Psyllid ID: psy9740

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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-------19
Protein Sequence
VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR
Secondary Structure (PSIPRED)
ccccccHHHHHHHccccccccccEEEEEEcccccccccHHHHHHHHHHHccccccEEEEEccccccHHHHHHHHccccEEEEEEcccccHHHHHHHHHHHccccccccHHHHHHHHHHcccEEEEEEEcccEEEEEEccccccHHHHHHcccEEEcccccHHHHHHHHHHHHHHcccccEEEEEEcccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHccccccccccEEEEccHHHHHccccHHHHHHHHHccccccEEEEEEccccHHHHHHHHHHHcccEEEEEcccccccccEEEEEEEccccHHHHHHHHHHccccEEEEEEEccccHHHHHHHHHHccccEEEEEccccHHHHHHHHHHccHHHHHHHHHHHccccccEEEEEcccc
Coil and Loop (DISEMBL)
viatpgrladhldtcntfslnriKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQyyvlcpydvkdgylVETVRLYreksprgaiVIFTDTCR
Flexible Loop (DISEMBL)
viatpgrladhldtcnTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGTLLFsatmtdtleQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRlyreksprgaiviftdtcr
Low Complexity Region (SEG)
VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR
Disordered region (IsUnstruct)
*******LADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTD***
Disordered Region (DISOPRED)
VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR
Disordered Region (DISEMBL)
VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSIT**********SSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR
Disordered Region (DISPRO)
VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR
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	189	2.2.26 [Sep-21-2011]
Q9Y6V7	483	Probable ATP-dependent RN	yes	N/A	0.703	0.275	0.354	2e-21
Q4FZF3	480	Probable ATP-dependent RN	yes	N/A	0.703	0.277	0.354	3e-21
Q07886	521	Probable ATP-dependent RN	yes	N/A	0.698	0.253	0.320	5e-17
Q0CZN5	821	ATP-dependent RNA helicas	N/A	N/A	0.661	0.152	0.333	4e-16
A1A4H6	765	Probable ATP-dependent RN	yes	N/A	0.407	0.100	0.506	4e-16
Q921N6	760	Probable ATP-dependent RN	no	N/A	0.407	0.101	0.506	5e-16
A2QAX7	824	ATP-dependent RNA helicas	yes	N/A	0.661	0.151	0.333	5e-16
Q96GQ7	796	Probable ATP-dependent RN	no	N/A	0.407	0.096	0.506	5e-16
Q6CH58	480	ATP-dependent rRNA helica	yes	N/A	0.671	0.264	0.310	2e-15
Q4WRV2	830	ATP-dependent RNA helicas	yes	N/A	0.661	0.150	0.309	3e-15

>sp|Q9Y6V7|DDX49_HUMAN Probable ATP-dependent RNA helicase DDX49 OS=Homo sapiens GN=DDX49 PE=1 SV=1

 Score =  102 bits (253), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 68/192 (35%), Positives = 96/192 (50%), Gaps = 59/192 (30%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GI--FDEQMRTIFGAVPKQKQTL 57
           VIATPGRLADHL + NTFS+ +I+FLV+DEADRLL  G   F   +  I  AVP ++QTL
Sbjct: 124 VIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGCTDFTVDLEAILAAVPARRQTL 183

Query: 58  LFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLC 117
           LFSAT+TDTL +++ +                                   ++ Q F   
Sbjct: 184 LFSATLTDTLRELQGL-----------------------------------ATNQPFFWE 208

Query: 118 QQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSP 177
            Q  V+  + QLD                    Q Y+L P  VKD YLV  ++ ++++  
Sbjct: 209 AQAPVS-TVEQLD--------------------QRYLLVPEKVKDAYLVHLIQRFQDEHE 247

Query: 178 RGAIVIFTDTCR 189
             +I+IFT+TC+
Sbjct: 248 DWSIIIFTNTCK 259

Homo sapiens (taxid: 9606)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 3

>sp|Q4FZF3|DDX49_MOUSE Probable ATP-dependent RNA helicase DDX49 OS=Mus musculus GN=Ddx49 PE=2 SV=1

 Score =  101 bits (252), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 68/192 (35%), Positives = 98/192 (51%), Gaps = 59/192 (30%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GI--FDEQMRTIFGAVPKQKQTL 57
           VIATPGRLADHL + NTF++ +I+FLV+DEADRLL  G   F   + TI  AVP ++QTL
Sbjct: 124 VIATPGRLADHLRSSNTFNMKKIQFLVMDEADRLLEQGCTDFTTDLETILAAVPARRQTL 183

Query: 58  LFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLC 117
           LFSAT+TDTL++++ +                                   ++ + F   
Sbjct: 184 LFSATLTDTLKELQGL-----------------------------------ATNEPFFWE 208

Query: 118 QQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSP 177
            Q  V + + QLD                    Q Y+L P  VKD YLV  V+ ++++  
Sbjct: 209 AQATV-RTVEQLD--------------------QRYLLVPEKVKDAYLVHLVQTFQDQLE 247

Query: 178 RGAIVIFTDTCR 189
             +I+IFT+TC+
Sbjct: 248 DCSIIIFTNTCK 259

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q07886|DDX49_DROME Probable ATP-dependent RNA helicase Dbp45A OS=Drosophila melanogaster GN=Dbp45A PE=2 SV=2

 Score = 87.4 bits (215), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 60/187 (32%), Positives = 88/187 (47%), Gaps = 55/187 (29%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+A PGRLADHL  C+TFS + +K+LV+DEADR+L+G FDE +  I   +PK +Q L FS
Sbjct: 129 VVAMPGRLADHLTGCDTFSFDNLKYLVVDEADRMLNGDFDESLSIIERCLPKTRQNLFFS 188

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           ATM D +++          + +F    +D  E  +      V T+      Q +LLC   
Sbjct: 189 ATMKDFIKE----------SSIFPIA-SDCFEWSQDSDVATVETLD-----QRYLLC--- 229

Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGA 180
                                                YD +D  L+E +R YRE++    
Sbjct: 230 -----------------------------------ADYD-RDMVLIEALRKYREENENAN 253

Query: 181 IVIFTDT 187
           ++IFT+T
Sbjct: 254 VMIFTNT 260

Probable ATP-binding RNA helicase.

Drosophila melanogaster (taxid: 7227)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q0CZN5|DRS1_ASPTN ATP-dependent RNA helicase drs1 OS=Aspergillus terreus (strain NIH 2624 / FGSC A1156) GN=drs1 PE=3 SV=1

 Score = 84.7 bits (208), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 42/126 (33%), Positives = 75/126 (59%), Gaps = 1/126 (0%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           +IATPGR  DH+    +F+++ ++ LVLDEADR+L   F +++  I   +PK +QT+LFS
Sbjct: 429 IIATPGRFIDHMRNSASFTVDTLEILVLDEADRMLEDGFADELNEILTTIPKSRQTMLFS 488

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           ATMTDT++++  +   +   L+  +    +L  V+   + + G   K+  Y  + LC++ 
Sbjct: 489 ATMTDTVDKLIRVGLNRPVRLMVDSKKNTSLTLVQEFVRLRPGREDKRLGYLLY-LCKEI 547

Query: 121 IVAQII 126
              ++I
Sbjct: 548 YTGRVI 553

ATP-binding RNA helicase involved in ribosome assembly.

Aspergillus terreus (strain NIH 2624 / FGSC A1156) (taxid: 341663)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|A1A4H6|DDX27_BOVIN Probable ATP-dependent RNA helicase DDX27 OS=Bos taurus GN=DDX27 PE=2 SV=1

 Score = 84.3 bits (207), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 39/77 (50%), Positives = 54/77 (70%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           +IATPGRL DHL  C +F L+ I+ L+LDEADR+L   F+EQM+ I       +QT+LFS
Sbjct: 312 LIATPGRLIDHLHNCPSFHLSSIEVLILDEADRMLDEYFEEQMKEIIRMCSHHRQTMLFS 371

Query: 61  ATMTDTLEQVKSITKKQ 77
           ATMTD ++ + S++ K 
Sbjct: 372 ATMTDEVKDLASVSLKN 388

Probable ATP-dependent RNA helicase.

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q921N6|DDX27_MOUSE Probable ATP-dependent RNA helicase DDX27 OS=Mus musculus GN=Ddx27 PE=1 SV=3

 Score = 84.3 bits (207), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 39/77 (50%), Positives = 54/77 (70%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           +IATPGRL DHL  C +F L+ I+ L+LDEADR+L   F+EQM+ I       +QT+LFS
Sbjct: 309 LIATPGRLIDHLHNCPSFHLSSIEVLILDEADRMLDEYFEEQMKEIIRMCSHHRQTMLFS 368

Query: 61  ATMTDTLEQVKSITKKQ 77
           ATMTD ++ + S++ K 
Sbjct: 369 ATMTDEVKDLASVSLKN 385

Probable ATP-dependent RNA helicase.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|A2QAX7|DRS1_ASPNC ATP-dependent RNA helicase drs1 OS=Aspergillus niger (strain CBS 513.88 / FGSC A1513) GN=drs1 PE=3 SV=1

 Score = 84.0 bits (206), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 42/126 (33%), Positives = 74/126 (58%), Gaps = 1/126 (0%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           +IATPGR  DH+    +F+++ ++ LVLDEADR+L   F +++  I   +PK +QT+LFS
Sbjct: 434 IIATPGRFIDHMRNSASFTVDTLEILVLDEADRMLEDGFADELNEILTTIPKSRQTMLFS 493

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           ATMTDT++++  +   +   L+  A     +  V+   + + G   K+  Y  + LC++ 
Sbjct: 494 ATMTDTVDKLIRVGLNRPVRLMVDAKKNTAVTLVQEFVRLRPGREDKRLGYLLY-LCKEI 552

Query: 121 IVAQII 126
              ++I
Sbjct: 553 YTGRVI 558

ATP-binding RNA helicase involved in ribosome assembly.

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

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q96GQ7|DDX27_HUMAN Probable ATP-dependent RNA helicase DDX27 OS=Homo sapiens GN=DDX27 PE=1 SV=2

 Score = 84.0 bits (206), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 39/77 (50%), Positives = 54/77 (70%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           +IATPGRL DHL  C +F L+ I+ L+LDEADR+L   F+EQM+ I       +QT+LFS
Sbjct: 343 LIATPGRLIDHLHNCPSFHLSSIEVLILDEADRMLDEYFEEQMKEIIRMCSHHRQTMLFS 402

Query: 61  ATMTDTLEQVKSITKKQ 77
           ATMTD ++ + S++ K 
Sbjct: 403 ATMTDEVKDLASVSLKN 419

Probable ATP-dependent RNA helicase.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: 1

EC: 3

>sp|Q6CH58|RRP3_YARLI ATP-dependent rRNA helicase RRP3 OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=RRP3 PE=3 SV=1

 Score = 82.4 bits (202), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 58/187 (31%), Positives = 80/187 (42%), Gaps = 60/187 (32%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ATPGRL DHL+    FSL  +KFLV+DEADRLL   F   +  I   +P+Q+ T LFS
Sbjct: 186 IVATPGRLVDHLENTKGFSLRTLKFLVMDEADRLLDMEFGPSLDKILKVIPRQRNTYLFS 245

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           ATMT  +E++                                                  
Sbjct: 246 ATMTSKVEKL-------------------------------------------------- 255

Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGA 180
              Q  + +DPV V V    Q   T + L QY V CP+  KD +LV  V     ++   +
Sbjct: 256 ---QRASLVDPVRVAVSTKYQ---TADNLLQYMVFCPFKHKDTHLVYLV----SENAGNS 305

Query: 181 IVIFTDT 187
           ++IF  T
Sbjct: 306 MIIFART 312

Required for pre-ribosomal RNA processing. Involved in the maturation of the 35S-pre-rRNA and to its cleavage to mature 18S rRNA.

Yarrowia lipolytica (strain CLIB 122 / E 150) (taxid: 284591)

EC: 3

EC: .

EC: 6

EC: .

EC: 4

EC: .

EC: -

>sp|Q4WRV2|DRS1_ASPFU ATP-dependent RNA helicase drs1 OS=Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) GN=drs1 PE=3 SV=1

 Score = 81.3 bits (199), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 39/126 (30%), Positives = 73/126 (57%), Gaps = 1/126 (0%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           +IATPGR  DH+    +F+++ ++ LVLDEADR+L   F +++  I   +PK +QT+LFS
Sbjct: 435 IIATPGRFIDHMRNSPSFTVDTLEILVLDEADRMLEDGFADELNEILTTIPKSRQTMLFS 494

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           ATMTD+++++  +   +   L+  +    ++   +   + + G   K+  Y  + LC + 
Sbjct: 495 ATMTDSVDKLIRVGLNRPVRLMVDSKKNTSMNLTQEFVRLRPGREDKRLGYLLY-LCNEI 553

Query: 121 IVAQII 126
              ++I
Sbjct: 554 YTGRVI 559

ATP-binding RNA helicase involved in ribosome assembly.

