Query: 63  IDIPSLDAVINYNFPCKA------KLFVHRVGRCARAGRSGVAYSLVSS 105
           ID+  +  VIN++ P         + ++HR+GR  R G+ G+A ++V S
Sbjct: 346 IDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDS 394

>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And Rna Length = 412

Iteration: 1
 Score = 61.2 bits (147), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 56/109 (51%), Gaps = 6/109 (5%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           ++F  T+    ++   L   G     +  ++    R     +F+ GK +VLV T+V ARG
Sbjct: 270 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 329
Query: 63  IDIPSLDAVINYNFPCKA------KLFVHRVGRCARAGRSGVAYSLVSS 105
           ID+  +  VIN++ P         + ++HR+GR  R G+ G+A ++V S
Sbjct: 330 IDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDS 378

>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex With The Dead- Box Helicase Ddx19 Length = 479

Iteration: 1
 Score = 61.2 bits (147), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 56/109 (51%), Gaps = 6/109 (5%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           ++F  T+    ++   L   G     +  ++    R     +F+ GK +VLV T+V ARG
Sbjct: 337 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 396
Query: 63  IDIPSLDAVINYNFPCKA------KLFVHRVGRCARAGRSGVAYSLVSS 105
           ID+  +  VIN++ P         + ++HR+GR  R G+ G+A ++V S
Sbjct: 397 IDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDS 445

>pdb|2VSO|A Chain A, Crystal Structure Of A Translation Initiation Complex Length = 395

Iteration: 1
 Score = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 39/105 (37%), Positives = 62/105 (59%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           V+F  T+  VE +   L     + + IYSDL    R     +F++G  R+L+ TD+ ARG
Sbjct: 264 VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARG 323
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           ID+  +  VINY+ P   + ++HR+GR  R GR GVA + V++++
Sbjct: 324 IDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNED 368

>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast Eif4a Length = 165

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 39/105 (37%), Positives = 62/105 (59%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           V+F  T+  VE +   L     + + IYSDL    R     +F++G  R+L+ TD+ ARG
Sbjct: 34  VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARG 93
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           ID+  +  VINY+ P   + ++HR+GR  R GR GVA + V++++
Sbjct: 94  IDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNED 138

>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a Length = 394

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 39/105 (37%), Positives = 62/105 (59%)
Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           V+F  T+  VE +   L     + + IYSDL    R     +F++G  R+L+ TD+ ARG
Sbjct: 263 VIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIXKEFRSGSSRILISTDLLARG 322
Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           ID+  +  VINY+ P   + ++HR+GR  R GR GVA + V++++
Sbjct: 323 IDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNED 367

>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp Length = 563

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 39/64 (60%)
Query: 44  KFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLV 103
           +F+  +  +LV TDV ARG+D P++  V+    P +   ++HR+GR AR+G+ G +   +
Sbjct: 387 RFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 446
Query: 104 SSDE 107
             DE
Sbjct: 447 CKDE 450

>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion) Bound To Ssrna And Amp-Pnp Length = 512

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 39/64 (60%)
Query: 44  KFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLV 103
           +F+  +  +LV TDV ARG+D P++  V+    P +   ++HR+GR AR+G+ G +   +
Sbjct: 336 RFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 395
Query: 104 SSDE 107
             DE
Sbjct: 396 CKDE 399

>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And Amp-Pnp Length = 579

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 39/64 (60%)
Query: 44  KFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLV 103
           +F+  +  +LV TDV ARG+D P++  V+    P +   ++HR+GR AR+G+ G +   +
Sbjct: 336 RFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 395
Query: 104 SSDE 107
             DE
Sbjct: 396 CKDE 399

>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex Length = 257

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 39/64 (60%)
Query: 44  KFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLV 103
           +F+  +  +LV TDV ARG+D P++  V+    P +   ++HR+GR AR+G+ G +   +
Sbjct: 81  RFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 140
Query: 104 SSDE 107
             DE
Sbjct: 141 CKDE 144

>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric Rna-Dna Duplex Length = 256

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 39/64 (60%)
Query: 44  KFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLV 103
           +F+  +  +LV TDV ARG+D P++  V+    P +   ++HR+GR AR+G+ G +   +
Sbjct: 81  RFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 140
Query: 104 SSDE 107
             DE
Sbjct: 141 CKDE 144

>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex Length = 257

Iteration: 1
 Score = 56.2 bits (134), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 23/64 (35%), Positives = 39/64 (60%)
Query: 44  KFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLV 103
           +F+  +  +LV TDV ARG+D P++  V+    P +   ++HR+GR AR+G+ G +   +
Sbjct: 81  RFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFI 140
Query: 104 SSDE 107
             DE
Sbjct: 141 CKDE 144

>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56 Length = 172

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 22/63 (34%), Positives = 38/63 (60%)
Query: 44  KFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLV 103
           +F+  + R+LV T++  RG+DI  ++   NY+ P  +  ++HRV R  R G  G+A + V
Sbjct: 76  QFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFV 135
Query: 104 SSD 106
           S +
Sbjct: 136 SDE 138

>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56 Length = 390

Iteration: 1
 Score = 52.4 bits (124), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/105 (25%), Positives = 51/105 (48%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            V+F  +      + ++L      +  I+  +    R     +F+  + R+LV T++  R
Sbjct: 252 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 311
Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSD 106
           G+DI  ++   NY+ P  +  ++HRV R  R G  G+A + VS +
Sbjct: 312 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDE 356

>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp Length = 386

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/105 (25%), Positives = 51/105 (48%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            V+F  +      + ++L      +  I+  +    R     +F+  + R+LV T++  R
Sbjct: 253 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 312
Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSD 106
           G+DI  ++   NY+ P  +  ++HRV R  R G  G+A + VS +
Sbjct: 313 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDE 357

>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56 Length = 391

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 27/105 (25%), Positives = 51/105 (48%)
Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            V+F  +      + ++L      +  I+  +    R     +F+  + R+LV T++  R
Sbjct: 253 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 312
Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSD 106
           G+DI  ++   NY+ P  +  ++HRV R  R G  G+A + VS +
Sbjct: 313 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDE 357

>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By Mda5 Length = 699

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 33/89 (37%), Positives = 45/89 (50%), Gaps = 6/89 (6%)
Query: 16  HKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYN 75
           H ++G AG SS +    +    +K   +KF+TGKI +L+ T VA  G+DI   + VI Y 
Sbjct: 434 HHLIG-AGHSSEF--KPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIKECNIVIRYG 490
Query: 76  FPCKAKLFVHRVGRCARAGRSGVAYSLVS 104
                   V   GR ARA  S   Y LV+
Sbjct: 491 LVTNEIAMVQARGR-ARADES--TYVLVA 516

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	251
2yjt_D	170	ATP-dependent RNA helicase SRMB, regulator of ribo	5e-38
2hjv_A	163	ATP-dependent RNA helicase DBPA; parallel alpha-be	6e-33
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	6e-31
1t5i_A	172	C_terminal domain of A probable ATP-dependent RNA	9e-31
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	2e-30
1fuk_A	165	Eukaryotic initiation factor 4A; helicase, DEAD-bo	4e-30
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	4e-30
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	4e-30
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	6e-30
2rb4_A	175	ATP-dependent RNA helicase DDX25; rossmann fold, s	2e-29
2jgn_A	185	DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosp	2e-29
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	2e-29
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	3e-29
2p6n_A	191	ATP-dependent RNA helicase DDX41; DEAD, structural	4e-29
3eaq_A	212	Heat resistant RNA dependent ATPase; DEAD box RNA	8e-29
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	8e-29
3i32_A	300	Heat resistant RNA dependent ATPase; RNA helicase,	7e-28
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	2e-27
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	3e-27
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	7e-27
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	7e-27
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	7e-27
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	2e-26
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	6e-26
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	2e-17
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	2e-15
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	2e-09
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	8e-09
4a2w_A	936	RIG-I, retinoic acid inducible protein I; hydrolas	5e-08
2ykg_A	696	Probable ATP-dependent RNA helicase DDX58; hydrola	1e-07
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	1e-07
3dmq_A	968	RNA polymerase-associated protein RAPA; SWF2/SNF2,	2e-07
4a2q_A	797	RIG-I, retinoic acid inducible protein I; hydrolas	3e-07
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	7e-04

>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 =  129 bits (328), Expect = 5e-38
 Identities = 41/106 (38%), Positives = 61/106 (57%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           ++VF   +  V  +   L  AGI++ Y+  ++    R     +   G++ VLV TDVAAR
Sbjct: 33  SIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAAR 92

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           GIDIP +  V N++ P     ++HR+GR ARAGR G A SLV + +
Sbjct: 93  GIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHD 138

>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase; 1.95A {Bacillus subtilis} Length = 163

 Score =  116 bits (294), Expect = 6e-33
 Identities = 42/107 (39%), Positives = 58/107 (54%)

Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
             ++F  TK HV  +   L   G     I+  +    R     +F+ G+ R LV TDVAA
Sbjct: 37  SCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAA 96

Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           RGIDI ++  VINY+ P + + +VHR GR  RAG  G A S V++ E
Sbjct: 97  RGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFE 143

>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 =  116 bits (294), Expect = 6e-31
 Identities = 35/106 (33%), Positives = 63/106 (59%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            ++F  +   VE + K +   G S  Y ++ +    R     +F+ GK+R LV +D+  R
Sbjct: 261 AIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTR 320

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           GIDI +++ VIN++FP  A+ ++HR+GR  R G  G+A +L++ ++
Sbjct: 321 GIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWND 366

>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 =  111 bits (280), Expect = 9e-31
 Identities = 28/111 (25%), Positives = 52/111 (46%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            V+F  +      + ++L      +  I+  +    R     +F+  + R+LV T++  R
Sbjct: 34  VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 93

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYL 112
           G+DI  ++   NY+ P  +  ++HRV R  R G  G+A + VS +     L
Sbjct: 94  GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 144

>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 =  117 bits (295), Expect = 2e-30
 Identities = 30/116 (25%), Positives = 55/116 (47%), Gaps = 3/116 (2%)

Query: 2   TVVFTATKYHVEYVHKIL---GLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV 58
            ++F  T     ++  IL       +     +  +    R     +F+  +  +LV TDV
Sbjct: 342 AIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDV 401

Query: 59  AARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDL 114
            ARG+D P++  V+    P +   ++HR+GR AR+G+ G +   +  DEL +  +L
Sbjct: 402 GARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPFVREL 457

>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein, translation; 1.75A {Saccharomyces cerevisiae} SCOP: c.37.1.19 Length = 165

 Score =  109 bits (275), Expect = 4e-30
 Identities = 39/107 (36%), Positives = 63/107 (58%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            V+F  T+  VE +   L     + + IYSDL    R     +F++G  R+L+ TD+ AR
Sbjct: 33  AVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLAR 92

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEL 108
           GID+  +  VINY+ P   + ++HR+GR  R GR GVA + V+++++
Sbjct: 93  GIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDV 139

>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 =  114 bits (289), Expect = 4e-30
 Identities = 39/106 (36%), Positives = 62/106 (58%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            V+F  T+  VE +   L     + + IYSDL    R     +F++G  R+L+ TD+ AR
Sbjct: 262 AVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLAR 321

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           GID+  +  VINY+ P   + ++HR+GR  R GR GVA + V++++
Sbjct: 322 GIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNED 367

>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 =  114 bits (289), Expect = 4e-30
 Identities = 35/106 (33%), Positives = 65/106 (61%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            V+F  T+  V+++ + +     + + ++ D+D   R +   +F++G  RVL+ TD+ AR
Sbjct: 283 AVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLAR 342

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           GID+  +  VINY+ P   + ++HR+GR  R GR GVA ++V+ ++
Sbjct: 343 GIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEED 388

>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 =  114 bits (288), Expect = 6e-30
 Identities = 38/106 (35%), Positives = 66/106 (62%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            V+F  TK  V+++ + +  A  + + ++ D+    R+    +F++G  RVL+ TDV AR
Sbjct: 279 AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 338

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G+D+P +  +INY+ P   +L++HR+GR  R GR GVA + V +D+
Sbjct: 339 GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDD 384

>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 =  108 bits (271), Expect = 2e-29
 Identities = 32/113 (28%), Positives = 61/113 (53%), Gaps = 6/113 (5%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            ++F  T+ + +++   +   G   + +  +L    R     +F+ GK +VL+ T+V AR
Sbjct: 37  AIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCAR 96

Query: 62  GIDIPSLDAVINYNFPCKAKLF------VHRVGRCARAGRSGVAYSLVSSDEL 108
           GID+  +  V+N++ P K          +HR+GR  R G+ G+A++++  DEL
Sbjct: 97  GIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDEL 149

>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 =  108 bits (271), Expect = 2e-29
 Identities = 42/117 (35%), Positives = 63/117 (53%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T+VF  TK   + +   L   G + T I+ D     R+    +F++GK  +LV T VAAR
Sbjct: 49  TLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAAR 108

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFL 118
           G+DI ++  VIN++ P   + +VHR+GR  R G  G+A S  +   +    DLL  L
Sbjct: 109 GLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLL 165

>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 =  114 bits (287), Expect = 2e-29
 Identities = 35/163 (21%), Positives = 69/163 (42%), Gaps = 13/163 (7%)

Query: 2   TVVFTATKYHVEYVHKIL---GLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV 58
            ++F  T     ++  IL       +     +  +    R     +F+  +  +LV TDV
Sbjct: 291 AIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDV 350

Query: 59  AARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFL 118
            ARG+D P++  V+    P +   ++HR+GR AR+G+ G +   +  DEL  ++  L   
Sbjct: 351 GARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDEL-PFVRELEDA 409

Query: 119 GRKPVL------ADDSMKGKIRHQDGMFGKIPQGLMEDQISEI 155
               +         + +K ++        + P+ + +  IS I
Sbjct: 410 KNIVIAKQEKYEPSEEIKSEVLE---AVTEEPEDISDIVISLI 449

>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; 2.60A {Homo sapiens} Length = 191

 Score =  107 bits (270), Expect = 4e-29
 Identities = 36/106 (33%), Positives = 61/106 (57%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            ++F   K  V+ +H+ L L G+ +  I+   D   R      F+ GK  VLV TDVA++
Sbjct: 57  VLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G+D P++  VINY+ P + + +VHR+GR   +G +G+A + ++   
Sbjct: 117 GLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINKAC 162

>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 =  107 bits (269), Expect = 8e-29
 Identities = 43/106 (40%), Positives = 60/106 (56%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            +VFT TK   E + + L   G  +  ++ DL    R+     F+ G++RVLV TDVAAR
Sbjct: 34  AMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAAR 93

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G+DIP +D V++Y  P +A+ + HR GR  RAGR G    L    E
Sbjct: 94  GLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRE 139

>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 =  111 bits (279), Expect = 8e-29
 Identities = 28/111 (25%), Positives = 52/111 (46%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            V+F  +      + ++L      +  I+  +    R     +F+  + R+LV T++  R
Sbjct: 253 VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 312

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYL 112
           G+DI  ++   NY+ P  +  ++HRV R  R G  G+A + VS +     L
Sbjct: 313 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 363

>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 =  107 bits (268), Expect = 7e-28
 Identities = 42/106 (39%), Positives = 60/106 (56%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            +VFT TK   E + + L   G  +  ++ D+    R+     F+ G++RVLV TDVAAR
Sbjct: 31  AMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAAR 90

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G+DIP +D V++Y  P +A+ + HR GR  RAGR G    L    E
Sbjct: 91  GLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRE 136

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens} Length = 417

 Score =  108 bits (271), Expect = 2e-27
 Identities = 41/114 (35%), Positives = 62/114 (54%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T+VF  TK   + +   L   G + T I+ D     R+    +F++GK  +LV T VAAR
Sbjct: 279 TLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAAR 338

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLL 115
           G+DI ++  VIN++ P   + +VHR+GR  R G  G+A S  +   +    DLL
Sbjct: 339 GLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLL 392

>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 =  107 bits (270), Expect = 3e-27
 Identities = 37/106 (34%), Positives = 59/106 (55%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T+VF  TK   +++   L      +T I+ D   + R+     F+ G ++VL+ T VA+R
Sbjct: 303 TIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASR 362

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G+DI ++  VINY+ P K   +VHR+GR  R G +G A S    ++
Sbjct: 363 GLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEK 408

>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 =  106 bits (267), Expect = 7e-27
 Identities = 33/116 (28%), Positives = 55/116 (47%), Gaps = 6/116 (5%)

Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           ++F  T+    ++   L   G     +  ++    R     +F+ GK +VLV T+V ARG
Sbjct: 270 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARG 329

Query: 63  IDIPSLDAVINYNFPCKAKLF------VHRVGRCARAGRSGVAYSLVSSDELCYYL 112
           ID+  +  VIN++ P            +HR+GR  R G+ G+A ++V S      L
Sbjct: 330 IDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNIL 385

>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 =  105 bits (264), Expect = 7e-27
 Identities = 33/106 (31%), Positives = 60/106 (56%), Gaps = 4/106 (3%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            +VF  T+  V  + ++      ++  +  DL  + R  N   F+ G+  +L+ TDVA+R
Sbjct: 223 VIVFVRTRNRVAKLVRLF----DNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASR 278

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G+DIP ++ VIN++ P   + ++HR+GR  R GR G A + + ++ 
Sbjct: 279 GLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNEY 324

>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 =  105 bits (265), Expect = 7e-27
 Identities = 39/105 (37%), Positives = 62/105 (59%)

Query: 3   VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARG 62
           +VF  TK   + +  +L   G  +  I+ DL  + R+     F+  KIR+L+ TDV +RG
Sbjct: 242 LVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVMSRG 301

Query: 63  IDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           ID+  L+ VINY+ P   + ++HR+GR  RAG+ G A S+++  E
Sbjct: 302 IDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKKGKAISIINRRE 346

>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 =  105 bits (265), Expect = 2e-26
 Identities = 33/117 (28%), Positives = 55/117 (47%), Gaps = 6/117 (5%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            ++F  T+    ++   L   G     +  ++    R     +F+ GK +VLV T+V AR
Sbjct: 336 AMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCAR 395

Query: 62  GIDIPSLDAVINYNFPCKAKLF------VHRVGRCARAGRSGVAYSLVSSDELCYYL 112
           GID+  +  VIN++ P            +HR+GR  R G+ G+A ++V S      L
Sbjct: 396 GIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNIL 452

>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 =  103 bits (259), Expect = 6e-26
 Identities = 40/117 (34%), Positives = 59/117 (50%), Gaps = 6/117 (5%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           +++F ATK     ++  L   G   + ++ DL    R      F+ G+ +VL+ T+V AR
Sbjct: 246 SIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLAR 305

Query: 62  GIDIPSLDAVINYNFPCKAKLF------VHRVGRCARAGRSGVAYSLVSSDELCYYL 112
           GIDIP++  V+NY+ P  A         +HR+GR  R GR GVA S V        L
Sbjct: 306 GIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNIL 362

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A* Length = 414

 Score = 79.8 bits (197), Expect = 2e-17
 Identities = 23/129 (17%), Positives = 51/129 (39%), Gaps = 14/129 (10%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV--- 58
            ++F  T+   + +++ L     +    +S+      + N   F+ GKI +L+       
Sbjct: 255 ILIFAQTEEEGKELYEYLKRFKFNVGETWSE-----FEKNFEDFKVGKINILIGVQAYYG 309

Query: 59  -AARGIDIPS-LDAVINYNFPCKAKL--FVHRVGRCARAGRSGV--AYSLVSSDELCYYL 112
              RG+D+P  +  VI +  P    +  ++   GR +R     +    S++  ++   + 
Sbjct: 310 KLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSRILNGVLVKGVSVIFEEDEEIFE 369

Query: 113 DLLLFLGRK 121
            L   L   
Sbjct: 370 SLKTRLLLI 378

>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19 Length = 494

 Score = 74.1 bits (181), Expect = 2e-15
 Identities = 28/112 (25%), Positives = 44/112 (39%), Gaps = 9/112 (8%)

Query: 3   VVFTATKYHVEYVHKIL--------GLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLV 54
           +VFT  +   + +   L           G +S      L    +K+   +F  G+  VLV
Sbjct: 365 IVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLV 424

Query: 55  VTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSD 106
            T V   G+D+P +D V+ Y     A   + R GR  R    G    L++  
Sbjct: 425 ATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRH-MPGRVIILMAKG 475

>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A* Length = 472

 Score = 56.4 bits (136), Expect = 2e-09
 Identities = 24/111 (21%), Positives = 43/111 (38%), Gaps = 14/111 (12%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            ++FT     V  + K+  +  I             R+     F+TG+ R +V + V   
Sbjct: 352 IIIFTRHNELVYRISKVFLIPAI-----THRTSREEREEILEGFRTGRFRAIVSSQVLDE 406

Query: 62  GIDIPSLDAVI---NYNFPCKAKLFVHRVGRCARAGRSG---VAYSLVSSD 106
           GID+P  +  +           + ++ R+GR  R  +     V Y L+S  
Sbjct: 407 GIDVPDANVGVIMSGSGSA---REYIQRLGRILRPSKGKKEAVLYELISRG 454

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus} Length = 555

 Score = 54.5 bits (130), Expect = 8e-09
 Identities = 30/128 (23%), Positives = 48/128 (37%), Gaps = 14/128 (10%)

Query: 1   MTVVFTATKYHVEYVHKILG------------LAGISSTYIYSDLDPTARKINAAKF-QT 47
            T++F  T+  V+ + K +             L G   T   + +   A+K     F  +
Sbjct: 391 KTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGMTLPAQKCVLEAFRAS 450

Query: 48  GKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G   +L+ T VA  GIDI   + VI Y +       +   GR  RA  S       S+D 
Sbjct: 451 GDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGR-GRARDSKCFLLTSSADV 509

Query: 108 LCYYLDLL 115
           +      +
Sbjct: 510 IEKEKANM 517

>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos} Length = 936

 Score = 52.3 bits (124), Expect = 5e-08
 Identities = 27/124 (21%), Positives = 46/124 (37%), Gaps = 14/124 (11%)

Query: 2   TVVFTATKYHVEYVHKILG------------LAGISSTYIYSDLDPTARKINAAKFQTGK 49
           T++F  T+  V  + K +             L G       + +   ++K     F+T K
Sbjct: 634 TLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSK 693

Query: 50  I-RVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEL 108
             R+L+ T VA  GIDI   + V+ Y +       +   GR  RA  S        ++ +
Sbjct: 694 DNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAAGSKCILVTSKTEVV 752

Query: 109 CYYL 112
               
Sbjct: 753 ENEK 756

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A* Length = 696

 Score = 51.5 bits (122), Expect = 1e-07
 Identities = 27/124 (21%), Positives = 45/124 (36%), Gaps = 14/124 (11%)

Query: 2   TVVFTATKYHVEYVHKILG------------LAGISSTYIYSDLDPTARKINAAKF-QTG 48
           T++F  T+  V+ +   +             L G   T   + +   A+K     F  +G
Sbjct: 401 TILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASG 460

Query: 49  KIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEL 108
              +L+ T VA  GIDI   + VI Y +       +   GR  RA  S       ++  +
Sbjct: 461 DHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRARGSKCFLLTSNAGVI 519

Query: 109 CYYL 112
               
Sbjct: 520 EKEQ 523

>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A* Length = 556

 Score = 51.1 bits (121), Expect = 1e-07
 Identities = 27/124 (21%), Positives = 46/124 (37%), Gaps = 14/124 (11%)

Query: 2   TVVFTATKYHVEYVHKILG------------LAGISSTYIYSDLDPTARKINAAKFQTGK 49
           T++F  T+  V  + K +             L G       + +   ++K     F+T K
Sbjct: 393 TLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSK 452

Query: 50  I-RVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEL 108
             R+L+ T VA  GIDI   + V+ Y +       +   GR  RA  S        ++ +
Sbjct: 453 DNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAAGSKCILVTSKTEVV 511

Query: 109 CYYL 112
               
Sbjct: 512 ENEK 515

>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12} Length = 968

 Score = 50.9 bits (121), Expect = 2e-07
 Identities = 26/176 (14%), Positives = 57/176 (32%), Gaps = 12/176 (6%)

Query: 3   VVFTATKYHVEYVHKIL-GLAGISSTYIYSDLDPTARKINAAKFQT--GKIRVLVVTDVA 59
           +V  A       + ++L    GI +   +  +    R   AA F       +VL+ +++ 
Sbjct: 507 LVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIG 566

Query: 60  ARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSG--VAYSLVSSDE----LCYYLD 113
           + G +      ++ ++ P    L   R+GR  R G++     +           L  +  
Sbjct: 567 SEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHDIQIHVPYLEKTAQSVLVRWYH 626

Query: 114 LLLFLGRKPVLADDSMKGKIRHQ--DGMFGKIPQGLMEDQISEI-MNWVELDADME 166
             L           ++   + +   + +         +D I         L A +E
Sbjct: 627 EGLDAFEHTCPTGRTIYDSVYNDLINYLASPDQTEGFDDLIKNCREQHEALKAQLE 682

>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos} Length = 797

 Score = 50.0 bits (118), Expect = 3e-07
 Identities = 27/124 (21%), Positives = 46/124 (37%), Gaps = 14/124 (11%)

Query: 2   TVVFTATKYHVEYVHKILG------------LAGISSTYIYSDLDPTARKINAAKFQTGK 49
           T++F  T+  V  + K +             L G       + +   ++K     F+T K
Sbjct: 634 TLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSK 693

Query: 50  I-RVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEL 108
             R+L+ T VA  GIDI   + V+ Y +       +   GR  RA  S        ++ +
Sbjct: 694 DNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAAGSKCILVTSKTEVV 752

Query: 109 CYYL 112
               
Sbjct: 753 ENEK 756

>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A* Length = 720

 Score = 39.5 bits (92), Expect = 7e-04
 Identities = 21/106 (19%), Positives = 45/106 (42%), Gaps = 10/106 (9%)

Query: 28  YIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVIN----YNFPCKAKLF 83
           + ++ L    R +    F+ G I+ +V T   + GI+ P+   +I     Y+     ++ 
Sbjct: 299 FHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIP 358

Query: 84  VHRVGRCA-RAGR-----SGVAYSLVSSDELCYYLDLLLFLGRKPV 123
           +  V +   RAGR      G    + +SD+    ++  +F   + +
Sbjct: 359 IIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMNHYIFGKPEKL 404

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	251
2hjv_A	163	ATP-dependent RNA helicase DBPA; parallel alpha-be	99.97
3eaq_A	212	Heat resistant RNA dependent ATPase; DEAD box RNA	99.97
2rb4_A	175	ATP-dependent RNA helicase DDX25; rossmann fold, s	99.97
1t5i_A	172	C_terminal domain of A probable ATP-dependent RNA	99.97
1fuk_A	165	Eukaryotic initiation factor 4A; helicase, DEAD-bo	99.97
2p6n_A	191	ATP-dependent RNA helicase DDX41; DEAD, structural	99.96
3i32_A	300	Heat resistant RNA dependent ATPase; RNA helicase,	99.96
2jgn_A	185	DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosp	99.96
2yjt_D	170	ATP-dependent RNA helicase SRMB, regulator of ribo	99.92
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	99.95
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	99.95
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	99.94
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	99.94
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	99.94
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	99.93
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	99.93
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	99.93
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	99.93
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	99.93
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	99.92
1oyw_A	523	RECQ helicase, ATP-dependent DNA helicase; winged	99.92
2v1x_A	591	ATP-dependent DNA helicase Q1; DNA strand annealin	99.91
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	99.91
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	99.91
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	99.9
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	99.89
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	99.88
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	99.88
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	99.88
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	99.88
2d7d_A	661	Uvrabc system protein B; helicase, protein-DNA-ADP	99.87
1yks_A	440	Genome polyprotein [contains: flavivirin protease	99.87
1tf5_A	844	Preprotein translocase SECA subunit; ATPase, helic	99.87
1c4o_A	664	DNA nucleotide excision repair enzyme UVRB; uvrabc	99.87
2ykg_A	696	Probable ATP-dependent RNA helicase DDX58; hydrola	99.86
1z5z_A	271	Helicase of the SNF2/RAD54 family; hydrolase, reco	99.86
4gl2_A	699	Interferon-induced helicase C domain-containing P;	99.86
4a2q_A	797	RIG-I, retinoic acid inducible protein I; hydrolas	99.86
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	99.85
3jux_A	822	Protein translocase subunit SECA; protein transloc	99.85
3dmq_A	968	RNA polymerase-associated protein RAPA; SWF2/SNF2,	99.85
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	99.84
2wv9_A	673	Flavivirin protease NS2B regulatory subunit, FLAV	99.84
4a2w_A	936	RIG-I, retinoic acid inducible protein I; hydrolas	99.84
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	99.83
3o8b_A	666	HCV NS3 protease/helicase; ntpase, RNA, translocat	99.83
3rc3_A	677	ATP-dependent RNA helicase SUPV3L1, mitochondrial;	99.83
2fsf_A	853	Preprotein translocase SECA subunit; ATPase, DNA-R	99.83
1nkt_A	922	Preprotein translocase SECA 1 subunit; preprotein	99.81
4ddu_A	1104	Reverse gyrase; topoisomerase, DNA supercoiling, a	99.81
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	99.81
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	99.81
1gku_B	1054	Reverse gyrase, TOP-RG; topoisomerase, DNA superco	99.8
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	99.8
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	99.8
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	99.8
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	99.8
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	99.79
1z63_A	500	Helicase of the SNF2/RAD54 hamily; protein-DNA com	99.79
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	99.78
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	99.78
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	99.77
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	99.76
1z3i_X	644	Similar to RAD54-like; recombination ATPase helica	99.76
3h1t_A	590	Type I site-specific restriction-modification syst	99.75
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	99.74
3mwy_W	800	Chromo domain-containing protein 1; SWI2/SNF2 ATPa	99.71
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	99.66
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	99.64
2w00_A	1038	HSDR, R.ECOR124I; ATP-binding, DNA-binding, restri	99.48
2vl7_A	540	XPD; helicase, unknown function; 2.25A {Sulfolobus	98.51
2ipc_A	997	Preprotein translocase SECA subunit; nucleotide bi	97.98
3hgt_A	328	HDA1 complex subunit 3; RECA-like domain, SWI2/SNF	97.65
4a15_A	620	XPD helicase, ATP-dependent DNA helicase TA0057; h	97.3
3crv_A	551	XPD/RAD3 related DNA helicase; XPD helicase DNA re	96.31
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	96.29
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	95.75
4ddu_A	1104	Reverse gyrase; topoisomerase, DNA supercoiling, a	94.24
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	94.21
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	94.1
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	93.68
1oyw_A	523	RECQ helicase, ATP-dependent DNA helicase; winged	93.39
2v1x_A	591	ATP-dependent DNA helicase Q1; DNA strand annealin	92.87
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	92.69
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	91.94
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	91.81
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	91.39
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	90.97
3bor_A	237	Human initiation factor 4A-II; translation initiat	90.95
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	90.79
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	89.87
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	89.3
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	88.67
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	88.43
2l82_A	162	Designed protein OR32; structural genomics, northe	88.27
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	88.02
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	87.69
1gku_B	1054	Reverse gyrase, TOP-RG; topoisomerase, DNA superco	86.57
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	83.89
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	83.7
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	83.68
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	83.66
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	83.41
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	81.88
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	81.8
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	81.37
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	80.44
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	80.17
2fsf_A	853	Preprotein translocase SECA subunit; ATPase, DNA-R	80.13

>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase; 1.95A {Bacillus subtilis}

Probab=99.97  E-value=3.7e-31  Score=211.92  Aligned_cols=126  Identities=35%  Similarity=0.499  Sum_probs=122.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+|+.+++.+++.|...|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus        37 ~~lVF~~~~~~~~~l~~~L~~~~~~~~~~hg~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gld~~~~~~Vi~~~~p~~~  116 (163)
T 2hjv_A           37 SCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEK  116 (163)
T ss_dssp             SEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEECGGGTTTCCCSCCSEEEESSCCSSH
T ss_pred             cEEEEECCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHHcCCCeEEEECChhhcCCchhcCCEEEEeCCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeecc
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~  126 (251)
                      ..|+||+||+||.|+.|.+++++++.+..++..++..++.+++..+
T Consensus       117 ~~~~qr~GR~~R~g~~g~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  162 (163)
T 2hjv_A          117 ESYVHRTGRTGRAGNKGKAISFVTAFEKRFLADIEEYIGFEIQKIE  162 (163)
T ss_dssp             HHHHHHTTTSSCTTCCEEEEEEECGGGHHHHHHHHHHHTSCCEECC
T ss_pred             HHHHHhccccCcCCCCceEEEEecHHHHHHHHHHHHHHCCCcCccC
Confidence            9999999999999999999999999999999999999998887543

>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=99.97  E-value=9.2e-31  Score=218.51  Aligned_cols=129  Identities=36%  Similarity=0.482  Sum_probs=122.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+.+++.+++.|...|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++|||||+|+++
T Consensus        33 ~~lVF~~~~~~~~~l~~~L~~~~~~~~~lhg~~~~~~r~~~~~~f~~g~~~vlvaT~~~~~Gidi~~v~~Vi~~~~p~~~  112 (212)
T 3eaq_A           33 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRA  112 (212)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTCCEEEECSSSCHHHHHHHHHHHHSSSCCEEEECTTTTCSSSCCCBSEEEESSCCSSH
T ss_pred             eEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHHCCCCeEEEecChhhcCCCCccCcEEEECCCCcCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccCCc
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSM  129 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~~~  129 (251)
                      ..|+||+||+||.|+.|.+++|+++.+...+..++..++.++..++.+.
T Consensus       113 ~~~~qr~GR~gR~g~~g~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~  161 (212)
T 3eaq_A          113 EAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGRRFKRVNPPT  161 (212)
T ss_dssp             HHHHHHHTTBCCCC--BEEEEEECGGGHHHHHHHHHHHSSCCEECCCCC
T ss_pred             HHHHHHhcccCCCCCCCeEEEEEchhHHHHHHHHHHHhcCcCeecCCCC
Confidence            9999999999999999999999999999999999999999988776543

>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=99.97  E-value=1.7e-30  Score=210.31  Aligned_cols=127  Identities=24%  Similarity=0.485  Sum_probs=119.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC---
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP---   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P---   77 (251)
                      |+||||+++.+++.++..|...|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|   
T Consensus        36 ~~lVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~f~~g~~~vLvaT~~~~~Gid~~~~~~Vi~~d~p~~~  115 (175)
T 2rb4_A           36 QAIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNFDLPVKQ  115 (175)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTTTCCEEEECSSCCHHHHHHHHHHHHTTSCSEEEECCSCCTTTCCTTEEEEEESSCCC--
T ss_pred             CEEEEECCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEecchhcCCCcccCCEEEEeCCCCCc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999   


Q ss_pred             ---CChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccC
Q psy18034         78 ---CKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        78 ---~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~  127 (251)
                         +++..|+||+||+||.|+.|.+++++.+.+...+..+++.++.++...+.
T Consensus       116 ~~~~~~~~~~qr~GR~gR~g~~g~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  168 (175)
T 2rb4_A          116 GEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNA  168 (175)
T ss_dssp             CCSCCHHHHHHHHCBC----CCEEEEEEECGGGHHHHHHHHHHHTCCCEEECS
T ss_pred             cccCCHHHHHHHhcccccCCCCceEEEEEccchHHHHHHHHHHhcCcccccCC
Confidence               89999999999999999999999999999999999999999999887764