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

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	189
328720638	470	PREDICTED: probable ATP-dependent RNA he	0.703	0.282	0.502	2e-42
328789449	452	PREDICTED: probable ATP-dependent RNA he	0.703	0.294	0.471	1e-40
350415766	452	PREDICTED: probable ATP-dependent RNA he	0.703	0.294	0.481	5e-40
340728741	452	PREDICTED: probable ATP-dependent RNA he	0.703	0.294	0.476	7e-40
380026593	452	PREDICTED: probable ATP-dependent RNA he	0.703	0.294	0.471	1e-39
307167913	457	Probable ATP-dependent RNA helicase DDX4	0.703	0.291	0.465	4e-38
383851888	449	PREDICTED: probable ATP-dependent RNA he	0.703	0.296	0.465	4e-38
322796322	420	hypothetical protein SINV_00745 [Solenop	0.703	0.316	0.465	2e-37
346466157	487	hypothetical protein [Amblyomma maculatu	0.703	0.273	0.423	1e-34
242005222	422	DEAD box ATP-dependent RNA helicase, put	0.703	0.315	0.433	4e-34

>gi|328720638|ref|XP_001950474.2| PREDICTED: probable ATP-dependent RNA helicase DDX49-like [Acyrthosiphon pisum]

 Score =  177 bits (449), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 95/189 (50%), Positives = 118/189 (62%), Gaps = 56/189 (29%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V++TPGRLADHL++C+TFSL RI+FLVLDEADRLL G FD+Q+ TIF A+PK++QTLLFS
Sbjct: 123 VVSTPGRLADHLESCDTFSLKRIQFLVLDEADRLLGGKFDKQIATIFKALPKERQTLLFS 182

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
                                   ATMTDTLE+VK ITKK                    
Sbjct: 183 ------------------------ATMTDTLEKVKMITKK-------------------- 198

Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGA 180
                       + FV+ES  +V TV+EL+Q+YVLCPY+VKDGYLVE VR +REK  +G 
Sbjct: 199 ------------NTFVYESTAEVKTVDELEQFYVLCPYNVKDGYLVEIVRQFREKDEKGL 246

Query: 181 IVIFTDTCR 189
           I+IFTDTC+
Sbjct: 247 IMIFTDTCK 255

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328789449|ref|XP_003251275.1| PREDICTED: probable ATP-dependent RNA helicase DDX49-like [Apis mellifera]

 Score =  171 bits (433), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 90/191 (47%), Positives = 115/191 (60%), Gaps = 58/191 (30%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRLADHL++CNTFSL +IKFLVLDEADRLL G FD+Q++TIF A+PKQKQ LLFS
Sbjct: 123 VVATPGRLADHLESCNTFSLKQIKFLVLDEADRLLEGYFDDQLKTIFEALPKQKQILLFS 182

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           ATMTDTL +VK I                                    S +AF      
Sbjct: 183 ATMTDTLHKVKHIV-----------------------------------SNKAF------ 201

Query: 121 IVAQIITQLDPVHVFVWESKQD--VATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPR 178
                          +WESK +  +ATV+EL+Q+YVLCP D++D +LVE +R +R  +  
Sbjct: 202 ---------------IWESKDESGIATVKELNQHYVLCPRDIRDSFLVEVIRTFRANNKN 246

Query: 179 GAIVIFTDTCR 189
           G+I+IFTDTC+
Sbjct: 247 GSIIIFTDTCK 257

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350415766|ref|XP_003490744.1| PREDICTED: probable ATP-dependent RNA helicase DDX49-like [Bombus impatiens]

 Score =  169 bits (428), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 92/191 (48%), Positives = 116/191 (60%), Gaps = 58/191 (30%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRLADHL++CNTFSL +IKFLVLDEADRLL G FD+Q++TIF A+PK+KQ LLFS
Sbjct: 123 VVATPGRLADHLESCNTFSLKQIKFLVLDEADRLLEGHFDDQLKTIFEALPKRKQMLLFS 182

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           ATMTDTL++VK I                                   +S +AF      
Sbjct: 183 ATMTDTLDKVKHI-----------------------------------ASSKAF------ 201

Query: 121 IVAQIITQLDPVHVFVWESKQD--VATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPR 178
                          +WESK +  VATV+ELDQ YVLCP DV+D +LVE +R +R  +  
Sbjct: 202 ---------------IWESKDEFGVATVKELDQRYVLCPSDVRDSFLVEAIRTFRASNKD 246

Query: 179 GAIVIFTDTCR 189
           G+I+IFTDTC+
Sbjct: 247 GSIMIFTDTCK 257

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340728741|ref|XP_003402675.1| PREDICTED: probable ATP-dependent RNA helicase DDX49-like [Bombus terrestris]

 Score =  168 bits (426), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 91/191 (47%), Positives = 116/191 (60%), Gaps = 58/191 (30%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRLADHL++CNTFSL +IKFLVLDEADRLL G FD+Q++TIF A+PK+KQ LLFS
Sbjct: 123 VVATPGRLADHLESCNTFSLKQIKFLVLDEADRLLEGHFDDQLKTIFEALPKRKQMLLFS 182

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           ATMTDTL++VK I                                   +S +AF      
Sbjct: 183 ATMTDTLDKVKHI-----------------------------------ASSKAF------ 201

Query: 121 IVAQIITQLDPVHVFVWESKQD--VATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPR 178
                          +WESK +  VATV+ELDQ Y+LCP DV+D +LVE +R +R  +  
Sbjct: 202 ---------------IWESKDESGVATVKELDQRYILCPSDVRDSFLVEAIRTFRGSNKD 246

Query: 179 GAIVIFTDTCR 189
           G+I+IFTDTC+
Sbjct: 247 GSIMIFTDTCK 257

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380026593|ref|XP_003697032.1| PREDICTED: probable ATP-dependent RNA helicase DDX49-like [Apis florea]

 Score =  168 bits (425), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 90/191 (47%), Positives = 115/191 (60%), Gaps = 58/191 (30%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRLADHL++CNTFSL +IKFLVLDEADRLL G FD+Q++TIF A+PKQKQ LLFS
Sbjct: 123 VVATPGRLADHLESCNTFSLKQIKFLVLDEADRLLEGYFDDQLKTIFEALPKQKQMLLFS 182

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
                                   ATMTDTL +VK                        H
Sbjct: 183 ------------------------ATMTDTLHKVK------------------------H 194

Query: 121 IVAQIITQLDPVHVFVWESKQD--VATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPR 178
           IV+           F+WESK +  +ATV+EL+Q+YVLCP D++D +LVE +R +R  +  
Sbjct: 195 IVSS--------KTFIWESKDESGIATVKELNQHYVLCPSDIRDSFLVEVIRTFRANNKN 246

Query: 179 GAIVIFTDTCR 189
           G+I+IFTDTC+
Sbjct: 247 GSIMIFTDTCK 257

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307167913|gb|EFN61290.1| Probable ATP-dependent RNA helicase DDX49 [Camponotus floridanus]

 Score =  163 bits (412), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 89/191 (46%), Positives = 109/191 (57%), Gaps = 58/191 (30%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRLADHLD+C+TFSL +IKFLVLDEADRLL G FD+Q++ IF AVPKQKQ LLFS
Sbjct: 127 VVATPGRLADHLDSCDTFSLQKIKFLVLDEADRLLGGHFDKQLKKIFAAVPKQKQVLLFS 186

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
                                   ATMTD L++VK I   +V                  
Sbjct: 187 ------------------------ATMTDALDKVKQIASSKV------------------ 204

Query: 121 IVAQIITQLDPVHVFVWESKQD--VATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPR 178
                         F+WE + D  +ATV ELDQ YVLCP DV D +LVE +R +R  +  
Sbjct: 205 --------------FIWEEEDDAGIATVRELDQRYVLCPKDVLDSFLVEVIRTFRATNKN 250

Query: 179 GAIVIFTDTCR 189
           G+I+IFTDTC+
Sbjct: 251 GSIMIFTDTCK 261

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383851888|ref|XP_003701463.1| PREDICTED: probable ATP-dependent RNA helicase DDX49-like [Megachile rotundata]

 Score =  163 bits (412), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 89/191 (46%), Positives = 109/191 (57%), Gaps = 58/191 (30%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRLADHL +CNTFSL +IKFLVLDEADRLL G FD+Q++ IF A+PKQKQ LLFS
Sbjct: 123 VVATPGRLADHLTSCNTFSLKKIKFLVLDEADRLLEGHFDDQLKVIFDALPKQKQMLLFS 182

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           A                        TMTD L +VK I  K+                   
Sbjct: 183 A------------------------TMTDALSKVKDIVSKKA------------------ 200

Query: 121 IVAQIITQLDPVHVFVWESKQD--VATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPR 178
                         F+WES +D  VATV +LDQ YVLCP DV+D +LVE +R +R  +  
Sbjct: 201 --------------FIWESTEDSGVATVRQLDQRYVLCPSDVRDSFLVEVIRTFRTTNEN 246

Query: 179 GAIVIFTDTCR 189
           G+I+IFTDTC+
Sbjct: 247 GSIMIFTDTCK 257

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322796322|gb|EFZ18887.1| hypothetical protein SINV_00745 [Solenopsis invicta]

 Score =  160 bits (406), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 89/191 (46%), Positives = 108/191 (56%), Gaps = 58/191 (30%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRLADHLD+CNTFSL +IKFLVLDEADRLL G FD+Q++ IF  +PKQKQ L FS
Sbjct: 128 VVATPGRLADHLDSCNTFSLQKIKFLVLDEADRLLGGHFDKQLKKIFAVLPKQKQILFFS 187

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           A                        TMTDTL++VK +                   C + 
Sbjct: 188 A------------------------TMTDTLDKVKKMA------------------CNK- 204

Query: 121 IVAQIITQLDPVHVFVWESKQD--VATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPR 178
                        VF W+ K D  +ATV+ELDQ YVLCP DV D YLVE +R +R  +  
Sbjct: 205 -------------VFTWQEKDDAGIATVKELDQRYVLCPKDVLDSYLVEVIRTFRTTNKN 251

Query: 179 GAIVIFTDTCR 189
           G I+IFTDTC+
Sbjct: 252 GCIMIFTDTCK 262

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346466157|gb|AEO32923.1| hypothetical protein [Amblyomma maculatum]

 Score =  151 bits (382), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 80/189 (42%), Positives = 108/189 (57%), Gaps = 56/189 (29%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRLADHL++CNTF+L RI+FLVLDEADRLL G F+EQ++TIF A+PK++QTLLFS
Sbjct: 152 VVATPGRLADHLESCNTFTLKRIRFLVLDEADRLLEGHFNEQLKTIFAALPKKRQTLLFS 211

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           AT+T TLE++++I             MTD                               
Sbjct: 212 ATITATLEELRNI------------AMTDP------------------------------ 229

Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGA 180
                         F + +  DV TVEELDQ YVL P  V++ YLV  +  + +  P+G+
Sbjct: 230 --------------FFYTAPSDVVTVEELDQRYVLTPVSVREAYLVHILHKFLDSMPKGS 275

Query: 181 IVIFTDTCR 189
           ++IFT TC+
Sbjct: 276 VIIFTGTCK 284

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242005222|ref|XP_002423470.1| DEAD box ATP-dependent RNA helicase, putative [Pediculus humanus corporis] gi|212506558|gb|EEB10732.1| DEAD box ATP-dependent RNA helicase, putative [Pediculus humanus corporis]

 Score =  149 bits (377), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 82/189 (43%), Positives = 105/189 (55%), Gaps = 56/189 (29%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V++TPGRLADHLD+CNTFSL +I+FLVLDEADRLLSG FD+Q+ TIF ++P +KQ LLFS
Sbjct: 125 VVSTPGRLADHLDSCNTFSLKKIRFLVLDEADRLLSGQFDDQISTIFKSLPLKKQILLFS 184

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           AT+ DTL+Q + +  K V +                I K  V T+               
Sbjct: 185 ATINDTLKQAEELLSKNVFSF---------------IDKSDVATV--------------- 214

Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGA 180
                                     + L Q+YVLCP  VKD YLVE ++LYR+ +  G 
Sbjct: 215 --------------------------DNLQQFYVLCPDHVKDAYLVEVIQLYRKNNENGN 248

Query: 181 IVIFTDTCR 189
           I+IFTDTCR
Sbjct: 249 IIIFTDTCR 257

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

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	189
UNIPROTKB|Q9BVQ8	254	DDX49 "DEAD (Asp-Glu-Ala-Asp)	0.407	0.303	0.575	1.4e-31
UNIPROTKB|F1NA53	402	DDX49 "Uncharacterized protein	0.386	0.181	0.644	2.5e-31
UNIPROTKB|F1NYX0	482	DDX49 "Uncharacterized protein	0.386	0.151	0.644	8.6e-31
UNIPROTKB|F1S7D9	483	DDX49 "Uncharacterized protein	0.407	0.159	0.587	3.1e-30
UNIPROTKB|Q9Y6V7	483	DDX49 "Probable ATP-dependent	0.407	0.159	0.575	4.2e-30
UNIPROTKB|E2RBM7	488	DDX49 "Uncharacterized protein	0.407	0.157	0.575	7.1e-30
FB|FBgn0010220	521	Dbp45A "DEAD box protein 45A"	0.365	0.132	0.550	8e-27
WB|WBGene00019219	561	H20J04.4 [Caenorhabditis elega	0.402	0.135	0.425	2.4e-24
RGD|1311124	480	Ddx49 "DEAD (Asp-Glu-Ala-Asp)	0.492	0.193	0.536	2e-18
UNIPROTKB|Q9H0S4	455	DDX47 "Probable ATP-dependent	0.492	0.204	0.4	2.2e-18

UNIPROTKB|Q9BVQ8 DDX49 "DEAD (Asp-Glu-Ala-Asp) box polypeptide 49, isoform CRA_a" [Homo sapiens (taxid:9606)]

 Score = 220 (82.5 bits), Expect = 1.4e-31, Sum P(2) = 1.4e-31
 Identities = 46/80 (57%), Positives = 59/80 (73%)

Query:     1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GI--FDEQMRTIFGAVPKQKQTL 57
             VIATPGRLADHL + NTFS+ +I+FLV+DEADRLL  G   F   +  I  AVP ++QTL
Sbjct:    17 VIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGCTDFTVDLEAILAAVPARRQTL 76

Query:    58 LFSATMTDTLEQVKSITKKQ 77
             LFSAT+TDTL +++ +   Q
Sbjct:    77 LFSATLTDTLRELQGLATNQ 96

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|F1NA53 DDX49 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 228 (85.3 bits), Expect = 2.5e-31, Sum P(2) = 2.5e-31
 Identities = 49/76 (64%), Positives = 59/76 (77%)

Query:     1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GI--FDEQMRTIFGAVPKQKQTL 57
             VIATPGRLADHL + NTFSL ++KFLVLDEADRLL  G   F   +  I  AVP ++QTL
Sbjct:   124 VIATPGRLADHLRSSNTFSLKKLKFLVLDEADRLLEQGCADFTADLEVILEAVPARRQTL 183

Query:    58 LFSATMTDTLEQVKSI 73
             LFSAT+TDTL ++KS+
Sbjct:   184 LFSATLTDTLNELKSL 199

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|F1NYX0 DDX49 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 228 (85.3 bits), Expect = 8.6e-31, Sum P(2) = 8.6e-31
 Identities = 49/76 (64%), Positives = 59/76 (77%)

Query:     1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GI--FDEQMRTIFGAVPKQKQTL 57
             VIATPGRLADHL + NTFSL ++KFLVLDEADRLL  G   F   +  I  AVP ++QTL
Sbjct:   127 VIATPGRLADHLRSSNTFSLKKLKFLVLDEADRLLEQGCADFTADLEVILEAVPARRQTL 186

Query:    58 LFSATMTDTLEQVKSI 73
             LFSAT+TDTL ++KS+
Sbjct:   187 LFSATLTDTLNELKSL 202

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|F1S7D9 DDX49 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 224 (83.9 bits), Expect = 3.1e-30, Sum P(2) = 3.1e-30
 Identities = 47/80 (58%), Positives = 60/80 (75%)

Query:     1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GI--FDEQMRTIFGAVPKQKQTL 57
             VIATPGRLADHL + NTFS+ +I+FLV+DEADRLL  G   F   +  I  AVP ++QTL
Sbjct:   124 VIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGCTDFTVDLEAILAAVPARRQTL 183

Query:    58 LFSATMTDTLEQVKSITKKQ 77
             LFSAT+TDTL +++S+   Q
Sbjct:   184 LFSATLTDTLRELQSLATNQ 203

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

GO:0005524 "ATP binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|Q9Y6V7 DDX49 "Probable ATP-dependent RNA helicase DDX49" [Homo sapiens (taxid:9606)]

 Score = 220 (82.5 bits), Expect = 4.2e-30, Sum P(2) = 4.2e-30
 Identities = 46/80 (57%), Positives = 59/80 (73%)

Query:     1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GI--FDEQMRTIFGAVPKQKQTL 57
             VIATPGRLADHL + NTFS+ +I+FLV+DEADRLL  G   F   +  I  AVP ++QTL
Sbjct:   124 VIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGCTDFTVDLEAILAAVPARRQTL 183

Query:    58 LFSATMTDTLEQVKSITKKQ 77
             LFSAT+TDTL +++ +   Q
Sbjct:   184 LFSATLTDTLRELQGLATNQ 203

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

GO:0003723 "RNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

UNIPROTKB|E2RBM7 DDX49 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 221 (82.9 bits), Expect = 7.1e-30, Sum P(2) = 7.1e-30
 Identities = 46/80 (57%), Positives = 60/80 (75%)

Query:     1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GI--FDEQMRTIFGAVPKQKQTL 57
             VIATPGRLADHL + NTFS+ +I+FLV+DEADRLL  G   F   +  I  AVP ++QTL
Sbjct:   124 VIATPGRLADHLRSSNTFSIKKIRFLVMDEADRLLEQGCTDFTVDLEAILAAVPTRRQTL 183

Query:    58 LFSATMTDTLEQVKSITKKQ 77
             LFSAT+TDTL++++ +   Q
Sbjct:   184 LFSATLTDTLKELQGLATNQ 203

GO:0005524 "ATP binding" evidence=IEA

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

GO:0003676 "nucleic acid binding" evidence=IEA

FB|FBgn0010220 Dbp45A "DEAD box protein 45A" [Drosophila melanogaster (taxid:7227)]

 Score = 203 (76.5 bits), Expect = 8.0e-27, Sum P(2) = 8.0e-27
 Identities = 38/69 (55%), Positives = 52/69 (75%)

Query:     1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
             V+A PGRLADHL  C+TFS + +K+LV+DEADR+L+G FDE +  I   +PK +Q L FS
Sbjct:   129 VVAMPGRLADHLTGCDTFSFDNLKYLVVDEADRMLNGDFDESLSIIERCLPKTRQNLFFS 188

Query:    61 ATMTDTLEQ 69
             ATM D +++
Sbjct:   189 ATMKDFIKE 197

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

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0000381 "regulation of alternative mRNA splicing, via spliceosome" evidence=IMP

GO:0005634 "nucleus" evidence=IC

WB|WBGene00019219 H20J04.4 [Caenorhabditis elegans (taxid:6239)]

 Score = 164 (62.8 bits), Expect = 2.4e-24, Sum P(2) = 2.4e-24
 Identities = 34/80 (42%), Positives = 59/80 (73%)

Query:     1 VIATPGRLADHLDTC-NTFS--LNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTL 57
             V+ATPGRLAD +++  +T +    +I+F VLDEADR+L G +++Q++ IF ++ +++QTL
Sbjct:   211 VVATPGRLADLIESDPDTIAKVFKKIQFFVLDEADRMLEGQYNDQLKPIFESISEKRQTL 270

Query:    58 LFSATMTDTLEQVKSI-TKK 76
             L SAT+T+ +  +  + T+K
Sbjct:   271 LLSATITNNINMLHRVSTRK 290

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

GO:0004386 "helicase activity" evidence=IEA

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

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

GO:0000003 "reproduction" evidence=IMP

GO:0040035 "hermaphrodite genitalia development" evidence=IMP

RGD|1311124 Ddx49 "DEAD (Asp-Glu-Ala-Asp) box polypeptide 49" [Rattus norvegicus (taxid:10116)]

 Score = 229 (85.7 bits), Expect = 2.0e-18, P = 2.0e-18
 Identities = 52/97 (53%), Positives = 69/97 (71%)

Query:     1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GI--FDEQMRTIFGAVPKQKQTL 57
             VIATPGRLADHL + NTF++ +I+FLVLDEADRLL  G   F   + TI  AVP ++QTL
Sbjct:   124 VIATPGRLADHLRSSNTFNMKKIRFLVLDEADRLLEQGCTDFTADLETILSAVPARRQTL 183

Query:    58 LFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQV 94
             LFSAT+TDTL++++ +   Q       AT+  T+EQ+
Sbjct:   184 LFSATLTDTLKELQGLATNQPFFWEAQATVR-TVEQL 219

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

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

UNIPROTKB|Q9H0S4 DDX47 "Probable ATP-dependent RNA helicase DDX47" [Homo sapiens (taxid:9606)]

 Score = 180 (68.4 bits), Expect = 2.2e-18, Sum P(2) = 2.2e-18
 Identities = 38/95 (40%), Positives = 62/95 (65%)

Query:     1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
             +IATPGRL DHL+    F+L  +K+LV+DEADR+L+  F+ ++  I   +P+ ++T LFS
Sbjct:   146 IIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFS 205

Query:    61 ATMTDTLEQV-KSITKKQVGTLLFSATMT-DTLEQ 93
             ATMT  ++++ ++  K  V   + S   T + L+Q
Sbjct:   206 ATMTKKVQKLQRAALKNPVKCAVSSKYQTVEKLQQ 240

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

GO:0003723 "RNA binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0006915 "apoptotic process" evidence=IDA

GO:0008380 "RNA splicing" evidence=IMP

GO:0006364 "rRNA processing" evidence=IMP

GO:0005730 "nucleolus" evidence=IDA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
A1A4H6	DDX27_BOVIN	3, ., 6, ., 4, ., 1, 3	0.5064	0.4074	0.1006	yes	N/A

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	189
cd00268	203	cd00268, DEADc, DEAD-box helicases	8e-26
COG0513	513	COG0513, SrmB, Superfamily II DNA and RNA helicase	2e-22
pfam00270	169	pfam00270, DEAD, DEAD/DEAH box helicase	1e-19
PRK11776	460	PRK11776, PRK11776, ATP-dependent RNA helicase Dbp	2e-18
PRK11634	629	PRK11634, PRK11634, ATP-dependent RNA helicase Dea	8e-15
smart00487	201	smart00487, DEXDc, DEAD-like helicases superfamily	9e-15
PRK10590	456	PRK10590, PRK10590, ATP-dependent RNA helicase Rhl	2e-13
PTZ00110	545	PTZ00110, PTZ00110, helicase; Provisional	5e-13
cd00046	144	cd00046, DEXDc, DEAD-like helicases superfamily	1e-12
PRK11192	434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	3e-11
PRK01297	475	PRK01297, PRK01297, ATP-dependent RNA helicase Rhl	1e-10
PRK04537	572	PRK04537, PRK04537, ATP-dependent RNA helicase Rhl	8e-10
PLN00206	518	PLN00206, PLN00206, DEAD-box ATP-dependent RNA hel	2e-09
PTZ00424	401	PTZ00424, PTZ00424, helicase 45; Provisional	2e-09
PRK04837	423	PRK04837, PRK04837, ATP-dependent RNA helicase Rhl	6e-07

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

 Score = 97.9 bits (245), Expect = 8e-26
 Identities = 37/76 (48%), Positives = 54/76 (71%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRL D L+      L+++K+LVLDEADR+L   F++Q+R I   +PK +QTLLFS
Sbjct: 123 VVATPGRLLDLLER-GKLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLLFS 181

Query: 61  ATMTDTLEQVKSITKK 76
           ATM    ++V+ + +K
Sbjct: 182 ATMP---KEVRDLARK 194

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

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

 Score = 93.3 bits (232), Expect = 2e-22
 Identities = 47/154 (30%), Positives = 77/154 (50%), Gaps = 12/154 (7%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRL D +       L+ ++ LVLDEADR+L   F + +  I  A+P  +QTLLFS
Sbjct: 154 VVATPGRLLDLIKR-GKLDLSGVETLVLDEADRMLDMGFIDDIEKILKALPPDRQTLLFS 212

Query: 61  ATMTDTLEQV-KSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQ 119
           ATM D + ++ +      V   +    +  TL+++K    + V + ++K      LL + 
Sbjct: 213 ATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLE-VESEEEKLELLLKLL-KD 270

Query: 120 HIVAQIITQLDPVHVFVWESKQDVATVEELDQYY 153
               ++I       VFV  +K+ V  + E  +  
Sbjct: 271 EDEGRVI-------VFV-RTKRLVEELAESLRKR 296

Length = 513

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

 Score = 80.8 bits (200), Expect = 1e-19
 Identities = 29/70 (41%), Positives = 38/70 (54%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGRL D L       L  +K LVLDEA RLL   F + +  I   +P  +Q LL S
Sbjct: 100 LVGTPGRLLDLLRRGKLKLLKNLKLLVLDEAHRLLDMGFGDDLEEILSRLPPDRQILLLS 159

Query: 61  ATMTDTLEQV 70
           AT+   LE +
Sbjct: 160 ATLPRNLEDL 169

Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. Length = 169

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

 Score = 81.4 bits (202), Expect = 2e-18
 Identities = 29/70 (41%), Positives = 42/70 (60%), Gaps = 1/70 (1%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGR+ DHL    T  L+ +  LVLDEADR+L   F + +  I    P ++QTLLFS
Sbjct: 127 IVGTPGRILDHLRK-GTLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFS 185

Query: 61  ATMTDTLEQV 70
           AT  + +  +
Sbjct: 186 ATYPEGIAAI 195

Length = 460

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

 Score = 71.4 bits (175), Expect = 8e-15
 Identities = 35/76 (46%), Positives = 47/76 (61%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGRL DHL    T  L+++  LVLDEAD +L   F E + TI   +P+  QT LFS
Sbjct: 129 VVGTPGRLLDHLKR-GTLDLSKLSGLVLDEADEMLRMGFIEDVETIMAQIPEGHQTALFS 187

Query: 61  ATMTDTLEQVKSITKK 76
           ATM    E ++ IT++
Sbjct: 188 ATMP---EAIRRITRR 200

Length = 629

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

 Score = 69.1 bits (169), Expect = 9e-15
 Identities = 31/94 (32%), Positives = 50/94 (53%), Gaps = 1/94 (1%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGRL D L+  +  SL+ +  ++LDEA RLL G F +Q+  +   +PK  Q LL S
Sbjct: 109 LVTTPGRLLDLLEN-DKLSLSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLS 167

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQV 94
           AT  + +E +  +       +    T  + +EQ 
Sbjct: 168 ATPPEEIENLLELFLNDPVFIDVGFTPLEPIEQF 201

Length = 201

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

 Score = 67.5 bits (165), Expect = 2e-13
 Identities = 32/76 (42%), Positives = 50/76 (65%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ATPGRL D L+  N   L++++ LVLDEADR+L   F   +R +   +P ++Q LLFS
Sbjct: 129 LVATPGRLLD-LEHQNAVKLDQVEILVLDEADRMLDMGFIHDIRRVLAKLPAKRQNLLFS 187

Query: 61  ATMTDTLEQVKSITKK 76
           AT +D    +K++ +K
Sbjct: 188 ATFSD---DIKALAEK 200

Length = 456

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

 Score = 66.3 bits (162), Expect = 5e-13
 Identities = 30/61 (49%), Positives = 42/61 (68%), Gaps = 1/61 (1%)

Query: 2   IATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSA 61
           IA PGRL D L++ N  +L R+ +LVLDEADR+L   F+ Q+R I   +   +QTL++SA
Sbjct: 258 IACPGRLIDFLES-NVTNLRRVTYLVLDEADRMLDMGFEPQIRKIVSQIRPDRQTLMWSA 316

Query: 62  T 62
           T
Sbjct: 317 T 317

Length = 545

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

 Score = 61.6 bits (150), Expect = 1e-12
 Identities = 28/63 (44%), Positives = 36/63 (57%), Gaps = 1/63 (1%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGRL D L+     SL ++  L+LDEA RLL+  F      I   +PK +Q LL S
Sbjct: 83  VVGTPGRLLDELER-LKLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKDRQVLLLS 141

Query: 61  ATM 63
           AT 
Sbjct: 142 ATP 144

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

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

 Score = 60.7 bits (148), Expect = 3e-11
 Identities = 29/63 (46%), Positives = 40/63 (63%), Gaps = 1/63 (1%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRL  ++   N F    ++ L+LDEADR+L   F + + TI      +KQTLLFS
Sbjct: 127 VVATPGRLLQYIKEEN-FDCRAVETLILDEADRMLDMGFAQDIETIAAETRWRKQTLLFS 185