>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=99.97  E-value=1.8e-30  Score=209.88  Aligned_cols=127  Identities=23%  Similarity=0.342  Sum_probs=120.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+++.+++.+++.|...|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus        33 ~~lVF~~~~~~~~~l~~~L~~~~~~~~~~hg~~~~~~r~~~~~~f~~g~~~vLvaT~~~~~Gldi~~~~~Vi~~d~p~~~  112 (172)
T 1t5i_A           33 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDS  112 (172)
T ss_dssp             SEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEESSCCSTTCCGGGCSEEEESSCCSSH
T ss_pred             cEEEEECCHHHHHHHHHHHHhcCCCEEEEECCCCHHHHHHHHHHHHCCCCcEEEECCchhcCcchhhCCEEEEECCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCc-cHHHHHHHHHHhCCCCeeccC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSD-ELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~-e~~~~~~i~~~l~~~~~~~~~  127 (251)
                      ..|+||+||+||.|+.|.+++|+++. +...+..++..++.++..++.
T Consensus       113 ~~~~qr~GR~~R~g~~g~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  160 (172)
T 1t5i_A          113 DTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPD  160 (172)
T ss_dssp             HHHHHHHHHHTGGGCCCEEEEEECSHHHHHHHHHHHHHHCCCEEECC-
T ss_pred             HHHHHHhcccccCCCCcEEEEEEcChhHHHHHHHHHHHHhcchhhCCh
Confidence            99999999999999999999999875 567889999999998887763

>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein, translation; 1.75A {Saccharomyces cerevisiae} SCOP: c.37.1.19

Probab=99.97  E-value=1.9e-30  Score=208.02  Aligned_cols=127  Identities=32%  Similarity=0.538  Sum_probs=118.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+|+.+++.++..|...|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus        32 ~~lVF~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~G~d~~~~~~Vi~~~~p~~~  111 (165)
T 1fuk_A           32 QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANK  111 (165)
T ss_dssp             CEEEEESSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEEEGGGTTTCCCCSCSEEEESSCCSSG
T ss_pred             CEEEEECCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHHcCCCEEEEEcChhhcCCCcccCCEEEEeCCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~  127 (251)
                      ..|+||+||+||.|+.|.+++++++.+...+..++.+++.+++..+.
T Consensus       112 ~~~~qr~GR~gR~g~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (165)
T 1fuk_A          112 ENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPS  158 (165)
T ss_dssp             GGGGGSSCSCC-----CEEEEEEETTTHHHHHHHHHHSSCCCEECCS
T ss_pred             HHHHHHhcccccCCCCceEEEEEcchHHHHHHHHHHHHccCccccCc
Confidence            99999999999999999999999999999999999999998887764

>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; 2.60A {Homo sapiens}

Probab=99.96  E-value=9.5e-30  Score=209.21  Aligned_cols=125  Identities=31%  Similarity=0.540  Sum_probs=113.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+++..++.+++.|+..|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus        56 ~~lVF~~~~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g~~~vLvaT~~~~~Gldi~~v~~VI~~d~p~~~  135 (191)
T 2p6n_A           56 PVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEI  135 (191)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHTCCEEEECTTSCHHHHHHHHHHHHHTSCSEEEECHHHHTTCCCCCCSEEEESSCCSSH
T ss_pred             CEEEEECCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcCCCEEEEEcCchhcCCCcccCCEEEEeCCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCc-cHHHHHHHHHHhCCCCeec
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSD-ELCYYLDLLLFLGRKPVLA  125 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~-e~~~~~~i~~~l~~~~~~~  125 (251)
                      ..|+||+||+||.|+.|.+++|+++. +..++..++..++.....+
T Consensus       136 ~~~~qr~GR~gR~g~~g~~i~l~~~~~~~~~~~~l~~~l~~~~~~~  181 (191)
T 2p6n_A          136 ENYVHRIGRTGCSGNTGIATTFINKACDESVLMDLKALLLEAKQKV  181 (191)
T ss_dssp             HHHHHHHTTSCC---CCEEEEEECTTSCHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHHHhCccccCCCCcEEEEEEcCchhHHHHHHHHHHHHHccCcC
Confidence            99999999999999999999999976 7778888887765544333

>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA recognition motif, ATP-BIND helicase, nucleotide-binding; 2.80A {Thermus thermophilus}

Probab=99.96  E-value=3.2e-29  Score=219.59  Aligned_cols=131  Identities=34%  Similarity=0.468  Sum_probs=121.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+..++.+++.|...|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++|||||+|+++
T Consensus        30 ~~LVF~~t~~~~~~l~~~L~~~g~~~~~lhg~l~~~~r~~~~~~f~~g~~~vLVaT~va~~Gidi~~v~~VI~~d~p~s~  109 (300)
T 3i32_A           30 RAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRA  109 (300)
T ss_dssp             SEEEECSSHHHHHHHHHHHHTTTCCEEEECSCCCTHHHHHHHHHHHHTSCCEEEECSTTTCSTTCCCCSEEEESSCCSST
T ss_pred             CEEEEECCHHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHhhcCCceEEEEechhhcCccccceeEEEEcCCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccCCccc
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDSMKG  131 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~~~~~  131 (251)
                      ..|+||+||+||.|+.|.+++|+++.+..++..++..++.++..++.+..+
T Consensus       110 ~~y~Qr~GRagR~g~~G~~i~l~~~~e~~~~~~ie~~~~~~~~~~~~~~~~  160 (300)
T 3i32_A          110 EAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPE  160 (300)
T ss_dssp             THHHHHHTCCC-----CEEEEEECSSTHHHHHHHHHHHTCCCEECCCCCHH
T ss_pred             HHHHHHccCcCcCCCCceEEEEeChHHHHHHHHHHHHhCCcceEeCCCCHH
Confidence            999999999999999999999999999999999999999999888765443

>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=99.96  E-value=8.5e-30  Score=208.40  Aligned_cols=124  Identities=34%  Similarity=0.506  Sum_probs=104.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+++..++.+++.|+..|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus        48 k~lVF~~~~~~~~~l~~~L~~~g~~~~~lhg~~~~~~r~~~~~~f~~g~~~vLvaT~~~~~Gldi~~~~~VI~~d~p~s~  127 (185)
T 2jgn_A           48 LTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDI  127 (185)
T ss_dssp             CEEEEESCHHHHHHHHHHHHHTTCCEEEEC--------CHHHHHHHHTSSSEEEEEC------CCCSBSEEEESSCCSSH
T ss_pred             eEEEEECCHHHHHHHHHHHHHcCCceEEEeCCCCHHHHHHHHHHHHcCCCeEEEEcChhhcCCCcccCCEEEEeCCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCee
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVL  124 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~  124 (251)
                      ..|+||+||+||.|+.|.+++|+++.+...+.+++..++.....
T Consensus       128 ~~~~Qr~GR~~R~g~~g~~~~~~~~~~~~~~~~l~~~l~~~~~~  171 (185)
T 2jgn_A          128 EEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQE  171 (185)
T ss_dssp             HHHHHHHTTBCCTTSCEEEEEEECGGGGGGHHHHHHHHHHTTCC
T ss_pred             HHHHHHccccCCCCCCcEEEEEEchhhHHHHHHHHHHHHhccCC
Confidence            99999999999999999999999999999999998887654433

>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=99.92  E-value=3e-30  Score=208.02  Aligned_cols=126  Identities=33%  Similarity=0.529  Sum_probs=120.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+++.+++.+++.|+..|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus        32 ~~iVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~r~~~~~~f~~g~~~vLvaT~~~~~Gid~~~~~~Vi~~~~p~~~  111 (170)
T 2yjt_D           32 RSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSG  111 (170)
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeecc
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~  126 (251)
                      ..|+||+||+||.|+.|.+++++.+.+...+..++..++.++....
T Consensus       112 ~~~~qr~GR~~R~g~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  157 (170)
T 2yjt_D          112 DTYLHRIGRTARAGRKGTAISLVEAHDHLLLGKVGRYIEEPIKARV  157 (170)
Confidence            9999999999999999999999999999999999988887775443

>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=99.95  E-value=2.2e-27  Score=217.63  Aligned_cols=125  Identities=32%  Similarity=0.510  Sum_probs=115.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+..++.+++.|...|+.+..+||+|++.+|..++++|++|+.+|||||++++||+|+|++++|||||+|+++
T Consensus       302 ~~lVF~~t~~~a~~l~~~L~~~~~~~~~lhg~~~~~~R~~~l~~F~~g~~~vLvaT~v~~rGlDi~~v~~VI~~d~p~~~  381 (434)
T 2db3_A          302 GTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKI  381 (434)
T ss_dssp             TEEEECSSHHHHHHHHHHHHHTTCCEEEESTTSCHHHHHHHHHHHHTSSCSEEEECGGGTSSCCCTTCCEEEESSCCSSH
T ss_pred             CEEEEEeCcHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEchhhhCCCCcccCCEEEEECCCCCH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecC-ccHHHHHHHHHHhCCCCeec
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSS-DELCYYLDLLLFLGRKPVLA  125 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~-~e~~~~~~i~~~l~~~~~~~  125 (251)
                      ..|+||+||+||.|+.|.+++|+++ ++.....++.+.+....+..
T Consensus       382 ~~y~qriGR~gR~g~~G~a~~~~~~~~~~~~~~~l~~~l~~~~~~v  427 (434)
T 2db3_A          382 DDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTV  427 (434)
T ss_dssp             HHHHHHHTTSSCTTCCEEEEEEECTTTCGGGHHHHHHHHHHTTCCC
T ss_pred             HHHHHHhcccccCCCCCEEEEEEeccccHHHHHHHHHHHHHcCCCC
Confidence            9999999999999999999999995 46667777777765544433

>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=99.95  E-value=5.3e-27  Score=212.01  Aligned_cols=127  Identities=31%  Similarity=0.555  Sum_probs=123.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+++.+++.+++.|...|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus       278 ~~lVf~~~~~~~~~l~~~L~~~~~~~~~~h~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidi~~v~~Vi~~~~p~s~  357 (410)
T 2j0s_A          278 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR  357 (410)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHHTSSCEEEECGGGSSSCCCTTEEEEEESSCCSSH
T ss_pred             cEEEEEcCHHHHHHHHHHHHhCCCceEEeeCCCCHHHHHHHHHHHHCCCCCEEEECChhhCcCCcccCCEEEEECCCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~  127 (251)
                      ..|+||+||+||.|+.|.+++++++.+...+.+++.+++..+..++.
T Consensus       358 ~~~~Qr~GR~gR~g~~g~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  404 (410)
T 2j0s_A          358 ELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPM  404 (410)
T ss_dssp             HHHHHHHTTSSGGGCCEEEEEEEEGGGHHHHHHHHHHTTCCCEECCS
T ss_pred             HHHHHhcccccCCCCceEEEEEecHHHHHHHHHHHHHhCCCceeccc
Confidence            99999999999999999999999999999999999999999988774

>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=99.94  E-value=3.3e-26  Score=215.52  Aligned_cols=126  Identities=24%  Similarity=0.415  Sum_probs=120.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC---CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA---GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~---~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      ++||||+|+..++.+++.|+..   ++.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|
T Consensus       341 ~~iVF~~s~~~~~~l~~~L~~~~~~~~~v~~~h~~~~~~~R~~~~~~f~~g~~~vLvaT~~~~~GiDip~v~~VI~~~~p  420 (563)
T 3i5x_A          341 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVP  420 (563)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHHHTTTSCEEEESTTSCHHHHHHHHHHHHHCSSEEEEECGGGTSSCCCTTCCEEEEESCC
T ss_pred             cEEEEcCcHHHHHHHHHHHHHhccCCceEEEecCCCCHHHHHHHHHHHhcCCCCEEEEcchhhcCCCcccCCEEEEECCC
Confidence            5899999999999999999987   8999999999999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeecc
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~  126 (251)
                      +++..|+||+||+||.|+.|.+++++.+.|..++..++...+.++....
T Consensus       421 ~s~~~y~Qr~GRagR~g~~g~~i~~~~~~e~~~~~~l~~~~~~~~~~~~  469 (563)
T 3i5x_A          421 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQE  469 (563)
T ss_dssp             SSTTHHHHHHTTSSCTTCCEEEEEEEEGGGHHHHHHHHHHHCCCCCEEE
T ss_pred             CchhhhhhhcCccccCCCCceEEEEEchhHHHHHHHHHHHhCCCccccc
Confidence            9999999999999999999999999999999999999999888776443

>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=99.94  E-value=2.9e-26  Score=206.34  Aligned_cols=128  Identities=29%  Similarity=0.504  Sum_probs=124.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+++.+++.+++.|+..|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus       260 ~~lVf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vLv~T~~~~~Gidip~~~~Vi~~~~p~s~  339 (400)
T 1s2m_A          260 QAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTA  339 (400)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHHTCCEEEECTTSCHHHHHHHHHHHHTTSSSEEEESSCSSSSCCCTTEEEEEESSCCSSH
T ss_pred             cEEEEEecHHHHHHHHHHHHhcCCCeEEecCCCCHHHHHHHHHHHhcCCCcEEEEcCccccCCCccCCCEEEEeCCCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccCC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDS  128 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~~  128 (251)
                      ..|+||+||+||.|+.|.+++++++.+...+..++..++.++..++..
T Consensus       340 ~~~~Qr~GR~gR~g~~g~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~  387 (400)
T 1s2m_A          340 ETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELGTEIAAIPAT  387 (400)
T ss_dssp             HHHHHHHCBSSCTTCCEEEEEEECGGGHHHHHHHHHHHTCCCEECCSS
T ss_pred             HHHHHhcchhcCCCCCceEEEEeccchHHHHHHHHHHhCCCccccccc
Confidence            999999999999999999999999999999999999999999887743

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}

Probab=99.94  E-value=9.4e-26  Score=213.62  Aligned_cols=126  Identities=24%  Similarity=0.415  Sum_probs=120.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC---CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA---GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~---~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      ++||||+|+.+++.+++.|+..   ++.+..+||+|++.+|..++++|++|+.+|||||+++++|+|+|++++||+||+|
T Consensus       290 ~~iVF~~t~~~~~~l~~~L~~~~~~~~~v~~~hg~~~~~~R~~~~~~F~~g~~~vLVaT~~~~~GiDip~v~~VI~~~~p  369 (579)
T 3sqw_A          290 KAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVP  369 (579)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHHHTTTSCEEEESTTSCHHHHHHHHHHHHHCSSEEEEECGGGTSSCCCTTCCEEEEESCC
T ss_pred             cEEEECCcHHHHHHHHHHHHHhhcCCCcEEEecCCCCHHHHHHHHHHhhcCCCeEEEEcchhhcCCCcccCCEEEEcCCC
Confidence            5899999999999999999987   8999999999999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeecc
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~  126 (251)
                      +++..|+||+||+||.|+.|.+++++.+.|..++..++...+..+....
T Consensus       370 ~s~~~y~Qr~GRagR~g~~g~~i~~~~~~e~~~~~~l~~~~~~~~~~~~  418 (579)
T 3sqw_A          370 SELANYIHRIGRTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQE  418 (579)
T ss_dssp             SSTTHHHHHHTTSSCTTCCEEEEEEEEGGGHHHHHHHHHHHCCCCCEEE
T ss_pred             CCHHHhhhhccccccCCCCceEEEEEcccHHHHHHHHHHHhCCCccccc
Confidence            9999999999999999999999999999999999999999888776543

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}

Probab=99.93  E-value=3e-26  Score=207.10  Aligned_cols=122  Identities=34%  Similarity=0.526  Sum_probs=114.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+.+++.+++.|...|+.+..+||+|++.+|..++++|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus       278 ~~lVf~~~~~~~~~l~~~L~~~~~~~~~~h~~~~~~~r~~~~~~f~~g~~~vlvaT~~~~~Gidip~v~~Vi~~~~p~s~  357 (417)
T 2i4i_A          278 LTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDI  357 (417)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHHTSSCEEEECHHHHTTSCCCCEEEEEESSCCSSH
T ss_pred             eEEEEECCHHHHHHHHHHHHHCCCCeeEecCCCCHHHHHHHHHHHHcCCCCEEEECChhhcCCCcccCCEEEEEcCCCCH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKP  122 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~  122 (251)
                      ..|+||+||+||.|+.|.+++|+++.+...+.++...+....
T Consensus       358 ~~~~Qr~GR~gR~g~~g~~~~~~~~~~~~~~~~l~~~~~~~~  399 (417)
T 2i4i_A          358 EEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAK  399 (417)
T ss_dssp             HHHHHHHTTBCC--CCEEEEEEECGGGGGGHHHHHHHHHHTT
T ss_pred             HHHHHhcCccccCCCCceEEEEEccccHHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999998888775433

>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=99.93  E-value=2.3e-26  Score=207.48  Aligned_cols=127  Identities=29%  Similarity=0.526  Sum_probs=108.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+++.+++.+++.|...++.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus       282 ~~lvf~~~~~~~~~l~~~l~~~~~~~~~~h~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidip~v~~Vi~~~~p~s~  361 (414)
T 3eiq_A          282 QAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNR  361 (414)
T ss_dssp             SCEEECSCHHHHHHHHHHHHTTTCCCEEC---CHHHHHHHHHHHHSCC---CEEECSSCC--CCGGGCSCEEESSCCSST
T ss_pred             cEEEEeCCHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHHHcCCCcEEEECCccccCCCccCCCEEEEeCCCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~  127 (251)
                      ..|+||+||+||.|+.|.+++++++.+...+.+++.+++..+...+.
T Consensus       362 ~~~~Qr~GR~gR~g~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  408 (414)
T 3eiq_A          362 ENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDIETFYNTSIEEMPL  408 (414)
T ss_dssp             HHHHHHSCCC-------CEEEEECSTHHHHHHHHHHHTTCCCEECCC
T ss_pred             HHhhhhcCcccCCCCCceEEEEEcHHHHHHHHHHHHHHcCCccccCh
Confidence            99999999999999999999999999999999999999999887764

>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=99.93  E-value=1.1e-25  Score=199.30  Aligned_cols=126  Identities=32%  Similarity=0.468  Sum_probs=122.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+++.+++.+++.|+..|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||++|+|+++
T Consensus       240 ~~lvf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gid~~~~~~Vi~~~~~~s~  319 (367)
T 1hv8_A          240 YGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVMSRGIDVNDLNCVINYHLPQNP  319 (367)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHTTCCEEEECSSSCHHHHHHHHHHHHTTSSSEEEECTTHHHHCCCSCCSEEEESSCCSCH
T ss_pred             cEEEEECCHHHHHHHHHHHHhcCCCeEEeeCCCCHHHHHHHHHHHHcCCCeEEEECChhhcCCCcccCCEEEEecCCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeecc
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~  126 (251)
                      ..|+||+||+||.|+.|.+++++++.+...+..+++.++.++..++
T Consensus       320 ~~~~Q~~GR~~R~g~~g~~~~~~~~~~~~~~~~i~~~~~~~~~~~~  365 (367)
T 1hv8_A          320 ESYMHRIGRTGRAGKKGKAISIINRREYKKLRYIERAMKLKIKKLK  365 (367)
T ss_dssp             HHHHHHSTTTCCSSSCCEEEEEECTTSHHHHHHHHHHHTCCCCCBC
T ss_pred             HHhhhcccccccCCCccEEEEEEcHHHHHHHHHHHHHhCCCCceec
Confidence            9999999999999999999999999999999999999999887654

>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=99.93  E-value=1.7e-25  Score=200.28  Aligned_cols=128  Identities=23%  Similarity=0.339  Sum_probs=121.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+++.+++.+++.|...|+.+..+||+|++.+|..++++|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus       252 ~~lvf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gidi~~~~~Vi~~~~p~s~  331 (391)
T 1xti_A          252 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDS  331 (391)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTCCSEEEESCCCSSCBCCTTEEEEEESSCCSSH
T ss_pred             cEEEEeCcHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCcEEEECChhhcCCCcccCCEEEEeCCCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCc-cHHHHHHHHHHhCCCCeeccCC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSD-ELCYYLDLLLFLGRKPVLADDS  128 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~-e~~~~~~i~~~l~~~~~~~~~~  128 (251)
                      ..|+||+||+||.|+.|.+++++++. +..++..++..++.++..++..
T Consensus       332 ~~~~Qr~GR~~R~g~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  380 (391)
T 1xti_A          332 DTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELPDE  380 (391)
T ss_dssp             HHHHHHHCBCSSSCCCCEEEEEECSHHHHHHHHHHHHHTTCCCEECCSC
T ss_pred             HHHHHhcccccCCCCceEEEEEEcccchHHHHHHHHHHhcCChhhCCcc
Confidence            99999999999999999999999876 5567888999999998887743

>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=99.93  E-value=1.2e-25  Score=202.58  Aligned_cols=127  Identities=27%  Similarity=0.484  Sum_probs=118.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCC--
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPC--   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~--   78 (251)
                      ++||||+++.+++.+++.|...|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+  
T Consensus       268 ~~lvf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidip~~~~Vi~~~~p~~~  347 (412)
T 3fht_A          268 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDK  347 (412)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHTTSCSEEEECGGGTSSCCCTTEEEEEESSCCBCS
T ss_pred             CEEEEeCCHHHHHHHHHHHHhCCCeEEEecCCCCHHHHHHHHHHHHCCCCcEEEEcCccccCCCccCCCEEEEECCCCCC
Confidence            589999999999999999999999999999999999999999999999999999999999999999999999999995  


Q ss_pred             ----ChhhHHHHhhhcccCCCCceEEEEecCcc-HHHHHHHHHHhCCCCeeccC
Q psy18034         79 ----KAKLFVHRVGRCARAGRSGVAYSLVSSDE-LCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        79 ----~~~~y~qr~GR~gR~g~~g~~i~l~~~~e-~~~~~~i~~~l~~~~~~~~~  127 (251)
                          +...|+||+||+||.|+.|.+++++.+.+ ...+..++..++..+...+.
T Consensus       348 ~~~~s~~~~~Qr~GR~gR~g~~g~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  401 (412)
T 3fht_A          348 DGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDT  401 (412)
T ss_dssp             SSSBCHHHHHHHHTTSSCTTCCEEEEEEECSHHHHHHHHHHHHHHTCCCEEC--
T ss_pred             CCCcchheeecccCcccCCCCCceEEEEEcChhhHHHHHHHHHHHCCccccCCC
Confidence                56899999999999999999999998764 88899999999998887764

>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=99.92  E-value=5.2e-25  Score=196.81  Aligned_cols=126  Identities=31%  Similarity=0.542  Sum_probs=116.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCC--
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPC--   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~--   78 (251)
                      ++||||+++.+++.+++.|+..|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+  
T Consensus       245 ~~lvf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~g~~~vlv~T~~~~~Gidip~~~~Vi~~~~p~~~  324 (395)
T 3pey_A          245 SSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLA  324 (395)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHTTSCCEEEECGGGSSSCCCTTEEEEEESSCCBCT
T ss_pred             CEEEEeCCHHHHHHHHHHHHhcCCcEEEeCCCCCHHHHHHHHHHHHCCCCCEEEECChhhcCCCcccCCEEEEcCCCCCC
Confidence            589999999999999999999999999999999999999999999999999999999999999999999999999999  


Q ss_pred             ----ChhhHHHHhhhcccCCCCceEEEEecC-ccHHHHHHHHHHhC-CCCeecc
Q psy18034         79 ----KAKLFVHRVGRCARAGRSGVAYSLVSS-DELCYYLDLLLFLG-RKPVLAD  126 (251)
Q Consensus        79 ----~~~~y~qr~GR~gR~g~~g~~i~l~~~-~e~~~~~~i~~~l~-~~~~~~~  126 (251)
                          ++..|+||+||+||.|+.|.+++++.+ ++...+..++..++ ..+...+
T Consensus       325 ~~~~s~~~~~Qr~GR~gR~g~~g~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~  378 (395)
T 3pey_A          325 NGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVP  378 (395)
T ss_dssp             TSSBCHHHHHHHHTTSSCTTCCEEEEEEECSHHHHHHHHHHHHHTTSCCCEECC
T ss_pred             cCCCCHHHhhHhccccccCCCCceEEEEEechHHHHHHHHHHHHhCCceeecCC
Confidence                999999999999999999999999986 45667778888877 5444443

>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=99.92  E-value=1.7e-24  Score=203.01  Aligned_cols=116  Identities=21%  Similarity=0.353  Sum_probs=110.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+..++.+++.|+..|+.+..+||+|++.+|..++++|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus       238 ~~IVf~~sr~~~e~l~~~L~~~g~~~~~~h~~l~~~~R~~~~~~f~~g~~~vlVaT~a~~~GiD~p~v~~VI~~~~p~s~  317 (523)
T 1oyw_A          238 SGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNI  317 (523)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEECTTSCTTTCCTTCCEEEESSCCSSH
T ss_pred             cEEEEeCCHHHHHHHHHHHHHCCCCEEEecCCCCHHHHHHHHHHHHcCCCeEEEEechhhCCCCccCccEEEEECCCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHH
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLL  116 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~  116 (251)
                      +.|+||+||+||.|+.|.+++++++.+...+..+..
T Consensus       318 ~~y~Qr~GRaGR~g~~~~~~l~~~~~d~~~~~~~~~  353 (523)
T 1oyw_A          318 ESYYQETGRAGRDGLPAEAMLFYDPADMAWLRRCLE  353 (523)
T ss_dssp             HHHHHHHTTSCTTSSCEEEEEEECHHHHHHHHHHHH
T ss_pred             HHHHHHhccccCCCCCceEEEEeCHHHHHHHHHHHh
Confidence            999999999999999999999999888776655443

>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=99.91  E-value=1.7e-24  Score=205.58  Aligned_cols=114  Identities=18%  Similarity=0.256  Sum_probs=108.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+..++.+++.|+..|+.+..+||+|++.+|..++++|+.|+.+|||||+++++|+|+|++++||+||+|.++
T Consensus       269 ~~IVf~~sr~~~e~la~~L~~~g~~~~~~h~~l~~~~R~~~~~~F~~g~~~VlVAT~a~~~GID~p~V~~VI~~~~p~s~  348 (591)
T 2v1x_A          269 SGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSM  348 (591)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSSSEEEECTTSCTTCCCSCEEEEEESSCCSSH
T ss_pred             CeEEEeCcHHHHHHHHHHHHHCCCCEEEecCCCCHHHHHHHHHHHHcCCCeEEEEechhhcCCCcccccEEEEeCCCCCH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHH
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDL  114 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i  114 (251)
                      +.|+||+||+||.|++|.|++++++.+...+..+
T Consensus       349 ~~y~Qr~GRaGR~G~~g~~i~l~~~~D~~~~~~~  382 (591)
T 2v1x_A          349 ENYYQESGRAGRDDMKADCILYYGFGDIFRISSM  382 (591)
T ss_dssp             HHHHHHHTTSCTTSSCEEEEEEECHHHHHHHHHH
T ss_pred             HHHHHHhccCCcCCCCceEEEEEChHHHHHHHHH
Confidence            9999999999999999999999998777665443

>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=99.91  E-value=4.4e-26  Score=204.18  Aligned_cols=127  Identities=32%  Similarity=0.538  Sum_probs=0.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+++.+++.+++.|+..|+.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus       261 ~~lVf~~~~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gldi~~~~~Vi~~~~p~s~  340 (394)
T 1fuu_A          261 QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANK  340 (394)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cEEEEECCHHHHHHHHHHHHHcCCeEEEeeCCCCHHHHHHHHHHHHCCCCcEEEECChhhcCCCcccCCEEEEeCCCCCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~  127 (251)
                      ..|+||+||+||.|+.|.+++++++.+...+..++.+++.++...+.
T Consensus       341 ~~~~Qr~GR~~R~g~~g~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  387 (394)
T 1fuu_A          341 ENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPS  387 (394)
T ss_dssp             -----------------------------------------------
T ss_pred             HHHHHHcCcccCCCCCceEEEEEchhHHHHHHHHHHHhCCcccccCc
Confidence            99999999999999999999999999999999999998888876653

>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=99.91  E-value=5.4e-26  Score=210.22  Aligned_cols=126  Identities=27%  Similarity=0.488  Sum_probs=0.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCC--
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPC--   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~--   78 (251)
                      ++||||+|+.+++.+++.|...++.+..+||+|++.+|..+++.|++|+.+|||||+++++|+|+|++++||+||+|+  
T Consensus       335 ~~lvF~~s~~~~~~l~~~L~~~~~~v~~lh~~~~~~~R~~~~~~f~~g~~~iLv~T~~~~~GlDip~v~~VI~~d~p~~~  414 (479)
T 3fmp_B          335 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDK  414 (479)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ceEEEeCcHHHHHHHHHHHHhCCccEEEecCCCCHHHHHHHHHHHHcCCCcEEEEccccccCCccccCCEEEEecCCCCC
Confidence            589999999999999999999999999999999999999999999999999999999999999999999999999995  


Q ss_pred             ----ChhhHHHHhhhcccCCCCceEEEEecCcc-HHHHHHHHHHhCCCCeecc
Q psy18034         79 ----KAKLFVHRVGRCARAGRSGVAYSLVSSDE-LCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        79 ----~~~~y~qr~GR~gR~g~~g~~i~l~~~~e-~~~~~~i~~~l~~~~~~~~  126 (251)
                          +...|+||+||+||.|+.|.+++|+.+.+ ..++..++..++.++..++
T Consensus       415 ~~~~s~~~~~Qr~GRagR~g~~G~~i~~~~~~~~~~~~~~i~~~~~~~~~~l~  467 (479)
T 3fmp_B          415 DGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLD  467 (479)
T ss_dssp             -----------------------------------------------------
T ss_pred             ccCCCHHHHHHHhcccccCCCCceEEEEEcCcchHHHHHHHHHHhCCCceECC
Confidence                56899999999999999999999998664 7788888888888776665

>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=99.90  E-value=3.8e-24  Score=187.50  Aligned_cols=115  Identities=30%  Similarity=0.550  Sum_probs=105.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+++++++.+++.|.    .+..+||+|++.+|.+++++|++|+.+|||||+++++|+|+|++++||+||+|+++
T Consensus       222 ~~lvf~~~~~~~~~l~~~l~----~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~T~~~~~Gid~~~~~~Vi~~~~~~s~  297 (337)
T 2z0m_A          222 GVIVFVRTRNRVAKLVRLFD----NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFDAPQDL  297 (337)
T ss_dssp             SEEEECSCHHHHHHHHTTCT----TEEEECTTSCHHHHHHHHHHHHTTSCSEEEECHHHHTTCCCCCBSEEEESSCCSSH
T ss_pred             cEEEEEcCHHHHHHHHHHhh----hhhhhcCCCCHHHHHHHHHHHHcCCCcEEEEcCccccCCCccCCCEEEEecCCCCH
Confidence            58999999999999999886    68899999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR  120 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~  120 (251)
                      ..|+||+||+||.|+.|.+++++. .|...+.++++.++.
T Consensus       298 ~~~~Q~~GR~gR~g~~g~~~~~~~-~~~~~~~~i~~~~~~  336 (337)
T 2z0m_A          298 RTYIHRIGRTGRMGRKGEAITFIL-NEYWLEKEVKKVSQK  336 (337)
T ss_dssp             HHHHHHHTTBCGGGCCEEEEEEES-SCHHHHHHHC-----
T ss_pred             HHhhHhcCccccCCCCceEEEEEe-CcHHHHHHHHHHhcc
Confidence            999999999999999999999999 888888888776653

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=99.89  E-value=9.2e-23  Score=184.98  Aligned_cols=116  Identities=19%  Similarity=0.244  Sum_probs=104.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEE-EEcCCCCHHHHHHHHHHHhcCCceEEEe----cccccccccccc-ccEEEEe
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISST-YIYSDLDPTARKINAAKFQTGKIRVLVV----TDVAARGIDIPS-LDAVINY   74 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~-~i~g~~~~~~r~~~~~~F~~g~~~iLv~----Td~~~~Gldi~~-v~~VI~~   74 (251)
                      ++||||+++.+++.+++.|+..|+.+. .+||.    +|.  +++|++|+.+||||    |+++++|+|+|+ +++||+|
T Consensus       254 ~~lVF~~~~~~~~~l~~~L~~~~~~~~~~~h~~----~r~--~~~f~~g~~~vLvat~s~T~~~~~GiDip~~v~~VI~~  327 (414)
T 3oiy_A          254 GILIFAQTEEEGKELYEYLKRFKFNVGETWSEF----EKN--FEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFW  327 (414)
T ss_dssp             SEEEEESSHHHHHHHHHHHHHTTCCEEESSSCH----HHH--HHHHHTTSCSEEEEECCTTCCCCCCCCCTTTCCEEEEE
T ss_pred             CEEEEECCHHHHHHHHHHHHHcCCceehhhcCc----chH--HHHHhCCCCeEEEEecCcCchhhccCccccccCEEEEE
Confidence            689999999999999999999999998 88985    344  99999999999999    999999999999 9999999


Q ss_pred             cCC--CChhhHHHHhhhcccCC----CCceEEEEecCccHHHHHHHHHHhC--CCCee
Q psy18034         75 NFP--CKAKLFVHRVGRCARAG----RSGVAYSLVSSDELCYYLDLLLFLG--RKPVL  124 (251)
Q Consensus        75 d~P--~~~~~y~qr~GR~gR~g----~~g~~i~l~~~~e~~~~~~i~~~l~--~~~~~  124 (251)
                      |+|  +++..|+||+||+||.|    +.|.+++++  .+...+..++..++  .++..
T Consensus       328 ~~p~~~~~~~y~qr~GR~gR~g~~~~~~g~~i~~~--~~~~~~~~l~~~~~~~~~~~~  383 (414)
T 3oiy_A          328 GTPSGPDVYTYIQASGRSSRILNGVLVKGVSVIFE--EDEEIFESLKTRLLLIAEEEI  383 (414)
T ss_dssp             SCCTTTCHHHHHHHHGGGCCEETTEECCEEEEEEC--CCHHHHHHHHHHHHHHHCCCE
T ss_pred             CCCCCCCHHHHHHHhCccccCCCCCCcceEEEEEE--ccHHHHHHHHHHhcccccccc
Confidence            999  99999999999999988    579999998  67778888888877  54443

>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=99.88  E-value=2.5e-23  Score=194.38  Aligned_cols=108  Identities=24%  Similarity=0.311  Sum_probs=57.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC------------CCcEEEEcCCCCHHHHHHHHHHHhc-CCceEEEecccccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA------------GISSTYIYSDLDPTARKINAAKFQT-GKIRVLVVTDVAARGIDIPS   67 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~------------~~~~~~i~g~~~~~~r~~~~~~F~~-g~~~iLv~Td~~~~Gldi~~   67 (251)
                      |+||||+++.+++.+++.|+..            |.....+||+|++.+|..++++|++ |+++|||||+++++|+|+|+
T Consensus       392 k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~R~~~~~~F~~~g~~~vLvaT~~~~~GiDip~  471 (556)
T 4a2p_A          392 RTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQ  471 (556)
T ss_dssp             CEEEEESSHHHHHHHHHHHTTCSGGGSCCEEC------------------------------CCEEEEEC----------
T ss_pred             eEEEEEccHHHHHHHHHHHHhCCCcceeeeeEEEccCCcccccccCHHHHHHHHHHhcccCceEEEEEcCchhcCCCchh
Confidence            6899999999999999999876            5566677888999999999999999 99999999999999999999


Q ss_pred             ccEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCccHHH
Q psy18034         68 LDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCY  110 (251)
Q Consensus        68 v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~  110 (251)
                      |++||+||+|||+..|+||+|| ||. +.|.++.|+++.+...
T Consensus       472 v~~VI~~d~p~s~~~~~Qr~GR-gR~-~~g~~~~l~~~~~~~~  512 (556)
T 4a2p_A          472 CNLVVLYEYSGNVTKMIQVRGR-GRA-AGSKCILVTSKTEVVE  512 (556)
T ss_dssp             -CEEEEETCCSCHHHHHHC----------CCEEEEESCHHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHhcCC-CCC-CCceEEEEEeCcchHH
Confidence            9999999999999999999999 998 7899999998876543