Query: 61  ATM 63
           AT+
Sbjct: 186 ATL 188

Length = 434

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

 Score = 59.2 bits (143), Expect = 1e-10
 Identities = 31/67 (46%), Positives = 43/67 (64%), Gaps = 3/67 (4%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPK--QKQTLL 58
           ++ATPGRL D  +      L+ ++ +VLDEADR+L   F  Q+R I    P+  ++QTLL
Sbjct: 217 LVATPGRLLD-FNQRGEVHLDMVEVMVLDEADRMLDMGFIPQVRQIIRQTPRKEERQTLL 275

Query: 59  FSATMTD 65
           FSAT TD
Sbjct: 276 FSATFTD 282

Length = 475

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

 Score = 56.9 bits (137), Expect = 8e-10
 Identities = 28/66 (42%), Positives = 43/66 (65%), Gaps = 2/66 (3%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQ--KQTLL 58
           +IATPGRL D++      SL+  +  VLDEADR+    F + +R +   +P++  +QTLL
Sbjct: 138 IIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLGFIKDIRFLLRRMPERGTRQTLL 197

Query: 59  FSATMT 64
           FSAT++
Sbjct: 198 FSATLS 203

Length = 572

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

 Score = 55.6 bits (134), Expect = 2e-09
 Identities = 31/78 (39%), Positives = 46/78 (58%), Gaps = 2/78 (2%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGRL D L + +   L+ +  LVLDE D +L   F +Q+  IF A+  Q Q LLFS
Sbjct: 250 IVGTPGRLIDLL-SKHDIELDNVSVLVLDEVDCMLERGFRDQVMQIFQALS-QPQVLLFS 307

Query: 61  ATMTDTLEQVKSITKKQV 78
           AT++  +E+  S   K +
Sbjct: 308 ATVSPEVEKFASSLAKDI 325

Length = 518

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

 Score = 55.2 bits (133), Expect = 2e-09
 Identities = 26/65 (40%), Positives = 38/65 (58%), Gaps = 1/65 (1%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ D +D      ++ +K  +LDEAD +LS  F  Q+  +F  +P   Q  LFS
Sbjct: 150 VVGTPGRVYDMIDK-RHLRVDDLKLFILDEADEMLSRGFKGQIYDVFKKLPPDVQVALFS 208

Query: 61  ATMTD 65
           ATM +
Sbjct: 209 ATMPN 213

Length = 401

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

 Score = 48.0 bits (115), Expect = 6e-07
 Identities = 26/66 (39%), Positives = 40/66 (60%), Gaps = 3/66 (4%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP--KQKQTLL 58
           +I T GRL D+    N  +L  I+ +VLDEADR+    F + +R +F  +P   Q+  +L
Sbjct: 137 LIGTTGRLIDYAKQ-NHINLGAIQVVVLDEADRMFDLGFIKDIRWLFRRMPPANQRLNML 195

Query: 59  FSATMT 64
           FSAT++
Sbjct: 196 FSATLS 201

Length = 423

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	189
KOG0330|consensus	476		99.96
KOG0343|consensus	758		99.95
KOG0328|consensus	400		99.95
KOG0331|consensus	519		99.95
COG0513	513	SrmB Superfamily II DNA and RNA helicases [DNA rep	99.95
KOG0342|consensus	543		99.93
KOG0345|consensus	567		99.92
KOG0338|consensus	691		99.92
KOG0326|consensus	459		99.91
KOG0348|consensus	708		99.91
KOG0333|consensus	673		99.91
KOG0327|consensus	397		99.89
KOG0336|consensus	629		99.89
KOG0346|consensus	569		99.89
KOG0335|consensus	482		99.88
KOG0339|consensus	731		99.87
KOG0341|consensus	610		99.87
PRK11776	460	ATP-dependent RNA helicase DbpA; Provisional	99.86
KOG0329|consensus	387		99.86
PRK11634	629	ATP-dependent RNA helicase DeaD; Provisional	99.86
PTZ00110	545	helicase; Provisional	99.86
KOG4284|consensus	980		99.85
KOG0340|consensus	442		99.85
PLN00206	518	DEAD-box ATP-dependent RNA helicase; Provisional	99.84
PRK10590	456	ATP-dependent RNA helicase RhlE; Provisional	99.84
PRK04837	423	ATP-dependent RNA helicase RhlB; Provisional	99.84
KOG0337|consensus	529		99.83
PRK04537	572	ATP-dependent RNA helicase RhlB; Provisional	99.82
KOG0347|consensus	731		99.81
PRK11192	434	ATP-dependent RNA helicase SrmB; Provisional	99.8
PRK01297	475	ATP-dependent RNA helicase RhlB; Provisional	99.79
KOG0332|consensus	477		99.78
KOG0350|consensus	620		99.78
KOG0334|consensus	997		99.76
PTZ00424	401	helicase 45; Provisional	99.73
TIGR02621	844	cas3_GSU0051 CRISPR-associated helicase Cas3, Anae	99.61
PRK09401	1176	reverse gyrase; Reviewed	99.59
KOG0344|consensus	593		99.5
KOG0349|consensus	725		99.46
TIGR01054	1171	rgy reverse gyrase. Generally, these gyrases are e	99.41
PRK14701	1638	reverse gyrase; Provisional	99.41
TIGR03817	742	DECH_helic helicase/secretion neighborhood putativ	99.41
PRK00254	720	ski2-like helicase; Provisional	99.39
PRK09751	1490	putative ATP-dependent helicase Lhr; Provisional	99.33
TIGR01970	819	DEAH_box_HrpB ATP-dependent helicase HrpB. This mo	99.32
PRK11664	812	ATP-dependent RNA helicase HrpB; Provisional	99.3
cd00268	203	DEADc DEAD-box helicases. A diverse family of prot	99.29
PRK02362	737	ski2-like helicase; Provisional	99.28
PRK11131	1294	ATP-dependent RNA helicase HrpA; Provisional	99.26
TIGR01587	358	cas3_core CRISPR-associated helicase Cas3. This mo	99.23
PF00270	169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	99.17
PRK11057	607	ATP-dependent DNA helicase RecQ; Provisional	99.15
PRK13767	876	ATP-dependent helicase; Provisional	99.15
PHA02653	675	RNA helicase NPH-II; Provisional	99.14
TIGR01389	591	recQ ATP-dependent DNA helicase RecQ. The ATP-depe	99.14
PRK01172	674	ski2-like helicase; Provisional	99.13
TIGR00614	470	recQ_fam ATP-dependent DNA helicase, RecQ family.	99.13
PLN03137	1195	ATP-dependent DNA helicase; Q4-like; Provisional	99.08
PRK10689	1147	transcription-repair coupling factor; Provisional	98.99
TIGR01967	1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	98.97
TIGR00580	926	mfd transcription-repair coupling factor (mfd). Al	98.93
TIGR03158	357	cas3_cyano CRISPR-associated helicase, Cyano-type.	98.91
COG1202	830	Superfamily II helicase, archaea-specific [General	98.86
COG1204	766	Superfamily II helicase [General function predicti	98.8
PRK10917	681	ATP-dependent DNA helicase RecG; Provisional	98.56
COG1201	814	Lhr Lhr-like helicases [General function predictio	98.52
smart00487	201	DEXDc DEAD-like helicases superfamily.	98.52
PF06862	442	DUF1253: Protein of unknown function (DUF1253); In	98.36
TIGR00643	630	recG ATP-dependent DNA helicase RecG.	98.27
TIGR03714	762	secA2 accessory Sec system translocase SecA2. Memb	98.09
COG0514	590	RecQ Superfamily II DNA helicase [DNA replication,	98.06
PRK09200	790	preprotein translocase subunit SecA; Reviewed	98.02
PHA02558	501	uvsW UvsW helicase; Provisional	97.94
PRK05580	679	primosome assembly protein PriA; Validated	97.91
PRK12904	830	preprotein translocase subunit SecA; Reviewed	97.89
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	97.89
PRK13104	896	secA preprotein translocase subunit SecA; Reviewed	97.88
COG1205	851	Distinct helicase family with a unique C-terminal	97.88
TIGR00595	505	priA primosomal protein N'. All proteins in this f	97.81
KOG0952|consensus	1230		97.81
PRK09694	878	helicase Cas3; Provisional	97.72
PRK12899	970	secA preprotein translocase subunit SecA; Reviewed	97.44
PRK13766	773	Hef nuclease; Provisional	97.37
COG4581	1041	Superfamily II RNA helicase [DNA replication, reco	97.18
KOG0948|consensus	1041		97.09
KOG0351|consensus	941		96.96
PF14617	252	CMS1: U3-containing 90S pre-ribosomal complex subu	96.85
KOG0951|consensus	1674		96.75
TIGR00963	745	secA preprotein translocase, SecA subunit. The pro	96.75
PRK12898	656	secA preprotein translocase subunit SecA; Reviewed	96.65
KOG0947|consensus	1248		96.62
COG4098	441	comFA Superfamily II DNA/RNA helicase required for	96.33
KOG0950|consensus	1008		96.06
COG1643	845	HrpA HrpA-like helicases [DNA replication, recombi	95.91
COG1111	542	MPH1 ERCC4-like helicases [DNA replication, recomb	95.83
KOG0920|consensus	924		95.38
COG1203	733	CRISPR-associated helicase Cas3 [Defense mechanism	95.37
KOG0354|consensus	746		95.23
PRK04914	956	ATP-dependent helicase HepA; Validated	95.21
KOG3089|consensus	271		95.03
TIGR00603	732	rad25 DNA repair helicase rad25. All proteins in t	94.66
KOG0922|consensus	674		94.36
PRK13107	908	preprotein translocase subunit SecA; Reviewed	94.32
PF04851	184	ResIII: Type III restriction enzyme, res subunit;	94.2
TIGR02562	1110	cas3_yersinia CRISPR-associated helicase Cas3. The	94.08
KOG2340|consensus	698		93.92
KOG0353|consensus	695		92.3
KOG0352|consensus	641		91.55
PF02463	220	SMC_N: RecF/RecN/SMC N terminal domain; InterPro:	90.38
PF00176	299	SNF2_N: SNF2 family N-terminal domain; InterPro: I	89.79
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	88.92
PRK12906	796	secA preprotein translocase subunit SecA; Reviewed	88.46
KOG0925|consensus	699		88.11
TIGR00596	814	rad1 DNA repair protein (rad1). This family is bas	87.93
KOG0926|consensus	1172		87.75
COG1198	730	PriA Primosomal protein N' (replication factor Y)	87.65
PF07652	148	Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR	85.99
PF13872	303	AAA_34: P-loop containing NTP hydrolase pore-1	85.51
KOG0949|consensus	1330		84.64
PF02399	824	Herpes_ori_bp: Origin of replication binding prote	84.06
TIGR00348	667	hsdR type I site-specific deoxyribonuclease, HsdR	83.99
COG1061	442	SSL2 DNA or RNA helicases of superfamily II [Trans	83.95
KOG0923|consensus	902		83.72
PRK12900	1025	secA preprotein translocase subunit SecA; Reviewed	83.12
TIGR00963	745	secA preprotein translocase, SecA subunit. The pro	81.95
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	81.72
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	81.49
COG1110	1187	Reverse gyrase [DNA replication, recombination, an	81.41
KOG0991|consensus	333		80.98
PHA02544	316	44 clamp loader, small subunit; Provisional	80.9
PRK06893	229	DNA replication initiation factor; Validated	80.45
PRK11448	1123	hsdR type I restriction enzyme EcoKI subunit R; Pr	80.39
COG1200	677	RecG RecG-like helicase [DNA replication, recombin	80.28

>KOG0330|consensus

Probab=99.96  E-value=3.6e-29  Score=214.26  Aligned_cols=128  Identities=40%  Similarity=0.662  Sum_probs=120.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||++|+.+.+.++++.++|+|+||||++|++.|.+.+..|++.+|..+|++|||||||..|.++.+..+++   
T Consensus       183 lVaTPGrL~dhl~~Tkgf~le~lk~LVlDEADrlLd~dF~~~ld~ILk~ip~erqt~LfsATMt~kv~kL~rasl~~---  259 (476)
T KOG0330|consen  183 LVATPGRLWDHLENTKGFSLEQLKFLVLDEADRLLDMDFEEELDYILKVIPRERQTFLFSATMTKKVRKLQRASLDN---  259 (476)
T ss_pred             EEeCcHHHHHHHHhccCccHHHhHHHhhchHHhhhhhhhHHHHHHHHHhcCccceEEEEEeecchhhHHHHhhccCC---
Confidence            69999999999997799999999999999999999999999999999999999999999999999999999888888   


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                           +..+.+...+.+.+++.|+|+.++..+
T Consensus       260 -----------------------------------------------------p~~v~~s~ky~tv~~lkQ~ylfv~~k~  286 (476)
T KOG0330|consen  260 -----------------------------------------------------PVKVAVSSKYQTVDHLKQTYLFVPGKD  286 (476)
T ss_pred             -----------------------------------------------------CeEEeccchhcchHHhhhheEeccccc
Confidence                                                                 666677889999999999999999999


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      |..+|+++|+...    ...+|||||||
T Consensus       287 K~~yLV~ll~e~~----g~s~iVF~~t~  310 (476)
T KOG0330|consen  287 KDTYLVYLLNELA----GNSVIVFCNTC  310 (476)
T ss_pred             cchhHHHHHHhhc----CCcEEEEEecc
Confidence            9999999999754    69999999998

>KOG0343|consensus

Probab=99.95  E-value=1.4e-28  Score=217.91  Aligned_cols=131  Identities=33%  Similarity=0.531  Sum_probs=120.6

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||++|+..+..++.+++++||+||||+||++||...+..|+.++|+.+|++|||||.+..|..+++..+.+|. 
T Consensus       194 LVCTPGRLLQHmde~~~f~t~~lQmLvLDEADR~LDMGFk~tL~~Ii~~lP~~RQTLLFSATqt~svkdLaRLsL~dP~-  272 (758)
T KOG0343|consen  194 LVCTPGRLLQHMDENPNFSTSNLQMLVLDEADRMLDMGFKKTLNAIIENLPKKRQTLLFSATQTKSVKDLARLSLKDPV-  272 (758)
T ss_pred             EEechHHHHHHhhhcCCCCCCcceEEEeccHHHHHHHhHHHHHHHHHHhCChhheeeeeecccchhHHHHHHhhcCCCc-
Confidence            6999999999999988999999999999999999999999999999999999999999999999999999999999964 


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                           .+.+..+...++|++|.|+|+.|+-++
T Consensus       273 -----------------------------------------------------~vsvhe~a~~atP~~L~Q~y~~v~l~~  299 (758)
T KOG0343|consen  273 -----------------------------------------------------YVSVHENAVAATPSNLQQSYVIVPLED  299 (758)
T ss_pred             -----------------------------------------------------EEEEeccccccChhhhhheEEEEehhh
Confidence                                                                 222233456788999999999999999


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      |..+|..+++++.    ..+.|||++||+
T Consensus       300 Ki~~L~sFI~shl----k~K~iVF~SscK  324 (758)
T KOG0343|consen  300 KIDMLWSFIKSHL----KKKSIVFLSSCK  324 (758)
T ss_pred             HHHHHHHHHHhcc----ccceEEEEehhh
Confidence            9999999999876    899999999996

>KOG0328|consensus

Probab=99.95  E-value=7.3e-28  Score=199.63  Aligned_cols=128  Identities=30%  Similarity=0.394  Sum_probs=117.2

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +.|||||+++|++. +++..+.++++|+||||.||+.||.+++..|.+++|+..|++++|||+|+++.++...||.+   
T Consensus       149 VsGtPGrv~dmikr-~~L~tr~vkmlVLDEaDemL~kgfk~Qiydiyr~lp~~~Qvv~~SATlp~eilemt~kfmtd---  224 (400)
T KOG0328|consen  149 VSGTPGRVLDMIKR-RSLRTRAVKMLVLDEADEMLNKGFKEQIYDIYRYLPPGAQVVLVSATLPHEILEMTEKFMTD---  224 (400)
T ss_pred             eeCCCchHHHHHHh-ccccccceeEEEeccHHHHHHhhHHHHHHHHHHhCCCCceEEEEeccCcHHHHHHHHHhcCC---
Confidence            57999999999999 99999999999999999999999999999999999999999999999999999999999999   


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecC-c
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPY-D  159 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~-~  159 (189)
                                                                           +..+-+.+...+..+|+|+|+.++. +
T Consensus       225 -----------------------------------------------------pvrilvkrdeltlEgIKqf~v~ve~Ee  251 (400)
T KOG0328|consen  225 -----------------------------------------------------PVRILVKRDELTLEGIKQFFVAVEKEE  251 (400)
T ss_pred             -----------------------------------------------------ceeEEEecCCCchhhhhhheeeechhh
Confidence                                                                 4444557777888999999999985 5


Q ss_pred             chHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         160 VKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       160 ~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      ||.+.|.++...+.    ..+++|||||++
T Consensus       252 wKfdtLcdLYd~Lt----ItQavIFcnTk~  277 (400)
T KOG0328|consen  252 WKFDTLCDLYDTLT----ITQAVIFCNTKR  277 (400)
T ss_pred             hhHhHHHHHhhhhe----hheEEEEecccc
Confidence            69999998887765    789999999985

>KOG0331|consensus

Probab=99.95  E-value=7.9e-28  Score=214.56  Aligned_cols=131  Identities=32%  Similarity=0.485  Sum_probs=116.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhC-CCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV-PKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l-~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +|||||||.++++. +.++|++++|+|+||||+||++||+++++.|+..+ +..+|+++||||+|..|+.+|..++.+| 
T Consensus       219 viaTPGRl~d~le~-g~~~l~~v~ylVLDEADrMldmGFe~qI~~Il~~i~~~~rQtlm~saTwp~~v~~lA~~fl~~~-  296 (519)
T KOG0331|consen  219 VIATPGRLIDLLEE-GSLNLSRVTYLVLDEADRMLDMGFEPQIRKILSQIPRPDRQTLMFSATWPKEVRQLAEDFLNNP-  296 (519)
T ss_pred             EEeCChHHHHHHHc-CCccccceeEEEeccHHhhhccccHHHHHHHHHhcCCCcccEEEEeeeccHHHHHHHHHHhcCc-
Confidence            59999999999999 99999999999999999999999999999999999 5677999999999999999999999984 


Q ss_pred             eeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecC-c-cccchhhcceeEEEec
Q psy9740          80 TLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESK-Q-DVATVEELDQYYVLCP  157 (189)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~l~q~~~~~~  157 (189)
                                                                             ..+.+. . ......+|.|....|+
T Consensus       297 -------------------------------------------------------~~i~ig~~~~~~a~~~i~qive~~~  321 (519)
T KOG0331|consen  297 -------------------------------------------------------IQINVGNKKELKANHNIRQIVEVCD  321 (519)
T ss_pred             -------------------------------------------------------eEEEecchhhhhhhcchhhhhhhcC
Confidence                                                                   222222 2 4455788999999999


Q ss_pred             CcchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         158 YDVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       158 ~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      ...|...|..+|..+. ..+.+++||||+|++
T Consensus       322 ~~~K~~~l~~lL~~~~-~~~~~KvIIFc~tkr  352 (519)
T KOG0331|consen  322 ETAKLRKLGKLLEDIS-SDSEGKVIIFCETKR  352 (519)
T ss_pred             HHHHHHHHHHHHHHHh-ccCCCcEEEEecchh
Confidence            9999999999999876 666789999999985

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

Probab=99.95  E-value=1.7e-27  Score=215.33  Aligned_cols=128  Identities=33%  Similarity=0.495  Sum_probs=114.2

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||++|+.. +.++++.++++|+||||+||++||.+++..|++.+|.++|+++||||||+.+.++++.++++|  
T Consensus       154 vVaTPGRllD~i~~-~~l~l~~v~~lVlDEADrmLd~Gf~~~i~~I~~~~p~~~qtllfSAT~~~~i~~l~~~~l~~p--  230 (513)
T COG0513         154 VVATPGRLLDLIKR-GKLDLSGVETLVLDEADRMLDMGFIDDIEKILKALPPDRQTLLFSATMPDDIRELARRYLNDP--  230 (513)
T ss_pred             EEECccHHHHHHHc-CCcchhhcCEEEeccHhhhhcCCCHHHHHHHHHhCCcccEEEEEecCCCHHHHHHHHHHccCC--
Confidence            69999999999998 799999999999999999999999999999999999999999999999999999999999984  


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecC--ccccchhhcceeEEEecC
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESK--QDVATVEELDQYYVLCPY  158 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~l~q~~~~~~~  158 (189)
                                                                            ..+.+.  ........|.|+|+.++.
T Consensus       231 ------------------------------------------------------~~i~v~~~~~~~~~~~i~q~~~~v~~  256 (513)
T COG0513         231 ------------------------------------------------------VEIEVSVEKLERTLKKIKQFYLEVES  256 (513)
T ss_pred             ------------------------------------------------------cEEEEccccccccccCceEEEEEeCC
Confidence                                                                  233333  333378999999999998


Q ss_pred             cc-hHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         159 DV-KDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       159 ~~-K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      .+ |...|..+++...    ..++||||||++
T Consensus       257 ~~~k~~~L~~ll~~~~----~~~~IVF~~tk~  284 (513)
T COG0513         257 EEEKLELLLKLLKDED----EGRVIVFVRTKR  284 (513)
T ss_pred             HHHHHHHHHHHHhcCC----CCeEEEEeCcHH
Confidence            76 9999999998754    568999999974

>KOG0342|consensus

Probab=99.93  E-value=3e-26  Score=200.73  Aligned_cols=133  Identities=42%  Similarity=0.579  Sum_probs=115.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|||||||+||+.+.+.+-.++++++|+||||++|+.||+++|++|++.+|+.+|+++||||+|++|+++++..+..   
T Consensus       209 liATPGRLlDHlqNt~~f~~r~~k~lvlDEADrlLd~GF~~di~~Ii~~lpk~rqt~LFSAT~~~kV~~l~~~~L~~---  285 (543)
T KOG0342|consen  209 LIATPGRLLDHLQNTSGFLFRNLKCLVLDEADRLLDIGFEEDVEQIIKILPKQRQTLLFSATQPSKVKDLARGALKR---  285 (543)
T ss_pred             EEeCCchHHhHhhcCCcchhhccceeEeecchhhhhcccHHHHHHHHHhccccceeeEeeCCCcHHHHHHHHHhhcC---
Confidence            69999999999999888889999999999999999999999999999999999999999999999999999988876   


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                       +|..+.++ .+....+..++.|.|++++...
T Consensus       286 -------------------------------------------------d~~~v~~~-d~~~~~The~l~Qgyvv~~~~~  315 (543)
T KOG0342|consen  286 -------------------------------------------------DPVFVNVD-DGGERETHERLEQGYVVAPSDS  315 (543)
T ss_pred             -------------------------------------------------CceEeecC-CCCCcchhhcccceEEeccccc
Confidence                                                             22222221 1345567899999999999999


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      ++..|+.+|+...   ...++||||.||.
T Consensus       316 ~f~ll~~~LKk~~---~~~KiiVF~sT~~  341 (543)
T KOG0342|consen  316 RFSLLYTFLKKNI---KRYKIIVFFSTCM  341 (543)
T ss_pred             hHHHHHHHHHHhc---CCceEEEEechhh
Confidence            9999999999865   1289999999984

>KOG0345|consensus

Probab=99.92  E-value=1e-25  Score=196.77  Aligned_cols=129  Identities=35%  Similarity=0.501  Sum_probs=115.4

Q ss_pred             CeeehHhhHHHHhc-CCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDT-CNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~-~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +|||||||.+++.. ...++++++.+||+||||+++++||+.+++.|++.+|+.+.+.|||||+.+++.++++..+++| 
T Consensus       135 lVgTPGRL~di~~~~~~~l~~rsLe~LVLDEADrLldmgFe~~~n~ILs~LPKQRRTGLFSATq~~~v~dL~raGLRNp-  213 (567)
T KOG0345|consen  135 LVGTPGRLLDILQREAEKLSFRSLEILVLDEADRLLDMGFEASVNTILSFLPKQRRTGLFSATQTQEVEDLARAGLRNP-  213 (567)
T ss_pred             EEeCchhHHHHHhchhhhccccccceEEecchHhHhcccHHHHHHHHHHhcccccccccccchhhHHHHHHHHhhccCc-
Confidence            69999999999987 2446778999999999999999999999999999999999999999999999999999999994 


Q ss_pred             eeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccc--cchhhcceeEEEec
Q psy9740          80 TLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDV--ATVEELDQYYVLCP  157 (189)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~l~q~~~~~~  157 (189)
                                                                             ..+.++...  .+|+++..+|+.|+
T Consensus       214 -------------------------------------------------------v~V~V~~k~~~~tPS~L~~~Y~v~~  238 (567)
T KOG0345|consen  214 -------------------------------------------------------VRVSVKEKSKSATPSSLALEYLVCE  238 (567)
T ss_pred             -------------------------------------------------------eeeeecccccccCchhhcceeeEec
Confidence                                                                   444444333  48999999999999


Q ss_pred             CcchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         158 YDVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       158 ~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      ...|...|+++|.+..    ..++|||+.||.
T Consensus       239 a~eK~~~lv~~L~~~~----~kK~iVFF~TCa  266 (567)
T KOG0345|consen  239 ADEKLSQLVHLLNNNK----DKKCIVFFPTCA  266 (567)
T ss_pred             HHHHHHHHHHHHhccc----cccEEEEecCcc
Confidence            9999999999998854    899999999984

>KOG0338|consensus

Probab=99.92  E-value=1e-25  Score=198.34  Aligned_cols=129  Identities=34%  Similarity=0.513  Sum_probs=114.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||.||+.+..+++++++..+|+||||+||+.||.++|..|++.||+++|++||||||+++|.+|++..+.+|  
T Consensus       306 VIATPGRlIDHlrNs~sf~ldsiEVLvlDEADRMLeegFademnEii~lcpk~RQTmLFSATMteeVkdL~slSL~kP--  383 (691)
T KOG0338|consen  306 VIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRMLEEGFADEMNEIIRLCPKNRQTMLFSATMTEEVKDLASLSLNKP--  383 (691)
T ss_pred             EEecchhHHHHhccCCCccccceeEEEechHHHHHHHHHHHHHHHHHHhccccccceeehhhhHHHHHHHHHhhcCCC--
Confidence            699999999999999999999999999999999999999999999999999999999999999999999999999994  


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEec---
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCP---  157 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~---  157 (189)
                                                                            +.+-+++.....+.|.|.|+.+.   
T Consensus       384 ------------------------------------------------------vrifvd~~~~~a~~LtQEFiRIR~~r  409 (691)
T KOG0338|consen  384 ------------------------------------------------------VRIFVDPNKDTAPKLTQEFIRIRPKR  409 (691)
T ss_pred             ------------------------------------------------------eEEEeCCccccchhhhHHHheecccc
Confidence                                                                  44444666667789999999886   


Q ss_pred             CcchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         158 YDVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       158 ~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      +.++...|..++....    ..++|||+.|++
T Consensus       410 e~dRea~l~~l~~rtf----~~~~ivFv~tKk  437 (691)
T KOG0338|consen  410 EGDREAMLASLITRTF----QDRTIVFVRTKK  437 (691)
T ss_pred             ccccHHHHHHHHHHhc----ccceEEEEehHH
Confidence            3457778888887655    789999999874