>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=99.88  E-value=1.2e-22  Score=184.95  Aligned_cols=108  Identities=26%  Similarity=0.346  Sum_probs=101.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcC--------CCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYS--------DLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g--------~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI   72 (251)
                      |+||||+++..++.+++.|+..|+.+..+||        +|++.+|.+++++|++|+.+|||||+++++|+|+|.+++||
T Consensus       363 k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~~~~~vLv~T~~~~~Gldl~~~~~Vi  442 (494)
T 1wp9_A          363 KIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVV  442 (494)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHTTCCEEEECCSSCC-------CCHHHHHHHHHHHTSCSEEEECGGGGGGGGSTTCCEEE
T ss_pred             eEEEEEccHHHHHHHHHHHHHcCCCcEEEeccccccccccCCHHHHHHHHHHHhcCCceEEEECCccccCCCchhCCEEE
Confidence            6899999999999999999999999999999        99999999999999999999999999999999999999999


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEecCccHH
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELC  109 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~  109 (251)
                      +||+||++..|+||+||+||.|+ |.++.++++....
T Consensus       443 ~~d~~~~~~~~~Qr~GR~~R~g~-g~~~~l~~~~t~e  478 (494)
T 1wp9_A          443 FYEPVPSAIRSIQRRGRTGRHMP-GRVIILMAKGTRD  478 (494)
T ss_dssp             ESSCCHHHHHHHHHHTTSCSCCC-SEEEEEEETTSHH
T ss_pred             EeCCCCCHHHHHHHHhhccCCCC-ceEEEEEecCCHH
Confidence            99999999999999999999998 9999999876543

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=99.88  E-value=3.6e-23  Score=192.86  Aligned_cols=112  Identities=26%  Similarity=0.340  Sum_probs=80.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC------------CcEEEEcCCCCHHHHHHHHHHHhc-CCceEEEecccccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG------------ISSTYIYSDLDPTARKINAAKFQT-GKIRVLVVTDVAARGIDIPS   67 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~------------~~~~~i~g~~~~~~r~~~~~~F~~-g~~~iLv~Td~~~~Gldi~~   67 (251)
                      |+||||+++.+++.++..|+..+            .....+||+|++.+|..++++|++ |+++|||||+++++|+|+|+
T Consensus       391 k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~R~~~~~~F~~~g~~~vLvaT~~~~~GlDlp~  470 (555)
T 3tbk_A          391 KTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAE  470 (555)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHCGGGTTCCEEECCC--------------------------CCSEEEECCCTTCCEETTS
T ss_pred             eEEEEeCcHHHHHHHHHHHhhCcCcCceeeeEEEecCCcccccccCHHHHHHHHHHHhcCCCeeEEEEcchhhcCCcccc
Confidence            68999999999999999999863            344556679999999999999999 99999999999999999999


Q ss_pred             ccEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHH
Q psy18034         68 LDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDL  114 (251)
Q Consensus        68 v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i  114 (251)
                      +++||+||+|||+..|+||+|| ||. +.|.++.|+++.+......+
T Consensus       471 v~~VI~~d~p~s~~~~~Qr~GR-gR~-~~g~~~~l~~~~~~~~~~~~  515 (555)
T 3tbk_A          471 CNLVILYEYVGNVIKMIQTRGR-GRA-RDSKCFLLTSSADVIEKEKA  515 (555)
T ss_dssp             CSEEEEESCCSSCCCEECSSCC-CTT-TSCEEEEEESCHHHHHHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHhcCc-CcC-CCceEEEEEcCCCHHHHHHH
Confidence            9999999999999999999999 998 89999999998776555443

>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=99.87  E-value=7.7e-22  Score=189.62  Aligned_cols=114  Identities=23%  Similarity=0.278  Sum_probs=106.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecC----
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNF----   76 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~----   76 (251)
                      ++||||+|+..++.+++.|+..|+.+..+||+|++.+|..++++|+.|+++|||||+++++|+|+|++++||++|.    
T Consensus       447 ~vlVf~~t~~~ae~L~~~L~~~gi~~~~lh~~~~~~~R~~~l~~f~~g~~~VLVaT~~l~~GlDip~v~lVi~~d~d~~G  526 (661)
T 2d7d_A          447 RVLVTTLTKKMSEDLTDYLKEIGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEG  526 (661)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHTTCCEEEECTTCCHHHHHHHHHHHHHTSCSEEEESCCCSTTCCCTTEEEEEETTTTCCT
T ss_pred             eEEEEECCHHHHHHHHHHHHhcCCCeEEEeCCCCHHHHHHHHHHHhcCCeEEEEecchhhCCcccCCCCEEEEeCccccc
Confidence            5899999999999999999999999999999999999999999999999999999999999999999999999997    


Q ss_pred             -CCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHH
Q psy18034         77 -PCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLL  115 (251)
Q Consensus        77 -P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~  115 (251)
                       |.+...|+||+||+||. ..|.+++++++.+..+...++
T Consensus       527 ~p~s~~~~iQr~GRagR~-~~G~~i~~~~~~~~~~~~~i~  565 (661)
T 2d7d_A          527 FLRSERSLIQTIGRAARN-AEGRVIMYADKITKSMEIAIN  565 (661)
T ss_dssp             TTTSHHHHHHHHHTTTTS-TTCEEEEECSSCCHHHHHHHH
T ss_pred             CCCCHHHHHHHhCcccCC-CCCEEEEEEeCCCHHHHHHHH
Confidence             99999999999999998 789999999987665544443

>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=99.87  E-value=2e-22  Score=185.14  Aligned_cols=113  Identities=19%  Similarity=0.184  Sum_probs=96.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEE-------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVIN-------   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~-------   73 (251)
                      |+||||+|++.++.+++.|+..|+.+..+||    ++|..++++|++|+.+|||||+++++|+|+| +++||+       
T Consensus       179 ~~lVF~~s~~~a~~l~~~L~~~~~~v~~lhg----~~R~~~~~~F~~g~~~vLVaT~v~e~GiDip-v~~VI~~g~~~~p  253 (440)
T 1yks_A          179 PTAWFLPSIRAANVMAASLRKAGKSVVVLNR----KTFEREYPTIKQKKPDFILATDIAEMGANLC-VERVLDCRTAFKP  253 (440)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHTTCCEEECCS----SSCC--------CCCSEEEESSSTTCCTTCC-CSEEEECCEEEEE
T ss_pred             CEEEEeCCHHHHHHHHHHHHHcCCCEEEecc----hhHHHHHhhhcCCCceEEEECChhheeeccC-ceEEEeCCcccee
Confidence            6899999999999999999999999999999    3688899999999999999999999999999 999986       


Q ss_pred             ------------ecCCCChhhHHHHhhhcccC-CCCceEEEEe---cCccHHHHHHHHHHh
Q psy18034         74 ------------YNFPCKAKLFVHRVGRCARA-GRSGVAYSLV---SSDELCYYLDLLLFL  118 (251)
Q Consensus        74 ------------~d~P~~~~~y~qr~GR~gR~-g~~g~~i~l~---~~~e~~~~~~i~~~l  118 (251)
                                  ||.|.++.+|+||+||+||. |+.|.|++++   ++.+...+..++..+
T Consensus       254 v~~~~~~~~vi~~~~p~~~~~~~Qr~GR~GR~g~~~g~~~~l~~~~~~~~~~~l~~l~~~~  314 (440)
T 1yks_A          254 VLVDEGRKVAIKGPLRISASSAAQRRGRIGRNPNRDGDSYYYSEPTSENNAHHVCWLEASM  314 (440)
T ss_dssp             EEETTTTEEEEEEEEECCHHHHHHHHTTSSCCTTCCCEEEEECSCCCCCCTTBHHHHHHHH
T ss_pred             eecccccceeeccccccCHHHHHHhccccCCCCCCCceEEEEeccCChhhhhhhhhhhHHh
Confidence                        99999999999999999997 6899999996   677777777777654

>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=99.87  E-value=2.3e-22  Score=194.40  Aligned_cols=105  Identities=24%  Similarity=0.257  Sum_probs=97.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccc--------cccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIP--------SLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~--------~v~~VI   72 (251)
                      ++||||+|++.++.|+..|...|+++..+||++++.+|..+.++|+.|  .|+||||+++||+|++        ++.+||
T Consensus       434 pvLVft~s~~~se~Ls~~L~~~gi~~~vLhg~~~~rEr~ii~~ag~~g--~VlIATdmAgRG~DI~l~~~V~~~ggl~VI  511 (844)
T 1tf5_A          434 PVLVGTVAVETSELISKLLKNKGIPHQVLNAKNHEREAQIIEEAGQKG--AVTIATNMAGRGTDIKLGEGVKELGGLAVV  511 (844)
T ss_dssp             CEEEEESCHHHHHHHHHHHHTTTCCCEEECSSCHHHHHHHHTTTTSTT--CEEEEETTSSTTCCCCCCTTSGGGTSEEEE
T ss_pred             cEEEEECCHHHHHHHHHHHHHCCCCEEEeeCCccHHHHHHHHHcCCCC--eEEEeCCccccCcCccccchhhhcCCcEEE
Confidence            489999999999999999999999999999999888887666666665  6999999999999999        788999


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      |||+|.+.+.|+||+|||||.|.+|.+++|++.+|
T Consensus       512 n~d~p~s~r~y~hr~GRTGRqG~~G~s~~~vs~eD  546 (844)
T 1tf5_A          512 GTERHESRRIDNQLRGRSGRQGDPGITQFYLSMED  546 (844)
T ss_dssp             ESSCCSSHHHHHHHHTTSSGGGCCEEEEEEEETTS
T ss_pred             EecCCCCHHHHHhhcCccccCCCCCeEEEEecHHH
Confidence            99999999999999999999999999999998766

>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=99.87  E-value=1.1e-21  Score=188.67  Aligned_cols=115  Identities=21%  Similarity=0.267  Sum_probs=107.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecC----
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNF----   76 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~----   76 (251)
                      ++||||+|+..++.+++.|...|+.+..+||+|++.+|..++++|+.|+++|||||+++++|+|+|++++||++|.    
T Consensus       441 ~vlVf~~t~~~ae~L~~~L~~~gi~~~~lh~~~~~~~R~~~~~~f~~g~~~VLvaT~~l~~GlDip~v~lVI~~d~d~~G  520 (664)
T 1c4o_A          441 RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEG  520 (664)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHTTCCEEEECTTCCHHHHHHHHHHHHTTSCSEEEESCCCCTTCCCTTEEEEEETTTTSCS
T ss_pred             EEEEEECCHHHHHHHHHHHHhcCCCceeecCCCCHHHHHHHHHHhhcCCceEEEccChhhcCccCCCCCEEEEeCCcccC
Confidence            5899999999999999999999999999999999999999999999999999999999999999999999999997    


Q ss_pred             -CCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHH
Q psy18034         77 -PCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLL  116 (251)
Q Consensus        77 -P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~  116 (251)
                       |++..+|+||+||+||.| .|.+++++++.+......+..
T Consensus       521 ~p~s~~~~iQr~GRagR~~-~G~~i~~~~~~~~~~~~~i~~  560 (664)
T 1c4o_A          521 FLRSERSLIQTIGRAARNA-RGEVWLYADRVSEAMQRAIEE  560 (664)
T ss_dssp             GGGSHHHHHHHHGGGTTST-TCEEEEECSSCCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHCccCcCC-CCEEEEEEcCCCHHHHHHHHH
Confidence             999999999999999985 899999999877665555543

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*

Probab=99.86  E-value=8.8e-23  Score=196.48  Aligned_cols=112  Identities=23%  Similarity=0.363  Sum_probs=71.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC----CcEEEE--------cCCCCHHHHHHHHHHHhc-CCceEEEecccccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG----ISSTYI--------YSDLDPTARKINAAKFQT-GKIRVLVVTDVAARGIDIPS   67 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~----~~~~~i--------~g~~~~~~r~~~~~~F~~-g~~~iLv~Td~~~~Gldi~~   67 (251)
                      ++||||+++.+++.+++.|+..|    +.+..+        ||+|++.+|.+++++|++ |+.+|||||+++++|+|+|+
T Consensus       400 ~~IIF~~~~~~~~~l~~~L~~~~~~~~~~~~~l~G~~~~~~h~~~~~~eR~~v~~~F~~~g~~~vLVaT~v~~~GiDip~  479 (696)
T 2ykg_A          400 ITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQ  479 (696)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHCTTCCSCCEEC-----------------------------CCSCSEEEESSCCC---CC
T ss_pred             cEEEEeCcHHHHHHHHHHHHhCCCccccceeEEEccCCCccccCCCHHHHHHHHHHHHhcCCccEEEEechhhcCCcCcc
Confidence            68999999999999999999987    888888        459999999999999998 99999999999999999999


Q ss_pred             ccEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHH
Q psy18034         68 LDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDL  114 (251)
Q Consensus        68 v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i  114 (251)
                      +++||+||+|+++..|+||+|| ||. +.|.++.+++..+......+
T Consensus       480 v~~VI~~d~p~s~~~~~Qr~GR-GR~-~~g~~~~l~~~~~~~~~~~~  524 (696)
T 2ykg_A          480 CNLVILYEYVGNVIKMIQTRGR-GRA-RGSKCFLLTSNAGVIEKEQI  524 (696)
T ss_dssp             CSEEEEESCC--CCCC-----------CCCEEEEEESCHHHHHHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHhhcc-CcC-CCceEEEEecCCCHHHHHHH
Confidence            9999999999999999999999 997 78999999988776554444

>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination, hydrolase-recombination complex; 2.00A {Sulfolobus solfataricus} SCOP: c.37.1.19

Probab=99.86  E-value=6e-22  Score=171.09  Aligned_cols=106  Identities=18%  Similarity=0.295  Sum_probs=85.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-CCcEEEEcCCCCHHHHHHHHHHHhcC-Cce-EEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-GISSTYIYSDLDPTARKINAAKFQTG-KIR-VLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-~~~~~~i~g~~~~~~r~~~~~~F~~g-~~~-iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |+||||++...++.+...|... |+.+..+||++++.+|..++++|+++ ..+ +|++|+++++|+|++.+++||+||+|
T Consensus       114 kvlIFs~~~~~~~~l~~~L~~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~v~L~st~~~g~Glnl~~a~~VI~~d~~  193 (271)
T 1z5z_A          114 KIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRW  193 (271)
T ss_dssp             CEEEEESCHHHHHHHHHHHHHHHCSCCCEECTTSCHHHHHHHHHHHHHCTTCCEEEEECCTTCCCCCCTTCSEEEECSCC
T ss_pred             eEEEEeccHHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHhcCCCCCCEEEEehhhhcCCcCcccCCEEEEECCC
Confidence            6899999999999999999885 99999999999999999999999999 677 78999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCceE--EEEecCc
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVA--YSLVSSD  106 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~--i~l~~~~  106 (251)
                      |+|..|.||+||++|.|+.+.+  +.+++..
T Consensus       194 wnp~~~~Q~~gR~~R~Gq~~~v~v~~li~~~  224 (271)
T 1z5z_A          194 WNPAVEDQATDRVYRIGQTRNVIVHKLISVG  224 (271)
T ss_dssp             SCTTTC--------------CCEEEEEEETT
T ss_pred             CChhHHHHHHHhccccCCCCceEEEEEeeCC
Confidence            9999999999999999997754  5666655

>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=99.86  E-value=7.8e-22  Score=189.97  Aligned_cols=102  Identities=26%  Similarity=0.423  Sum_probs=88.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC------CCcEEEEcCC--------CCHHHHHHHHHHHhcCCceEEEeccccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA------GISSTYIYSD--------LDPTARKINAAKFQTGKIRVLVVTDVAARGIDIP   66 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~------~~~~~~i~g~--------~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~   66 (251)
                      ++||||+|+.+++.+++.|+..      |+.+..+||+        |++.+|.+++++|++|+.+|||||+++++|+|+|
T Consensus       402 ~~IVF~~s~~~~~~l~~~L~~~~~l~~~g~~~~~lhg~~~~~~~~~~~~~eR~~~~~~F~~g~~~VLVaT~~~~~GIDip  481 (699)
T 4gl2_A          402 RGIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRTGKINLLIATTVAEEGLDIK  481 (699)
T ss_dssp             CEEEECSCHHHHHHHHHHHHSSCSCC-----CEECCCSCCCTTCCCCCHHHHHHHHHHHCC---CCSEEECSCCTTSCCC
T ss_pred             cEEEEECcHHHHHHHHHHHHhCccccccCcceEEEECCCCccCCCCCCHHHHHHHHHHHhcCCCcEEEEccccccCCccc
Confidence            6899999999999999999987      8999999999        9999999999999999999999999999999999


Q ss_pred             cccEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecC
Q psy18034         67 SLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSS  105 (251)
Q Consensus        67 ~v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~  105 (251)
                      ++++||+||+|+|+..|+||+||+||.   |.+++++.+
T Consensus       482 ~v~~VI~~d~p~s~~~~~Qr~GRArr~---g~~~~l~~~  517 (699)
T 4gl2_A          482 ECNIVIRYGLVTNEIAMVQARGRARAD---ESTYVLVAH  517 (699)
T ss_dssp             SCCCCEEESCCCCHHHHHHHHTTSCSS---SCEEEEEEE
T ss_pred             cCCEEEEeCCCCCHHHHHHHcCCCCCC---CceEEEEEe
Confidence            999999999999999999999996554   355555543

>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=99.86  E-value=5.8e-22  Score=194.14  Aligned_cols=107  Identities=24%  Similarity=0.322  Sum_probs=62.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC------------CCcEEEEcCCCCHHHHHHHHHHHhc-CCceEEEecccccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA------------GISSTYIYSDLDPTARKINAAKFQT-GKIRVLVVTDVAARGIDIPS   67 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~------------~~~~~~i~g~~~~~~r~~~~~~F~~-g~~~iLv~Td~~~~Gldi~~   67 (251)
                      |+||||+++.+++.++..|+..            |..+..+||+|++.+|..++++|++ |+++|||||+++++|+|+|+
T Consensus       633 kvLIF~~~~~~~~~L~~~L~~~~~~~~~~~~~l~G~~~~~~hg~~~~~eR~~~l~~F~~~g~~~vLVaT~~~~~GIDlp~  712 (797)
T 4a2q_A          633 RTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQ  712 (797)
T ss_dssp             CEEEEESSHHHHHHHHHHHHTCSTTCSCCCEEC----------------------------CCSEEEEECC-------CC
T ss_pred             eEEEEECcHHHHHHHHHHHHhCcccccccceEEEecCCcccCCCCCHHHHHHHHHHhhccCCceEEEEcCchhcCCCchh
Confidence            6899999999999999999873            5667778999999999999999999 99999999999999999999


Q ss_pred             ccEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCccHH
Q psy18034         68 LDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELC  109 (251)
Q Consensus        68 v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~  109 (251)
                      |++||+||+|||+..|+||+|| ||. +.|.++.|+++.+..
T Consensus       713 v~~VI~yd~p~s~~~~iQr~GR-GR~-~~g~~i~l~~~~~~e  752 (797)
T 4a2q_A          713 CNLVVLYEYSGNVTKMIQVRGR-GRA-AGSKCILVTSKTEVV  752 (797)
T ss_dssp             CSEEEEESCCSCHHHHHTC---------CCCEEEEECCHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHhcCC-CCC-CCceEEEEEeCCcHH
Confidence            9999999999999999999999 998 899999999886654

>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=99.85  E-value=1.6e-21  Score=186.00  Aligned_cols=113  Identities=15%  Similarity=0.097  Sum_probs=104.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEE---------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAV---------   71 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~V---------   71 (251)
                      ++||||+|+++++.+++.|+..|+.+..+||+    +|.+++++|++|+.+||||||++++|+|+| +++|         
T Consensus       357 ~~LVF~~s~~~a~~l~~~L~~~g~~v~~lhg~----~R~~~l~~F~~g~~~VLVaTdv~~rGiDi~-v~~VId~g~~~~P  431 (618)
T 2whx_A          357 KTVWFVPSIKAGNDIANCLRKSGKRVIQLSRK----TFDTEYPKTKLTDWDFVVTTDISEMGANFR-AGRVIDPRRCLKP  431 (618)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHTTCCEEEECTT----THHHHTTHHHHSCCSEEEECGGGGTTCCCC-CSEEEECCEEEEE
T ss_pred             CEEEEECChhHHHHHHHHHHHcCCcEEEEChH----HHHHHHHhhcCCCcEEEEECcHHHcCcccC-ceEEEECcceecc
Confidence            68999999999999999999999999999995    678899999999999999999999999998 8888         


Q ss_pred             -----------EEecCCCChhhHHHHhhhcccCCC-CceEEEEec---CccHHHHHHHHHHh
Q psy18034         72 -----------INYNFPCKAKLFVHRVGRCARAGR-SGVAYSLVS---SDELCYYLDLLLFL  118 (251)
Q Consensus        72 -----------I~~d~P~~~~~y~qr~GR~gR~g~-~g~~i~l~~---~~e~~~~~~i~~~l  118 (251)
                                 ||||+|.+..+|+||+||+||.|. .|.+++|++   +.+...+..++..+
T Consensus       432 ~~~~~~~~~~~i~~d~P~s~~~yiQR~GRaGR~g~~~G~ai~l~~~~~~~d~~~l~~le~~i  493 (618)
T 2whx_A          432 VILTDGPERVILAGPIPVTPASAAQRRGRIGRNPAQEDDQYVFSGDPLKNDEDHAHWTEAKM  493 (618)
T ss_dssp             EEECSSSCEEEEEEEEECCHHHHHHHHTTSSCCTTCCCEEEEECSCCCCCCTTCHHHHHHHH
T ss_pred             eecccCCCceEEcccccCCHHHHHHhccccCCCCCCCCeEEEEccCCchhhHHHHHHHHhHh
Confidence                       888999999999999999999965 899999998   78888888887765

>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=99.85  E-value=4.4e-21  Score=182.59  Aligned_cols=105  Identities=23%  Similarity=0.255  Sum_probs=94.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccc--------cccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIP--------SLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~--------~v~~VI   72 (251)
                      ++||||+|++.++.++..|...|+++..+||++.+.++..+.++|+.|  .|+||||+++||+|++        +..+||
T Consensus       476 pVLVFt~S~e~sE~Ls~~L~~~Gi~~~vLhgkq~~rE~~ii~~ag~~g--~VtVATdmAgRGtDI~lg~~V~~~GglhVI  553 (822)
T 3jux_A          476 PVLVGTTSIEKSELLSSMLKKKGIPHQVLNAKYHEKEAEIVAKAGQKG--MVTIATNMAGRGTDIKLGPGVAELGGLCII  553 (822)
T ss_dssp             CEEEEESSHHHHHHHHHHHHTTTCCCEEECSCHHHHHHHHHHHHHSTT--CEEEEETTTTTTCCCCCCTTTTTTTSCEEE
T ss_pred             CEEEEECCHHHHHHHHHHHHHCCCCEEEeeCCchHHHHHHHHhCCCCC--eEEEEcchhhCCcCccCCcchhhcCCCEEE
Confidence            489999999999999999999999999999996655555555666555  6999999999999998        667999


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      ||++|.+++.|+||+|||||.|.+|.+++|++.+|
T Consensus       554 nte~Pes~r~y~qriGRTGRqG~~G~a~~fvsleD  588 (822)
T 3jux_A          554 GTERHESRRIDNQLRGRAGRQGDPGESIFFLSLED  588 (822)
T ss_dssp             ESSCCSSHHHHHHHHTTSSCSSCCCEEEEEEETTS
T ss_pred             ecCCCCCHHHHHHhhCccccCCCCeeEEEEechhH
Confidence            99999999999999999999999999999999877

>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=99.85  E-value=8.6e-22  Score=196.39  Aligned_cols=118  Identities=19%  Similarity=0.260  Sum_probs=104.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHh-CCCcEEEEcCCCCHHHHHHHHHHHhcCC--ceEEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGL-AGISSTYIYSDLDPTARKINAAKFQTGK--IRVLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~-~~~~~~~i~g~~~~~~r~~~~~~F~~g~--~~iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |+||||+++.+++.++..|.. .|+.+..+||+|++.+|..++++|++|+  ++|||||+++++|+|+|.+++||+||+|
T Consensus       505 k~iVF~~~~~~~~~l~~~L~~~~g~~~~~lhG~~~~~~R~~~l~~F~~g~~~~~vLvaT~v~~~GlDl~~~~~VI~~d~p  584 (968)
T 3dmq_A          505 KVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLP  584 (968)
T ss_dssp             CCCEECSSTHHHHHHHHHHHTTTCCCEEEECTTSCTTHHHHHHHHHHSTTSSCEEEECSCCTTCSSCCTTCCEEECSSCC
T ss_pred             CEEEEeCcHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhCCCCcccEEEecchhhcCCCcccCcEEEEecCC
Confidence            689999999999999999995 5999999999999999999999999998  9999999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHh
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFL  118 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l  118 (251)
                      |++..|+||+||+||.|+.|.++++....+......+...+
T Consensus       585 ~~~~~~~Q~~GR~~R~Gq~~~v~v~~~~~~~t~ee~i~~~~  625 (968)
T 3dmq_A          585 FNPDLLEQRIGRLDRIGQAHDIQIHVPYLEKTAQSVLVRWY  625 (968)
T ss_dssp             SSHHHHHHHHHTTSCSSSCSCCEEEEEEETTSHHHHHHHHH
T ss_pred             CCHHHHHHHhhccccCCCCceEEEEEecCCChHHHHHHHHH
Confidence            99999999999999999998766554433333334455555

>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=99.84  E-value=5.3e-21  Score=176.13  Aligned_cols=100  Identities=18%  Similarity=0.188  Sum_probs=93.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEec-----
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYN-----   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d-----   75 (251)
                      ++||||+|+.+++.+++.|+..|+.+..+||++.    ..+++.|++|+.+|||||+++++|+|+|+ ++|||||     
T Consensus       190 ~~lVF~~s~~~a~~l~~~L~~~g~~~~~lh~~~~----~~~~~~f~~g~~~vLVaT~v~~~GiDip~-~~VI~~~~~~~~  264 (451)
T 2jlq_A          190 KTVWFVPSIKAGNDIANCLRKSGKRVIQLSRKTF----DTEYPKTKLTDWDFVVTTDISEMGANFRA-GRVIDPRRCLKP  264 (451)
T ss_dssp             CEEEECSSHHHHHHHHHHHHTTTCCEEEECTTTH----HHHGGGGGSSCCSEEEECGGGGSSCCCCC-SEEEECCEEEEE
T ss_pred             CEEEEcCCHHHHHHHHHHHHHcCCeEEECCHHHH----HHHHHhhccCCceEEEECCHHHhCcCCCC-CEEEECCCcccc
Confidence            6899999999999999999999999999999864    46899999999999999999999999999 9999999     


Q ss_pred             ---------------CCCChhhHHHHhhhcccCCC-CceEEEEecC
Q psy18034         76 ---------------FPCKAKLFVHRVGRCARAGR-SGVAYSLVSS  105 (251)
Q Consensus        76 ---------------~P~~~~~y~qr~GR~gR~g~-~g~~i~l~~~  105 (251)
                                     .|.+..+|+||+||+||.|. .|.++++...
T Consensus       265 ~~d~~~~~~l~~~~~~p~s~~~y~Qr~GRaGR~g~~~g~~~~~~~~  310 (451)
T 2jlq_A          265 VILTDGPERVILAGPIPVTPASAAQRRGRIGRNPAQEDDQYVFSGD  310 (451)
T ss_dssp             EEECSSSCEEEEEEEEECCHHHHHHHHTTSSCCTTCCCEEEEECSC
T ss_pred             cccccccceeeecccccCCHHHHHHhccccCCCCCCCccEEEEeCC
Confidence                           99999999999999999998 8888888743

>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3 catalytic subunit; nucleotide-binding, capsid protein; 2.75A {Murray valley encephalitis virus}

Probab=99.84  E-value=4.7e-21  Score=184.21  Aligned_cols=113  Identities=19%  Similarity=0.188  Sum_probs=103.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEE-------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVIN-------   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~-------   73 (251)
                      ++||||++++.++.+++.|+..++.+..+||+    +|.++++.|++|+.+|||||+++++|+|+| +++|||       
T Consensus       412 ~~lVF~~s~~~~e~la~~L~~~g~~v~~lHg~----eR~~v~~~F~~g~~~VLVaTdv~e~GIDip-v~~VI~~g~~~~p  486 (673)
T 2wv9_A          412 KTVWFVASVKMSNEIAQCLQRAGKRVIQLNRK----SYDTEYPKCKNGDWDFVITTDISEMGANFG-ASRVIDCRKSVKP  486 (673)
T ss_dssp             CEEEECSSHHHHHHHHHHHHTTTCCEEEECSS----SHHHHGGGGGTCCCSEEEECGGGGTTCCCC-CSEEEECCEECCE
T ss_pred             CEEEEECCHHHHHHHHHHHHhCCCeEEEeChH----HHHHHHHHHHCCCceEEEECchhhcceeeC-CcEEEECCCcccc
Confidence            68999999999999999999999999999994    788999999999999999999999999999 999998       


Q ss_pred             -------------ecCCCChhhHHHHhhhcccC-CCCceEEEEe---cCccHHHHHHHHHHh
Q psy18034         74 -------------YNFPCKAKLFVHRVGRCARA-GRSGVAYSLV---SSDELCYYLDLLLFL  118 (251)
Q Consensus        74 -------------~d~P~~~~~y~qr~GR~gR~-g~~g~~i~l~---~~~e~~~~~~i~~~l  118 (251)
                                   ||+|.++.+|+||+||+||. |+.|.|++|+   ++.+...+..++..+
T Consensus       487 ~vi~da~~r~~ll~d~P~s~~~y~Qr~GRaGR~~g~~G~ai~l~~~~~~~d~~~l~~ie~~~  548 (673)
T 2wv9_A          487 TILDEGEGRVILSVPSAITSASAAQRRGRVGRNPSQIGDEYHYGGGTSEDDTMLAHWTEAKI  548 (673)
T ss_dssp             EEECSTTCEEEECCSEECCHHHHHHHHTTSSCCSSCCCEEEEECSCCCCCCTTBHHHHHHHH
T ss_pred             eeeecccccceecccCCCCHHHHHHHhhccCCCCCCCCEEEEEEecCChhHHHHHHHHHHHH
Confidence                         67999999999999999999 7899999996   577777776666654

>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=99.84  E-value=2.6e-21  Score=192.42  Aligned_cols=107  Identities=24%  Similarity=0.322  Sum_probs=63.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC------------CCcEEEEcCCCCHHHHHHHHHHHhc-CCceEEEecccccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA------------GISSTYIYSDLDPTARKINAAKFQT-GKIRVLVVTDVAARGIDIPS   67 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~------------~~~~~~i~g~~~~~~r~~~~~~F~~-g~~~iLv~Td~~~~Gldi~~   67 (251)
                      |+||||+++.+++.|++.|...            |.....+||+|++.+|.+++++|++ |+++|||||+++++|+|+|+
T Consensus       633 rvLIF~~t~~~ae~L~~~L~~~~~l~~ik~~~l~G~~~~~~hg~m~~~eR~~il~~Fr~~g~~~VLVaT~~~~eGIDlp~  712 (936)
T 4a2w_A          633 RTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQ  712 (936)
T ss_dssp             CEEEEESSHHHHHHHHHHHHHCSTTSSCCCEEC----------------------------CCSEEEEECC------CCC
T ss_pred             eEEEEeCCHHHHHHHHHHHhhCccccccceeEEecCCCcccCCCCCHHHHHHHHHHhhccCCeeEEEEeCchhcCCcchh
Confidence            6899999999999999999986            5666777999999999999999999 99999999999999999999


Q ss_pred             ccEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCccHH
Q psy18034         68 LDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELC  109 (251)
Q Consensus        68 v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~  109 (251)
                      |++||+||+|||+..|+||+|| ||. +.|.++.+++..+..
T Consensus       713 v~~VI~yD~p~s~~~~iQr~GR-GR~-~~g~vi~Li~~~t~e  752 (936)
T 4a2w_A          713 CNLVVLYEYSGNVTKMIQVRGR-GRA-AGSKCILVTSKTEVV  752 (936)
T ss_dssp             CSEEEEESCCSCSHHHHCC---------CCCEEEEESCHHHH
T ss_pred             CCEEEEeCCCCCHHHHHHhcCC-CCC-CCCEEEEEEeCCCHH
Confidence            9999999999999999999999 998 789999999876543

>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=99.83  E-value=1.8e-21  Score=179.62  Aligned_cols=101  Identities=21%  Similarity=0.246  Sum_probs=92.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEE-------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVIN-------   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~-------   73 (251)
                      ++||||+|+..++.+++.|+..|+.+..+||+    +|..+++.|++|+.+|||||+++++|+|+|+ ++||+       
T Consensus       192 ~~LVF~~s~~~~~~l~~~L~~~g~~v~~lh~~----~R~~~~~~f~~g~~~iLVaT~v~~~GiDip~-~~VI~~G~~~~~  266 (459)
T 2z83_A          192 KTVWFVASVKMGNEIAMCLQRAGKKVIQLNRK----SYDTEYPKCKNGDWDFVITTDISEMGANFGA-SRVIDCRKSVKP  266 (459)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHTTCCEEEESTT----CCCCCGGGSSSCCCSEEEESSCC---CCCSC-SEEEECCEECCE
T ss_pred             CEEEEeCChHHHHHHHHHHHhcCCcEEecCHH----HHHHHHhhccCCCceEEEECChHHhCeecCC-CEEEECCccccc
Confidence            68999999999999999999999999999995    6778899999999999999999999999999 99999       


Q ss_pred             -------------ecCCCChhhHHHHhhhcccCCC-CceEEEEecCc
Q psy18034         74 -------------YNFPCKAKLFVHRVGRCARAGR-SGVAYSLVSSD  106 (251)
Q Consensus        74 -------------~d~P~~~~~y~qr~GR~gR~g~-~g~~i~l~~~~  106 (251)
                                   ||.|.++.+|+||+||+||.|. .|.+++++.+.
T Consensus       267 ~~~~~~~~~~~~~~d~p~s~~~~~QR~GRaGR~g~~~G~~~~~~~~~  313 (459)
T 2z83_A          267 TILEEGEGRVILGNPSPITSASAAQRRGRVGRNPNQVGDEYHYGGAT  313 (459)
T ss_dssp             EEECSSSCEEEECSCEECCHHHHHHHHTTSSCCTTCCCEEEEECSCC
T ss_pred             ccccccccccccccCCCCCHHHHHHhccccCCCCCCCCeEEEEEccc
Confidence                         7899999999999999999997 89999999864

>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=99.83  E-value=1.7e-21  Score=185.90  Aligned_cols=116  Identities=26%  Similarity=0.322  Sum_probs=99.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEE--------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI--------   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI--------   72 (251)
                      ++||||+|++.++.+++.|+..|+.+..+||+|++.+       |+++..+||||||++++|+|+| +++||        
T Consensus       398 ~vLVFv~Tr~~ae~la~~L~~~g~~v~~lHG~l~q~e-------r~~~~~~VLVATdVaerGIDId-V~~VI~~Gl~~~~  469 (666)
T 3o8b_A          398 RHLIFCHSKKKCDELAAKLSGLGINAVAYYRGLDVSV-------IPTIGDVVVVATDALMTGYTGD-FDSVIDCNTCVTQ  469 (666)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTTTCCEEEECTTSCGGG-------SCSSSCEEEEECTTHHHHCCCC-BSEEEECCEEEEE
T ss_pred             cEEEEeCCHHHHHHHHHHHHhCCCcEEEecCCCCHHH-------HHhCCCcEEEECChHHccCCCC-CcEEEecCccccc
Confidence            5899999999999999999999999999999999875       5567779999999999999997 99888        