>KOG0326|consensus

Probab=99.91  E-value=8.1e-25  Score=184.10  Aligned_cols=126  Identities=28%  Similarity=0.383  Sum_probs=113.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +||||||++++.++ +...++++.++|+||||+||+..|.+.++.++..+|+++|+++||||+|-.|..+.+.+|++   
T Consensus       207 ~vgTPGRIlDL~~K-gVa~ls~c~~lV~DEADKlLs~~F~~~~e~li~~lP~~rQillySATFP~tVk~Fm~~~l~k---  282 (459)
T KOG0326|consen  207 VVGTPGRILDLAKK-GVADLSDCVILVMDEADKLLSVDFQPIVEKLISFLPKERQILLYSATFPLTVKGFMDRHLKK---  282 (459)
T ss_pred             EEcCChhHHHHHhc-ccccchhceEEEechhhhhhchhhhhHHHHHHHhCCccceeeEEecccchhHHHHHHHhccC---
Confidence            58999999999998 88999999999999999999999999999999999999999999999999999999999999   


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                           |..++.- ...++.++.|||-++++..
T Consensus       283 -----------------------------------------------------Py~INLM-~eLtl~GvtQyYafV~e~q  308 (459)
T KOG0326|consen  283 -----------------------------------------------------PYEINLM-EELTLKGVTQYYAFVEERQ  308 (459)
T ss_pred             -----------------------------------------------------cceeehh-hhhhhcchhhheeeechhh
Confidence                                                                 4343332 2345789999999999999


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      |...|--++..+.    -.+.||||||-
T Consensus       309 KvhCLntLfskLq----INQsIIFCNS~  332 (459)
T KOG0326|consen  309 KVHCLNTLFSKLQ----INQSIIFCNST  332 (459)
T ss_pred             hhhhHHHHHHHhc----ccceEEEeccc
Confidence            9999888887765    89999999985

>KOG0348|consensus

Probab=99.91  E-value=4.2e-25  Score=195.39  Aligned_cols=157  Identities=27%  Similarity=0.380  Sum_probs=127.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCC-------------CCCcEEEEeecCCchH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP-------------KQKQTLLFSATMTDTL   67 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~-------------~~~Q~il~SATl~~~v   67 (189)
                      ||||||||+||++++..+.++.++|||+||||+||+.||.++|..|++.+.             ...|.+|+||||++.|
T Consensus       266 LIgTPGRLvDHLknT~~i~~s~LRwlVlDEaDrlleLGfekdit~Il~~v~~~~~~e~~~~~lp~q~q~mLlSATLtd~V  345 (708)
T KOG0348|consen  266 LIGTPGRLVDHLKNTKSIKFSRLRWLVLDEADRLLELGFEKDITQILKAVHSIQNAECKDPKLPHQLQNMLLSATLTDGV  345 (708)
T ss_pred             EEcCchHHHHHHhccchheeeeeeEEEecchhHHHhccchhhHHHHHHHHhhccchhcccccccHHHHhHhhhhhhHHHH
Confidence            699999999999999999999999999999999999999999999998872             2479999999999999


Q ss_pred             HHHHHhhccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchh
Q psy9740          68 EQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVE  147 (189)
Q Consensus        68 ~~l~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (189)
                      .+|++.-++||..+..+.+..+.++...+..                             +-+++ +.-..+ +....|+
T Consensus       346 ~rLa~~sLkDpv~I~ld~s~~~~~p~~~a~~-----------------------------ev~~~-~~~~~l-~~~~iPe  394 (708)
T KOG0348|consen  346 NRLADLSLKDPVYISLDKSHSQLNPKDKAVQ-----------------------------EVDDG-PAGDKL-DSFAIPE  394 (708)
T ss_pred             HHHhhccccCceeeeccchhhhcCcchhhhh-----------------------------hcCCc-cccccc-ccccCcH
Confidence            9999999999988886666555542211110                             00111 100011 3467799


Q ss_pred             hcceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         148 ELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       148 ~l~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      +|.|+|.+||..-.+..|..+|.+..+....+++|||++++
T Consensus       395 qL~qry~vVPpKLRLV~Laa~L~~~~k~~~~qk~iVF~S~~  435 (708)
T KOG0348|consen  395 QLLQRYTVVPPKLRLVALAALLLNKVKFEEKQKMIVFFSCS  435 (708)
T ss_pred             HhhhceEecCCchhHHHHHHHHHHHhhhhhhceeEEEEech
Confidence            99999999999999999999999888777788999999986

>KOG0333|consensus

Probab=99.91  E-value=1.9e-24  Score=190.90  Aligned_cols=128  Identities=30%  Similarity=0.460  Sum_probs=119.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCC---C----------------------Cc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPK---Q----------------------KQ   55 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~---~----------------------~Q   55 (189)
                      +|||||||.+.+.+ ..+-++.+.|||+||||+|+|+||.+++..|+.++|.   .                      +|
T Consensus       376 viatPgrLid~Len-r~lvl~qctyvvldeadrmiDmgfE~dv~~iL~~mPssn~k~~tde~~~~~~~~~~~~~~k~yrq  454 (673)
T KOG0333|consen  376 VIATPGRLIDSLEN-RYLVLNQCTYVVLDEADRMIDMGFEPDVQKILEQMPSSNAKPDTDEKEGEERVRKNFSSSKKYRQ  454 (673)
T ss_pred             eecCchHHHHHHHH-HHHHhccCceEeccchhhhhcccccHHHHHHHHhCCccccCCCccchhhHHHHHhhcccccceeE
Confidence            68999999999998 8999999999999999999999999999999999973   1                      69


Q ss_pred             EEEEeecCCchHHHHHHhhccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCccee
Q psy9740          56 TLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVF  135 (189)
Q Consensus        56 ~il~SATl~~~v~~l~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  135 (189)
                      +++||||||+.++.+++.||++                                                        +.
T Consensus       455 T~mftatm~p~verlar~ylr~--------------------------------------------------------pv  478 (673)
T KOG0333|consen  455 TVMFTATMPPAVERLARSYLRR--------------------------------------------------------PV  478 (673)
T ss_pred             EEEEecCCChHHHHHHHHHhhC--------------------------------------------------------Ce
Confidence            9999999999999999999999                                                        77


Q ss_pred             EeecCccccchhhcceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         136 VWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       136 ~~~~~~~~~~~~~l~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      +++++..+...+.+.|.++++++..|...|.++|++..    .+++|||+|+++
T Consensus       479 ~vtig~~gk~~~rveQ~v~m~~ed~k~kkL~eil~~~~----~ppiIIFvN~kk  528 (673)
T KOG0333|consen  479 VVTIGSAGKPTPRVEQKVEMVSEDEKRKKLIEILESNF----DPPIIIFVNTKK  528 (673)
T ss_pred             EEEeccCCCCccchheEEEEecchHHHHHHHHHHHhCC----CCCEEEEEechh
Confidence            78888888888999999999999999999999998854    899999999975

>KOG0327|consensus

Probab=99.89  E-value=1.8e-23  Score=178.84  Aligned_cols=126  Identities=35%  Similarity=0.480  Sum_probs=116.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +||||||+.++++. +.+....++++|+||||.|++.||.++|+.|+..+|++.|++++|||+|.++.++.++++++   
T Consensus       149 vvGTpgrV~dml~~-~~l~~~~iKmfvlDEaDEmLs~gfkdqI~~if~~lp~~vQv~l~SAT~p~~vl~vt~~f~~~---  224 (397)
T KOG0327|consen  149 VVGTPGRVFDMLNR-GSLSTDGIKMFVLDEADEMLSRGFKDQIYDIFQELPSDVQVVLLSATMPSDVLEVTKKFMRE---  224 (397)
T ss_pred             ecCCchhHHHhhcc-ccccccceeEEeecchHhhhccchHHHHHHHHHHcCcchhheeecccCcHHHHHHHHHhccC---
Confidence            58999999999998 78999999999999999999999999999999999999999999999999999999999999   


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                           +..+.++....+..+++|+|+.+..+.
T Consensus       225 -----------------------------------------------------pv~i~vkk~~ltl~gikq~~i~v~k~~  251 (397)
T KOG0327|consen  225 -----------------------------------------------------PVRILVKKDELTLEGIKQFYINVEKEE  251 (397)
T ss_pred             -----------------------------------------------------ceEEEecchhhhhhheeeeeeeccccc
Confidence                                                                 455555666677899999999999989


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      |+..|..+.+.      ..+++|||||++
T Consensus       252 k~~~l~dl~~~------~~q~~if~nt~r  274 (397)
T KOG0327|consen  252 KLDTLCDLYRR------VTQAVIFCNTRR  274 (397)
T ss_pred             cccHHHHHHHh------hhcceEEecchh
Confidence            99999999883      689999999975

>KOG0336|consensus

Probab=99.89  E-value=4.6e-23  Score=178.18  Aligned_cols=129  Identities=30%  Similarity=0.406  Sum_probs=111.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|||||||.++... +.++|+.+.||||||||+|||+||.++|.+|+--+.+++|++|.|||+|+.|++|+..|+++|  
T Consensus       347 iiatPgrlndL~~~-n~i~l~siTYlVlDEADrMLDMgFEpqIrkilldiRPDRqtvmTSATWP~~VrrLa~sY~Kep--  423 (629)
T KOG0336|consen  347 IIATPGRLNDLQMD-NVINLASITYLVLDEADRMLDMGFEPQIRKILLDIRPDRQTVMTSATWPEGVRRLAQSYLKEP--  423 (629)
T ss_pred             EeeCCchHhhhhhc-CeeeeeeeEEEEecchhhhhcccccHHHHHHhhhcCCcceeeeecccCchHHHHHHHHhhhCc--
Confidence            58999999999998 999999999999999999999999999999999999999999999999999999999999995  


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                           ..+......-.....+.|.+++-.+.+
T Consensus       424 -----------------------------------------------------~~v~vGsLdL~a~~sVkQ~i~v~~d~~  450 (629)
T KOG0336|consen  424 -----------------------------------------------------MIVYVGSLDLVAVKSVKQNIIVTTDSE  450 (629)
T ss_pred             -----------------------------------------------------eEEEecccceeeeeeeeeeEEecccHH
Confidence                                                                 333333333444678899998778888


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      |....-.++++.   .+..++||||.++
T Consensus       451 k~~~~~~f~~~m---s~ndKvIiFv~~K  475 (629)
T KOG0336|consen  451 KLEIVQFFVANM---SSNDKVIIFVSRK  475 (629)
T ss_pred             HHHHHHHHHHhc---CCCceEEEEEech
Confidence            987777777664   4567999999876

>KOG0346|consensus

Probab=99.89  E-value=7e-23  Score=177.98  Aligned_cols=128  Identities=31%  Similarity=0.463  Sum_probs=113.6

Q ss_pred             CeeehHhhHHHHhcCCC-cccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNT-FSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~-~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      ||||||+++.|+.. +. ..+..++++|+||||-||..||.+++.+|...+|+.+|.+|+|||++++|..+.+.++++| 
T Consensus       149 vV~TP~~ll~~~~~-~~~~~~~~l~~LVvDEADLllsfGYeedlk~l~~~LPr~~Q~~LmSATl~dDv~~LKkL~l~nP-  226 (569)
T KOG0346|consen  149 VVATPAKLLRHLAA-GVLEYLDSLSFLVVDEADLLLSFGYEEDLKKLRSHLPRIYQCFLMSATLSDDVQALKKLFLHNP-  226 (569)
T ss_pred             EEeChHHHHHHHhh-ccchhhhheeeEEechhhhhhhcccHHHHHHHHHhCCchhhheeehhhhhhHHHHHHHHhccCC-
Confidence            69999999999998 55 7899999999999999999999999999999999999999999999999999999999994 


Q ss_pred             eeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccc-cchhhcceeEEEecC
Q psy9740          80 TLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDV-ATVEELDQYYVLCPY  158 (189)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~q~~~~~~~  158 (189)
                                                                             .+....+.. ..++++.||++.|.+
T Consensus       227 -------------------------------------------------------viLkl~e~el~~~dqL~Qy~v~cse  251 (569)
T KOG0346|consen  227 -------------------------------------------------------VILKLTEGELPNPDQLTQYQVKCSE  251 (569)
T ss_pred             -------------------------------------------------------eEEEeccccCCCcccceEEEEEecc
Confidence                                                                   344444433 347999999999999


Q ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         159 DVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       159 ~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      ++|+..++.+|+..   --.+++|||+||-
T Consensus       252 ~DKflllyallKL~---LI~gKsliFVNtI  278 (569)
T KOG0346|consen  252 EDKFLLLYALLKLR---LIRGKSLIFVNTI  278 (569)
T ss_pred             chhHHHHHHHHHHH---HhcCceEEEEech
Confidence            99999999999852   2369999999984

>KOG0335|consensus

Probab=99.88  E-value=1.1e-22  Score=179.56  Aligned_cols=133  Identities=31%  Similarity=0.427  Sum_probs=113.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhc-cccHHHHHHHHhhCCC----CCcEEEEeecCCchHHHHHHhhc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GIFDEQMRTIFGAVPK----QKQTLLFSATMTDTLEQVKSITK   75 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~-~~f~~~i~~Il~~l~~----~~Q~il~SATl~~~v~~l~~~~l   75 (189)
                      +|||||||.++++. +.+.|.+++|+||||||+|+| +||.++|++|+.....    .+|++|||||+|.++..++..++
T Consensus       206 lvaTpGrL~d~~e~-g~i~l~~~k~~vLDEADrMlD~mgF~p~Ir~iv~~~~~~~~~~~qt~mFSAtfp~~iq~l~~~fl  284 (482)
T KOG0335|consen  206 LVATPGRLKDLIER-GKISLDNCKFLVLDEADRMLDEMGFEPQIRKIVEQLGMPPKNNRQTLLFSATFPKEIQRLAADFL  284 (482)
T ss_pred             EEecCchhhhhhhc-ceeehhhCcEEEecchHHhhhhccccccHHHHhcccCCCCccceeEEEEeccCChhhhhhHHHHh
Confidence            58999999999999 999999999999999999999 9999999999988753    89999999999999999998888


Q ss_pred             cccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEE
Q psy9740          76 KQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVL  155 (189)
Q Consensus        76 ~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~  155 (189)
                      .+                                                    +   -..+.+........++.|.+..
T Consensus       285 ~~----------------------------------------------------~---yi~laV~rvg~~~~ni~q~i~~  309 (482)
T KOG0335|consen  285 KD----------------------------------------------------N---YIFLAVGRVGSTSENITQKILF  309 (482)
T ss_pred             hc----------------------------------------------------c---ceEEEEeeeccccccceeEeee
Confidence            86                                                    1   2233445666677999999999


Q ss_pred             ecCcchHHHHHHHHHHHHh-----cCCCCeEEEEecCCC
Q psy9740         156 CPYDVKDGYLVETVRLYRE-----KSPRGAIVIFTDTCR  189 (189)
Q Consensus       156 ~~~~~K~~~L~~lL~~~~~-----~~~~~~~iIF~ns~~  189 (189)
                      |.+.+|...|+++|.....     ....+.++|||.|++
T Consensus       310 V~~~~kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~  348 (482)
T KOG0335|consen  310 VNEMEKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKR  348 (482)
T ss_pred             ecchhhHHHHHHHhhcccCCcccCCcccceEEEEeeccc
Confidence            9999999999999986441     112248999999975

>KOG0339|consensus

Probab=99.87  E-value=3.7e-22  Score=176.02  Aligned_cols=128  Identities=34%  Similarity=0.516  Sum_probs=108.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||++|++. +..+++++.||||||||+|++.||.++++.|..++.+++|+++||||++..++.+++.++-+|  
T Consensus       350 vVaTPgRlid~Vkm-Katn~~rvS~LV~DEadrmfdmGfe~qVrSI~~hirpdrQtllFsaTf~~kIe~lard~L~dp--  426 (731)
T KOG0339|consen  350 VVATPGRLIDMVKM-KATNLSRVSYLVLDEADRMFDMGFEPQVRSIKQHIRPDRQTLLFSATFKKKIEKLARDILSDP--  426 (731)
T ss_pred             EEechHHHHHHHHh-hcccceeeeEEEEechhhhhccccHHHHHHHHhhcCCcceEEEeeccchHHHHHHHHHHhcCC--
Confidence            69999999999999 999999999999999999999999999999999999999999999999999999999999984  


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                           +.+++ .........|.|.+.+|+.+.
T Consensus       427 -----------------------------------------------------VrvVq-g~vgean~dITQ~V~V~~s~~  452 (731)
T KOG0339|consen  427 -----------------------------------------------------VRVVQ-GEVGEANEDITQTVSVCPSEE  452 (731)
T ss_pred             -----------------------------------------------------eeEEE-eehhccccchhheeeeccCcH
Confidence                                                                 22222 344455688999999998654


Q ss_pred             -hHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         161 -KDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       161 -K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                       |+.+|..-|-..   ...+++|||+..+
T Consensus       453 ~Kl~wl~~~L~~f---~S~gkvlifVTKk  478 (731)
T KOG0339|consen  453 KKLNWLLRHLVEF---SSEGKVLIFVTKK  478 (731)
T ss_pred             HHHHHHHHHhhhh---ccCCcEEEEEecc
Confidence             766665555433   3457999998643

>KOG0341|consensus

Probab=99.87  E-value=2.9e-23  Score=178.48  Aligned_cols=126  Identities=33%  Similarity=0.456  Sum_probs=114.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|+|||||.+++.+ +.++|.-++|+++||||+|+|.||.++|+.|+.++...+|+++||||||..++.+|+.-+-+   
T Consensus       306 vVATPGRL~DmL~K-K~~sLd~CRyL~lDEADRmiDmGFEddir~iF~~FK~QRQTLLFSATMP~KIQ~FAkSALVK---  381 (610)
T KOG0341|consen  306 VVATPGRLMDMLAK-KIMSLDACRYLTLDEADRMIDMGFEDDIRTIFSFFKGQRQTLLFSATMPKKIQNFAKSALVK---  381 (610)
T ss_pred             EEcCcchHHHHHHH-hhccHHHHHHhhhhhHHHHhhccchhhHHHHHHHHhhhhheeeeeccccHHHHHHHHhhccc---
Confidence            58999999999998 99999999999999999999999999999999999999999999999999999999999988   


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                           ++.++++.-.+.+-++.|.+-++..+.
T Consensus       382 -----------------------------------------------------PvtvNVGRAGAAsldViQevEyVkqEa  408 (610)
T KOG0341|consen  382 -----------------------------------------------------PVTVNVGRAGAASLDVIQEVEYVKQEA  408 (610)
T ss_pred             -----------------------------------------------------ceEEecccccccchhHHHHHHHHHhhh
Confidence                                                                 677788888877788888888888899


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      |..+|.+-|..     ..++++|||-.+
T Consensus       409 KiVylLeCLQK-----T~PpVLIFaEkK  431 (610)
T KOG0341|consen  409 KIVYLLECLQK-----TSPPVLIFAEKK  431 (610)
T ss_pred             hhhhHHHHhcc-----CCCceEEEeccc
Confidence            99888887764     368999999754

>PRK11776 ATP-dependent RNA helicase DbpA; Provisional

Probab=99.86  E-value=1.1e-21  Score=174.99  Aligned_cols=127  Identities=28%  Similarity=0.420  Sum_probs=109.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|||||||.+++.. +.+.+++++++|+||||.|++.||..++..+++.+|+.+|+++||||+|+.+..++..++.+|. 
T Consensus       127 vV~Tp~rl~~~l~~-~~~~l~~l~~lViDEad~~l~~g~~~~l~~i~~~~~~~~q~ll~SAT~~~~~~~l~~~~~~~~~-  204 (460)
T PRK11776        127 IVGTPGRILDHLRK-GTLDLDALNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPV-  204 (460)
T ss_pred             EEEChHHHHHHHHc-CCccHHHCCEEEEECHHHHhCcCcHHHHHHHHHhCCcccEEEEEEecCcHHHHHHHHHhcCCCE-
Confidence            58999999999988 8899999999999999999999999999999999999999999999999999999999998842 


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                             .+...... ..+.+.|+|+.++...
T Consensus       205 -------------------------------------------------------~i~~~~~~-~~~~i~~~~~~~~~~~  228 (460)
T PRK11776        205 -------------------------------------------------------EVKVESTH-DLPAIEQRFYEVSPDE  228 (460)
T ss_pred             -------------------------------------------------------EEEECcCC-CCCCeeEEEEEeCcHH
Confidence                                                                   22222222 2356889999999888


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      |...|..++....    ..++||||||++
T Consensus       229 k~~~l~~ll~~~~----~~~~lVF~~t~~  253 (460)
T PRK11776        229 RLPALQRLLLHHQ----PESCVVFCNTKK  253 (460)
T ss_pred             HHHHHHHHHHhcC----CCceEEEECCHH
Confidence            9999999887643    678999999973

>KOG0329|consensus

Probab=99.86  E-value=1.5e-22  Score=166.32  Aligned_cols=127  Identities=27%  Similarity=0.467  Sum_probs=114.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhcc-ccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSG-IFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~-~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +||||||++-++.+ +.++|++++++|+||+|+||++ ..+.+++.|++..|..+|+++||||++.+++..++++|.+|.
T Consensus       165 vVgTPGrilALvr~-k~l~lk~vkhFvlDEcdkmle~lDMrRDvQEifr~tp~~KQvmmfsatlskeiRpvC~kFmQdPm  243 (387)
T KOG0329|consen  165 VVGTPGRILALVRN-RSLNLKNVKHFVLDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCHKFMQDPM  243 (387)
T ss_pred             EEcCcHHHHHHHHh-ccCchhhcceeehhhHHHHHHHHHHHHHHHHHhhcCcccceeeeeeeecchhhHHHHHhhhcCch
Confidence            58999999999998 9999999999999999999976 699999999999999999999999999999999999999963


Q ss_pred             eeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCc
Q psy9740          80 TLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYD  159 (189)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~  159 (189)
                      -+++                                                       .+....+..++.|||+.+.+.
T Consensus       244 Ei~v-------------------------------------------------------DdE~KLtLHGLqQ~YvkLke~  268 (387)
T KOG0329|consen  244 EIFV-------------------------------------------------------DDEAKLTLHGLQQYYVKLKEN  268 (387)
T ss_pred             hhhc-------------------------------------------------------cchhhhhhhhHHHHHHhhhhh
Confidence            2222                                                       234456689999999999999


Q ss_pred             chHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy9740         160 VKDGYLVETVRLYREKSPRGAIVIFTDT  187 (189)
Q Consensus       160 ~K~~~L~~lL~~~~~~~~~~~~iIF~ns  187 (189)
                      +|...|.++|..+.    ..+++||+.|
T Consensus       269 eKNrkl~dLLd~Le----FNQVvIFvKs  292 (387)
T KOG0329|consen  269 EKNRKLNDLLDVLE----FNQVVIFVKS  292 (387)
T ss_pred             hhhhhhhhhhhhhh----hcceeEeeeh
Confidence            99999999999887    8999999976

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional

Probab=99.86  E-value=1.3e-21  Score=180.67  Aligned_cols=128  Identities=34%  Similarity=0.417  Sum_probs=111.2

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||++++.. +.+++++++++|+||||.|++.+|.+++..|+..+|+.+|+++||||+|..+..+++.++.+|  
T Consensus       129 VVgTPgrl~d~l~r-~~l~l~~l~~lVlDEAd~ml~~gf~~di~~Il~~lp~~~q~llfSAT~p~~i~~i~~~~l~~~--  205 (629)
T PRK11634        129 VVGTPGRLLDHLKR-GTLDLSKLSGLVLDEADEMLRMGFIEDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEP--  205 (629)
T ss_pred             EEECHHHHHHHHHc-CCcchhhceEEEeccHHHHhhcccHHHHHHHHHhCCCCCeEEEEEccCChhHHHHHHHHcCCC--
Confidence            69999999999988 889999999999999999999999999999999999999999999999999999999999884  


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                            ..+.+.......+.+.|.|+.+....
T Consensus       206 ------------------------------------------------------~~i~i~~~~~~~~~i~q~~~~v~~~~  231 (629)
T PRK11634        206 ------------------------------------------------------QEVRIQSSVTTRPDISQSYWTVWGMR  231 (629)
T ss_pred             ------------------------------------------------------eEEEccCccccCCceEEEEEEechhh
Confidence                                                                  22233333444567889999999889


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      |...|..+|....    ..++||||||++
T Consensus       232 k~~~L~~~L~~~~----~~~~IVF~~tk~  256 (629)
T PRK11634        232 KNEALVRFLEAED----FDAAIIFVRTKN  256 (629)
T ss_pred             HHHHHHHHHHhcC----CCCEEEEeccHH
Confidence            9999988887543    679999999973

>PTZ00110 helicase; Provisional

Probab=99.86  E-value=2.3e-21  Score=176.67  Aligned_cols=131  Identities=30%  Similarity=0.423  Sum_probs=109.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||.+++.. +..+++++++||+||||+|++.+|.+++..|+..+++.+|+++||||+|.+++.+++.++..   
T Consensus       257 lVaTPgrL~d~l~~-~~~~l~~v~~lViDEAd~mld~gf~~~i~~il~~~~~~~q~l~~SAT~p~~v~~l~~~l~~~---  332 (545)
T PTZ00110        257 LIACPGRLIDFLES-NVTNLRRVTYLVLDEADRMLDMGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKE---  332 (545)
T ss_pred             EEECHHHHHHHHHc-CCCChhhCcEEEeehHHhhhhcchHHHHHHHHHhCCCCCeEEEEEeCCCHHHHHHHHHHhcc---
Confidence            68999999999988 88899999999999999999999999999999999999999999999999999999988864   


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCcc-ccchhhcceeEEEecCc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQD-VATVEELDQYYVLCPYD  159 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~q~~~~~~~~  159 (189)
                                                                       +   +..+.+... .....++.|.+..+++.
T Consensus       333 -------------------------------------------------~---~v~i~vg~~~l~~~~~i~q~~~~~~~~  360 (545)
T PTZ00110        333 -------------------------------------------------E---PVHVNVGSLDLTACHNIKQEVFVVEEH  360 (545)
T ss_pred             -------------------------------------------------C---CEEEEECCCccccCCCeeEEEEEEech
Confidence                                                             1   112222221 23346788999999988


Q ss_pred             chHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         160 VKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       160 ~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      .|...|.++|....  ....++||||||++
T Consensus       361 ~k~~~L~~ll~~~~--~~~~k~LIF~~t~~  388 (545)
T PTZ00110        361 EKRGKLKMLLQRIM--RDGDKILIFVETKK  388 (545)
T ss_pred             hHHHHHHHHHHHhc--ccCCeEEEEecChH
Confidence            89999999988754  25689999999974

>KOG4284|consensus

Probab=99.85  E-value=1.3e-21  Score=176.46  Aligned_cols=126  Identities=25%  Similarity=0.393  Sum_probs=109.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhc-cccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~-~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +||||||+.++++. +.+++++++++||||||+|++ ..|+++|..|+..+|+.+|++.||||+|..+.++..++|++| 
T Consensus       147 vIGtPGRi~qL~el-~~~n~s~vrlfVLDEADkL~~t~sfq~~In~ii~slP~~rQv~a~SATYp~nLdn~Lsk~mrdp-  224 (980)
T KOG4284|consen  147 VIGTPGRIAQLVEL-GAMNMSHVRLFVLDEADKLMDTESFQDDINIIINSLPQIRQVAAFSATYPRNLDNLLSKFMRDP-  224 (980)
T ss_pred             EecCchHHHHHHHh-cCCCccceeEEEeccHHhhhchhhHHHHHHHHHHhcchhheeeEEeccCchhHHHHHHHHhccc-
Confidence            59999999999998 999999999999999999998 569999999999999999999999999999999999999994 