Q ss_pred             --Eec-----------CCCChhhHHHHhhhcccCCCCceEEEEecCccHHH--H--HHHHHHhCCCCeecc
Q psy18034         73 --NYN-----------FPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCY--Y--LDLLLFLGRKPVLAD  126 (251)
Q Consensus        73 --~~d-----------~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~--~--~~i~~~l~~~~~~~~  126 (251)
                        |||           +|.+.+.|+||+||+|| |+.|. ++|+++.+...  +  ..+++..+..+....
T Consensus       470 ViNyDydP~~gl~~~~~P~s~~syiQRiGRtGR-g~~G~-i~lvt~~e~~~~~l~~~~i~~~~~~~~~~~~  538 (666)
T 3o8b_A          470 TVDFSLDPTFTIETTTVPQDAVSRSQRRGRTGR-GRRGI-YRFVTPGERPSGMFDSSVLCECYDAGCAWYE  538 (666)
T ss_dssp             EEECCCSSSCEEEEEEEECBHHHHHHHHTTBCS-SSCEE-EEESCCCCBCSSBCCHHHHHHHHHHHHHTSC
T ss_pred             ccccccccccccccccCcCCHHHHHHHhccCCC-CCCCE-EEEEecchhhcccccHHHHHHHhcCCccccc
Confidence              788           99999999999999999 99999 99998877654  3  555655555444443

>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus, hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A

Probab=99.83  E-value=6e-20  Score=176.36  Aligned_cols=121  Identities=21%  Similarity=0.362  Sum_probs=105.7

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhc--CCceEEEeccccccccccccccEEEEecC---
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQT--GKIRVLVVTDVAARGIDIPSLDAVINYNF---   76 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~--g~~~iLv~Td~~~~Gldi~~v~~VI~~d~---   76 (251)
                      .+|||+|+..++.+++.|+..++.+..+||+|++.+|..+++.|++  |+.+|||||+++++|+|+ ++++||++|+   
T Consensus       323 ~iIf~~s~~~ie~la~~L~~~g~~v~~lHG~L~~~~R~~~~~~F~~~~g~~~VLVATdi~e~GlDi-~v~~VI~~~~~k~  401 (677)
T 3rc3_A          323 DCIVCFSKNDIYSVSRQIEIRGLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNL-SIRRIIFYSLIKP  401 (677)
T ss_dssp             EEEECSSHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHCTTSSCCEEEECGGGGSSCCC-CBSEEEESCSBC-
T ss_pred             CEEEEcCHHHHHHHHHHHHhcCCCeeeeeccCCHHHHHHHHHHHHccCCCeEEEEeCcHHHCCcCc-CccEEEECCcccc
Confidence            5899999999999999999999999999999999999999999999  889999999999999999 8999999999   


Q ss_pred             -----------CCChhhHHHHhhhcccCCCC---ceEEEEecCccHHHHHHHHHHhCCCCee
Q psy18034         77 -----------PCKAKLFVHRVGRCARAGRS---GVAYSLVSSDELCYYLDLLLFLGRKPVL  124 (251)
Q Consensus        77 -----------P~~~~~y~qr~GR~gR~g~~---g~~i~l~~~~e~~~~~~i~~~l~~~~~~  124 (251)
                                 |.+...|+||+||+||.|..   |.++ ++.+.+...+.++......++..
T Consensus       402 ~~~~~G~~~~~p~s~~~~~QR~GRAGR~g~~g~~G~v~-~l~~~d~~~~~~~~~~~~~~i~~  462 (677)
T 3rc3_A          402 SINEKGERELEPITTSQALQIAGRAGRFSSRFKEGEVT-TMNHEDLSLLKEILKRPVDPIRA  462 (677)
T ss_dssp             ----------CBCCHHHHHHHHTTBTCTTSSCSSEEEE-ESSTTHHHHHHHHHHSCCCCCCC
T ss_pred             ccccCCccccccCCHHHHHHHhcCCCCCCCCCCCEEEE-EEecchHHHHHHHHhcCcchhhh
Confidence                       88999999999999999965   5544 44556666666666655444443

>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=99.83  E-value=1.1e-20  Score=182.37  Aligned_cols=105  Identities=23%  Similarity=0.207  Sum_probs=99.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccc------------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSL------------   68 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v------------   68 (251)
                      .+||||+|+..++.|+..|+..|+++..+||++.+.++..+.++|+.|  .|+||||+|+||+||+..            
T Consensus       443 pvLVft~sie~se~Ls~~L~~~gi~~~vLnak~~~rEa~iia~agr~G--~VtIATnmAgRGtDI~l~gn~~~~~~~~~~  520 (853)
T 2fsf_A          443 PVLVGTISIEKSELVSNELTKAGIKHNVLNAKFHANEAAIVAQAGYPA--AVTIATNMAGRGTDIVLGGSWQAEVAALEN  520 (853)
T ss_dssp             CEEEEESSHHHHHHHHHHHHHTTCCCEECCTTCHHHHHHHHHTTTSTT--CEEEEESCCSSCSCCCTTCCHHHHHHHCSS
T ss_pred             CEEEEECcHHHHHHHHHHHHHCCCCEEEecCChhHHHHHHHHhcCCCC--eEEEecccccCCcCccCCCchHhhhhhccc
Confidence            489999999999999999999999999999999988888888899888  699999999999999973            


Q ss_pred             -------------------------cEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         69 -------------------------DAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        69 -------------------------~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                                               .+||||++|.|...|.||+|||||.|.+|.+++|++.++
T Consensus       521 ~~~~~~~~~~~~~~~~~~~V~~~GGl~VI~te~pes~riy~qr~GRTGRqGd~G~s~~fls~eD  584 (853)
T 2fsf_A          521 PTAEQIEKIKADWQVRHDAVLEAGGLHIIGTERHESRRIDNQLRGRSGRQGDAGSSRFYLSMED  584 (853)
T ss_dssp             CCSSHHHHHHHHHHHHHHHHHHTTSEEEEESSCCSSHHHHHHHHTTSSGGGCCEEEEEEEETTS
T ss_pred             chhHHHHHHHHHhhhhhhHHHhcCCcEEEEccCCCCHHHHHhhccccccCCCCeeEEEEecccH
Confidence                                     599999999999999999999999999999999998776

>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=99.81  E-value=8.2e-20  Score=176.90  Aligned_cols=106  Identities=21%  Similarity=0.186  Sum_probs=98.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccc------------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSL------------   68 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v------------   68 (251)
                      ++||||+|++.++.|+..|...|+++..+||++.+.++..+.++|+.|  .|+||||+++||+||+.+            
T Consensus       462 pvLVft~Sie~sE~Ls~~L~~~Gi~~~vLnak~~~rEa~iia~agr~G--~VtIATnmAgRGtDI~l~~~~~~~~~~~~~  539 (922)
T 1nkt_A          462 PVLIGTTSVERSEYLSRQFTKRRIPHNVLNAKYHEQEATIIAVAGRRG--GVTVATNMAGRGTDIVLGGNVDFLTDQRLR  539 (922)
T ss_dssp             CEEEEESCHHHHHHHHHHHHHTTCCCEEECSSCHHHHHHHHHTTTSTT--CEEEEETTCSTTCCCCTTCCHHHHHHHHHH
T ss_pred             cEEEEECCHHHHHHHHHHHHHCCCCEEEecCChhHHHHHHHHhcCCCC--eEEEecchhhcCccccCCCCHHHHHHHHHh
Confidence            489999999999999999999999999999999888887788888887  699999999999999975            


Q ss_pred             ----------------------------------------cEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCccH
Q psy18034         69 ----------------------------------------DAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDEL  108 (251)
Q Consensus        69 ----------------------------------------~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~  108 (251)
                                                              .+||||++|.+...|.||+||+||.|.+|.+++|++.++.
T Consensus       540 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGlhVI~te~pes~riy~qr~GRTGRqGdpG~s~fflSleD~  619 (922)
T 1nkt_A          540 ERGLDPVETPEEYEAAWHSELPIVKEEASKEAKEVIEAGGLYVLGTERHESRRIDNQLRGRSGRQGDPGESRFYLSLGDE  619 (922)
T ss_dssp             HTTCCTTTSHHHHHHHHHHHHHHHHHHTTHHHHHHHHTTSEEEEECSCCSSHHHHHHHHHTSSGGGCCEEEEEEEETTSH
T ss_pred             hccccccccchhhHHHHHHHHHHHHHHHHHhhhHHHhcCCcEEEeccCCCCHHHHHHHhcccccCCCCeeEEEEechhHH
Confidence                                                    4999999999999999999999999999999999997764

>4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A

Probab=99.81  E-value=8.3e-20  Score=183.88  Aligned_cols=113  Identities=19%  Similarity=0.229  Sum_probs=99.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEE-EEcCCCCHHHHHHHHHHHhcCCceEEEe----cccccccccccc-ccEEEEe
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISST-YIYSDLDPTARKINAAKFQTGKIRVLVV----TDVAARGIDIPS-LDAVINY   74 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~-~i~g~~~~~~r~~~~~~F~~g~~~iLv~----Td~~~~Gldi~~-v~~VI~~   74 (251)
                      ++||||+|+..++.++..|+..|+.+. .+||.     |.+ +++|++|+.+||||    |++++||+|+|+ |++||||
T Consensus       311 ~~LVF~~s~~~a~~l~~~L~~~g~~~~~~lhg~-----rr~-l~~F~~G~~~VLVatas~TdvlarGIDip~~V~~VI~~  384 (1104)
T 4ddu_A          311 GILIFAQTEEEGKELYEYLKRFKFNVGETWSEF-----EKN-FEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFW  384 (1104)
T ss_dssp             SEEEEESSSHHHHHHHHHHHHTTCCEEESSSSH-----HHH-HHHHHHTSCSEEEEETTTHHHHCCSCCCTTTCCEEEEE
T ss_pred             CEEEEECcHHHHHHHHHHHHhCCCCeeeEecCc-----HHH-HHHHHCCCCCEEEEecCCCCeeEecCcCCCCCCEEEEE
Confidence            689999999999999999999999998 99992     555 99999999999999    999999999999 9999999


Q ss_pred             cCCC------------------------------------------------------------------------Chhh
Q psy18034         75 NFPC------------------------------------------------------------------------KAKL   82 (251)
Q Consensus        75 d~P~------------------------------------------------------------------------~~~~   82 (251)
                      |+|.                                                                        ++.+
T Consensus       385 d~P~~~~Sle~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~~e~~~~~l~~~~~~~~i~~~~~~l~~~~~~~~~~~pd~~t  464 (1104)
T 4ddu_A          385 GTPSMRFSLELDKAPRFVLARVLKEMGLIKAQENPDVEELRKIAKEHLTQKEFVEKVKEMFRGVVVKDEDLELIIPDVYT  464 (1104)
T ss_dssp             SCCEEEEECSSSSCCHHHHHHHHHHHSSCSSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHCCSSEEETTTTEEEEECHHH
T ss_pred             CCCCCCCCcccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHhhccceEEecCCeeEEEecChhh
Confidence            9998                                                                        7889


Q ss_pred             HHHHhhhcccCCCCc--eEEEEecCccHHHHHHHHHHhC
Q psy18034         83 FVHRVGRCARAGRSG--VAYSLVSSDELCYYLDLLLFLG  119 (251)
Q Consensus        83 y~qr~GR~gR~g~~g--~~i~l~~~~e~~~~~~i~~~l~  119 (251)
                      |+||+|||||.|..|  .+++++..++...+..+++.++
T Consensus       465 Yihr~GRtgR~~~gg~~~Glsi~~~~d~~~~~~l~~~~~  503 (1104)
T 4ddu_A          465 YIQASGRSSRILNGVLVKGVSVIFEEDEEIFESLKTRLL  503 (1104)
T ss_dssp             HHHHHHTTCCEETTEECCEEEEEECCCHHHHHHHHHHHH
T ss_pred             hhcccCchhcccCCCcccceEEEEEecHHHHHHHHHHHh
Confidence            999999999976543  4555655578888888887765

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=99.81  E-value=1.2e-19  Score=181.38  Aligned_cols=114  Identities=19%  Similarity=0.292  Sum_probs=102.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCc---------------------------------------EEEEcCCCCHHHHHHH
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGIS---------------------------------------STYIYSDLDPTARKIN   41 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~---------------------------------------~~~i~g~~~~~~r~~~   41 (251)
                      ++||||+|+..|+.++..|...++.                                       +..+||+|++.+|..+
T Consensus       345 ~~IVF~~sr~~~e~la~~L~~~~~~~~~e~~~i~~~~~~~~~~l~~~d~~l~~~~~l~~~l~~gI~~~Hggl~~~eR~~v  424 (1010)
T 2xgj_A          345 PVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVI  424 (1010)
T ss_dssp             SEEEEESSHHHHHHHHHTTTTSCCCCHHHHHHHHHHHHHHHTTSCGGGTTCHHHHHHHHHHHHTEEEESTTSCHHHHHHH
T ss_pred             CEEEEECCHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHHHHhcchhhhcchhHHHHHHHHhCCeeEECCCCCHHHHHHH
Confidence            5899999999999999999875442                                       7889999999999999


Q ss_pred             HHHHhcCCceEEEeccccccccccccccEEEE----ecC----CCChhhHHHHhhhcccCCC--CceEEEEecCc-cHHH
Q psy18034         42 AAKFQTGKIRVLVVTDVAARGIDIPSLDAVIN----YNF----PCKAKLFVHRVGRCARAGR--SGVAYSLVSSD-ELCY  110 (251)
Q Consensus        42 ~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~----~d~----P~~~~~y~qr~GR~gR~g~--~g~~i~l~~~~-e~~~  110 (251)
                      ++.|++|.++|||||+++++|+|+|.+++||+    ||.    |+++..|+||+||+||.|.  .|.+++++.+. +...
T Consensus       425 e~~F~~G~ikVLVAT~~la~GIDiP~~~vVI~~~~kfd~~~~rp~s~~~y~Qr~GRAGR~G~d~~G~vi~l~~~~~e~~~  504 (1010)
T 2xgj_A          425 EILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRGIVIMMIDEKMEPQV  504 (1010)
T ss_dssp             HHHHHTTCCSEEEEEGGGGGSTTCCBSEEEESCSEEECSSCEEECCHHHHHHHHTTBCCTTTCSSEEEEEEECSCCCHHH
T ss_pred             HHHHhcCCCcEEEEehHhhccCCCCCceEEEeCCcccCCcCCccCCHHHHhHhhhhcccCCCCCceEEEEEECCCCCHHH
Confidence            99999999999999999999999999999999    999    9999999999999999997  59999999865 5555


Q ss_pred             HHHH
Q psy18034        111 YLDL  114 (251)
Q Consensus       111 ~~~i  114 (251)
                      +..+
T Consensus       505 ~~~l  508 (1010)
T 2xgj_A          505 AKGM  508 (1010)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5444

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=99.81  E-value=3.2e-19  Score=172.65  Aligned_cols=107  Identities=22%  Similarity=0.322  Sum_probs=94.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC------------------------------------CcEEEEcCCCCHHHHHHHHHH
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG------------------------------------ISSTYIYSDLDPTARKINAAK   44 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~------------------------------------~~~~~i~g~~~~~~r~~~~~~   44 (251)
                      ++||||+++..++.++..|....                                    ..+..+||+|++.+|..+++.
T Consensus       254 ~~LVF~~s~~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~~v~~~h~~l~~~~r~~v~~~  333 (715)
T 2va8_A          254 QVLVFRNSRKMAESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDLIEEG  333 (715)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHTTTSSCCCHHHHHHHHHHHHTCCSSCHHHHHHHHHHHTTTEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEECCHHHHHHHHHHHHHHHhhccCChHHHHHHHHHHHHhhhccccccHHHHHHHhcCEEEECCCCCHHHHHHHHHH
Confidence            58999999999999999998642                                    248999999999999999999


Q ss_pred             HhcCCceEEEeccccccccccccccEEEE----ec-------CCCChhhHHHHhhhcccCCC--CceEEEEecCcc
Q psy18034         45 FQTGKIRVLVVTDVAARGIDIPSLDAVIN----YN-------FPCKAKLFVHRVGRCARAGR--SGVAYSLVSSDE  107 (251)
Q Consensus        45 F~~g~~~iLv~Td~~~~Gldi~~v~~VI~----~d-------~P~~~~~y~qr~GR~gR~g~--~g~~i~l~~~~e  107 (251)
                      |++|..+|||||+++++|+|+|++++||+    ||       .|.+...|.||+||+||.|.  .|.|+.++++.+
T Consensus       334 f~~g~~~vlvaT~~l~~Gidip~~~~VI~~~~~~d~~~~~~~~~~s~~~~~Qr~GRaGR~g~~~~G~~~~l~~~~~  409 (715)
T 2va8_A          334 FRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKE  409 (715)
T ss_dssp             HHTTCSCEEEECGGGGGSSCCCBSEEEECCC--------------CHHHHHHHHTTBCCTTTCSCEEEEEECSCGG
T ss_pred             HHcCCCeEEEEChHHhcccCCCceEEEEeCCeeccccCCCCCCcCCHHHHHHHhhhcCCCCCCCCceEEEEeCCch
Confidence            99999999999999999999999999999    99       89999999999999999884  799999987765

>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=99.80  E-value=6.4e-20  Score=184.24  Aligned_cols=114  Identities=17%  Similarity=0.196  Sum_probs=100.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEe----ccccccccccccc-cEEEEec
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVV----TDVAARGIDIPSL-DAVINYN   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~----Td~~~~Gldi~~v-~~VI~~d   75 (251)
                      ++||||+|+..++.+++.|+.. +.+..+||+|.     .++++|++|+.+||||    ||++++|+|+|+| ++|||||
T Consensus       277 ~~LVF~~t~~~a~~l~~~L~~~-~~v~~lhg~~~-----~~l~~F~~G~~~VLVaTas~Tdv~~rGIDip~VI~~VI~~~  350 (1054)
T 1gku_B          277 GGIIYARTGEEAEEIYESLKNK-FRIGIVTATKK-----GDYEKFVEGEIDHLIGTAHYYGTLVRGLDLPERIRFAVFVG  350 (1054)
T ss_dssp             CEEEEESSHHHHHHHHHTTTTS-SCEEECTTSSS-----HHHHHHHHTSCSEEEEECC------CCSCCTTTCCEEEEES
T ss_pred             CEEEEEcCHHHHHHHHHHHhhc-cCeeEEeccHH-----HHHHHHHcCCCcEEEEecCCCCeeEeccccCCcccEEEEeC
Confidence            5899999999999999999988 99999999984     6789999999999999    9999999999996 9999999


Q ss_pred             CC-----------------------------------------------------------------------CChhhHH
Q psy18034         76 FP-----------------------------------------------------------------------CKAKLFV   84 (251)
Q Consensus        76 ~P-----------------------------------------------------------------------~~~~~y~   84 (251)
                      +|                                                                       .+..+|+
T Consensus       351 ~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~yi  430 (1054)
T 1gku_B          351 CPSFRVTIEDIDSLSPQMVKLLAYLYRNVDEIERLLPAVERHIDEVREILKKVMGKERPQAKDVVVREGEVIFPDLRTYI  430 (1054)
T ss_dssp             CCEEEEECSCGGGSCHHHHHHHHTTTSCHHHHHTTCTTTSSCHHHHHHHHHHHHTTSCCSCSSSEEETTEEEEECHHHHH
T ss_pred             CCcccccccccccChHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccceeEeecceecCcHHHHh
Confidence            99                                                                       7999999


Q ss_pred             HHhhhcccCCCCc--eEEEEecCccHHHHHHHHHHhCC
Q psy18034         85 HRVGRCARAGRSG--VAYSLVSSDELCYYLDLLLFLGR  120 (251)
Q Consensus        85 qr~GR~gR~g~~g--~~i~l~~~~e~~~~~~i~~~l~~  120 (251)
                      ||+||+||.|..|  .+++++..++...+..+++.++.
T Consensus       431 Qr~GRagR~g~~g~~~g~~~~~~~d~~~~~~l~~~l~~  468 (1054)
T 1gku_B          431 QGSGRTSRLFAGGLTKGASFLLEDDSELLSAFIERAKL  468 (1054)
T ss_dssp             HHHHTTCCEETTEECCEEEEEECSCHHHHHHHHHHHHT
T ss_pred             hhhchhhhccCCCCceEEEEEEecCHHHHHHHHHHHhh
Confidence            9999999988776  48889888898999899888875

>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=99.80  E-value=1e-19  Score=183.33  Aligned_cols=107  Identities=20%  Similarity=0.306  Sum_probs=93.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCc---------------------------------------EEEEcCCCCHHHHHHH
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGIS---------------------------------------STYIYSDLDPTARKIN   41 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~---------------------------------------~~~i~g~~~~~~r~~~   41 (251)
                      ++||||+++..|+.++..|...++.                                       +..+||+|++.+|..+
T Consensus       443 ~vIVF~~sr~~~e~la~~L~~~~~~~~~e~~~i~~~~~~~~~~l~~~d~~l~~~~~l~~~l~~gV~~~Hg~l~~~~R~~v  522 (1108)
T 3l9o_A          443 PVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSGLLPILKEVI  522 (1108)
T ss_dssp             CEEEEESCHHHHHHHHHHTCSHHHHCC----CHHHHGGGSCTHHHHHTTCCHHHHHHTHHHHHTEEEECSCSCHHHHHHH
T ss_pred             CEEEEeCcHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhcchhhhhhhhHHHHHHhhhcCeeeecCCCCHHHHHHH
Confidence            5899999999999999998654322                                       7899999999999999


Q ss_pred             HHHHhcCCceEEEeccccccccccccccEEEEecCCC--------ChhhHHHHhhhcccCC--CCceEEEEecCcc
Q psy18034         42 AAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPC--------KAKLFVHRVGRCARAG--RSGVAYSLVSSDE  107 (251)
Q Consensus        42 ~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~--------~~~~y~qr~GR~gR~g--~~g~~i~l~~~~e  107 (251)
                      ++.|++|.++|||||+++++|+|+|.+++||+++.|+        ++..|+||+||+||.|  ..|.+++++.+..
T Consensus       523 ~~~F~~G~ikVLVAT~vla~GIDiP~v~~VI~~~~~~d~~~~r~iS~~eyiQr~GRAGR~G~d~~G~~ill~~~~~  598 (1108)
T 3l9o_A          523 EILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRGIVIMMIDEKM  598 (1108)
T ss_dssp             HHHHHHTCCCEEEEESCCCSCCCC--CEEEESCSEEESSSCEEECCHHHHHHHHHHSCCSSSCSSEEEEEEECCCC
T ss_pred             HHHHhCCCCeEEEECcHHhcCCCCCCceEEEecCcccCccccccCCHHHHHHhhcccCCCCCCCceEEEEEecCCc
Confidence            9999999999999999999999999999999888754        5566999999999999  5788888887653

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=99.80  E-value=1.4e-19  Score=165.85  Aligned_cols=98  Identities=19%  Similarity=0.217  Sum_probs=89.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccE----------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDA----------   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~----------   70 (251)
                      ++||||+++.+++.+++.|+..|+.+..+||+    +|.+++++|++|+.+|||||+++++|+|+| +.+          
T Consensus       173 ~~lVF~~~~~~~~~l~~~L~~~~~~v~~lhg~----~r~~~~~~f~~g~~~vLVaT~v~e~GiDip-~~~VI~~g~~~~~  247 (431)
T 2v6i_A          173 RTVWFVHSIKQGAEIGTCLQKAGKKVLYLNRK----TFESEYPKCKSEKWDFVITTDISEMGANFK-ADRVIDPRKTIKP  247 (431)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHTTCCEEEESTT----THHHHTTHHHHSCCSEEEECGGGGTSCCCC-CSEEEECCEEEEE
T ss_pred             CEEEEeCCHHHHHHHHHHHHHcCCeEEEeCCc----cHHHHHHhhcCCCCeEEEECchHHcCcccC-CcEEEecCccccc
Confidence            68999999999999999999999999999997    577899999999999999999999999999 554          


Q ss_pred             -------EEEecCCCChhhHHHHhhhcccCCC-CceEEEEe
Q psy18034         71 -------VINYNFPCKAKLFVHRVGRCARAGR-SGVAYSLV  103 (251)
Q Consensus        71 -------VI~~d~P~~~~~y~qr~GR~gR~g~-~g~~i~l~  103 (251)
                             ||+++.|.+..+|+||+||+||.|. .|.++++.
T Consensus       248 v~d~~~~vi~~~~p~~~~~~~Qr~GR~GR~g~~~~~~~~~~  288 (431)
T 2v6i_A          248 ILLDGRVSMQGPIAITPASAAQRRGRIGRNPEKLGDIYAYS  288 (431)
T ss_dssp             EEETTEEEEEEEEECCHHHHHHHHTTSSCCTTCCCCEEEEC
T ss_pred             eecccceeecccccCCHHHHHHhhhccCCCCCCCCeEEEEc
Confidence                   6889999999999999999999985 55666665

>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=99.80  E-value=2.3e-19  Score=173.84  Aligned_cols=123  Identities=20%  Similarity=0.253  Sum_probs=105.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC---------------------------------CCcEEEEcCCCCHHHHHHHHHHHhc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA---------------------------------GISSTYIYSDLDPTARKINAAKFQT   47 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~---------------------------------~~~~~~i~g~~~~~~r~~~~~~F~~   47 (251)
                      ++||||+|+..++.++..|...                                 ...+..+||+|++.+|..+.+.|++
T Consensus       239 ~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~l~~~~~~~v~~~h~~l~~~~R~~v~~~f~~  318 (720)
T 2zj8_A          239 GALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGVAFHHAGLGRDERVLVEENFRK  318 (720)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHHGGGSCHHHHHHHHHHHHTSCSCHHHHHHHHHHTTTEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CEEEEecCHHHHHHHHHHHHHHHHHhcChhhHHHHHHHHHHHhcccchHHHHHHHhcCeeeecCCCCHHHHHHHHHHHHC
Confidence            5899999999999999998753                                 1248999999999999999999999


Q ss_pred             CCceEEEeccccccccccccccEEEE----ec----CCCChhhHHHHhhhcccCC--CCceEEEEecCccHHHHHHHHHH
Q psy18034         48 GKIRVLVVTDVAARGIDIPSLDAVIN----YN----FPCKAKLFVHRVGRCARAG--RSGVAYSLVSSDELCYYLDLLLF  117 (251)
Q Consensus        48 g~~~iLv~Td~~~~Gldi~~v~~VI~----~d----~P~~~~~y~qr~GR~gR~g--~~g~~i~l~~~~e~~~~~~i~~~  117 (251)
                      |..+|||||+++++|+|+|.+++||+    ||    .|.++..|.||+||+||.|  ..|.|+.++++.+...  .++.+
T Consensus       319 g~~~vlvaT~~l~~Gvdip~~~~VI~~~~~yd~~g~~~~s~~~~~Qr~GRaGR~g~~~~G~~~~l~~~~~~~~--~~~~~  396 (720)
T 2zj8_A          319 GIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPRE--VMNHY  396 (720)
T ss_dssp             TSSCEEEECSTTGGGCCCCBSEEEECCSEECCSSSCEECCHHHHHHHHTTBCCTTTCSEEEEEEECSSSCHHH--HHHHH
T ss_pred             CCCeEEEECcHhhccCCCCceEEEEcCCeeecCCCCccCCHHHHHHHHhhcCCCCCCCCceEEEEecCccHHH--HHHHH
Confidence            99999999999999999999999999    87    6999999999999999988  4789999998877332  23345


Q ss_pred             hCCCCeec
Q psy18034        118 LGRKPVLA  125 (251)
Q Consensus       118 l~~~~~~~  125 (251)
                      +.......
T Consensus       397 ~~~~~~~i  404 (720)
T 2zj8_A          397 IFGKPEKL  404 (720)
T ss_dssp             TTSCCCCC
T ss_pred             hcCCCCCc
Confidence            54444433

>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=99.80  E-value=2.7e-20  Score=181.64  Aligned_cols=107  Identities=20%  Similarity=0.333  Sum_probs=100.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHh-----------CCCcEEEEcCCCCHHHHHHHHHHHh-----cCCceEEEeccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGL-----------AGISSTYIYSDLDPTARKINAAKFQ-----TGKIRVLVVTDVAARGID   64 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~-----------~~~~~~~i~g~~~~~~r~~~~~~F~-----~g~~~iLv~Td~~~~Gld   64 (251)
                      ++||||+++..++.+++.|..           .++.+..+||+|++.+|..+++.|+     .|..+|||||+++++|+|
T Consensus       305 ~iLVF~~~~~~i~~l~~~L~~~~~~l~~~~~~~~~~v~~lhg~l~~~eR~~v~~~f~~~~~~~g~~kVlVAT~iae~Gid  384 (773)
T 2xau_A          305 DILLFLTGEDEIEDAVRKISLEGDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSLT  384 (773)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECTTCCHHHHGGGGSCCCCCSSSSCCEEEEEECTHHHHTCC
T ss_pred             CEEEECCCHHHHHHHHHHHHHHHHhhcccccCCCeEEEEeCCCCCHHHHHHHHhhcccccCCCCceEEEEeCcHHHhCcC
Confidence            489999999999999999985           5788999999999999999999999     999999999999999999


Q ss_pred             cccccEEEEecC------------------CCChhhHHHHhhhcccCCCCceEEEEecCccH
Q psy18034         65 IPSLDAVINYNF------------------PCKAKLFVHRVGRCARAGRSGVAYSLVSSDEL  108 (251)
Q Consensus        65 i~~v~~VI~~d~------------------P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~  108 (251)
                      +|++++||++++                  |.+..+|+||+||+||. +.|.|+.|+++.+.
T Consensus       385 Ip~v~~VId~g~~k~~~yd~~~g~~~L~~~p~S~~s~~QR~GRaGR~-~~G~~~~l~~~~~~  445 (773)
T 2xau_A          385 IDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRT-RPGKCFRLYTEEAF  445 (773)
T ss_dssp             CTTEEEEEECSEEEEEEEETTTTEEEEEEEECCHHHHHHHHHGGGSS-SSEEEEESSCHHHH
T ss_pred             cCCeEEEEeCCCccceeeccccCccccccccCCHHHHHhhccccCCC-CCCEEEEEecHHHh
Confidence            999999999887                  89999999999999998 79999999986554

>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=99.79  E-value=2.5e-19  Score=173.11  Aligned_cols=108  Identities=22%  Similarity=0.370  Sum_probs=98.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC------------------------------CCcEEEEcCCCCHHHHHHHHHHHhcCCc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA------------------------------GISSTYIYSDLDPTARKINAAKFQTGKI   50 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~------------------------------~~~~~~i~g~~~~~~r~~~~~~F~~g~~   50 (251)
                      ++||||+++..++.++..|...                              +..+..+||+|++++|..+.+.|++|+.
T Consensus       244 ~~LVF~~s~~~~~~~a~~L~~~~~~~~~~~~~~~~i~~~~~~~~~~~l~~~~~~~v~~~h~~l~~~~R~~v~~~f~~g~~  323 (702)
T 2p6r_A          244 GVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNI  323 (702)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHHHTTCCCSSHHHHHHTTCCSHHHHHHHHHHHTTCCEECTTSCHHHHHHHHHHHHTTSC
T ss_pred             CEEEEcCCHHHHHHHHHHHHHHHHhhcChHHHHHHHHhhccccccHHHHHHHhcCeEEecCCCCHHHHHHHHHHHHCCCC
Confidence            5899999999999999988753                              1357889999999999999999999999


Q ss_pred             eEEEeccccccccccccccEEEE----ec---CCCChhhHHHHhhhcccCC--CCceEEEEecCccH
Q psy18034         51 RVLVVTDVAARGIDIPSLDAVIN----YN---FPCKAKLFVHRVGRCARAG--RSGVAYSLVSSDEL  108 (251)
Q Consensus        51 ~iLv~Td~~~~Gldi~~v~~VI~----~d---~P~~~~~y~qr~GR~gR~g--~~g~~i~l~~~~e~  108 (251)
                      +|||||+++++|+|+|++++||+    ||   .|.+...|.||+||+||.|  ..|.|+.++++.+.
T Consensus       324 ~vlvaT~~l~~Gidip~~~~VI~~~~~yd~~~~~~s~~~~~Qr~GRaGR~g~~~~G~~~~l~~~~~~  390 (702)
T 2p6r_A          324 KVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDR  390 (702)
T ss_dssp             CEEEECSTTTSSSCCCBSEEEECCSEEESSSEEECCHHHHHHHHTTBSCTTTCSCEEEEEECCGGGH
T ss_pred             eEEEECcHHhccCCCCceEEEEcCceeeCCCCCcCCHHHHHHHhhhcCCCCCCCCceEEEEecCccH
Confidence            99999999999999999999999    77   7999999999999999988  47999999988773

>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=99.79  E-value=5.5e-19  Score=163.87  Aligned_cols=107  Identities=18%  Similarity=0.292  Sum_probs=94.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-CCcEEEEcCCCCHHHHHHHHHHHhcC-Cce-EEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-GISSTYIYSDLDPTARKINAAKFQTG-KIR-VLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-~~~~~~i~g~~~~~~r~~~~~~F~~g-~~~-iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |+||||+++..++.+...|... |..+..+||+|++.+|.+++++|+++ ..+ +|++|+++++|+|+|.+++||+||+|
T Consensus       343 k~lvF~~~~~~~~~l~~~l~~~~~~~~~~~~g~~~~~~R~~~~~~F~~~~~~~vil~st~~~~~Glnl~~~~~vi~~d~~  422 (500)
T 1z63_A          343 KIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRW  422 (500)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHHTCCCCEEETTSCHHHHHHHHHHHHHCTTCCCCEEECCCC-CCCCCTTCSEEEESSCC
T ss_pred             cEEEEEehHHHHHHHHHHHHHhhCCCeEEEECCCCHHHHHHHHHHhcCCCCCCEEEEecccccCCCchhhCCEEEEeCCC
Confidence            6899999999999999999886 99999999999999999999999999 555 89999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCceE--EEEecCcc
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVA--YSLVSSDE  107 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~--i~l~~~~e  107 (251)
                      |++..|.||+||++|.|+.+.+  +.++....
T Consensus       423 ~~~~~~~Q~~gR~~R~Gq~~~v~v~~lv~~~t  454 (500)
T 1z63_A          423 WNPAVEDQATDRVYRIGQTRNVIVHKLISVGT  454 (500)
T ss_dssp             SCC---CHHHHTTTTTTTTSCEEEEEEEETTS
T ss_pred             CCcchHHHHHHHHHHcCCCCeeEEEEEEeCCC
Confidence            9999999999999999987655  55666553

>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=99.78  E-value=3.1e-19  Score=180.51  Aligned_cols=107  Identities=16%  Similarity=0.169  Sum_probs=101.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecC-C
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNF-P   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~-P   77 (251)
                      |++|||+++.+++.+++.|+..  +..+..+||+|++.+|.+++++|++|+.+|||||+++++|+|+|++++||.++. +
T Consensus       814 qvlvf~~~v~~~~~l~~~L~~~~p~~~v~~lhg~~~~~eR~~il~~F~~g~~~VLVaT~v~e~GiDip~v~~VIi~~~~~  893 (1151)
T 2eyq_A          814 QVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADH  893 (1151)
T ss_dssp             EEEEECCCSSCHHHHHHHHHHHCTTSCEEECCSSCCHHHHHHHHHHHHTTSCCEEEESSTTGGGSCCTTEEEEEETTTTS
T ss_pred             eEEEEECCHHHHHHHHHHHHHhCCCCeEEEEeCCCCHHHHHHHHHHHHcCCCcEEEECCcceeeecccCCcEEEEeCCCC
Confidence            5899999999999999999988  889999999999999999999999999999999999999999999999999998 5


Q ss_pred             CChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      +++..|+||+||+||.|+.|.|++++.+.+
T Consensus       894 ~~l~~l~Qr~GRvgR~g~~g~~~ll~~~~~  923 (1151)
T 2eyq_A          894 FGLAQLHQLRGRVGRSHHQAYAWLLTPHPK  923 (1151)
T ss_dssp             SCHHHHHHHHTTCCBTTBCEEEEEEECCGG
T ss_pred             CCHHHHHHHHhccCcCCCceEEEEEECCcc
Confidence            899999999999999999999999987643

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=99.78  E-value=3.1e-19  Score=165.92  Aligned_cols=102  Identities=19%  Similarity=0.232  Sum_probs=94.1

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEec-cccccccccccccEEEEecCCCCh
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVT-DVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~T-d~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      +||||+ ..+++.+++.|...+..+..+||+|++.+|.++++.|++|+.+||||| +++++|+|+|++++||++++|+++
T Consensus       351 ~ivf~~-~~~~~~l~~~L~~~~~~v~~~~g~~~~~~r~~i~~~f~~g~~~vLv~T~~~~~~GiDip~v~~vi~~~~~~s~  429 (510)
T 2oca_A          351 FVMFKH-VSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFSTGISVKNLHHVVLAHGVKSK  429 (510)
T ss_dssp             EEEESS-HHHHHHHHHHHHTTCSSEEEESSSTTHHHHHHHHHHHHHCCSCEEEEEHHHHHHSCCCCSEEEEEESSCCCSC
T ss_pred             EEEEec-HHHHHHHHHHHHHcCCCeEEEECCCCHHHHHHHHHHHhCCCCCEEEEEcChhhcccccccCcEEEEeCCCCCH
Confidence            567776 888899999999998899999999999999999999999999999999 999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEec
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVS  104 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~  104 (251)
                      ..|.||+||+||.|+.|.++.++.
T Consensus       430 ~~~~Q~~GR~gR~g~~~~~v~i~~  453 (510)
T 2oca_A          430 IIVLQTIGRVLRKHGSKTIATVWD  453 (510)
T ss_dssp             CHHHHHHHHHHTTTCCCCCCEEEE
T ss_pred             HHHHHHHhcccccCCCCceEEEEE
Confidence            999999999999998775555544

>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=99.77  E-value=1.2e-19  Score=167.25  Aligned_cols=101  Identities=24%  Similarity=0.371  Sum_probs=91.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+++..++.+++.|.     +..+||++++.+|.+++++|++|+.+|||||+++++|+|+|++++||++|.|+++
T Consensus       351 k~lvF~~~~~~~~~l~~~l~-----~~~~~g~~~~~~R~~~~~~F~~g~~~vLv~T~~~~~Gldlp~~~~Vi~~~~~~s~  425 (472)
T 2fwr_A          351 KIIIFTRHNELVYRISKVFL-----IPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSA  425 (472)
T ss_dssp             CBCCBCSCHHHHHHHHHHTT-----CCBCCSSSCSHHHHTHHHHHHHSSCSBCBCSSCCCSSSCSCCBSEEEEECCSSCC
T ss_pred             cEEEEECCHHHHHHHHHHhC-----cceeeCCCCHHHHHHHHHHHhCCCCCEEEEcCchhcCcccccCcEEEEECCCCCH
Confidence            68999999999999999883     5679999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCC-ce--EEEEecCc
Q psy18034         81 KLFVHRVGRCARAGRS-GV--AYSLVSSD  106 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~-g~--~i~l~~~~  106 (251)
                      ..|+||+||+||.|+. +.  .+.+++.+
T Consensus       426 ~~~~Q~~GR~~R~g~~k~~~~i~~lv~~~  454 (472)
T 2fwr_A          426 REYIQRLGRILRPSKGKKEAVLYELISRG  454 (472)
T ss_dssp             HHHHHHHHHSBCCCTTTCCEEEEEEEECS
T ss_pred             HHHHHHHhhccCCCCCCceEEEEEEEeCC
Confidence            9999999999999854 34  44556543

>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=99.76  E-value=1.1e-19  Score=177.02  Aligned_cols=109  Identities=17%  Similarity=0.191  Sum_probs=96.2

Q ss_pred             CEEEEcCcH--------HHHHHHHHHHHh---CCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccccccccccccc
Q psy18034          1 MTVVFTATK--------YHVEYVHKILGL---AGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~--------~~~~~l~~~L~~---~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~   69 (251)
                      |++|||++.        ..++.+++.|..   .++.+..+||+|++.+|..++++|++|+.+|||||+++++|+|+|+++
T Consensus       580 qvlVf~~~ie~se~l~~~~a~~l~~~L~~~~~~~~~v~~lHG~m~~~eR~~v~~~F~~G~~~ILVaT~vie~GIDiP~v~  659 (780)
T 1gm5_A          580 QAFIVYPLIEESDKLNVKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRAN  659 (780)
T ss_dssp             CBCCBCCCC--------CHHHHHHHSGGGSCC---CBCCCCSSSCCSCSHHHHHHHTTTSSSBCCCSSCCCSCSCCTTCC
T ss_pred             cEEEEecchhhhhhhhHHHHHHHHHHHHhhhcCCCcEEEEeCCCCHHHHHHHHHHHHCCCCeEEEECCCCCccccCCCCC
Confidence            578999865        457888999988   478899999999999999999999999999999999999999999999


Q ss_pred             EEEEecCCC-ChhhHHHHhhhcccCCCCceEEEEecCccHH
Q psy18034         70 AVINYNFPC-KAKLFVHRVGRCARAGRSGVAYSLVSSDELC  109 (251)
Q Consensus        70 ~VI~~d~P~-~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~  109 (251)
                      +||++|.|. +...|.||+||+||.|+.|.|++++.+.+..
T Consensus       660 ~VIi~d~~r~~l~~l~Qr~GRaGR~g~~g~~ill~~~~~~~  700 (780)
T 1gm5_A          660 VMVIENPERFGLAQLHQLRGRVGRGGQEAYCFLVVGDVGEE  700 (780)
T ss_dssp             EEEBCSCSSSCTTHHHHHHHTSCCSSTTCEEECCCCSCCHH
T ss_pred             EEEEeCCCCCCHHHHHHHhcccCcCCCCCEEEEEECCCChH
Confidence            999999995 7889999999999999999999998754433

>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=99.76  E-value=3.3e-18  Score=164.02  Aligned_cols=106  Identities=10%  Similarity=0.160  Sum_probs=98.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCce---EEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIR---VLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~---iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |+||||++...++.+...|...|+.+..+||+|++.+|.+++++|+++...   +|++|+++++|+|++.+++||+||+|
T Consensus       418 k~lIFs~~~~~~~~l~~~l~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~L~st~a~g~Glnl~~a~~Vi~~d~~  497 (644)
T 1z3i_X          418 KVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPD  497 (644)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHTCCEEEECSSCCHHHHHHHHHHHHSTTCCCCEEEEEGGGSCTTCCCTTEEEEEECSCC
T ss_pred             EEEEEEccHHHHHHHHHHHHHCCCCEEEEeCCCCHHHHHHHHHHhcCCCCCcEEEEEecccccCCcccccCCEEEEECCC
Confidence            689999999999999999999999999999999999999999999998764   89999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCce--EEEEecCc
Q psy18034         78 CKAKLFVHRVGRCARAGRSGV--AYSLVSSD  106 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~--~i~l~~~~  106 (251)
                      ||+..+.|++||++|.|+...  ++.+++..
T Consensus       498 wnp~~~~Qa~gR~~R~Gq~~~v~v~~lv~~~  528 (644)
T 1z3i_X          498 WNPANDEQAMARVWRDGQKKTCYIYRLLSTG  528 (644)
T ss_dssp             SSHHHHHHHHTTSSSTTCCSCEEEEEEEETT
T ss_pred             CCccHHHHHHHhhhhcCCCCceEEEEEEECC
Confidence            999999999999999998764  45566655

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=99.75  E-value=2.3e-18  Score=163.14  Aligned_cols=94  Identities=20%  Similarity=0.264  Sum_probs=85.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCC--------cEEEEcCCCCHHHHHHHHHHHhcCCce---EEEecccccccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGI--------SSTYIYSDLDPTARKINAAKFQTGKIR---VLVVTDVAARGIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~--------~~~~i~g~~~~~~r~~~~~~F~~g~~~---iLv~Td~~~~Gldi~~v~   69 (251)
                      |+||||+++.+++.+++.|...+.        .+..+||++++ +|..++++|++|+.+   |||||+++++|+|+|.++
T Consensus       441 k~lVF~~~~~~a~~l~~~L~~~~~~~~~~~~~~~~~i~g~~~~-~r~~~l~~F~~~~~~~~~ilvtt~~l~~GiDip~v~  519 (590)
T 3h1t_A          441 KTIVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTSEEGK-IGKGHLSRFQELETSTPVILTTSQLLTTGVDAPTCK  519 (590)
T ss_dssp             EEEEEESSHHHHHHHHHHHHHHTHHHHTTCTTSEEECSSTTHH-HHHHHHHHHHCTTCCCCCEEEESSTTTTTCCCTTEE
T ss_pred             cEEEEECCHHHHHHHHHHHHHhhhhhhccCCCeEEEEeCCChH-HHHHHHHHHhCCCCCCCEEEEECChhhcCccchhee
Confidence            589999999999999999987643        27789999864 799999999998876   899999999999999999


Q ss_pred             EEEEecCCCChhhHHHHhhhcccCCC
Q psy18034         70 AVINYNFPCKAKLFVHRVGRCARAGR   95 (251)
Q Consensus        70 ~VI~~d~P~~~~~y~qr~GR~gR~g~   95 (251)
                      +||++++|+++..|+||+||+||.|.
T Consensus       520 ~Vi~~~~~~s~~~~~Q~iGR~~R~~~  545 (590)
T 3h1t_A          520 NVVLARVVNSMSEFKQIVGRGTRLRE  545 (590)
T ss_dssp             EEEEESCCCCHHHHHHHHTTSCCCBG
T ss_pred             EEEEEecCCChHHHHHHHhhhcccCc
Confidence            99999999999999999999999874

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=99.74  E-value=9.4e-18  Score=167.57  Aligned_cols=114  Identities=21%  Similarity=0.281  Sum_probs=95.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCC---------------------------------------cEEEEcCCCCHHHHHHH
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGI---------------------------------------SSTYIYSDLDPTARKIN   41 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~---------------------------------------~~~~i~g~~~~~~r~~~   41 (251)
                      ++||||+|+..|+.++..|...|+                                       .+..+||+|++.+|..+
T Consensus       338 ~~IVF~~sr~~~e~la~~L~~~~~~~~~e~~~i~~~~~~~~~~l~~~d~~l~~~~~l~~~l~~gi~~~H~gl~~~~R~~v  417 (997)
T 4a4z_A          338 PMVVFVFSKKRCEEYADWLEGINFCNNKEKSQIHMFIEKSITRLKKEDRDLPQILKTRSLLERGIAVHHGGLLPIVKELI  417 (997)
T ss_dssp             SEEEECSCHHHHHHHHHTTTTCCCCCHHHHHHHHHHHHHHHTTSCHHHHTCHHHHHHHHHHTTTEEEECTTSCHHHHHHH
T ss_pred             CEEEEECCHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhcchhhhcchhHHHHHHHhhcCeeeecCCCCHHHHHHH
Confidence            589999999999999999987665                                       57899999999999999


Q ss_pred             HHHHhcCCceEEEeccccccccccccccEEE--------EecCCCChhhHHHHhhhcccCC--CCceEEEEec--CccHH
Q psy18034         42 AAKFQTGKIRVLVVTDVAARGIDIPSLDAVI--------NYNFPCKAKLFVHRVGRCARAG--RSGVAYSLVS--SDELC  109 (251)
Q Consensus        42 ~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI--------~~d~P~~~~~y~qr~GR~gR~g--~~g~~i~l~~--~~e~~  109 (251)
                      ++.|+.|.++|||||+++++|+|+|++.+|+        +++.|.++..|+||+|||||.|  ..|.++.++.  ..+..
T Consensus       418 ~~~F~~G~~kVLvAT~~~a~GIDiP~~~VVi~~~~k~dg~~~~~~s~~~y~Qr~GRAGR~G~~~~G~vi~l~~~~~~~~~  497 (997)
T 4a4z_A          418 EILFSKGFIKVLFATETFAMGLNLPTRTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRRGLDSTGTVIVMAYNSPLSIA  497 (997)
T ss_dssp             HHHHHTTCCSEEEECTHHHHSCCCCCSEEEESCSEEEETTEEEECCHHHHHHHHGGGCCTTTCSSEEEEEECCSSCCCHH
T ss_pred             HHHHHCCCCcEEEEchHhhCCCCCCCceEEEeccccccCccCCCCCHHHHhHHhcccccCCCCcceEEEEecCCCcchHH
Confidence            9999999999999999999999999955555        2334449999999999999998  4677777773  33444


Q ss_pred             HHHHH
Q psy18034        110 YYLDL  114 (251)
Q Consensus       110 ~~~~i  114 (251)
                      .+..+
T Consensus       498 ~~~~~  502 (997)
T 4a4z_A          498 TFKEV  502 (997)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55444

>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces cerevisiae}

Probab=99.71  E-value=2.5e-17  Score=161.46  Aligned_cols=119  Identities=18%  Similarity=0.274  Sum_probs=104.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCce---EEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIR---VLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~---iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |+||||.....++.|...|...|+.+..+||++++.+|..++++|+++...   +|++|+++++|+|++.+++||+||+|
T Consensus       574 kvLIFsq~~~~ld~L~~~L~~~g~~~~~i~G~~~~~eR~~~i~~F~~~~~~~~v~LlSt~agg~GlNL~~a~~VI~~D~~  653 (800)
T 3mwy_W          574 RVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSD  653 (800)
T ss_dssp             CEEEEESCHHHHHHHHHHHHHHTCCCEEESTTSCHHHHHHHHHTTSSTTCSCCCEEEEHHHHTTTCCCTTCCEEEESSCC
T ss_pred             eEEEEechHHHHHHHHHHHHhCCCCEEEEeCCCCHHHHHHHHHHhhCCCCCceEEEEecccccCCCCccccceEEEecCC
Confidence            689999999999999999999999999999999999999999999997554   99999999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCce--EEEEecCc--cHHHHHHHHHHhC
Q psy18034         78 CKAKLFVHRVGRCARAGRSGV--AYSLVSSD--ELCYYLDLLLFLG  119 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~--~i~l~~~~--e~~~~~~i~~~l~  119 (251)
                      |||..+.||+||++|.|+...  ++.|++..  |...+......+.
T Consensus       654 wnp~~~~Qa~gR~~RiGQ~k~V~Vyrlv~~~TiEe~i~~~~~~K~~  699 (800)
T 3mwy_W          654 WNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMI  699 (800)
T ss_dssp             SCSHHHHHHHTTTSCSSCCSCEEEEEEEETTSHHHHHHHHHHHHTT
T ss_pred             CChhhHHHHHHHHHhcCCCceEEEEEEecCCCHHHHHHHHHHHHHH
Confidence            999999999999999998754  45566654  4445544444443

>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=99.66  E-value=2.6e-16  Score=163.98  Aligned_cols=114  Identities=16%  Similarity=0.264  Sum_probs=99.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----------------------------------CCcEEEEcCCCCHHHHHHHHHHHh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----------------------------------GISSTYIYSDLDPTARKINAAKFQ   46 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----------------------------------~~~~~~i~g~~~~~~r~~~~~~F~   46 (251)
                      ++||||+|+..|+.++..|...                                  ..++.++||+|++.+|..+.+.|+
T Consensus      1157 ~~lVF~~sR~~~~~~A~~L~~~~~~~~~~~~~~~~~~~~l~~~l~~~~d~~L~~~l~~GIa~hHagL~~~~R~~VE~lF~ 1236 (1724)
T 4f92_B         1157 PVIVFVPSRKQTRLTAIDILTTCAADIQRQRFLHCTEKDLIPYLEKLSDSTLKETLLNGVGYLHEGLSPMERRLVEQLFS 1236 (1724)
T ss_dssp             CEEEEESSHHHHHHHHHHHHHHHHHTTCTTTTBCSCHHHHHHHHTTCCCHHHHHHHHTTEEEECTTSCHHHHHHHHHHHH
T ss_pred             CeeeeCCCHHHHHHHHHHHHHHHhhccchhhhhcccHHHHHHHHhhcccHHHHHHHhCCEEEECCCCCHHHHHHHHHHHH
Confidence            4899999999999887766321                                  245889999999999999999999


Q ss_pred             cCCceEEEeccccccccccccccEEEE----e------cCCCChhhHHHHhhhcccCCC--CceEEEEecCccHHHHHHH
Q psy18034         47 TGKIRVLVVTDVAARGIDIPSLDAVIN----Y------NFPCKAKLFVHRVGRCARAGR--SGVAYSLVSSDELCYYLDL  114 (251)
Q Consensus        47 ~g~~~iLv~Td~~~~Gldi~~v~~VI~----~------d~P~~~~~y~qr~GR~gR~g~--~g~~i~l~~~~e~~~~~~i  114 (251)
                      +|.++|||||+.+++|+|+|...+||.    |      ..|.++..|.||+|||||.|.  .|.+++++.+.+..++..+
T Consensus      1237 ~G~i~VLvaT~tlA~GVnlPa~~VVI~~~~~~dg~~~~~~~~s~~~~~Qm~GRAGR~g~d~~G~avll~~~~~~~~~~~l 1316 (1724)
T 4f92_B         1237 SGAIQVVVASRSLCWGMNVAAHLVIIMDTQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFFKKF 1316 (1724)
T ss_dssp             HTSBCEEEEEGGGSSSCCCCBSEEEEECSEEEETTTTEEEECCHHHHHHHHTTBCCTTTCSCEEEEEEEEGGGHHHHHHH
T ss_pred             CCCCeEEEEChHHHcCCCCCccEEEEecCccccCcccccCCCCHHHHHHhhccccCCCCCCceEEEEEecchHHHHHHHH
Confidence            999999999999999999999999993    3      347789999999999999987  6999999998887776543

>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=99.64  E-value=3.2e-16  Score=163.33  Aligned_cols=114  Identities=23%  Similarity=0.331  Sum_probs=99.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-------------------------------------CCcEEEEcCCCCHHHHHHHHH
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-------------------------------------GISSTYIYSDLDPTARKINAA   43 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-------------------------------------~~~~~~i~g~~~~~~r~~~~~   43 (251)
                      ++||||+|+..|+.+++.|...                                     ..+++++||+|++.+|..+.+
T Consensus       319 ~~LVF~~sR~~~~~~A~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Gva~HHagL~~~~R~~vE~  398 (1724)
T 4f92_B          319 QVLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSASTEVLRTEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLVED  398 (1724)
T ss_dssp             CEEEECSSTTTTHHHHHHHHHHHHHTTSTTCCSSCCTTCSSHHHHTTSCCSTHHHHHHTTTTEEEECSSSCTHHHHHHHH
T ss_pred             cEEEECCCHHHHHHHHHHHHHHHhhccchhhhcccchhHHHHHHhhhcccccHHHHHHhhcCEEEEcCCCCHHHHHHHHH
Confidence            5899999999888888777531                                     235889999999999999999


Q ss_pred             HHhcCCceEEEeccccccccccccccEEEE----ec------CCCChhhHHHHhhhcccCCC--CceEEEEecCccHHHH
Q psy18034         44 KFQTGKIRVLVVTDVAARGIDIPSLDAVIN----YN------FPCKAKLFVHRVGRCARAGR--SGVAYSLVSSDELCYY  111 (251)
Q Consensus        44 ~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~----~d------~P~~~~~y~qr~GR~gR~g~--~g~~i~l~~~~e~~~~  111 (251)
                      .|++|.++|||||+.++.|+|+|..++||.    ||      .|.++..|.||+|||||.|.  .|.++.+..+.+..++
T Consensus       399 ~F~~G~i~vlvaTsTLa~GVNlPa~~vVI~~~~~~~~~~~~~~~ls~~~~~Qm~GRAGR~g~d~~G~~ii~~~~~~~~~~  478 (1724)
T 4f92_B          399 LFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYY  478 (1724)
T ss_dssp             HHHTTCCCEEEECHHHHHHSCCCBSEEEEECCEEEETTTTEEEECCHHHHHHHHTTBSCTTTCSCEEEEEEEESTTCCHH
T ss_pred             HHHCCCCeEEEEcchhHhhCCCCCceEEEeCCEEecCcCCCcccCCHHHHHHhhhhccCCCCCCccEEEEEecchhHHHH
Confidence            999999999999999999999999999995    55      35689999999999999874  6999999999888877


Q ss_pred             HHH
Q psy18034        112 LDL  114 (251)
Q Consensus       112 ~~i  114 (251)
                      ..+
T Consensus       479 ~~l  481 (1724)
T 4f92_B          479 LSL  481 (1724)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system, helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP; 2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*

Probab=99.48  E-value=1.8e-13  Score=136.78  Aligned_cols=118  Identities=13%  Similarity=0.111  Sum_probs=93.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC------------CcEEE-EcCC----------C----------CHH-----------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG------------ISSTY-IYSD----------L----------DPT-----------   36 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~------------~~~~~-i~g~----------~----------~~~-----------   36 (251)
                      ++||||+|+.+|..+++.|...+            +.+.. +||+          +          ++.           
T Consensus       539 kamVf~~S~~~A~~~~~~l~~~~~~~~~~~~~~~~~k~avv~s~~~~~~~~~~G~~~~e~~~~~~~~~~~r~~l~~~I~d  618 (1038)
T 2w00_A          539 NAMLAVSSVDAAKAYYATFKRLQEEAANKSATYKPLRIATIFSFAANEEQNAIGEISDETFDTSAMDSSAKEFLDAAIRE  618 (1038)
T ss_dssp             EEEEEESSHHHHHHHHHHHHHHHHHHTTTSSSCCCCCEEEECCCCC------CCCCCCCCSCGGGSCHHHHHHHHHHHHH
T ss_pred             cEEEEECCHHHHHHHHHHHHhhhhhhcccccccccCcEEEEEeCCCccccccccccccccccccccchhHHHHHHHHHHH
Confidence            48999999999999999998764            55544 4442          2          222           


Q ss_pred             ------------------HHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCChhhHHHHhhhcccCCCC--
Q psy18034         37 ------------------ARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRS--   96 (251)
Q Consensus        37 ------------------~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~~~y~qr~GR~gR~g~~--   96 (251)
                                        .|..++++|++|+++|||+||++.+|+|+|.+ +++++|.|.+...|+|++||++|.+..  
T Consensus       619 yn~~f~~~~~~~~~~~~~~R~~i~~~Fk~g~i~ILIvvd~lltGfDiP~l-~tlylDkpl~~~~liQaIGRtnR~~~~~K  697 (1038)
T 2w00_A          619 YNSHFKTNFSTDSNGFQNYYRDLAQRVKNQDIDLLIVVGMFLTGFDAPTL-NTLFVDKNLRYHGLMQAFSRTNRIYDATK  697 (1038)
T ss_dssp             HHHHHTCCCCSSHHHHHHHHHHHHHHHHTTSSSEEEESSTTSSSCCCTTE-EEEEEESCCCHHHHHHHHHTTCCCCCTTC
T ss_pred             HHHHhcccccccchhhhHHHHHHHHHHHcCCCeEEEEcchHHhCcCcccc-cEEEEccCCCccceeehhhccCcCCCCCC
Confidence                              47889999999999999999999999999999 789999999999999999999998753  


Q ss_pred             --ceEEEEecCccHHHHHHHHHHhCC
Q psy18034         97 --GVAYSLVSSDELCYYLDLLLFLGR  120 (251)
Q Consensus        97 --g~~i~l~~~~e~~~~~~i~~~l~~  120 (251)
                        |.++.|+.. .......+..+.+.
T Consensus       698 ~~G~IVdf~~~-~~~l~~Al~~y~~~  722 (1038)
T 2w00_A          698 TFGNIVTFRDL-ERSTIDAITLFGDK  722 (1038)
T ss_dssp             CSEEEEESSCC-HHHHHHHHHHTSCS
T ss_pred             CcEEEEEcccc-HHHHHHHHHHHhCC
Confidence              777777653 23333445545443

>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}

Probab=98.51  E-value=1.6e-07  Score=88.03  Aligned_cols=98  Identities=17%  Similarity=0.221  Sum_probs=62.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEE--ecccccccccccc----ccEEEEe
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLV--VTDVAARGIDIPS----LDAVINY   74 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv--~Td~~~~Gldi~~----v~~VI~~   74 (251)
                      +++|||+|....+.+++.|..  .. ..++|..  .+|.+.++.|+.+. .||+  +|+.+++|+|+|+    +++||++
T Consensus       386 ~~lvff~S~~~~~~v~~~l~~--~~-~~~q~~~--~~~~~~l~~f~~~~-~il~~V~~~~~~EGiD~~~~~~~~~~Vii~  459 (540)
T 2vl7_A          386 SVLVFFPSYEMLESVRIHLSG--IP-VIEENKK--TRHEEVLELMKTGK-YLVMLVMRAKESEGVEFREKENLFESLVLA  459 (540)
T ss_dssp             EEEEEESCHHHHHHHHTTCTT--SC-EEESTTT--CCHHHHHHHHHTSC-CEEEEEC---------------CEEEEEEE
T ss_pred             CEEEEeCCHHHHHHHHHHhcc--Cc-eEecCCC--CcHHHHHHHHhcCC-eEEEEEecCceecceecCCCcccccEEEEE
Confidence            379999999999999998865  23 4566664  46888999999864 5776  8999999999997    8999999


Q ss_pred             cCCCC-h-----------------------------hhHHHHhhhcccCCCCceEEEEec
Q psy18034         75 NFPCK-A-----------------------------KLFVHRVGRCARAGRSGVAYSLVS  104 (251)
Q Consensus        75 d~P~~-~-----------------------------~~y~qr~GR~gR~g~~g~~i~l~~  104 (251)
                      ++|.. +                             ..+.|.+||+-|....--++.++.
T Consensus       460 ~lPf~~~~d~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~Q~~GR~iR~~~D~g~v~llD  519 (540)
T 2vl7_A          460 GLPYPNVSDDMVRKRIERLSKLTGKDEDSIIHDLTAIVIKQTIGRAFRDPNDYVKIYLCD  519 (540)
T ss_dssp             SCCCCCTTSHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHCCSTTCCCEEEEES
T ss_pred             CCCCCCCCCHHHHHHHHHHHHhhCCChhHHHHHHHHHHHHHHhCCcccCCCccEEEEEEc
Confidence            99832 1                             234588899888654433344443

>2ipc_A Preprotein translocase SECA subunit; nucleotide binding fold, ATPase, parallel dimer; 2.80A {Thermus thermophilus}

Probab=97.98  E-value=2.6e-05  Score=76.30  Aligned_cols=38  Identities=24%  Similarity=0.227  Sum_probs=34.1

Q ss_pred             EEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         70 AVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        70 ~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      +||--..+.|...=.|-.||+||-|.+|.+-.+++-++
T Consensus       662 hVIGTeRhESrRIDnQLRGRaGRQGDPGsSrF~LSLeD  699 (997)
T 2ipc_A          662 FIIGTERHESRRIDNQLRGRAGRQGDPGGSRFYVSFDD  699 (997)
T ss_dssp             CEEESSCCSSHHHHHHHHHTSSCSSCCCEEEEEEESSS
T ss_pred             EEEeccCCchHHHHHHHhcccccCCCCCCeEEEEECCh
Confidence            79999999999999999999999999999988877554

>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=97.65  E-value=0.0003  Score=61.43  Aligned_cols=104  Identities=9%  Similarity=-0.012  Sum_probs=75.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccc-----cccccEEEEec
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGID-----IPSLDAVINYN   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gld-----i~~v~~VI~~d   75 (251)
                      |++||++.....+.+..+|...|+....+.|.....++.     -.+....+.+.|...+-|+|     +...+.||-||
T Consensus       127 kVLIfsq~t~~LDilE~~l~~~~~~y~RlDG~~~~~~~k-----~~~~~~~i~Lltsag~~gin~~~~nl~~aD~VI~~D  201 (328)
T 3hgt_A          127 ETAIVCRPGRTMDLLEALLLGNKVHIKRYDGHSIKSAAA-----ANDFSCTVHLFSSEGINFTKYPIKSKARFDMLICLD  201 (328)
T ss_dssp             EEEEEECSTHHHHHHHHHHTTSSCEEEESSSCCC------------CCSEEEEEEESSCCCTTTSCCCCCSCCSEEEECS
T ss_pred             EEEEEECChhHHHHHHHHHhcCCCceEeCCCCchhhhhh-----cccCCceEEEEECCCCCCcCcccccCCCCCEEEEEC
Confidence            689999999999999999999999999999986543221     12455666666777777776     67889999999


Q ss_pred             CCCChhhH-HHHhhhcccCC--C--CceEEEEecCccHH
Q psy18034         76 FPCKAKLF-VHRVGRCARAG--R--SGVAYSLVSSDELC  109 (251)
Q Consensus        76 ~P~~~~~y-~qr~GR~gR~g--~--~g~~i~l~~~~e~~  109 (251)
                      .-|++..= +|.+-|+.|.|  +  .-.++-+++..-.+
T Consensus       202 sdwNp~~d~iQa~~r~~R~~~gq~k~v~V~RLvt~~TiE  240 (328)
T 3hgt_A          202 TTVDTSQKDIQYLLQYKRERKGLERYAPIVRLVAINSID  240 (328)
T ss_dssp             TTCCTTSHHHHHHHCCC---------CCEEEEEETTSHH
T ss_pred             CCCCCCChHHHHHHHHhhhccCCCCcceEEEEeCCCCHH
Confidence            99999985 89888888873  2  34667777766544

>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase, nucleotide excision repair,; 2.20A {Thermoplasma acidophilum} PDB: 2vsf_A*

Probab=97.30  E-value=0.0007  Score=64.34  Aligned_cols=74  Identities=18%  Similarity=0.278  Sum_probs=52.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc--ccccccccc--cccEEEEecC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD--VAARGIDIP--SLDAVINYNF   76 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td--~~~~Gldi~--~v~~VI~~d~   76 (251)
                      .++||++|....+.+++.|+.  .... ...+|+..++...+++|+ ++-.||++|.  .+.+|+|+|  .+.+||-..+
T Consensus       450 ~~lvlF~Sy~~l~~v~~~l~~--~~~~-~~q~~~~~~~~~ll~~f~-~~~~vL~~v~~gsf~EGiD~~g~~l~~viI~~l  525 (620)
T 4a15_A          450 NTIVYFPSYSLMDRVENRVSF--EHMK-EYRGIDQKELYSMLKKFR-RDHGTIFAVSGGRLSEGINFPGNELEMIILAGL  525 (620)
T ss_dssp             CEEEEESCHHHHHHHTSSCCS--CCEE-CCTTCCSHHHHHHHHHHT-TSCCEEEEETTSCC--------CCCCEEEESSC
T ss_pred             CEEEEeCCHHHHHHHHHHHHh--cchh-ccCCCChhHHHHHHHHhc-cCCcEEEEEecCceeccccCCCCceEEEEEEcC
Confidence            378999999999999888862  2322 555666778999999999 8888999974  899999998  5678998887


Q ss_pred             CC
Q psy18034         77 PC   78 (251)
Q Consensus        77 P~   78 (251)
                      |.
T Consensus       526 Pf  527 (620)
T 4a15_A          526 PF  527 (620)
T ss_dssp             CC
T ss_pred             CC
Confidence            73

>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer aging, hydrolase; HET: FLC; 2.00A {Sulfolobus acidocaldarius} PDB: 3crw_1*

Probab=96.31  E-value=0.03  Score=52.11  Aligned_cols=71  Identities=11%  Similarity=0.079  Sum_probs=52.0

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEec--cccccccccc-----cccEEEEe
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVT--DVAARGIDIP-----SLDAVINY   74 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~T--d~~~~Gldi~-----~v~~VI~~   74 (251)
                      ++||++|....+.+++.   .+..+..-..+++.   ...++.|+.....||++|  ..+.+|+|+|     .+.+||-.
T Consensus       396 ~lvlF~Sy~~l~~v~~~---~~~~v~~q~~~~~~---~~~~~~~~~~~~~vl~~v~gg~~~EGiD~~d~~g~~l~~viI~  469 (551)
T 3crv_A          396 VLVVFPSYEIMDRVMSR---ISLPKYVESEDSSV---EDLYSAISANNKVLIGSVGKGKLAEGIELRNNDRSLISDVVIV  469 (551)
T ss_dssp             EEEEESCHHHHHHHHTT---CCSSEEECCSSCCH---HHHHHHTTSSSSCEEEEESSCCSCCSSCCEETTEESEEEEEEE
T ss_pred             EEEEecCHHHHHHHHHh---cCCcEEEcCCCCCH---HHHHHHHHhcCCeEEEEEecceecccccccccCCcceeEEEEE
Confidence            79999999998888873   35455433335554   446777854445899998  6999999999     47888887


Q ss_pred             cCCC
Q psy18034         75 NFPC   78 (251)
Q Consensus        75 d~P~   78 (251)
                      .+|.
T Consensus       470 ~lPf  473 (551)
T 3crv_A          470 GIPY  473 (551)
T ss_dssp             SCCC
T ss_pred             cCCC
Confidence            7763

>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A {Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19 c.37.1.19

Probab=96.29  E-value=0.011  Score=57.70  Aligned_cols=73  Identities=15%  Similarity=0.171  Sum_probs=62.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-cccccccccccEEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-AARGIDIPSLDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-~~~Gldi~~v~~VI~   73 (251)
                      +++|.++|+.-+.+.++.+...    |+.+..+||+++..++...++...+|..+|+|+|.. +...+++.+++.||-
T Consensus       419 qvlvlaPtr~La~Q~~~~l~~~~~~~gi~v~~l~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~~~~~~l~lVVI  496 (780)
T 1gm5_A          419 QTAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALIQEDVHFKNLGLVII  496 (780)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHHTCSSCCEEECCSSSCHHHHHHHHHHHHSSCCCEEEECTTHHHHCCCCSCCCEEEE
T ss_pred             eEEEEeCcHHHHHHHHHHHHHHhhhcCceEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHhhhhhccCCceEEe
Confidence            6899999999888888777654    789999999999999999999999999999999964 344577888888774

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=95.75  E-value=0.023  Score=50.43  Aligned_cols=73  Identities=14%  Similarity=0.132  Sum_probs=60.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHh---CCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccc----cccccccccEEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGL---AGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA----RGIDIPSLDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~---~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~----~Gldi~~v~~VI~   73 (251)
                      ++||.++|+.-+.++++.++.   .|+.+..+||+.+..++...++.+..|..+|+|+|+-.-    .-++...+++||-
T Consensus        66 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~~~~l~~~~~~Iiv~Tp~~l~~~l~~~~~~~~~~iVi  145 (414)
T 3oiy_A           66 KSALVFPTVTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSKNREKLSQKRFDFVFV  145 (414)
T ss_dssp             CEEEEESSHHHHHHHHHHHHHHCCSSCCEEECCTTSCHHHHHHHHHHHHHTCCSEEEEEHHHHHHCHHHHTTCCCSEEEE
T ss_pred             EEEEEECCHHHHHHHHHHHHHHccCCceEEEEECCCChhhHHHHHHHhhcCCCCEEEECHHHHHHHHHHhccccccEEEE
Confidence            589999999999999999988   588999999999999999999999999999999996322    1144557777764

>4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A

Probab=94.24  E-value=0.08  Score=53.52  Aligned_cols=73  Identities=14%  Similarity=0.143  Sum_probs=61.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHh---CCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccc-c---ccccccccEEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGL---AGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA-R---GIDIPSLDAVIN   73 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~---~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~-~---Gldi~~v~~VI~   73 (251)
                      ++||.++|+.-+.++++.++.   .++.+..+||+++..+|...++.+..|..+|+|+|.-.- +   -+++..+++||-
T Consensus       123 ~~Lil~PtreLa~Q~~~~l~~l~~~~i~v~~l~Gg~~~~er~~~~~~l~~g~~~IlV~Tp~rL~~~l~~l~~~~l~~lVi  202 (1104)
T 4ddu_A          123 KSALVFPTVTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFSTQFVSKNREKLSQKRFDFVFV  202 (1104)
T ss_dssp             CEEEEESSHHHHHHHHHHHHTTSCTTSCEEEECTTCCTTHHHHHHHHHHTSCCSEEEEEHHHHHHSHHHHHTSCCSEEEE
T ss_pred             eEEEEechHHHHHHHHHHHHHhhCCCCeEEEEeCCCCHHHHHHHHHHHhCCCCCEEEECHHHHHHHHHhhcccCcCEEEE
Confidence            589999999999999999998   477999999999998899999999999999999996221 1   144567887774

>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase, hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP: b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19 d.315.1.1

Probab=94.21  E-value=0.11  Score=52.78  Aligned_cols=72  Identities=15%  Similarity=0.126  Sum_probs=60.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-ccccccccccccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-VAARGIDIPSLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-~~~~Gldi~~v~~VI   72 (251)
                      +++|.|+|+.-+.+.++.+...    ++.+..++|..+..++...++....|..+|+|+|. .+...+.+.++++||
T Consensus       654 ~vlvlvPt~~La~Q~~~~~~~~~~~~~i~v~~l~~~~~~~~~~~~~~~l~~g~~dIvV~T~~ll~~~~~~~~l~lvI  730 (1151)
T 2eyq_A          654 QVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLI  730 (1151)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHHHHHHHHHHTTCCSEEEECTHHHHSCCCCSSEEEEE
T ss_pred             eEEEEechHHHHHHHHHHHHHHhhcCCCeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHhCCccccccceEE
Confidence            5799999999998888887643    67899999999999999999999999999999994 455557777777666

>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=94.10  E-value=0.26  Score=39.38  Aligned_cols=69  Identities=10%  Similarity=0.111  Sum_probs=50.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc------cccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA------ARGIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~------~~Gldi~~v~   69 (251)
                      ++||.|+|+.-++++++.++..     +..+..++|+.+...+..   .+..+..+|+|+|.-.      ...+++..++
T Consensus        84 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~---~~~~~~~~i~v~T~~~l~~~~~~~~~~~~~~~  160 (220)
T 1t6n_A           84 SVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEE---VLKKNCPHIVVGTPGRILALARNKSLNLKHIK  160 (220)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHTTTSTTCCEEEESCCSCHHHHHH---HHHHSCCSEEEECHHHHHHHHHTTSSCCTTCC
T ss_pred             EEEEEeCCHHHHHHHHHHHHHHHhhCCCceEEEEeCCCChHHHHH---HHhcCCCCEEEeCHHHHHHHHHhCCCCcccCC
Confidence            5899999999999998888765     788999999988766544   4455677999999521      1234556666


Q ss_pred             EEE
Q psy18034         70 AVI   72 (251)
Q Consensus        70 ~VI   72 (251)
                      +||
T Consensus       161 ~lV  163 (220)
T 1t6n_A          161 HFI  163 (220)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            655

>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=93.68  E-value=0.26  Score=40.28  Aligned_cols=68  Identities=12%  Similarity=0.195  Sum_probs=49.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----cccc-ccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAAR-GIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~-Gldi~~v~~   70 (251)
                      ++||.|+|+.-+.++++.++..    ++.+..++|+.+.......+..    ..+|+|+|.     .+.+ .+++..+++
T Consensus       104 ~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~----~~~I~v~Tp~~l~~~l~~~~~~~~~~~~  179 (242)
T 3fe2_A          104 ICLVLAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLER----GVEICIATPGRLIDFLECGKTNLRRTTY  179 (242)
T ss_dssp             SEEEECSSHHHHHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHH----CCSEEEECHHHHHHHHHHTSCCCTTCCE
T ss_pred             EEEEEeCcHHHHHHHHHHHHHHHhhcCceEEEEECCCChHHHHHHhcC----CCCEEEECHHHHHHHHHcCCCCcccccE
Confidence            4899999999999887777654    8899999999987766554433    478999995     2222 245666666


Q ss_pred             EE
Q psy18034         71 VI   72 (251)
Q Consensus        71 VI   72 (251)
                      ||
T Consensus       180 lV  181 (242)
T 3fe2_A          180 LV  181 (242)
T ss_dssp             EE
T ss_pred             EE
Confidence            55

>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=93.39  E-value=0.19  Score=46.42  Aligned_cols=57  Identities=19%  Similarity=0.219  Sum_probs=53.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      ++||.++++.-+....+.|+..|+.+..++|+.+..++.........|..+|+++|+
T Consensus        67 ~~lvi~P~~aL~~q~~~~l~~~gi~~~~l~~~~~~~~~~~~~~~~~~~~~~ilv~Tp  123 (523)
T 1oyw_A           67 LTVVVSPLISLMKDQVDQLQANGVAAACLNSTQTREQQLEVMTGCRTGQIRLLYIAP  123 (523)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHHTCCSEEEECH
T ss_pred             CEEEECChHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECH
Confidence            378999999999999999999999999999999999999999999999999999995

>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=92.87  E-value=0.2  Score=47.13  Aligned_cols=57  Identities=21%  Similarity=0.231  Sum_probs=52.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHH--hcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKF--QTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F--~~g~~~iLv~Td   57 (251)
                      ++||.++++.-+....+.|...|+.+..++|+++..++...+..+  ..+..+|+++|+
T Consensus        86 ~~lVisP~~~L~~q~~~~l~~~gi~~~~l~~~~~~~~~~~~~~~l~~~~~~~~Ilv~Tp  144 (591)
T 2v1x_A           86 FTLVICPLISLMEDQLMVLKQLGISATMLNASSSKEHVKWVHAEMVNKNSELKLIYVTP  144 (591)
T ss_dssp             EEEEECSCHHHHHHHHHHHHHHTCCEEECCSSCCHHHHHHHHHHHHCTTCCCCEEEECH
T ss_pred             cEEEEeCHHHHHHHHHHHHHhcCCcEEEEeCCCCHHHHHHHHHHhhcccCCCCEEEECh
Confidence            479999999999999999999999999999999999999888888  578899999997

>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=92.69  E-value=0.49  Score=38.96  Aligned_cols=69  Identities=16%  Similarity=0.302  Sum_probs=49.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-----cc--ccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-----AA--RGIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-----~~--~Gldi~~v~   69 (251)
                      ++||.++|+.-+..+++.++..    ++.+..++|+.+...+...+    .+..+|+|+|.-     +.  .++++..++
T Consensus       113 ~~lil~Ptr~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~----~~~~~I~v~Tp~~l~~~l~~~~~~~l~~~~  188 (249)
T 3ber_A          113 FALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLAL----AKKPHIIIATPGRLIDHLENTKGFNLRALK  188 (249)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHHGGGTCCEEEECTTSCHHHHHHHH----HTCCSEEEECHHHHHHHHHHSTTCCCTTCC
T ss_pred             eEEEEeCCHHHHHHHHHHHHHHhccCCeeEEEEECCCChHHHHHHh----cCCCCEEEECHHHHHHHHHcCCCcCccccC
Confidence            4899999999999888877665    78899999998866544332    246789999952     11  245556666


Q ss_pred             EEEE
Q psy18034         70 AVIN   73 (251)
Q Consensus        70 ~VI~   73 (251)
                      +||-
T Consensus       189 ~lVi  192 (249)
T 3ber_A          189 YLVM  192 (249)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            5553

>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=91.94  E-value=0.52  Score=38.09  Aligned_cols=67  Identities=12%  Similarity=0.131  Sum_probs=48.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc------cccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA------ARGIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~------~~Gldi~~v~   69 (251)
                      ++||.|+|+.-+.++++.++..     ++.+..++|+.+..++...+     ...+|+|+|.-.      ...+++..++
T Consensus        94 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-----~~~~Iiv~Tp~~l~~~~~~~~~~~~~~~  168 (230)
T 2oxc_A           94 QILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRL-----KKCHIAVGSPGRIKQLIELDYLNPGSIR  168 (230)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTSTTCCEEEECTTSCHHHHHHHT-----TSCSEEEECHHHHHHHHHTTSSCGGGCC
T ss_pred             eEEEEeCCHHHHHHHHHHHHHHhcccCCceEEEEeCCCCHHHHHHhc-----cCCCEEEECHHHHHHHHhcCCcccccCC
Confidence            5899999999999999888765     67889999998876654433     357899999621      1234555565


Q ss_pred             EEE
Q psy18034         70 AVI   72 (251)
Q Consensus        70 ~VI   72 (251)
                      +||
T Consensus       169 ~lV  171 (230)
T 2oxc_A          169 LFI  171 (230)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            555

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19

Probab=91.81  E-value=0.68  Score=36.36  Aligned_cols=53  Identities=13%  Similarity=0.130  Sum_probs=40.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      ++||.|+|+.-+.++++.++..     +..+..++|+.+..+...   .. .+..+|+|+|.
T Consensus        73 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~-~~~~~i~v~T~  130 (206)
T 1vec_A           73 QAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIM---RL-DDTVHVVIATP  130 (206)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHTTTSSSCCEEEECSSSCHHHHHH---HT-TSCCSEEEECH
T ss_pred             eEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEeCCccHHHHHH---hc-CCCCCEEEeCH
Confidence            5899999999999988887654     578889999987655432   22 35678999996

>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=91.39  E-value=0.72  Score=36.19  Aligned_cols=69  Identities=14%  Similarity=0.099  Sum_probs=48.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-----cc-cccccccccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-----AA-RGIDIPSLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-----~~-~Gldi~~v~~VI   72 (251)
                      ++||.|+|+..+..+++.++..  ++.+..++|+.+.......+.    ...+|+|+|.-     +. ..+++..+++||
T Consensus        74 ~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~i~v~T~~~l~~~~~~~~~~~~~~~~iV  149 (207)
T 2gxq_A           74 RALVLTPTRELALQVASELTAVAPHLKVVAVYGGTGYGKQKEALL----RGADAVVATPGRALDYLRQGVLDLSRVEVAV  149 (207)
T ss_dssp             SEEEECSSHHHHHHHHHHHHHHCTTSCEEEECSSSCSHHHHHHHH----HCCSEEEECHHHHHHHHHHTSSCCTTCSEEE
T ss_pred             cEEEEECCHHHHHHHHHHHHHHhhcceEEEEECCCChHHHHHHhh----CCCCEEEECHHHHHHHHHcCCcchhhceEEE
Confidence            4899999999999999999877  467888999887654443332    24789999951     11 234455666555


Q ss_pred             E
Q psy18034         73 N   73 (251)
Q Consensus        73 ~   73 (251)
                      -
T Consensus       150 i  150 (207)
T 2gxq_A          150 L  150 (207)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=90.97  E-value=0.47  Score=38.14  Aligned_cols=68  Identities=15%  Similarity=0.214  Sum_probs=43.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC---CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-----c-ccccccccccEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA---GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-----A-ARGIDIPSLDAV   71 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~---~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-----~-~~Gldi~~v~~V   71 (251)
                      ++||.++|+.-+.++++.++..   +..+..++|+.+...+...   +. ...+|+|+|.-     . ...+++..+++|
T Consensus        96 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~-~~~~iiv~Tp~~l~~~~~~~~~~~~~~~~l  171 (228)
T 3iuy_A           96 GMLVLTPTRELALHVEAECSKYSYKGLKSICIYGGRNRNGQIED---IS-KGVDIIIATPGRLNDLQMNNSVNLRSITYL  171 (228)
T ss_dssp             SEEEECSSHHHHHHHHHHHHHHCCTTCCEEEECC------CHHH---HH-SCCSEEEECHHHHHHHHHTTCCCCTTCCEE
T ss_pred             cEEEEeCCHHHHHHHHHHHHHhcccCceEEEEECCCChHHHHHH---hc-CCCCEEEECHHHHHHHHHcCCcCcccceEE
Confidence            4799999999999999988875   7788999998765544332   32 34789999952     1 123455566655


Q ss_pred             E
Q psy18034         72 I   72 (251)
Q Consensus        72 I   72 (251)
                      |
T Consensus       172 V  172 (228)
T 3iuy_A          172 V  172 (228)
T ss_dssp             E
T ss_pred             E
Confidence            5

>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=90.95  E-value=0.51  Score=38.36  Aligned_cols=70  Identities=13%  Similarity=0.143  Sum_probs=42.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----cccc-ccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAAR-GIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~-Gldi~~v~~   70 (251)
                      ++||.++|+..+..+++.++..    +..+..++|+.+...   ..+....+..+|+|+|.     .+.+ .+++..+++
T Consensus       100 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~---~~~~l~~~~~~Ilv~Tp~~l~~~l~~~~~~~~~~~~  176 (237)
T 3bor_A          100 QALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRN---EMQKLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKM  176 (237)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECC----------------CCCSEEEECHHHHHHHHHTTSSCSTTCCE
T ss_pred             eEEEEECcHHHHHHHHHHHHHHhhhcCceEEEEECCCchHH---HHHHHhcCCCCEEEECHHHHHHHHHhCCcCcccCcE
Confidence            5899999999999999888765    567888888865433   33455567789999994     2223 245556666


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||-
T Consensus       177 lVi  179 (237)
T 3bor_A          177 FVL  179 (237)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            553

>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=90.79  E-value=0.83  Score=37.30  Aligned_cols=68  Identities=12%  Similarity=0.097  Sum_probs=47.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc-----cc-ccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA-----AR-GIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~-----~~-Gldi~~v~~   70 (251)
                      ++||.|+|+.-+.++++.++..    ++.+..++|+.+.......+    ....+|+|+|.-.     .+ .+++..+++
T Consensus       102 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~----~~~~~Ivv~Tp~~l~~~l~~~~~~~~~~~~  177 (253)
T 1wrb_A          102 KCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIREV----QMGCHLLVATPGRLVDFIEKNKISLEFCKY  177 (253)
T ss_dssp             SEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCSHHHHHHH----SSCCSEEEECHHHHHHHHHTTSBCCTTCCE
T ss_pred             eEEEEECCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHh----CCCCCEEEECHHHHHHHHHcCCCChhhCCE
Confidence            5899999999999988887664    57788899988765443322    3467899999621     11 245566666


Q ss_pred             EE
Q psy18034         71 VI   72 (251)
Q Consensus        71 VI   72 (251)
                      ||
T Consensus       178 lV  179 (253)
T 1wrb_A          178 IV  179 (253)
T ss_dssp             EE
T ss_pred             EE
Confidence            55

>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=89.87  E-value=1.4  Score=36.43  Aligned_cols=68  Identities=15%  Similarity=0.181  Sum_probs=48.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----ccc--ccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAA--RGIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~--~Gldi~~v~   69 (251)
                      ++||.++|+.-+.++++.++..    +..+..++|+.........   ...+ .+|+|+|.     .+.  .++++..++
T Consensus       128 ~~lil~Pt~~La~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~~~-~~Iiv~Tp~~l~~~~~~~~~~~~~~l~  203 (262)
T 3ly5_A          128 GVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQK---LGNG-INIIVATPGRLLDHMQNTPGFMYKNLQ  203 (262)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTCCSCEEEECSSSCHHHHHHH---HHHC-CSEEEECHHHHHHHHHHCTTCCCTTCC
T ss_pred             eEEEEeCCHHHHHHHHHHHHHHHhhcCceEEEEECCCCHHHHHHH---hcCC-CCEEEEcHHHHHHHHHccCCcccccCC
Confidence            4899999999999998888764    6678889998876554433   3334 78999994     111  235566666


Q ss_pred             EEE
Q psy18034         70 AVI   72 (251)
Q Consensus        70 ~VI   72 (251)
                      +||
T Consensus       204 ~lV  206 (262)
T 3ly5_A          204 CLV  206 (262)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            655

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=89.30  E-value=0.82  Score=36.87  Aligned_cols=52  Identities=17%  Similarity=0.175  Sum_probs=39.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      ++||.|+|+.-+..+++.++..    ++.+..++|+.+.......+     +..+|+|+|.
T Consensus        99 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-----~~~~iiv~Tp  154 (236)
T 2pl3_A           99 GVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERI-----NNINILVCTP  154 (236)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTSSCCEEEECCC--CHHHHHHH-----TTCSEEEECH
T ss_pred             eEEEEeCCHHHHHHHHHHHHHHhCCCCeeEEEEECCCCHHHHHHhC-----CCCCEEEECH
Confidence            5899999999999999888775    47889999987655443322     4678999995

>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=88.67  E-value=1.3  Score=38.14  Aligned_cols=70  Identities=10%  Similarity=0.096  Sum_probs=52.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc------cccccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA------ARGIDIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~------~~Gldi~~v~   69 (251)
                      ++||.|+|+.-++++++.++..     ++.+..++|+.+......   .+..+..+|+|+|.-.      ...+++..++
T Consensus        78 ~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~~~~~~~iiv~T~~~l~~~~~~~~~~~~~~~  154 (391)
T 1xti_A           78 SVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEE---VLKKNCPHIVVGTPGRILALARNKSLNLKHIK  154 (391)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHTTTCTTCCEEEECTTSCHHHHHH---HHHHSCCSEEEECHHHHHHHHHTTSSCCTTCS
T ss_pred             eEEEECCCHHHHHHHHHHHHHHHhhCCCeEEEEEeCCCCHHHHHH---HHhcCCCCEEEECHHHHHHHHHcCCccccccC
Confidence            5899999999999998888765     788999999988766554   3445677899999521      2235667788


Q ss_pred             EEEE
Q psy18034         70 AVIN   73 (251)
Q Consensus        70 ~VI~   73 (251)
                      +||-
T Consensus       155 ~vVi  158 (391)
T 1xti_A          155 HFIL  158 (391)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            7774

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}

Probab=88.43  E-value=1.8  Score=37.75  Aligned_cols=69  Identities=13%  Similarity=0.123  Sum_probs=50.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-----ccc-ccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-----AAR-GIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-----~~~-Gldi~~v~~   70 (251)
                      ++||.++|+.-+.++++.++..    ++.+..++|+.+..+....   . ....+|+|+|.-     +.. .+++..+++
T Consensus       103 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~-~~~~~I~v~Tp~~l~~~l~~~~~~~~~~~~  178 (417)
T 2i4i_A          103 ISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQIRD---L-ERGCHLLVATPGRLVDMMERGKIGLDFCKY  178 (417)
T ss_dssp             SEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCHHHHHHH---H-TTCCSEEEECHHHHHHHHHTTSBCCTTCCE
T ss_pred             cEEEECCcHHHHHHHHHHHHHHhCcCCceEEEEECCCCHHHHHHH---h-hCCCCEEEEChHHHHHHHHcCCcChhhCcE
Confidence            3899999999999998888754    6789999999887654432   2 235789999962     122 356677777


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||-
T Consensus       179 iVi  181 (417)
T 2i4i_A          179 LVL  181 (417)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            773

>2l82_A Designed protein OR32; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, de novo protein; NMR {Artificial gene}

Probab=88.27  E-value=2.5  Score=30.49  Aligned_cols=52  Identities=21%  Similarity=0.356  Sum_probs=45.5

Q ss_pred             EEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEE
Q psy18034          3 VVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLV   54 (251)
Q Consensus         3 iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv   54 (251)
                      +||.+.......+...++..|..+..++++.+...|.+-++.|......+--
T Consensus         6 vvfssdpeilkeivreikrqgvrvvllysdqdekrrrerleefekqgvdvrt   57 (162)
T 2l82_A            6 VVFSSDPEILKEIVREIKRQGVRVVLLYSDQDEKRRRERLEEFEKQGVDVRT   57 (162)
T ss_dssp             EEEESCHHHHHHHHHHHHHTTCEEEEEECCSCHHHHHHHHHHHHTTTCEEEE
T ss_pred             EEecCCHHHHHHHHHHHHhCCeEEEEEecCchHHHHHHHHHHHHHcCCceee
Confidence            6788888888999999999999999999999999999999999877655543

>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=88.02  E-value=0.72  Score=36.80  Aligned_cols=67  Identities=10%  Similarity=0.088  Sum_probs=41.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc------ccccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA------ARGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~------~~Gldi~~v~~   70 (251)
                      ++||.++|+..+.++++.++..    ++.+..++|+.+..+....   +.  ..+|+|+|.-.      ....++..+++
T Consensus        84 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~---~~--~~~iiv~Tp~~l~~~~~~~~~~~~~~~~  158 (224)
T 1qde_A           84 QALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEG---LR--DAQIVVGTPGRVFDNIQRRRFRTDKIKM  158 (224)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECC-------------CT--TCSEEEECHHHHHHHHHTTSSCCTTCCE
T ss_pred             eEEEEECCHHHHHHHHHHHHHHhcccCceEEEEeCCcchHHHHhc---CC--CCCEEEECHHHHHHHHHhCCcchhhCcE
Confidence            5899999999999988887764    6788899998765544332   22  37899999521      22345556666


Q ss_pred             EE
Q psy18034         71 VI   72 (251)
Q Consensus        71 VI   72 (251)
                      ||
T Consensus       159 iV  160 (224)
T 1qde_A          159 FI  160 (224)
T ss_dssp             EE
T ss_pred             EE
Confidence            55

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=87.69  E-value=0.51  Score=37.70  Aligned_cols=68  Identities=10%  Similarity=0.079  Sum_probs=45.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC--------CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----cccc-ccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA--------GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAAR-GIDIP   66 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~--------~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~-Gldi~   66 (251)
                      ++||.|+|+.-+.++++.++..        +..+..++|+.+......   .+ .+..+|+|+|.     .+.+ .+++.
T Consensus        74 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~~-~~~~~Iiv~Tp~~l~~~l~~~~~~~~  149 (219)
T 1q0u_A           74 QAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKALE---KL-NVQPHIVIGTPGRINDFIREQALDVH  149 (219)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHHTTSCGGGCCCEEEECCCSHHHHTTC---CC-SSCCSEEEECHHHHHHHHHTTCCCGG
T ss_pred             eEEEEcCcHHHHHHHHHHHHHHhhhcccccceEEEEEeCCCCHHHHHH---Hc-CCCCCEEEeCHHHHHHHHHcCCCCcC
Confidence            5899999999999988877654        578888999875443221   11 23567999995     2222 24555


Q ss_pred             cccEEE
Q psy18034         67 SLDAVI   72 (251)
Q Consensus        67 ~v~~VI   72 (251)
                      .+++||
T Consensus       150 ~~~~lV  155 (219)
T 1q0u_A          150 TAHILV  155 (219)
T ss_dssp             GCCEEE
T ss_pred             cceEEE
Confidence            666555

>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16 c.37.1.16 e.10.1.1 PDB: 1gl9_B*

Probab=86.57  E-value=0.81  Score=45.95  Aligned_cols=71  Identities=10%  Similarity=0.140  Sum_probs=53.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CC----cEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-cccccc-cccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GI----SSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-AARGID-IPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~----~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-~~~Gld-i~~v~~   70 (251)
                      ++||.++|+.-+.++++.++..    ++    .+..+||+.+..++....+.++.  .+|+|+|+- +..-+. +..+++
T Consensus       101 ~~lil~PtreLa~Q~~~~l~~l~~~~~i~~~~~v~~~~Gg~~~~~~~~~~~~l~~--~~IlV~TP~~L~~~l~~L~~l~~  178 (1054)
T 1gku_B          101 RCYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRN--FKIVITTTQFLSKHYRELGHFDF  178 (1054)
T ss_dssp             CEEEEESCHHHHHHHHHHHHHHHTTTCCSGGGSEEECCSSCCSHHHHHHHHSGGG--CSEEEEEHHHHHHCSTTSCCCSE
T ss_pred             eEEEEeccHHHHHHHHHHHHHHHhhcCCCccceEEEEeCCCChhhHHHHHhhccC--CCEEEEcHHHHHHHHHHhccCCE
Confidence            5899999999999988888754    56    78999999999888877888777  899999962 111111 456666


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||-
T Consensus       179 lVi  181 (1054)
T 1gku_B          179 IFV  181 (1054)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            663

>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=83.89  E-value=1.4  Score=39.34  Aligned_cols=69  Identities=13%  Similarity=0.072  Sum_probs=50.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----ccccc-cccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAARG-IDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~G-ldi~~v~~   70 (251)
                      ++||.++|++-+.++++.++..    ++.+..++|+.+...+...+    ....+|+|+|.     .+.++ +++..+++
T Consensus       131 ~~lil~PtreLa~Q~~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~l----~~~~~Ivv~Tp~~l~~~l~~~~~~l~~~~~  206 (434)
T 2db3_A          131 QVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECI----TRGCHVVIATPGRLLDFVDRTFITFEDTRF  206 (434)
T ss_dssp             SEEEECSSHHHHHHHHHHHHHHTTTSSCCCCEECTTSCHHHHHHHH----TTCCSEEEECHHHHHHHHHTTSCCCTTCCE
T ss_pred             cEEEEecCHHHHHHHHHHHHHHhccCCcEEEEEECCCCHHHHHHHh----hcCCCEEEEChHHHHHHHHhCCcccccCCe
Confidence            4899999999999998888765    57788999999876544332    24578999995     22333 56677887


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||-
T Consensus       207 lVl  209 (434)
T 2db3_A          207 VVL  209 (434)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            774

>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=83.70  E-value=1.1  Score=38.04  Aligned_cols=66  Identities=9%  Similarity=0.033  Sum_probs=46.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc------c-cccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA------A-RGIDIPSL   68 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~------~-~Gldi~~v   68 (251)
                      ++||.++|+.-+.+++..++..     ++.+...+|+.+...+.       ....+|+|+|.-.      . ..+++..+
T Consensus       164 ~~lil~PtreLa~Q~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~-------~~~~~IlV~TP~~l~~~l~~~~~~~l~~l  236 (300)
T 3fmo_B          164 QCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLERGQ-------KISEQIVIGTPGTVLDWCSKLKFIDPKKI  236 (300)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTSTTCCEEEESTTCCCCTTC-------CCCCSEEEECHHHHHHHHTTTCCCCGGGC
T ss_pred             eEEEEcCcHHHHHHHHHHHHHHHhhCCCcEEEEEeCCccHhhhh-------cCCCCEEEECHHHHHHHHHhcCCCChhhc
Confidence            4899999999999988877764     46778888876532211       3456899999632      1 24667777


Q ss_pred             cEEEE
Q psy18034         69 DAVIN   73 (251)
Q Consensus        69 ~~VI~   73 (251)
                      .++|-
T Consensus       237 ~~lVl  241 (300)
T 3fmo_B          237 KVFVL  241 (300)
T ss_dssp             SEEEE
T ss_pred             eEEEE
Confidence            77764

>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=83.68  E-value=4.3  Score=35.21  Aligned_cols=69  Identities=9%  Similarity=0.034  Sum_probs=50.0

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc-----cccc-ccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD-----VAAR-GIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td-----~~~~-Gldi~~v~~   70 (251)
                      ++||.|+|+.-+.++++.++..    ++.+..++|+.+..+....+.    ...+|+|+|.     .+.+ .+++..+++
T Consensus       107 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~ivv~Tp~~l~~~l~~~~~~~~~~~~  182 (410)
T 2j0s_A          107 QALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD----YGQHVVAGTPGRVFDMIRRRSLRTRAIKM  182 (410)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECTTSCHHHHHHHHH----HCCSEEEECHHHHHHHHHTTSSCCTTCCE
T ss_pred             eEEEEcCcHHHHHHHHHHHHHHhccCCeEEEEEECCCCHHHHHHHhh----cCCCEEEcCHHHHHHHHHhCCccHhheeE
Confidence            5899999999999999888765    578888999988766544332    2458999994     3333 355667777


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||-
T Consensus       183 vVi  185 (410)
T 2j0s_A          183 LVL  185 (410)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            763

>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=83.66  E-value=3.7  Score=35.44  Aligned_cols=69  Identities=16%  Similarity=0.162  Sum_probs=49.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-----ccc-ccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-----AAR-GIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-----~~~-Gldi~~v~~   70 (251)
                      ++||.|+++.-+.++++.++..    ++.+..++|+.........    ..+..+|+|+|.-     +.+ ..++..+++
T Consensus        91 ~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~----~~~~~~Ivv~T~~~l~~~~~~~~~~~~~~~~  166 (400)
T 1s2m_A           91 QALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILR----LNETVHILVGTPGRVLDLASRKVADLSDCSL  166 (400)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECSSSCHHHHHHH----TTSCCSEEEECHHHHHHHHHTTCSCCTTCCE
T ss_pred             cEEEEcCCHHHHHHHHHHHHHHhcccCceEEEEeCCcchHHHHHH----hcCCCCEEEEchHHHHHHHHhCCcccccCCE
Confidence            5899999999999888888765    6788899999876543321    2456789999942     223 356677777


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||-
T Consensus       167 vIi  169 (400)
T 1s2m_A          167 FIM  169 (400)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            774

>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=83.41  E-value=3  Score=36.55  Aligned_cols=68  Identities=15%  Similarity=0.161  Sum_probs=50.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-CC---cEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-cc-----cccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-GI---SSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-AA-----RGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-~~---~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-~~-----~Gldi~~v~~   70 (251)
                      ++||.|+++.-+..+.+.+... +.   .+..+||+....++.....     ..+|+|+|.- +.     ..+.....++
T Consensus        54 ~~liv~P~~~L~~q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~~~-----~~~ivv~T~~~l~~~~~~~~~~~~~~~~  128 (494)
T 1wp9_A           54 KVLMLAPTKPLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWA-----RAKVIVATPQTIENDLLAGRISLEDVSL  128 (494)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHBCSCGGGEEEECSCSCHHHHHHHHH-----HCSEEEECHHHHHHHHHTTSCCTTSCSE
T ss_pred             eEEEEECCHHHHHHHHHHHHHHhCcchhheEEeeCCcchhhhhhhcc-----CCCEEEecHHHHHHHHhcCCcchhhceE
Confidence            5899999999999999888876 65   8999999998877655443     3579999952 22     1355667777


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||-
T Consensus       129 vIi  131 (494)
T 1wp9_A          129 IVF  131 (494)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            774

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=81.88  E-value=1.2  Score=40.40  Aligned_cols=69  Identities=13%  Similarity=0.133  Sum_probs=48.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc-----ccc-c-cccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA-----ARG-I-DIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~-----~~G-l-di~~v~   69 (251)
                      ++||.|+|+.-+..+++.++..    ++.+..++|+.+...+...+.    +..+|+|+|.-.     ..+ + .+..++
T Consensus        54 ~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~i~v~T~~~l~~~~~~~~~~~~~~~~  129 (555)
T 3tbk_A           54 KVVFFANQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHII----EDNDIIILTPQILVNNLNNGAIPSLSVFT  129 (555)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHHHTTTCCEEEECTTTGGGSCHHHHH----HHCSEEEECHHHHHHHHHTSSSCCGGGCS
T ss_pred             EEEEEeCCHHHHHHHHHHHHHHhccCCcEEEEEcCCCcchhhHHHHh----cCCCEEEECHHHHHHHHhcCcccccccCC
Confidence            5899999999998888877765    899999999986554432222    136799999521     122 3 566777


Q ss_pred             EEEE
Q psy18034         70 AVIN   73 (251)
Q Consensus        70 ~VI~   73 (251)
                      +||-
T Consensus       130 ~vVi  133 (555)
T 3tbk_A          130 LMIF  133 (555)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            7774

>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=81.80  E-value=3.3  Score=35.57  Aligned_cols=68  Identities=10%  Similarity=0.048  Sum_probs=49.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc-----c-cccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA-----A-RGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~-----~-~Gldi~~v~~   70 (251)
                      ++||.|+++.-+.++++.+...    ++.+..++|+.+..+....+.     ..+|+|+|.-.     . ..+++..+++
T Consensus        91 ~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~-----~~~i~v~T~~~l~~~~~~~~~~~~~~~~  165 (394)
T 1fuu_A           91 QALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLR-----DAQIVVGTPGRVFDNIQRRRFRTDKIKM  165 (394)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECSSCCHHHHHHHHH-----HCSEEEECHHHHHHHHHTTSSCCTTCCE
T ss_pred             CEEEEcCCHHHHHHHHHHHHHHhccCCeeEEEEeCCCchHHHHhhcC-----CCCEEEECHHHHHHHHHhCCcchhhCcE
Confidence            5899999999999988877654    688999999998776655444     36799999421     1 2344566777


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||-
T Consensus       166 vIi  168 (394)
T 1fuu_A          166 FIL  168 (394)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            664

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}

Probab=81.37  E-value=0.99  Score=36.58  Aligned_cols=70  Identities=19%  Similarity=0.232  Sum_probs=45.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-----ccc---ccccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-----AAR---GIDIPSL   68 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-----~~~---Gldi~~v   68 (251)
                      ++||.++|+.-+.++++.++..    ++.+..++|+.....   .......+..+|+|+|.-     +.+   ++++..+
T Consensus       100 ~~lil~Pt~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~I~v~Tp~~l~~~l~~~~~~~~~~~~  176 (245)
T 3dkp_A          100 RALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAK---KFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLASV  176 (245)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTSCCCEECCCHHHHHHT---TTSTTSCCCCCEEEECHHHHHHHHHSSSCSCCCTTC
T ss_pred             eEEEEeCCHHHHHHHHHHHHHHhcccCceEEEEecCccHHH---HhhhhhcCCCCEEEECHHHHHHHHHhCCCCcccccC
Confidence            5899999999999999888775    667777766532211   111223456789999942     112   3566667


Q ss_pred             cEEEE
Q psy18034         69 DAVIN   73 (251)
Q Consensus        69 ~~VI~   73 (251)
                      ++||-
T Consensus       177 ~~lVi  181 (245)
T 3dkp_A          177 EWLVV  181 (245)
T ss_dssp             CEEEE
T ss_pred             cEEEE
Confidence            66653

>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=80.44  E-value=3.4  Score=34.57  Aligned_cols=68  Identities=19%  Similarity=0.208  Sum_probs=49.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc-----cc-ccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA-----AR-GIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~-----~~-Gldi~~v~~   70 (251)
                      ++||.|+++.-+.++++.++..    +..+..++|+.+.......   +.  ..+|+|+|.-.     .. .+++..+++
T Consensus        58 ~~liv~P~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~--~~~i~v~T~~~l~~~~~~~~~~~~~~~~  132 (337)
T 2z0m_A           58 KSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINR---VR--NADIVVATPGRLLDLWSKGVIDLSSFEI  132 (337)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECTTSCHHHHHHH---HT--TCSEEEECHHHHHHHHHTTSCCGGGCSE
T ss_pred             CEEEEeCCHHHHHHHHHHHHHHhhhcCCcEEEEECCcchHHHHhh---cC--CCCEEEECHHHHHHHHHcCCcchhhCcE
Confidence            5899999999999999888754    5789999999887654432   22  37899999521     22 345667777


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      ||-
T Consensus       133 iVi  135 (337)
T 2z0m_A          133 VII  135 (337)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            664

>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=80.17  E-value=1.7  Score=39.36  Aligned_cols=69  Identities=14%  Similarity=0.108  Sum_probs=45.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccc-----ccc-c-cccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVA-----ARG-I-DIPSLD   69 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~-----~~G-l-di~~v~   69 (251)
                      ++||.|+|+.-+..+.+.++..    ++.+..+||+.+...+...+.    ...+|+|+|.-.     ..| + .+..++
T Consensus        57 ~~lil~P~~~L~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~----~~~~i~v~T~~~l~~~~~~~~~~~~~~~~  132 (556)
T 4a2p_A           57 KVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVI----EDSDIIVVTPQILVNSFEDGTLTSLSIFT  132 (556)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHHGGGTCCEEECCCC-----CHHHHH----HHCSEEEECHHHHHHHHHSSSCCCSTTCS
T ss_pred             eEEEEeCCHHHHHHHHHHHHHHhcccCceEEEEeCCCCcchhHHHhh----CCCCEEEECHHHHHHHHHhCcccccccCC
Confidence            5899999999999888888765    899999999987655433222    136799999522     222 3 566777


Q ss_pred             EEEE
Q psy18034         70 AVIN   73 (251)
Q Consensus        70 ~VI~   73 (251)
                      +||-
T Consensus       133 ~vVi  136 (556)
T 4a2p_A          133 LMIF  136 (556)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            7774

>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=80.13  E-value=2.6  Score=41.17  Aligned_cols=51  Identities=12%  Similarity=0.043  Sum_probs=39.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHh----CCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGL----AGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~----~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      +++|.|+|+.-|...++.+..    .|+.+.+++|+++...|....      .++|+|+|+
T Consensus       117 ~vlVltPTreLA~Q~~e~~~~l~~~lgl~v~~i~GG~~~~~r~~~~------~~dIvvgTp  171 (853)
T 2fsf_A          117 GVHVVTVNDYLAQRDAENNRPLFEFLGLTVGINLPGMPAPAKREAY------AADITYGTN  171 (853)
T ss_dssp             CCEEEESSHHHHHHHHHHHHHHHHHTTCCEEECCTTCCHHHHHHHH------HSSEEEEEH
T ss_pred             cEEEEcCCHHHHHHHHHHHHHHHHhcCCeEEEEeCCCCHHHHHHhc------CCCEEEECC
Confidence            478999999988777666544    489999999999987655432      378999996

---

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	251
d1a1va2	299	c.37.1.14 (A:326-624) HCV helicase domain {Human h	7e-23
d1fuka_	162	c.37.1.19 (A:) Initiation factor 4a {Baker's yeast	3e-17
d1wp9a2	286	c.37.1.19 (A:201-486) putative ATP-dependent RNA h	7e-17
d1gkub2	248	c.37.1.16 (B:251-498) Helicase-like "domain" of re	2e-14
d2j0sa2	168	c.37.1.19 (A:244-411) Probable ATP-dependent RNA h	7e-13
d1hv8a2	155	c.37.1.19 (A:211-365) Putative DEAD box RNA helica	7e-12
d1jr6a_	138	c.37.1.14 (A:) HCV helicase domain {Human hepatiti	3e-11
d1t5la2	181	c.37.1.19 (A:415-595) Nucleotide excision repair e	9e-11
d1oywa3	200	c.37.1.19 (A:207-406) RecQ helicase domain {Escher	2e-10
d2bmfa2	305	c.37.1.14 (A:178-482) Dengue virus helicase {Dengu	7e-10
d2fwra1	200	c.37.1.19 (A:257-456) DNA repair protein RAD25 {Ar	1e-09
d2rb4a1	168	c.37.1.19 (A:307-474) ATP-dependent RNA helicase D	2e-09
d1c4oa2	174	c.37.1.19 (A:410-583) Nucleotide excision repair e	4e-08
d1s2ma2	171	c.37.1.19 (A:252-422) Putative ATP-dependent RNA h	6e-06
d2p6ra4	201	c.37.1.19 (A:203-403) Hel308 helicase {Archaeoglob	1e-05
d1t5ia_	168	c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP5	1e-04
d1yksa2	299	c.37.1.14 (A:325-623) YFV helicase domain {Yellow	8e-04
d1tf5a4	175	c.37.1.19 (A:396-570) Translocation ATPase SecA, n	0.001

>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 = 92.7 bits (230), Expect = 7e-23
 Identities = 21/117 (17%), Positives = 37/117 (31%), Gaps = 14/117 (11%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINA----------AKFQTGKIR 51
            ++F  +K   + +   L   GI++   Y  LD +    +               TG   
Sbjct: 39  HLIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPTSGDVVVVATDALMTGFTGDFD 98

Query: 52  VLVVTDVAARGIDIPSLDA---VINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSS 105
            ++  +         SLD    +     P  A     R GR  R G+ G+   +   
Sbjct: 99  SVIDCNTCVTQTVDFSLDPTFTIETTTLPQDAVSRTQRRGRTGR-GKPGIYRFVAPG 154

>d1fuka_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 162

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 74.6 bits (182), Expect = 3e-17
 Identities = 41/121 (33%), Positives = 67/121 (55%)

Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
             V+F  T+  VE +   L     + + IYSDL    R     +F++G  R+L+ TD+ A
Sbjct: 29  QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLA 88

Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGR 120
           RGID+  +  VINY+ P   + ++HR+GR  R GR GVA + V+++++    +L  F   
Sbjct: 89  RGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYST 148

Query: 121 K 121
           +
Sbjct: 149 Q 149

>d1wp9a2 c.37.1.19 (A:201-486) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Length = 286

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

 Score = 76.1 bits (186), Expect = 7e-17
 Identities = 29/121 (23%), Positives = 46/121 (38%), Gaps = 12/121 (9%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINA--------AKFQTGKIRVL 53
            +VFT  +   + +   L   GI +            +  +         +F  G+  VL
Sbjct: 164 IIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVL 223

Query: 54  VVTDVAARGIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSS---DELCY 110
           V T V   G+D+P +D V+ Y     A   + R GR  R    G    L++    DE  Y
Sbjct: 224 VATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRHM-PGRVIILMAKGTRDEAYY 282

Query: 111 Y 111
           +
Sbjct: 283 W 283

>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 = 68.3 bits (166), Expect = 2e-14
 Identities = 21/139 (15%), Positives = 42/139 (30%), Gaps = 15/139 (10%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVT----D 57
            +++  T    E +++ L             +    +K +  KF  G+I  L+ T     
Sbjct: 28  GIIYARTGEEAEEIYESL------KNKFRIGIVTATKKGDYEKFVEGEIDHLIGTAHYYG 81

Query: 58  VAARGIDIP-SLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLL 116
              RG+D+P  +   +    P     F   +          V         +     LL 
Sbjct: 82  TLVRGLDLPERIRFAVFVGCPS----FRVTIEDIDSLSPQMVKLLAYLYRNVDEIERLLP 137

Query: 117 FLGRKPVLADDSMKGKIRH 135
            + R      + +K  +  
Sbjct: 138 AVERHIDEVREILKKVMGK 156

>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 = 62.6 bits (151), Expect = 7e-13
 Identities = 39/120 (32%), Positives = 71/120 (59%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            V+F  TK  V+++ + +  A  + + ++ D+    R+    +F++G  RVL+ TDV AR
Sbjct: 37  AVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAR 96

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           G+D+P +  +INY+ P   +L++HR+GR  R GR GVA + V +D++    D+  +   +
Sbjct: 97  GLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQ 156

>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 = 59.6 bits (143), Expect = 7e-12
 Identities = 40/120 (33%), Positives = 65/120 (54%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            +VF  TK   + +  +L   G  +  I+ DL  + R+     F+  KIR+L+ TDV +R
Sbjct: 31  GLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVMSR 90

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           GID+  L+ VINY+ P   + ++HR+GR  RAG+ G A S+++  E      +   +  K
Sbjct: 91  GIDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKKGKAISIINRREYKKLRYIERAMKLK 150

>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 = 57.8 bits (139), Expect = 3e-11
 Identities = 26/109 (23%), Positives = 40/109 (36%), Gaps = 12/109 (11%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            ++F  +K   + +   L   GI++   Y  LD +          T    V+V TD    
Sbjct: 38  HLIFCHSKKKCDELAAKLVALGINAVAYYRGLDVS-------VIPTNGDVVVVATDALMT 90

Query: 62  GIDIPS---LDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE 107
           G        +D   +   P  A     R GR  R G+ G+ Y  V+  E
Sbjct: 91  GFTGDFDSVIDCNTSDGKPQDAVSRTQRRGRTGR-GKPGI-YRFVAPGE 137

>d1t5la2 c.37.1.19 (A:415-595) Nucleotide excision repair enzyme UvrB {Bacillus caldotenax [TaxId: 1395]} Length = 181

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Nucleotide excision repair enzyme UvrB
species: Bacillus caldotenax [TaxId: 1395]

 Score = 57.1 bits (137), Expect = 9e-11
 Identities = 29/114 (25%), Positives = 50/114 (43%), Gaps = 2/114 (1%)

Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
            T+V T TK   E +   L  AGI   Y++S++    R       + GK  VLV  ++  
Sbjct: 33  RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLR 92

Query: 61  RGIDIPSLDAVINYNFPCKAKLFVHR--VGRCARAGRSGVAYSLVSSDELCYYL 112
            G+DIP +  V   +   +  L   R  +    RA R+   + ++ +D +   +
Sbjct: 93  EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNANGHVIMYADTITKSM 146

>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 = 56.2 bits (134), Expect = 2e-10
 Identities = 23/110 (20%), Positives = 48/110 (43%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            +++  ++  VE     L   GIS+   ++ L+   R     KFQ   ++++V T     
Sbjct: 33  GIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGM 92

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYY 111
           GI+ P++  V++++ P   + +    GR  R G    A       ++ + 
Sbjct: 93  GINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWL 142

>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 = 56.1 bits (134), Expect = 7e-10
 Identities = 19/126 (15%), Positives = 35/126 (27%), Gaps = 23/126 (18%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           TV F  +      +   L   G     +      +       K +T     +V TD++  
Sbjct: 181 TVWFVPSIKAGNDIAACLRKNGKKVIQLSRKTFDSEY----IKTRTNDWDFVVTTDISEM 236

Query: 62  GIDIP---------SLDAVINYNFPCKAKLF----------VHRVGRCARAGRSGVAYSL 102
           G +            +  VI  +   +  L             R GR  R  ++     +
Sbjct: 237 GANFKAERVIDPRRCMKPVILTDGEERVILAGPMPVTHSSAAQRRGRVGRNPKNENDQYI 296

Query: 103 VSSDEL 108
              + L
Sbjct: 297 YMGEPL 302

>d2fwra1 c.37.1.19 (A:257-456) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

 Score = 54.1 bits (129), Expect = 1e-09
 Identities = 24/108 (22%), Positives = 44/108 (40%), Gaps = 8/108 (7%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            ++FT     V  + K+  +       I        R+     F+TG+ R +V + V   
Sbjct: 96  IIIFTRHNELVYRISKVFLIP-----AITHRTSREEREEILEGFRTGRFRAIVSSQVLDE 150

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVA---YSLVSSD 106
           GID+P  +  +  +    A+ ++ R+GR  R  +       Y L+S  
Sbjct: 151 GIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKGKKEAVLYELISRG 198

>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 = 49.3 bits (117), Expect = 4e-08
 Identities = 26/105 (24%), Positives = 42/105 (40%), Gaps = 5/105 (4%)

Query: 1   MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA 60
            T+V   T    E +   L   GI + Y++ +LD   R+      + G    LV  ++  
Sbjct: 33  RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLR 92

Query: 61  RGIDIPSLDAVINYN-----FPCKAKLFVHRVGRCARAGRSGVAY 100
            G+DIP +  V   +     F    +  +  +GR AR  R  V  
Sbjct: 93  EGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARNARGEVWL 137

>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 = 43.1 bits (100), Expect = 6e-06
 Identities = 37/120 (30%), Positives = 67/120 (55%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            ++F  +   VE + K +   G S  Y ++ +    R     +F+ GK+R LV +D+  R
Sbjct: 35  AIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTR 94

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRK 121
           GIDI +++ VIN++FP  A+ ++HR+GR  R G  G+A +L++ ++      +   LG +
Sbjct: 95  GIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELGTE 154

>d2p6ra4 c.37.1.19 (A:203-403) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]} Length = 201

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

 Score = 42.6 bits (99), Expect = 1e-05
 Identities = 21/99 (21%), Positives = 41/99 (41%), Gaps = 9/99 (9%)

Query: 28  YIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI-------NYNFPCKA 80
           + ++ L    R++    F+ G I+V+V T   A G+++P+   ++        Y+   K 
Sbjct: 99  FHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKV 158

Query: 81  KLFVHRVGRCARAGR--SGVAYSLVSSDELCYYLDLLLF 117
             +    GR  R G    G A  +V   +    +   +F
Sbjct: 159 SEYKQMAGRAGRPGMDERGEAIIIVGKRDREIAVKRYIF 197

>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 = 39.3 bits (90), Expect = 1e-04
 Identities = 28/114 (24%), Positives = 54/114 (47%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            V+F  +      + ++L      +  I+  +    R     +F+  + R+LV T++  R
Sbjct: 30  VVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 89

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLL 115
           G+DI  ++   NY+ P  +  ++HRV R  R G  G+A + VS +     L+ +
Sbjct: 90  GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDV 143

>d1yksa2 c.37.1.14 (A:325-623) YFV helicase domain {Yellow fever virus [TaxId: 11089]} Length = 299

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

 Score = 37.7 bits (87), Expect = 8e-04
 Identities = 20/130 (15%), Positives = 35/130 (26%), Gaps = 25/130 (19%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
           T  F  +      +   L  AG S   +         +      +  K   ++ TD+A  
Sbjct: 39  TAWFLPSIRAANVMAASLRKAGKSVVVLNRKT----FEREYPTIKQKKPDFILATDIAEM 94

Query: 62  GIDIPSLDAVINYNFPCKAKLFVHRVG----------------RCARAGRSGVAYSLVSS 105
           G ++  ++ V++     K  L                      R  R GR+         
Sbjct: 95  GANLC-VERVLDCRTAFKPVLVDEGRKVAIKGPLRISASSAAQRRGRIGRNPNR----DG 149

Query: 106 DELCYYLDLL 115
           D   Y     
Sbjct: 150 DSYYYSEPTS 159

>d1tf5a4 c.37.1.19 (A:396-570) Translocation ATPase SecA, nucleotide-binding domains {Bacillus subtilis [TaxId: 1423]} Length = 175

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]

 Score = 36.4 bits (84), Expect = 0.001
 Identities = 27/146 (18%), Positives = 49/146 (33%), Gaps = 18/146 (12%)

Query: 2   TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAAR 61
            +V T      E + K+L   GI    + +      R+    +    K  V + T++A R
Sbjct: 37  VLVGTVAVETSELISKLLKNKGIPHQVLNAK--NHEREAQIIEEAGQKGAVTIATNMAGR 94

Query: 62  GIDIPSLDAVINYN--------FPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLD 113
           G DI   + V                 ++     GR  R G  G+    +S ++     +
Sbjct: 95  GTDIKLGEGVKELGGLAVVGTERHESRRIDNQLRGRSGRQGDPGITQFYLSMED-----E 149

Query: 114 LLLFLGRKPVLADDSMKGKIRHQDGM 139
           L+   G +      +M  +    D  
Sbjct: 150 LMRRFGAERT---MAMLDRFGMDDST 172

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	251
d1fuka_	162	Initiation factor 4a {Baker's yeast (Saccharomyces	100.0
d2j0sa2	168	Probable ATP-dependent RNA helicase DDX48 {Human (	100.0
d1s2ma2	171	Putative ATP-dependent RNA helicase DHH1 {Baker's	100.0
d1hv8a2	155	Putative DEAD box RNA helicase {Archaeon Methanoco	100.0
d2rb4a1	168	ATP-dependent RNA helicase DDX25 {Human (Homo sapi	100.0
d1t5ia_	168	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	99.97
d1oywa3	200	RecQ helicase domain {Escherichia coli [TaxId: 562	99.97
d1t5la2	181	Nucleotide excision repair enzyme UvrB {Bacillus c	99.96
d1c4oa2	174	Nucleotide excision repair enzyme UvrB {Thermus th	99.95
d1jr6a_	138	HCV helicase domain {Human hepatitis C virus (HCV)	99.93
d1wp9a2	286	putative ATP-dependent RNA helicase PF2015 {Pyroco	99.91
d2p6ra4	201	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	99.87
d1gkub2	248	Helicase-like "domain" of reverse gyrase {Archaeon	99.86
d1a1va2	299	HCV helicase domain {Human hepatitis C virus (HCV)	99.85
d2fwra1	200	DNA repair protein RAD25 {Archaeoglobus fulgidus [	99.83
d1gm5a4	206	RecG helicase domain {Thermotoga maritima [TaxId:	99.82
d2eyqa5	211	Transcription-repair coupling factor, TRCF {Escher	99.73
d1z3ix1	346	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	99.66
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	99.64
d1z5za1	244	Helicase of the SNF2/Rad54 hamily {Sulfolobus solf	99.61
d1yksa2	299	YFV helicase domain {Yellow fever virus [TaxId: 11	99.55
d1tf5a4	175	Translocation ATPase SecA, nucleotide-binding doma	99.3
d1nkta4	219	Translocation ATPase SecA, nucleotide-binding doma	98.58
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	97.28
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	96.74
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	93.73
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	93.33
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	88.81
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	86.95
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	85.84
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	81.27
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	80.63

>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=100.00  E-value=2.4e-35  Score=234.81  Aligned_cols=128  Identities=32%  Similarity=0.535  Sum_probs=119.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+|+.+++++++.|...|+.+..+||+|++.+|..+++.|+.|+.++|||||+++||+|+|++++|||||+|+++
T Consensus        29 k~iIF~~s~~~~~~l~~~L~~~~~~~~~~~~~~~~~~r~~~l~~f~~~~~~iLv~Tdv~~rGiDi~~v~~VI~~d~P~~~  108 (162)
T d1fuka_          29 QAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANK  108 (162)
T ss_dssp             CEEEEESSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEEEGGGTTTCCCCSCSEEEESSCCSSG
T ss_pred             cEEEEEEEEchHHHHHHHHhhcCceEEEeccCCchhhHHHHHHHHhhcccceeeccccccccccCCCceEEEEeccchhH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccCC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDS  128 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~~  128 (251)
                      +.|+||+||+||.|+.|.+++|+++.|...+..++..++.+++.+|..
T Consensus       109 ~~yihR~GR~gR~g~~g~~i~~~~~~d~~~~~~i~~~~~~~~~~ip~~  156 (162)
T d1fuka_         109 ENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSD  156 (162)
T ss_dssp             GGGGGSSCSCC-----CEEEEEEETTTHHHHHHHHHHSSCCCEECCSC
T ss_pred             HHHHhhccccccCCCccEEEEEcCHHHHHHHHHHHHHHcCcCCCCChH
Confidence            999999999999999999999999999999999999999999888753

>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=100.00  E-value=1.8e-34  Score=230.96  Aligned_cols=127  Identities=31%  Similarity=0.555  Sum_probs=123.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+++..++.++..|+..|+.+..+||+|++.+|..+++.|++|+.++|||||+++||+|+|++++|||||+|+++
T Consensus        36 k~iiF~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~r~~~~~~fk~g~~~iLv~Td~~~rGiDi~~v~~VIn~d~P~~~  115 (168)
T d2j0sa2          36 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR  115 (168)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHTTCCCEEECTTSCHHHHHHHHHHHHHTSSCEEEECGGGSSSCCCTTEEEEEESSCCSSH
T ss_pred             ceEEEeeeHHHHHHHHHHhhhcccchhhhhhhhhHHHHHHHHHHHhcCCccEEeccchhcccccccCcceEEEecCCcCH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADD  127 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~  127 (251)
                      ..|+||+||+||.|+.|.+++|+++.|...+..+++.++..++.+|.
T Consensus       116 ~~yihR~GR~gR~g~~G~~i~~~~~~d~~~~~~i~~~~~~~i~e~p~  162 (168)
T d2j0sa2         116 ELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPM  162 (168)
T ss_dssp             HHHHHHHTTSSGGGCCEEEEEEEEGGGHHHHHHHHHHTTCCCEECCS
T ss_pred             HHHHhhhccccccCCCcEEEEEECHHHHHHHHHHHHHHcCcCCCCCc
Confidence            99999999999999999999999999999999999999998887764

>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=100.00  E-value=3.8e-34  Score=229.65  Aligned_cols=128  Identities=29%  Similarity=0.504  Sum_probs=124.6

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+|+++++.++..|...|+.+..+||+|++.+|..++++|+.|+.++|||||+++||+|+|++++|||||+|+++
T Consensus        34 k~iVF~~~~~~~~~l~~~L~~~g~~~~~~h~~~~~~~r~~~~~~f~~~~~~ilv~Td~~~~Gid~~~v~~VI~~d~p~~~  113 (171)
T d1s2ma2          34 QAIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFDFPKTA  113 (171)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHHTCCEEEECTTSCHHHHHHHHHHHHTTSSSEEEESSCSSSSCCCTTEEEEEESSCCSSH
T ss_pred             ceEEEEeeeehhhHhHHhhhcccccccccccccchhhhhhhhhhcccCccccccchhHhhhccccceeEEEEecCCcchH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeeccCC
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLADDS  128 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~~~~  128 (251)
                      ..|+||+||+||.|+.|.+++|+++.|...+..+++.++.++..+|..
T Consensus       114 ~~y~qr~GR~gR~g~~g~~i~~v~~~e~~~~~~i~~~l~~~~~~~p~~  161 (171)
T d1s2ma2         114 ETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKIEQELGTEIAAIPAT  161 (171)
T ss_dssp             HHHHHHHCBSSCTTCCEEEEEEECGGGHHHHHHHHHHHTCCCEECCSS
T ss_pred             HHHHHHhhhcccCCCccEEEEEeCHHHHHHHHHHHHHHCCCCCCCCcc
Confidence            999999999999999999999999999999999999999999887754

>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=100.00  E-value=1.2e-33  Score=223.19  Aligned_cols=125  Identities=32%  Similarity=0.470  Sum_probs=121.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+|+++++.+++.|+..|+.+..+||++++.+|..++++|+.|+.++|||||++++|+|+|++++|||||+|+++
T Consensus        30 k~IIF~~s~~~~~~l~~~L~~~g~~~~~~~~~~~~~~r~~~~~~f~~~~~~ilv~T~~~~~Gid~~~v~~Vi~~d~p~~~  109 (155)
T d1hv8a2          30 YGLVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVMSRGIDVNDLNCVINYHLPQNP  109 (155)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHTTCCEEEECSSSCHHHHHHHHHHHHTTSSSEEEECTTHHHHCCCSCCSEEEESSCCSCH
T ss_pred             CEEEEECchHHHHHHHhhhcccccccccccccchhhhhhhhhhhhhcccceeeeehhHHhhhhhhccCcEEEEecCCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHHHhCCCCeec
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLLFLGRKPVLA  125 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~~l~~~~~~~  125 (251)
                      ..|+||+||+||.|+.|.+++++++.|...+..+++.++.+++++
T Consensus       110 ~~y~qr~GR~gR~g~~g~~i~~~~~~d~~~~~~i~~~~~~~i~~l  154 (155)
T d1hv8a2         110 ESYMHRIGRTGRAGKKGKAISIINRREYKKLRYIERAMKLKIKKL  154 (155)
T ss_dssp             HHHHHHSTTTCCSSSCCEEEEEECTTSHHHHHHHHHHHTCCCCCB
T ss_pred             HHHHHHHHhcCcCCCCceEEEEEchHHHHHHHHHHHHHCCCcccc
Confidence            999999999999999999999999999999999999999887653

>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=99.97  E-value=1e-31  Score=214.79  Aligned_cols=126  Identities=22%  Similarity=0.332  Sum_probs=119.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||+|+.+++.|++.|...|+.+..+||+|++.+|..++++|++|+.++||||+++++|+|+|.+++|||||+|+++
T Consensus        29 k~iIF~~~~~~~~~l~~~L~~~~~~~~~ihg~~~~~~r~~~l~~F~~g~~~iLv~T~~~~~Gid~~~~~~vi~~~~p~~~  108 (168)
T d1t5ia_          29 QVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDS  108 (168)
T ss_dssp             SEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEESSCCSTTCCGGGCSEEEESSCCSSH
T ss_pred             eEEEEEeeeecchhhhhhhccccccccccccccchhhhhhhhhhhccccceeeeccccccchhhcccchhhhhhhcccch
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCc-cHHHHHHHHHHhCCCCeecc
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSD-ELCYYLDLLLFLGRKPVLAD  126 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~-e~~~~~~i~~~l~~~~~~~~  126 (251)
                      ..|+||+||+||.|+.|.+++|+++. +...+..++..++..+.++|
T Consensus       109 ~~yiqr~GR~gR~g~~g~~i~l~~~~~~~~~~~~i~~~~~~~~~elp  155 (168)
T d1t5ia_         109 DTYLHRVARAGRFGTKGLAITFVSDENDAKILNDVQDRFEVNISELP  155 (168)
T ss_dssp             HHHHHHHHHHTGGGCCCEEEEEECSHHHHHHHHHHHHHHCCCEEECC
T ss_pred             hhHhhhhhhcccCCCccEEEEEECchHHHHHHHHHHHHHcCCcccCC
Confidence            99999999999999999999999875 56777889988888877665

>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=99.97  E-value=1.2e-31  Score=220.00  Aligned_cols=115  Identities=21%  Similarity=0.364  Sum_probs=111.5

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      ++||||+|+..++.|+..|...|+.+..+||+|++.+|..+++.|+.|+.+||||||++++|+|+|+|++|||||+|+++
T Consensus        32 ~~IIF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~r~~~~~~f~~g~~~ilvaTd~~~~GiD~p~v~~VI~~~~P~~~  111 (200)
T d1oywa3          32 SGIIYCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNI  111 (200)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCHHHHHHHHHHHHTTSCSEEEECTTSCTTTCCTTCCEEEESSCCSSH
T ss_pred             CEEEEEeeehhhHHhhhhhccCCceeEEecCCCcHHHHHHHHHHHhcccceEEEecchhhhccCCCCCCEEEECCCccch
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCceEEEEecCccHHHHHHHH
Q psy18034         81 KLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLL  115 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~  115 (251)
                      ..|+||+||+||.|+.|.+++|+++.|..++..+.
T Consensus       112 ~~y~qr~GR~gR~g~~g~ai~~~~~~d~~~l~~~i  146 (200)
T d1oywa3         112 ESYYQETGRAGRDGLPAEAMLFYDPADMAWLRRCL  146 (200)
T ss_dssp             HHHHHHHTTSCTTSSCEEEEEEECHHHHHHHHHHH
T ss_pred             HHHHHHhhhhhcCCCCceEEEecCHHHHHHHHhhh
Confidence            99999999999999999999999999988886654

>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=99.96  E-value=5.1e-29  Score=201.04  Aligned_cols=104  Identities=27%  Similarity=0.359  Sum_probs=95.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCC--
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPC--   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~--   78 (251)
                      ++||||+++.+++.++..|+..|+.+..+||+|++.+|.+++++|++|+++||||||+++||+|+|+|++|||||+|.  
T Consensus        33 ~~iif~~~~~~~~~~~~~l~~~g~~~~~~hg~~~~~eR~~~l~~Fr~g~~~vLVaTdv~~rGiDip~v~~VI~~d~p~~~  112 (181)
T d1t5la2          33 RTLVTTLTKKMAEDLTDYLKEAGIKVAYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEG  112 (181)
T ss_dssp             EEEEECSSHHHHHHHHHHHHTTTCCEEEECSSCCHHHHHHHHHHHHHTSCSEEEESCCCSSSCCCTTEEEEEETTTTSCS
T ss_pred             eEEEEeehhhhhHHHHHHHHhCCcceeEecCCccHHHHHHHHHHHHCCCCCEEEehhHHHccCCCCCCCEEEEecCCccc
Confidence            589999999999999999999999999999999999999999999999999999999999999999999999999995  


Q ss_pred             ---ChhhHHHHhhhcccCCCCceEEEEecC
Q psy18034         79 ---KAKLFVHRVGRCARAGRSGVAYSLVSS  105 (251)
Q Consensus        79 ---~~~~y~qr~GR~gR~g~~g~~i~l~~~  105 (251)
                         +...|+||+||+||.|. |.++.+...
T Consensus       113 ~~~s~~~yi~R~GRagR~g~-~~~~~~~~~  141 (181)
T d1t5la2         113 FLRSERSLIQTIGRAARNAN-GHVIMYADT  141 (181)
T ss_dssp             GGGSHHHHHHHHGGGTTSTT-CEEEEECSS
T ss_pred             ccccHHHHHHHHHhhccccC-ceeEeecch
Confidence               68899999999999875 444444433

>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=99.95  E-value=2.2e-28  Score=195.24  Aligned_cols=108  Identities=23%  Similarity=0.325  Sum_probs=98.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCC--
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPC--   78 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~--   78 (251)
                      ++||||+|+.+++.+++.|...|+.+..+||+|++.+|.+++++|++|+++|||||++++||+|+|+|++|||||+|.  
T Consensus        33 r~lvfc~t~~~~~~l~~~L~~~Gi~a~~~Hg~~~~~eR~~~l~~F~~G~~~vLVaT~v~~~GiDip~V~~Vi~~~~~~~~  112 (174)
T d1c4oa2          33 RTLVTVLTVRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEG  112 (174)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHTTCCEEEECTTCCHHHHHHHHHHHHTTSCSEEEESCCCCTTCCCTTEEEEEETTTTSCS
T ss_pred             cEEEEEcchhHHHHHHHHHHhcCCceEEEecccchHHHHHHHHHHHCCCeEEEEeeeeeeeeccCCCCcEEEEecccccc
Confidence            589999999999999999999999999999999999999999999999999999999999999999999999999764  


Q ss_pred             ---ChhhHHHHhhhcccCCCCceEEEEecCccHH
Q psy18034         79 ---KAKLFVHRVGRCARAGRSGVAYSLVSSDELC  109 (251)
Q Consensus        79 ---~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~  109 (251)
                         +...|+||+||+||.|+ |.++++.......
T Consensus       113 ~~~~~~~~iq~~GR~gR~~~-g~~~~~~~~~~~~  145 (174)
T d1c4oa2         113 FLRSERSLIQTIGRAARNAR-GEVWLYADRVSEA  145 (174)
T ss_dssp             GGGSHHHHHHHHGGGTTSTT-CEEEEECSSCCHH
T ss_pred             ccchhHHHHHHhhhhhhcCC-CeeEEeecCCCHH
Confidence               56889999999999774 7777776654433

>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=99.93  E-value=5.5e-27  Score=181.04  Aligned_cols=97  Identities=30%  Similarity=0.434  Sum_probs=89.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEec----C
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYN----F   76 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d----~   76 (251)
                      |+||||+|+..|+.|++.|+..|+.+..+||+|++.       +|++|+.++|||||+++||+| |+++.|||||    +
T Consensus        37 k~IVFc~t~~~ae~la~~L~~~G~~~~~~H~~~~~~-------~~~~~~~~vlvaTd~~~~GiD-~~v~~Vi~~~~~~~~  108 (138)
T d1jr6a_          37 RHLIFCHSKKKCDELAAKLVALGINAVAYYRGLDVS-------VIPTNGDVVVVATDALMTGFT-GDFDSVIDCNTSDGK  108 (138)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHTCEEEEECTTCCSC-------CCTTSSCEEEEESSSSCSSSC-CCBSEEEECSEETTE
T ss_pred             CEEEEeCcHHHHHHHHHHHhccccchhhhhccchhh-------hhhhhhcceeehhHHHHhccc-cccceEEEEEecCCC
Confidence            689999999999999999999999999999999854       578999999999999999999 9999999865    6


Q ss_pred             CCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         77 PCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        77 P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      |.+++.|+||+||+|| |++|. ++|+.+.|
T Consensus       109 P~~~~~y~qr~GR~gR-g~~G~-~~~i~~~e  137 (138)
T d1jr6a_         109 PQDAVSRTQRRGRTGR-GKPGI-YRFVAPGE  137 (138)
T ss_dssp             ECCHHHHHHHHTTBCS-SSCEE-EEECCSSC
T ss_pred             CCCHHHHHhHhccccC-CCCcE-EEEEcCCC
Confidence            9999999999999999 99995 78888776

>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=99.91  E-value=3.7e-25  Score=190.17  Aligned_cols=106  Identities=26%  Similarity=0.373  Sum_probs=96.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcC--------CCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYS--------DLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g--------~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI   72 (251)
                      |+||||+++.+++.+++.|...|+++..+||        +|++.+|..++++|++|+++|||||+++++|+|+|+|++||
T Consensus       163 k~iiF~~~~~~~~~~~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~F~~g~~~vLv~T~~~~~Gld~~~~~~Vi  242 (286)
T d1wp9a2         163 KIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVV  242 (286)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHTTCCEEEECCSSCC-------CCHHHHHHHHHHHTSCSEEEECGGGGGGGGSTTCCEEE
T ss_pred             cEEEEeCcHHhHHHHHHHHHHcCCceEEeeccccccccchhchHHHHHHHHHHHcCCCcEEEEccceeccccCCCCCEEE
Confidence            6899999999999999999999999998877        56677899999999999999999999999999999999999


Q ss_pred             EecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         73 NYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        73 ~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      +||+||++..|+||+||+||.+ .|.++.|+++..
T Consensus       243 ~~d~~~~~~~~~Qr~GR~gR~~-~~~~~~l~~~~~  276 (286)
T d1wp9a2         243 FYEPVPSAIRSIQRRGRTGRHM-PGRVIILMAKGT  276 (286)
T ss_dssp             ESSCCHHHHHHHHHHTTSCSCC-CSEEEEEEETTS
T ss_pred             EeCCCCCHHHHHHHHHhCCCCC-CCEEEEEEeCCC
Confidence            9999999999999999999964 788899988754

>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=99.87  E-value=2.6e-22  Score=164.08  Aligned_cols=110  Identities=23%  Similarity=0.350  Sum_probs=97.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC------------------------------CCcEEEEcCCCCHHHHHHHHHHHhcCCc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA------------------------------GISSTYIYSDLDPTARKINAAKFQTGKI   50 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~------------------------------~~~~~~i~g~~~~~~r~~~~~~F~~g~~   50 (251)
                      ++||||+|+..|+.++..|...                              ...++++||+|++.+|..+.+.|++|.+
T Consensus        42 ~~LVF~~sRk~~~~~A~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~GIa~hh~~l~~~~r~~ie~~f~~g~i  121 (201)
T d2p6ra4          42 GVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNI  121 (201)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHHHTTCCCSSHHHHHHTTCCSHHHHHHHHHHHTTCCEECTTSCHHHHHHHHHHHHTTSC
T ss_pred             cEEEEeCCHHHHHHHHHHHHHHHHhhhchhHHHHHHHHhhhhhhhHHHHHHHhccHHHHHHHhhhhhHHHHHHHHhCCCc
Confidence            5899999999999888877642                              1237889999999999999999999999


Q ss_pred             eEEEeccccccccccccccEEEE-------ecCCCChhhHHHHhhhcccCCC--CceEEEEecCccHHH
Q psy18034         51 RVLVVTDVAARGIDIPSLDAVIN-------YNFPCKAKLFVHRVGRCARAGR--SGVAYSLVSSDELCY  110 (251)
Q Consensus        51 ~iLv~Td~~~~Gldi~~v~~VI~-------~d~P~~~~~y~qr~GR~gR~g~--~g~~i~l~~~~e~~~  110 (251)
                      +|||||+.+++|+|+|..++||+       ++.|.++..|+||+|||||.|.  .|.+++++.+.+...
T Consensus       122 ~vlvaT~~l~~Gin~p~~~vvi~~~~~~d~~~~~~~~~~~~q~~GRAGR~g~~~~G~~~l~~~~~~~~~  190 (201)
T d2p6ra4         122 KVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDREI  190 (201)
T ss_dssp             CEEEECSTTTSSSCCCBSEEEECCSEEESSSEEECCHHHHHHHHTTBSCTTTCSCEEEEEECCGGGHHH
T ss_pred             eEEEechHHHhhcCCCCceEEEecceeccCCcCCCCHHHHHHHhcccCCCCCCCeeEEEEEeCCCChHH
Confidence            99999999999999999999996       7789999999999999999985  688888887766543

>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=99.86  E-value=5.8e-25  Score=185.47  Aligned_cols=106  Identities=18%  Similarity=0.182  Sum_probs=92.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEec----ccccccccccc-ccEEEEec
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVT----DVAARGIDIPS-LDAVINYN   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~T----d~~~~Gldi~~-v~~VI~~d   75 (251)
                      ++||||+|++.++++++.|+..      +||+|++.+|.+++++|++|+++|||||    |+++||+|+|+ |++|||||
T Consensus        27 ~~iif~~~~~~~~~l~~~l~~~------~hg~~~~~~R~~~~~~f~~g~~~vLVaT~a~~~v~~rGlDip~~v~~VI~~d  100 (248)
T d1gkub2          27 GGIIYARTGEEAEEIYESLKNK------FRIGIVTATKKGDYEKFVEGEIDHLIGTAHYYGTLVRGLDLPERIRFAVFVG  100 (248)
T ss_dssp             CEEEEESSHHHHHHHHHTTTTS------SCEEECTTSSSHHHHHHHHTSCSEEEEECC------CCSCCTTTCCEEEEES
T ss_pred             CEEEEECCHHHHHHHHHHHHHh------ccCCCCHHHHHHHHHHHHhCCCeEEEEeccccchhhhccCccccccEEEEeC
Confidence            5899999999999999999753      7999999999999999999999999999    89999999996 99999999


Q ss_pred             CCCChhhHHHHhhhcccCCCCceEEEEecCccHHHHHHHHH
Q psy18034         76 FPCKAKLFVHRVGRCARAGRSGVAYSLVSSDELCYYLDLLL  116 (251)
Q Consensus        76 ~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e~~~~~~i~~  116 (251)
                      +|+    |.||+||+||+|+.|.+++++...+......+..
T Consensus       101 ~P~----~~~r~gR~~R~g~~~~~~~~~~~~~~~~~~~l~~  137 (248)
T d1gkub2         101 CPS----FRVTIEDIDSLSPQMVKLLAYLYRNVDEIERLLP  137 (248)
T ss_dssp             CCE----EEEECSCGGGSCHHHHHHHHTTTSCHHHHHTTCT
T ss_pred             CCc----chhhhhhhhccCcceEeeeeccHhhHHHHHHHHH
Confidence            996    8899999999999999988888777766554433

>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=99.85  E-value=2.4e-22  Score=170.79  Aligned_cols=102  Identities=18%  Similarity=0.223  Sum_probs=90.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHH----------HHHHHHHhcCCceEEEecccccc---cccccc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTAR----------KINAAKFQTGKIRVLVVTDVAAR---GIDIPS   67 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r----------~~~~~~F~~g~~~iLv~Td~~~~---Gldi~~   67 (251)
                      |+||||+|+..|+.|+..|+..|+.+..+||+|+++.|          ...++.|+.|+.+++|+|+++++   |+|++.
T Consensus        38 k~LVFcnSR~~aE~La~~L~~~Gi~a~~~Hgglsq~~R~~~gd~~i~~~~aLe~f~~G~~dvVVaT~~~a~g~~giDid~  117 (299)
T d1a1va2          38 RHLIFCHSKKKCDELAAKLVALGINAVAYYRGLDVSVIPTSGDVVVVATDALMTGFTGDFDSVIDCNTCVTQTVDFSLDP  117 (299)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHTTCCEEEECTTSCGGGSCSSSSEEEEECTTC---CCCCBSEEEECCEEEEEEEECCCSS
T ss_pred             CEEEECCcHHHHHHHHHHHHHCCCCEEEEeCCchHHHHHhccchHHHHHHHHHHHhcCCCcEEEEEeehhccCCCCCCCc
Confidence            58999999999999999999999999999999999876          46788999999999999999999   567778


Q ss_pred             ccEEEEecCCCChhhHHHHhhhcccCCCCceEEEEe
Q psy18034         68 LDAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLV  103 (251)
Q Consensus        68 v~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~  103 (251)
                      +.+|++||+|.|+++|+||+||+|| |+.|....+.
T Consensus       118 V~~VI~~d~P~SvesyIQRiGRTGR-Gr~G~~~~l~  152 (299)
T d1a1va2         118 TFTIETTTLPQDAVSRTQRRGRTGR-GKPGIYRFVA  152 (299)
T ss_dssp             SCEEEEEEEECBHHHHHHHHTTBCS-SSCEEEEESC
T ss_pred             ceEEEeCCCCCCHHHHHhhccccCC-CCCceEEEEe
Confidence            8899999999999999999999999 8888765443

>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=99.83  E-value=7e-22  Score=161.06  Aligned_cols=100  Identities=25%  Similarity=0.392  Sum_probs=89.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCCCh
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPCKA   80 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~~~   80 (251)
                      |+||||++...++.+++.|.     +..+||++++.+|..++++|++|+.+|||||+++++|+|+|.+++||++|+|||+
T Consensus        95 k~lvf~~~~~~~~~l~~~l~-----~~~i~g~~~~~~R~~~l~~F~~~~~~vLv~~~~~~~Gidl~~~~~vi~~~~~~s~  169 (200)
T d2fwra1          95 KIIIFTRHNELVYRISKVFL-----IPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSA  169 (200)
T ss_dssp             CBCCBCSCHHHHHHHHHHTT-----CCBCCSSSCSHHHHTHHHHHHHSSCSBCBCSSCCCSSSCSCCBSEEEEECCSSCC
T ss_pred             cEEEEeCcHHHHHHHHhhcC-----cceeeCCCCHHHHHHHHHHhhcCCeeeeeecchhhcccCCCCCCEEEEeCCCCCH
Confidence            68999999999999988773     4468999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHhhhcccCCCCc---eEEEEecC
Q psy18034         81 KLFVHRVGRCARAGRSG---VAYSLVSS  105 (251)
Q Consensus        81 ~~y~qr~GR~gR~g~~g---~~i~l~~~  105 (251)
                      ..|+||+||++|.|+.+   ..+.|+..
T Consensus       170 ~~~~Q~iGR~~R~~~~k~~~~i~~~v~~  197 (200)
T d2fwra1         170 REYIQRLGRILRPSKGKKEAVLYELISR  197 (200)
T ss_dssp             HHHHHHHHHSBCCCTTTCCEEEEEEEEC
T ss_pred             HHHHHHHHhcCCCCCCCcEEEEEEEecC
Confidence            99999999999998643   44555543

>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=99.82  E-value=1.4e-21  Score=159.89  Aligned_cols=95  Identities=20%  Similarity=0.259  Sum_probs=83.4

Q ss_pred             CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCCC-ChhhHHHHhhhcccCCCCceEEE
Q psy18034         23 GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFPC-KAKLFVHRVGRCARAGRSGVAYS  101 (251)
Q Consensus        23 ~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P~-~~~~y~qr~GR~gR~g~~g~~i~  101 (251)
                      ++.+..+||.|++++|++++.+|++|+++|||||+++++|||+|++++||++|.|. ..+.+.|..||+||.|+.|.|++
T Consensus        64 ~~~v~~lHG~m~~~eke~~m~~F~~g~~~iLVaTtViE~GIDip~a~~iii~~a~~fglsqlhQlrGRvGR~~~~~~~~l  143 (206)
T d1gm5a4          64 EFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQLHQLRGRVGRGGQEAYCFL  143 (206)
T ss_dssp             --CBCCCCSSSCCSCSHHHHHHHTTTSSSBCCCSSCCCSCSCCTTCCEEEBCSCSSSCTTHHHHHHHTSCCSSTTCEEEC
T ss_pred             CCeEEEEeecccHHHHHHHHHHHHCCCEEEEEEehhhhccccccCCcEEEEEccCCccHHHHHhhhhheeeccccceeEe
Confidence            56788899999999999999999999999999999999999999999999999996 67878888999999999999999


Q ss_pred             EecCccHHHHHHHHHH
Q psy18034        102 LVSSDELCYYLDLLLF  117 (251)
Q Consensus       102 l~~~~e~~~~~~i~~~  117 (251)
                      ++.+........+...
T Consensus       144 ~~~~~~~~~~~rl~~~  159 (206)
T d1gm5a4         144 VVGDVGEEAMERLRFF  159 (206)
T ss_dssp             CCCSCCHHHHHHHHHH
T ss_pred             eeccccccchhhhhhc
Confidence            9987665555555433

>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=99.73  E-value=5.8e-18  Score=137.52  Aligned_cols=106  Identities=16%  Similarity=0.168  Sum_probs=97.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC--CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecCC-
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA--GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNFP-   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~--~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~P-   77 (251)
                      |+-+.||..+..+.+++.++..  ++.+..+||.|++++++.++.+|++|+++|||||.+++.|+|+|+++++|..+.+ 
T Consensus        33 Qvy~V~p~I~~~e~~~~~l~~~~p~~~i~~lHGkm~~~eke~im~~F~~g~~~ILv~TtvIEvGiDvpnA~~iiI~~a~r  112 (211)
T d2eyqa5          33 QVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADH  112 (211)
T ss_dssp             EEEEECCCSSCHHHHHHHHHHHCTTSCEEECCSSCCHHHHHHHHHHHHTTSCCEEEESSTTGGGSCCTTEEEEEETTTTS
T ss_pred             eEEEEEcCccchhhHHHHHHHhCCceEEEEEEeccCHHHHHHHHHHHHcCCcceEEEehhhhhccCCCCCcEEEEecchh
Confidence            4678889888888888888776  7889999999999999999999999999999999999999999999999999987 


Q ss_pred             CChhhHHHHhhhcccCCCCceEEEEecCc
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVAYSLVSSD  106 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~i~l~~~~  106 (251)
                      ....++.|..||+||.+..|.|+++..+.
T Consensus       113 fGLaQLhQLRGRVGR~~~~s~c~l~~~~~  141 (211)
T d2eyqa5         113 FGLAQLHQLRGRVGRSHHQAYAWLLTPHP  141 (211)
T ss_dssp             SCHHHHHHHHTTCCBTTBCEEEEEEECCG
T ss_pred             ccccccccccceeeecCccceEEEEecCC
Confidence            58999999999999999999999998653

>d1z3ix1 c.37.1.19 (X:390-735) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Rad54-like, Rad54L
species: Zebra fish (Danio rerio) [TaxId: 7955]

Probab=99.66  E-value=2.5e-16  Score=138.15  Aligned_cols=106  Identities=10%  Similarity=0.165  Sum_probs=96.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCce---EEEeccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIR---VLVVTDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~---iLv~Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |+|||+++....+.+...|...|+.+..++|+++..+|..+++.|+++...   +|++|.+++.|+|++.+++||.||+|
T Consensus       120 KvlIFs~~~~~ld~l~~~l~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~vlLls~~agg~GlnL~~a~~vi~~d~~  199 (346)
T d1z3ix1         120 KVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPD  199 (346)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHTCCEEEECSSCCHHHHHHHHHHHHSTTCCCCEEEEEGGGSCTTCCCTTEEEEEECSCC
T ss_pred             ceeEEeehhhhhHHHHHHHhhhhccccccccchhHHHHHHHHHhhhcccccceeeeecchhhhhccccccceEEEEecCC
Confidence            689999999999999999999999999999999999999999999987543   67888999999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCceE--EEEecCc
Q psy18034         78 CKAKLFVHRVGRCARAGRSGVA--YSLVSSD  106 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g~~--i~l~~~~  106 (251)
                      |+|..+.|++||+.|.|+...+  +.|+..+
T Consensus       200 wnp~~~~Qa~~R~~R~GQ~~~V~v~rli~~~  230 (346)
T d1z3ix1         200 WNPANDEQAMARVWRDGQKKTCYIYRLLSTG  230 (346)
T ss_dssp             SSHHHHHHHHTTSSSTTCCSCEEEEEEEETT
T ss_pred             CccchHhHhhhcccccCCCCceEEEEEEeCC
Confidence            9999999999999999997644  4555544

>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=99.64  E-value=1.5e-16  Score=135.73  Aligned_cols=101  Identities=18%  Similarity=0.153  Sum_probs=85.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEE--------
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVI--------   72 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI--------   72 (251)
                      +++|||+++..++.+++.|+..|+.+..+||++.+..+    ..|++|..+++|+|+++++|+|++ ++.||        
T Consensus       180 ~~lvf~~~~~~~~~l~~~L~~~~~~~~~l~~~~~~~~~----~~~~~~~~~~lvaT~~~~~G~~~~-~~~Vi~~~~~~~~  254 (305)
T d2bmfa2         180 KTVWFVPSIKAGNDIAACLRKNGKKVIQLSRKTFDSEY----IKTRTNDWDFVVTTDISEMGANFK-AERVIDPRRCMKP  254 (305)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHTCCCEECCTTCHHHHG----GGGGTSCCSEEEECGGGGTTCCCC-CSEEEECCEEEEE
T ss_pred             CEEEEeccHHHHHHHHHHHHhCCCCEEEeCCcChHHHH----hhhhccchhhhhhhHHHHhcCCCC-ccEEEEcCCceee
Confidence            58999999999999999999999999999999876544    468999999999999999999995 44443        


Q ss_pred             --EecC----------CCChhhHHHHhhhcccCCCCceEEEEecCc
Q psy18034         73 --NYNF----------PCKAKLFVHRVGRCARAGRSGVAYSLVSSD  106 (251)
Q Consensus        73 --~~d~----------P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~  106 (251)
                        +||.          |.|+.+|+||+||+||.|+.+....++...
T Consensus       255 ~~~~~~~~~~~~~~~~~~s~~~~~Qr~GR~GR~~~~~~~~~~~~~~  300 (305)
T d2bmfa2         255 VILTDGEERVILAGPMPVTHSSAAQRRGRVGRNPKNENDQYIYMGE  300 (305)
T ss_dssp             EEECSSSCEEEEEEEEECCHHHHHHHHTTSSCSSSCCCEEEEECSC
T ss_pred             eEecCCCCceEEeccccCCHHHHhhhhcCcCcCCCCceEEEEECCC
Confidence              4443          568899999999999999888887776543

>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=99.61  E-value=7.6e-16  Score=128.54  Aligned_cols=106  Identities=19%  Similarity=0.317  Sum_probs=80.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-CCcEEEEcCCCCHHHHHHHHHHHhcCC-ceEEEe-ccccccccccccccEEEEecCC
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-GISSTYIYSDLDPTARKINAAKFQTGK-IRVLVV-TDVAARGIDIPSLDAVINYNFP   77 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-~~~~~~i~g~~~~~~r~~~~~~F~~g~-~~iLv~-Td~~~~Gldi~~v~~VI~~d~P   77 (251)
                      |+||||+.....+.+...|... |..+..+||++++.+|..+++.|.++. ..+|++ |.+++.|+|++.+++||+||+|
T Consensus        87 kviIFs~~~~~~~~l~~~l~~~~~~~~~~i~G~~~~~~R~~~i~~F~~~~~~~vll~~~~~~g~Glnl~~a~~vi~~~~~  166 (244)
T d1z5za1          87 KIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRW  166 (244)
T ss_dssp             CEEEEESCHHHHHHHHHHHHHHHCSCCCEECTTSCHHHHHHHHHHHHHCTTCCEEEEECCTTCCCCCCTTCSEEEECSCC
T ss_pred             ceEEEeeceehHHHHHHHHHhhccceEEEEecccchhccchhhhhhhccccchhccccccccccccccchhhhhhhcCch
Confidence            6899999999999999988755 888999999999999999999998874 566654 5899999999999999999999


Q ss_pred             CChhhHHHHhhhcccCCCCc--eEEEEecCc
Q psy18034         78 CKAKLFVHRVGRCARAGRSG--VAYSLVSSD  106 (251)
Q Consensus        78 ~~~~~y~qr~GR~gR~g~~g--~~i~l~~~~  106 (251)
                      ||+..+.|+.||+.|.|+..  .++.++..+
T Consensus       167 wn~~~~~Qa~~R~~R~Gq~~~v~i~~l~~~~  197 (244)
T d1z5za1         167 WNPAVEDQATDRVYRIGQTRNVIVHKLISVG  197 (244)
T ss_dssp             SCTTTC--------------CCEEEEEEETT
T ss_pred             hhhHHHhhhcceeeecCCCCceEEEEEeeCC
Confidence            99999999999999999854  445566654

>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=99.55  E-value=6.4e-15  Score=126.23  Aligned_cols=99  Identities=18%  Similarity=0.156  Sum_probs=79.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccccccccccccEEEEecC----
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPSLDAVINYNF----   76 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~v~~VI~~d~----   76 (251)
                      +++|||++...++.+++.|+..|..+.++||.+...++.    +|++|+.++|||||+++.|+|+ ++.+||+.++    
T Consensus        38 ~~~~F~~s~~~~~~~a~~L~~~g~~V~~l~~~~~~~e~~----~~~~~~~~~~~~t~~~~~~~~~-~~~~vid~g~~~~~  112 (299)
T d1yksa2          38 PTAWFLPSIRAANVMAASLRKAGKSVVVLNRKTFEREYP----TIKQKKPDFILATDIAEMGANL-CVERVLDCRTAFKP  112 (299)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHTTCCEEECCSSSCC------------CCCSEEEESSSTTCCTTC-CCSEEEECCEEEEE
T ss_pred             CEEEEeCCHHHHHHHHHHHHhcCCeEEEEcCcCcHhHHh----hhhcCCcCEEEEechhhhceec-CceEEEecCceece
Confidence            689999999999999999999999999999999877644    5789999999999999999999 5999996553    


Q ss_pred             ---------------CCChhhHHHHhhhcccCCCCceEEEEec
Q psy18034         77 ---------------PCKAKLFVHRVGRCARAGRSGVAYSLVS  104 (251)
Q Consensus        77 ---------------P~~~~~y~qr~GR~gR~g~~g~~i~l~~  104 (251)
                                     |.+..+..||.||+||.+....++.++.
T Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~qr~gr~gr~~~~~~~~~~y~  155 (299)
T d1yksa2         113 VLVDEGRKVAIKGPLRISASSAAQRRGRIGRNPNRDGDSYYYS  155 (299)
T ss_dssp             EEETTTTEEEEEEEEECCHHHHHHHHTTSSCCTTCCCEEEEEC
T ss_pred             eeecCCCCeeEEeeeecCHHHHHHhcccccccCCCceEEEEeC
Confidence                           3567788999999999865555555554

>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=99.30  E-value=1.6e-11  Score=96.19  Aligned_cols=104  Identities=23%  Similarity=0.268  Sum_probs=87.2

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccccccccccc---cc-----EEEE
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPS---LD-----AVIN   73 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~---v~-----~VI~   73 (251)
                      +||+|.|.+..+.++..|+..|++...++.....  ++..+-+..-..-.|.|||++++||.|+.-   |.     +||.
T Consensus        37 VLIgT~SIe~SE~ls~~L~~~gi~h~vLnAk~~~--~Ea~II~~Ag~~g~VtIATNmAGRGtDikl~~~v~~~GGLhVI~  114 (175)
T d1tf5a4          37 VLVGTVAVETSELISKLLKNKGIPHQVLNAKNHE--REAQIIEEAGQKGAVTIATNMAGRGTDIKLGEGVKELGGLAVVG  114 (175)
T ss_dssp             EEEEESCHHHHHHHHHHHHTTTCCCEEECSSCHH--HHHHHHTTTTSTTCEEEEETTSSTTCCCCCCTTSGGGTSEEEEE
T ss_pred             EEEEeCcHHHHHHHHHHHHHcCCCceeehhhhHH--HHHHHHHhccCCCceeehhhHHHcCCCccchHHHHhCCCcEEEE
Confidence            7999999999999999999999999999987643  333344433334579999999999999852   22     8999


Q ss_pred             ecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         74 YNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        74 ~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                      ...|.+.....|-.||+||.|.+|.+..|++-++
T Consensus       115 t~~~~s~Rid~Ql~GR~gRQGdpGs~~~~~sleD  148 (175)
T d1tf5a4         115 TERHESRRIDNQLRGRSGRQGDPGITQFYLSMED  148 (175)
T ss_dssp             SSCCSSHHHHHHHHTTSSGGGCCEEEEEEEETTS
T ss_pred             eccCcchhHHHHHhcchhhhCCCcccEEEEEcCH
Confidence            9999999999999999999999999999987544

>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=98.58  E-value=4.4e-07  Score=72.12  Aligned_cols=104  Identities=18%  Similarity=0.199  Sum_probs=84.2

Q ss_pred             EEEEcCcHHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecccccccccccc--------------
Q psy18034          2 TVVFTATKYHVEYVHKILGLAGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAARGIDIPS--------------   67 (251)
Q Consensus         2 ~iIF~~t~~~~~~l~~~L~~~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~~Gldi~~--------------   67 (251)
                      +||.+.|.+..+.|+.+|...|+++..++..-.  +|+..+=+=.-..-.|-|||++++||.||--              
T Consensus        37 VLVGT~SVe~SE~lS~lL~~~gi~h~vLNAK~h--erEAeIIAqAG~~GaVTIATNMAGRGTDI~LGgn~~~~~~~~~~~  114 (219)
T d1nkta4          37 VLIGTTSVERSEYLSRQFTKRRIPHNVLNAKYH--EQEATIIAVAGRRGGVTVATNMAGRGTDIVLGGNVDFLTDQRLRE  114 (219)
T ss_dssp             EEEEESCHHHHHHHHHHHHHTTCCCEEECSSCH--HHHHHHHHTTTSTTCEEEEETTCSTTCCCCTTCCHHHHHHHHHHH
T ss_pred             EEEeeCcHHHHHHHHHHHHHhccchhccchhhH--HHHHHHHHhcccCCcEEeeccccCCCCceeecCchhhhhHHHhhh
Confidence            789999999999999999999999999999743  4444333322224468999999999999932              


Q ss_pred             ---------------------------------c-----cEEEEecCCCChhhHHHHhhhcccCCCCceEEEEecCcc
Q psy18034         68 ---------------------------------L-----DAVINYNFPCKAKLFVHRVGRCARAGRSGVAYSLVSSDE  107 (251)
Q Consensus        68 ---------------------------------v-----~~VI~~d~P~~~~~y~qr~GR~gR~g~~g~~i~l~~~~e  107 (251)
                                                       |     =+||-.....|..-=-|-.||+||-|.+|.+..|++-++
T Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIGTErHeSrRIDnQLRGRsGRQGDPGsSrFflSLeD  192 (219)
T d1nkta4         115 RGLDPVETPEEYEAAWHSELPIVKEEASKEAKEVIEAGGLYVLGTERHESRRIDNQLRGRSGRQGDPGESRFYLSLGD  192 (219)
T ss_dssp             TTCCTTTSHHHHHHHHHHHHHHHHHHTTHHHHHHHHTTSEEEEECSCCSSHHHHHHHHHTSSGGGCCEEEEEEEETTS
T ss_pred             cccCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcEEEeccccccccccccccccccccCCCccceeEEeccH
Confidence                                             1     178888888888888899999999999999998887554

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.28  E-value=0.00042  Score=56.89  Aligned_cols=87  Identities=14%  Similarity=0.084  Sum_probs=63.4

Q ss_pred             CEEEEcCcHHHHHHHHHHHHh----CCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccc-cccccccccEEEEec
Q psy18034          1 MTVVFTATKYHVEYVHKILGL----AGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA-RGIDIPSLDAVINYN   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~----~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~-~Gldi~~v~~VI~~d   75 (251)
                      |+++.++|.--+.+.++.++.    .|+.+..+||+++..+|.+++.+.++|+.+|+|+|-.+- ..+.+.++..||-=.
T Consensus       134 q~~~m~Pt~~La~Qh~~~~~~~f~~~~~~v~~l~~~~~~~~r~~~~~~~~~g~~~iiIGThsl~~~~~~f~~LglviiDE  213 (264)
T d1gm5a3         134 QTAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALIQEDVHFKNLGLVIIDE  213 (264)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHHTCSSCCEEECCSSSCHHHHHHHHHHHHSSCCCEEEECTTHHHHCCCCSCCCEEEEES
T ss_pred             ceeEEeehHhhhHHHHHHHHHhhhhccccceeeccccchHHHHHHHHHHHCCCCCEEEeehHHhcCCCCccccceeeecc
Confidence            688999998777766655544    488999999999999999999999999999999996554 467777888777432


Q ss_pred             CCCChhhHHHHhhh
Q psy18034         76 FPCKAKLFVHRVGR   89 (251)
Q Consensus        76 ~P~~~~~y~qr~GR   89 (251)
                        ...-.|-||-+-
T Consensus       214 --qH~fgv~Qr~~l  225 (264)
T d1gm5a3         214 --QHRFGVKQREAL  225 (264)
T ss_dssp             --CCCC-----CCC
T ss_pred             --ccccchhhHHHH
Confidence              222345666543

>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=96.74  E-value=0.0023  Score=51.27  Aligned_cols=86  Identities=14%  Similarity=0.035  Sum_probs=68.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHh----CCCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccccc-cccccccccEEEEec
Q psy18034          1 MTVVFTATKYHVEYVHKILGL----AGISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDVAA-RGIDIPSLDAVINYN   75 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~----~~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~~~-~Gldi~~v~~VI~~d   75 (251)
                      |+++.++|.--+.+.++.++.    .+..+..+||.++..+|..++....+|+.+|+|.|-.+- ..+.++++..||-=.
T Consensus       106 qv~~l~Pt~~La~Q~~~~~~~~~~~~~~~v~~l~~~~~~~~~~~~~~~~~~g~~~iviGths~l~~~~~f~~LgLiIiDE  185 (233)
T d2eyqa3         106 QVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLIVDE  185 (233)
T ss_dssp             EEEEECSSHHHHHHHHHHHHHHSTTTTCCEEEESTTSCHHHHHHHHHHHHTTCCSEEEECTHHHHSCCCCSSEEEEEEES
T ss_pred             ceEEEccHHHhHHHHHHHHHHHHhhCCCEEEeccCcccchhHHHHHHHHhCCCCCEEEeehhhhccCCccccccceeeec
Confidence            578999999999988888876    478899999999999999999999999999999997554 468888888777432


Q ss_pred             CCCChhhHHHHhh
Q psy18034         76 FPCKAKLFVHRVG   88 (251)
Q Consensus        76 ~P~~~~~y~qr~G   88 (251)
                        ...-.|-||.+
T Consensus       186 --eH~fg~kQ~~~  196 (233)
T d2eyqa3         186 --EHRFGVRHKER  196 (233)
T ss_dssp             --GGGSCHHHHHH
T ss_pred             --hhhhhhHHHHH
Confidence              11234556654

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=93.73  E-value=0.14  Score=39.22  Aligned_cols=68  Identities=12%  Similarity=0.079  Sum_probs=49.9

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc-----c-ccccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV-----A-ARGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~-----~-~~Gldi~~v~~   70 (251)
                      +++|.|+|++.+..+.+.+...    +..+...+|+.+..+....++     ..+|+|+|+-     + ...+++.++.+
T Consensus        74 ~~lil~pt~~l~~q~~~~~~~~~~~~~~~v~~~~g~~~~~~~~~~l~-----~~~IlV~TP~~l~~~l~~~~~~~~~l~~  148 (208)
T d1hv8a1          74 EAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKALK-----NANIVVGTPGRILDHINRGTLNLKNVKY  148 (208)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHHCSSCCCEEEECTTSCHHHHHHHHH-----TCSEEEECHHHHHHHHHTTCSCTTSCCE
T ss_pred             ceEEEeeccccchhhhhhhhhhcccCCeEEEEeeCCCChHHHHHhcC-----CCCEEEEChHHHHHHHHcCCCCcccCcE
Confidence            5899999999999998887765    678889999988776555442     3689999952     2 23456667766


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      +|-
T Consensus       149 lVi  151 (208)
T d1hv8a1         149 FIL  151 (208)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            654

>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=93.33  E-value=0.19  Score=39.11  Aligned_cols=68  Identities=9%  Similarity=0.036  Sum_probs=49.2

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc------cccccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV------AARGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~------~~~Gldi~~v~~   70 (251)
                      +++|.|+|++.+.++++.++..    ++.+..++|+.+..+....++   . ..+|+|+|+-      -...+++..+.+
T Consensus        87 ~~lil~PtreLa~Qi~~~~~~l~~~~~i~~~~~~g~~~~~~~~~~l~---~-~~~Ilv~TPgrl~~~~~~~~~~~~~l~~  162 (222)
T d2j0sa1          87 QALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLD---Y-GQHVVAGTPGRVFDMIRRRSLRTRAIKM  162 (222)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTTTCCEEEECTTSCHHHHHHHHH---H-CCSEEEECHHHHHHHHHTTSSCCTTCCE
T ss_pred             eeEEecchHHHHHHHHHHHHHHhCccceeEEEEeecccchhhHHHhc---c-CCeEEeCCCCcHHhccccccccccccee
Confidence            5799999999999999888665    578889999988766555443   2 3589999951      123455566666


Q ss_pred             EE
Q psy18034         71 VI   72 (251)
Q Consensus        71 VI   72 (251)
                      +|
T Consensus       163 lV  164 (222)
T d2j0sa1         163 LV  164 (222)
T ss_dssp             EE
T ss_pred             ee
Confidence            55

>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=88.81  E-value=0.93  Score=34.36  Aligned_cols=54  Identities=11%  Similarity=0.065  Sum_probs=40.8

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhCC-----CcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLAG-----ISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~~-----~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      +++|.|+|++.+..+.+.++..+     +.+..++|+.+......   .......+|||+|+
T Consensus        71 ~~lil~PtreL~~qi~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~---~l~~~~~~ilI~TP  129 (207)
T d1t6na_          71 SVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEE---VLKKNCPHIVVGTP  129 (207)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHTTTSTTCCEEEESCCSCHHHHHH---HHHHSCCSEEEECH
T ss_pred             eEEEEeccchhhHHHHHHHHHHHhhCCCceeEEEeccccHHHHHH---HHHhcCCCEEEeCc
Confidence            47999999999999988887652     45778888887655443   34456678999996

>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=86.95  E-value=1  Score=34.92  Aligned_cols=53  Identities=13%  Similarity=0.055  Sum_probs=40.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      +++|.|+|++.+..+.+.+...    ++.+..++|+.....+..    ......+|+|+|+
T Consensus       100 ~alil~pt~el~~q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~ivV~TP  156 (238)
T d1wrba1         100 KCLILAPTRELAIQILSESQKFSLNTPLRSCVVYGGADTHSQIR----EVQMGCHLLVATP  156 (238)
T ss_dssp             SEEEECSSHHHHHHHHHHHHHHHTTSSCCEEEECSSSCSHHHHH----HHSSCCSEEEECH
T ss_pred             eEEEeccchhhhcchheeeeecccCCCcEEEEEeccchhhHHHh----hcccCCceeecCH
Confidence            5899999999999998777554    678888888776554432    2345678999996

>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=85.84  E-value=1.5  Score=33.02  Aligned_cols=53  Identities=13%  Similarity=0.095  Sum_probs=40.1

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC-----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA-----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~-----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      +++|.|+|++.+..+++.+...     +..+...+|+.+.......+    ....+++|+|+
T Consensus        73 ~~lil~pt~el~~q~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~l----~~~~~ivv~TP  130 (206)
T d1veca_          73 QAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMRL----DDTVHVVIATP  130 (206)
T ss_dssp             CEEEECSCHHHHHHHHHHHHHHTTTSSSCCEEEECSSSCHHHHHHHT----TSCCSEEEECH
T ss_pred             ceEEEeecchhhHHHHHHHHHHhhcccCcccccccCCccHHHHHHHH----HhccCeEEeCC
Confidence            5799999999999998887644     46677888887776554433    35678999985

>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=81.27  E-value=1.5  Score=33.27  Aligned_cols=68  Identities=10%  Similarity=0.046  Sum_probs=41.7

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEeccc------cccccccccccE
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTDV------AARGIDIPSLDA   70 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td~------~~~Gldi~~v~~   70 (251)
                      +++|.|+|++.+..+...+...    +..+...+|+-+..++...     ....+|+|+|+-      -..++++..+.+
T Consensus        80 ~~lil~pt~el~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~IvI~TP~~l~~~~~~~~~~l~~l~~  154 (212)
T d1qdea_          80 QALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEG-----LRDAQIVVGTPGRVFDNIQRRRFRTDKIKM  154 (212)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHTTTSCCCEEEECC---------------CTTCSEEEECHHHHHHHHHTTSSCCTTCCE
T ss_pred             ceEEEcccHHHhhhhhhhhcccccccccceeeEeeccchhHHHHH-----hcCCcEEEECCCccccccccCceecCcceE
Confidence            5799999999999998888655    4566677776554433322     124689999852      223567777777


Q ss_pred             EEE
Q psy18034         71 VIN   73 (251)
Q Consensus        71 VI~   73 (251)
                      +|-
T Consensus       155 lVl  157 (212)
T d1qdea_         155 FIL  157 (212)
T ss_dssp             EEE
T ss_pred             Eee
Confidence            664

>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=80.63  E-value=0.57  Score=36.04  Aligned_cols=54  Identities=19%  Similarity=0.204  Sum_probs=35.3

Q ss_pred             CEEEEcCcHHHHHHHHHHHHhC----CCcEEEEcCCCCHHHHHHHHHHHhcCCceEEEecc
Q psy18034          1 MTVVFTATKYHVEYVHKILGLA----GISSTYIYSDLDPTARKINAAKFQTGKIRVLVVTD   57 (251)
Q Consensus         1 k~iIF~~t~~~~~~l~~~L~~~----~~~~~~i~g~~~~~~r~~~~~~F~~g~~~iLv~Td   57 (251)
                      ++||+|+|++-+.++++.+...    +..+..++++....+.   ......+..+|+|+|+
T Consensus        82 ~alil~Pt~eL~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~IvV~TP  139 (218)
T d2g9na1          82 QALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAE---VQKLQMEAPHIIVGTP  139 (218)
T ss_dssp             CEEEECSSHHHHHHHHHHHHHHHTTTTCCEEEECC--CCCST---TTSSSSCCCSEEEECH
T ss_pred             cEEEEcccchhhhhHHHHHhhhccccceeEEeeecccchhHH---HHHHhcCCCEEEEeCC
Confidence            5899999999999988877665    5566666665432211   1223334667999985