Q ss_pred             eeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCc
Q psy9740          80 TLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYD  159 (189)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~  159 (189)
                                                                             ..+..+.....+=+|+|||+.++.-
T Consensus       225 -------------------------------------------------------~lVr~n~~d~~L~GikQyv~~~~s~  249 (980)
T KOG4284|consen  225 -------------------------------------------------------ALVRFNADDVQLFGIKQYVVAKCSP  249 (980)
T ss_pred             -------------------------------------------------------ceeecccCCceeechhheeeeccCC
Confidence                                                                   4444455555667899999887642


Q ss_pred             --------chHHHHHHHHHHHHhcCCCCeEEEEecC
Q psy9740         160 --------VKDGYLVETVRLYREKSPRGAIVIFTDT  187 (189)
Q Consensus       160 --------~K~~~L~~lL~~~~~~~~~~~~iIF~ns  187 (189)
                              .|++.|-++++.+.    ..++||||++
T Consensus       250 nnsveemrlklq~L~~vf~~ip----y~QAlVF~~~  281 (980)
T KOG4284|consen  250 NNSVEEMRLKLQKLTHVFKSIP----YVQALVFCDQ  281 (980)
T ss_pred             cchHHHHHHHHHHHHHHHhhCc----hHHHHhhhhh
Confidence                    37777777777654    8999999986

>KOG0340|consensus

Probab=99.85  E-value=1.9e-21  Score=165.45  Aligned_cols=134  Identities=49%  Similarity=0.727  Sum_probs=116.7

Q ss_pred             CeeehHhhHHHHhcC---CCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTC---NTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~---~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      ||+||||+.+++..+   -...+.+++|+|+||||+|++..|.++++.|++.+|+.+|+++||||+++.+.++...-...
T Consensus       129 VvatPGRlad~l~sn~~~~~~~~~rlkflVlDEADrvL~~~f~d~L~~i~e~lP~~RQtLlfSATitd~i~ql~~~~i~k  208 (442)
T KOG0340|consen  129 VVATPGRLADHLSSNLGVCSWIFQRLKFLVLDEADRVLAGCFPDILEGIEECLPKPRQTLLFSATITDTIKQLFGCPITK  208 (442)
T ss_pred             EecCccccccccccCCccchhhhhceeeEEecchhhhhccchhhHHhhhhccCCCccceEEEEeehhhHHHHhhcCCccc
Confidence            689999999999885   23468999999999999999999999999999999999999999999999998886555544


Q ss_pred             cceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEec
Q psy9740          78 VGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCP  157 (189)
Q Consensus        78 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~  157 (189)
                      +                                                      ...++...+...+++.|.|.|+.|+
T Consensus       209 ~------------------------------------------------------~a~~~e~~~~vstvetL~q~yI~~~  234 (442)
T KOG0340|consen  209 S------------------------------------------------------IAFELEVIDGVSTVETLYQGYILVS  234 (442)
T ss_pred             c------------------------------------------------------cceEEeccCCCCchhhhhhheeecc
Confidence            1                                                      1555566677778999999999999


Q ss_pred             CcchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         158 YDVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       158 ~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      ...|..||+++|+.+..+ ..+.+|||+||++
T Consensus       235 ~~vkdaYLv~~Lr~~~~~-~~~simIFvnttr  265 (442)
T KOG0340|consen  235 IDVKDAYLVHLLRDFENK-ENGSIMIFVNTTR  265 (442)
T ss_pred             hhhhHHHHHHHHhhhhhc-cCceEEEEeehhH
Confidence            999999999999998754 6789999999974

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

Probab=99.84  E-value=1.3e-20  Score=170.80  Aligned_cols=129  Identities=28%  Similarity=0.403  Sum_probs=109.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||.+++.. +.+.++++++||+||||.|++.||.+++..|+..++ .+|+++||||++.+++.+++.++.+   
T Consensus       250 iV~TPgrL~~~l~~-~~~~l~~v~~lViDEad~ml~~gf~~~i~~i~~~l~-~~q~l~~SATl~~~v~~l~~~~~~~---  324 (518)
T PLN00206        250 IVGTPGRLIDLLSK-HDIELDNVSVLVLDEVDCMLERGFRDQVMQIFQALS-QPQVLLFSATVSPEVEKFASSLAKD---  324 (518)
T ss_pred             EEECHHHHHHHHHc-CCccchheeEEEeecHHHHhhcchHHHHHHHHHhCC-CCcEEEEEeeCCHHHHHHHHHhCCC---
Confidence            68999999999988 789999999999999999999999999999999885 6899999999999999999999887   


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                           +..+...........+.|.++.++...
T Consensus       325 -----------------------------------------------------~~~i~~~~~~~~~~~v~q~~~~~~~~~  351 (518)
T PLN00206        325 -----------------------------------------------------IILISIGNPNRPNKAVKQLAIWVETKQ  351 (518)
T ss_pred             -----------------------------------------------------CEEEEeCCCCCCCcceeEEEEeccchh
Confidence                                                                 334444444445567889999999888


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      |...|.++|+...  ...+++||||||+.
T Consensus       352 k~~~l~~~l~~~~--~~~~~~iVFv~s~~  378 (518)
T PLN00206        352 KKQKLFDILKSKQ--HFKPPAVVFVSSRL  378 (518)
T ss_pred             HHHHHHHHHHhhc--ccCCCEEEEcCCch
Confidence            8888999887643  23468999999973

>PRK10590 ATP-dependent RNA helicase RhlE; Provisional

Probab=99.84  E-value=1e-20  Score=168.94  Aligned_cols=128  Identities=29%  Similarity=0.431  Sum_probs=108.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||++++.. +.+.++++++||+||||.|++.+|..++..++..++..+|+++||||++.++..++..++.+|  
T Consensus       129 iV~TP~rL~~~~~~-~~~~l~~v~~lViDEah~ll~~~~~~~i~~il~~l~~~~q~l~~SAT~~~~~~~l~~~~~~~~--  205 (456)
T PRK10590        129 LVATPGRLLDLEHQ-NAVKLDQVEILVLDEADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNP--  205 (456)
T ss_pred             EEEChHHHHHHHHc-CCcccccceEEEeecHHHHhccccHHHHHHHHHhCCccCeEEEEeCCCcHHHHHHHHHHcCCC--
Confidence            69999999999987 888999999999999999999999999999999999999999999999999999999998883  


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                            ..+.+.........+.|++..++...
T Consensus       206 ------------------------------------------------------~~i~~~~~~~~~~~i~~~~~~~~~~~  231 (456)
T PRK10590        206 ------------------------------------------------------LEIEVARRNTASEQVTQHVHFVDKKR  231 (456)
T ss_pred             ------------------------------------------------------eEEEEecccccccceeEEEEEcCHHH
Confidence                                                                  22222333344567888998888888


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      |...|..++..    ....++||||||++
T Consensus       232 k~~~l~~l~~~----~~~~~~lVF~~t~~  256 (456)
T PRK10590        232 KRELLSQMIGK----GNWQQVLVFTRTKH  256 (456)
T ss_pred             HHHHHHHHHHc----CCCCcEEEEcCcHH
Confidence            87777777654    34689999999963

>PRK04837 ATP-dependent RNA helicase RhlB; Provisional

Probab=99.84  E-value=1.6e-20  Score=165.96  Aligned_cols=128  Identities=26%  Similarity=0.322  Sum_probs=107.2

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCC--CCcEEEEeecCCchHHHHHHhhcccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPK--QKQTLLFSATMTDTLEQVKSITKKQV   78 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~--~~Q~il~SATl~~~v~~l~~~~l~~p   78 (189)
                      ||||||||++++.. +.+++++++++|+||||.|++.||..++..|+..+|.  .+|.++||||++..+.+++..++.+|
T Consensus       137 lV~TP~~l~~~l~~-~~~~l~~v~~lViDEad~l~~~~f~~~i~~i~~~~~~~~~~~~~l~SAT~~~~~~~~~~~~~~~p  215 (423)
T PRK04837        137 LIGTTGRLIDYAKQ-NHINLGAIQVVVLDEADRMFDLGFIKDIRWLFRRMPPANQRLNMLFSATLSYRVRELAFEHMNNP  215 (423)
T ss_pred             EEECHHHHHHHHHc-CCcccccccEEEEecHHHHhhcccHHHHHHHHHhCCCccceeEEEEeccCCHHHHHHHHHHCCCC
Confidence            69999999999987 8899999999999999999999999999999999984  67889999999999999998888874


Q ss_pred             ceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecC
Q psy9740          79 GTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPY  158 (189)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~  158 (189)
                      .                                                        .+.+.........+.+.++++..
T Consensus       216 ~--------------------------------------------------------~i~v~~~~~~~~~i~~~~~~~~~  239 (423)
T PRK04837        216 E--------------------------------------------------------YVEVEPEQKTGHRIKEELFYPSN  239 (423)
T ss_pred             E--------------------------------------------------------EEEEcCCCcCCCceeEEEEeCCH
Confidence            2                                                        22233333345667888888887


Q ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         159 DVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       159 ~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      ..|...|.++++..    ...++||||||++
T Consensus       240 ~~k~~~l~~ll~~~----~~~~~lVF~~t~~  266 (423)
T PRK04837        240 EEKMRLLQTLIEEE----WPDRAIIFANTKH  266 (423)
T ss_pred             HHHHHHHHHHHHhc----CCCeEEEEECCHH
Confidence            88988888888653    3689999999863

>KOG0337|consensus

Probab=99.83  E-value=7.1e-21  Score=164.79  Aligned_cols=129  Identities=28%  Similarity=0.361  Sum_probs=113.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      |||||||++++.-. ..+.|+.+.|||+||||+|+++||++++..|+..+|.++|+++||||+|..+-+.++..+.+|  
T Consensus       144 i~ATpgr~~h~~ve-m~l~l~sveyVVfdEadrlfemgfqeql~e~l~rl~~~~QTllfSatlp~~lv~fakaGl~~p--  220 (529)
T KOG0337|consen  144 IIATPGRLLHLGVE-MTLTLSSVEYVVFDEADRLFEMGFQEQLHEILSRLPESRQTLLFSATLPRDLVDFAKAGLVPP--  220 (529)
T ss_pred             EEecCceeeeeehh-eeccccceeeeeehhhhHHHhhhhHHHHHHHHHhCCCcceEEEEeccCchhhHHHHHccCCCC--
Confidence            57899999987766 778999999999999999999999999999999999999999999999999999999999884  


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                            ..+.++-...+.+.+...|+.+...+
T Consensus       221 ------------------------------------------------------~lVRldvetkise~lk~~f~~~~~a~  246 (529)
T KOG0337|consen  221 ------------------------------------------------------VLVRLDVETKISELLKVRFFRVRKAE  246 (529)
T ss_pred             ------------------------------------------------------ceEEeehhhhcchhhhhheeeeccHH
Confidence                                                                  33334555667788999999999999


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      |..+|..++....   ...+++|||.|++
T Consensus       247 K~aaLl~il~~~~---~~~~t~vf~~tk~  272 (529)
T KOG0337|consen  247 KEAALLSILGGRI---KDKQTIVFVATKH  272 (529)
T ss_pred             HHHHHHHHHhccc---cccceeEEecccc
Confidence            9999999998754   2468999999975

>PRK04537 ATP-dependent RNA helicase RhlB; Provisional

Probab=99.82  E-value=3e-20  Score=170.24  Aligned_cols=129  Identities=26%  Similarity=0.354  Sum_probs=106.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCC--CCcEEEEeecCCchHHHHHHhhcccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPK--QKQTLLFSATMTDTLEQVKSITKKQV   78 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~--~~Q~il~SATl~~~v~~l~~~~l~~p   78 (189)
                      ||||||||++++...+.+.++.+++|||||||.|++.+|..++..|+..++.  .+|+++||||++..+.+++..++.+|
T Consensus       138 iV~TP~rL~~~l~~~~~~~l~~v~~lViDEAh~lld~gf~~~i~~il~~lp~~~~~q~ll~SATl~~~v~~l~~~~l~~p  217 (572)
T PRK04537        138 IIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDLGFIKDIRFLLRRMPERGTRQTLLFSATLSHRVLELAYEHMNEP  217 (572)
T ss_pred             EEECHHHHHHHHHhccccchhheeeeEecCHHHHhhcchHHHHHHHHHhcccccCceEEEEeCCccHHHHHHHHHHhcCC
Confidence            6999999999998744678999999999999999999999999999999996  78999999999999999999998874


Q ss_pred             ceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecC
Q psy9740          79 GTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPY  158 (189)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~  158 (189)
                      .                                                        .+...........+.|+++.+..
T Consensus       218 ~--------------------------------------------------------~i~v~~~~~~~~~i~q~~~~~~~  241 (572)
T PRK04537        218 E--------------------------------------------------------KLVVETETITAARVRQRIYFPAD  241 (572)
T ss_pred             c--------------------------------------------------------EEEeccccccccceeEEEEecCH
Confidence            2                                                        11112222345678888888888


Q ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         159 DVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       159 ~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      ..|...|..+++..    ...++||||||++
T Consensus       242 ~~k~~~L~~ll~~~----~~~k~LVF~nt~~  268 (572)
T PRK04537        242 EEKQTLLLGLLSRS----EGARTMVFVNTKA  268 (572)
T ss_pred             HHHHHHHHHHHhcc----cCCcEEEEeCCHH
Confidence            88888888887653    3679999999963

>KOG0347|consensus

Probab=99.81  E-value=9.8e-21  Score=168.29  Aligned_cols=149  Identities=31%  Similarity=0.438  Sum_probs=110.1

Q ss_pred             CeeehHhhHHHHhcCCC--cccCceeeEEeccchhhhccccHHHHHHHHhhCC-----CCCcEEEEeecCCchHHHHHHh
Q psy9740           1 VIATPGRLADHLDTCNT--FSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP-----KQKQTLLFSATMTDTLEQVKSI   73 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~--~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~-----~~~Q~il~SATl~~~v~~l~~~   73 (189)
                      ||||||||+.++...+.  -+++++++||+||||+|++.|+++.+..|++.+.     ..+|++.||||++-....-.+.
T Consensus       317 VVATPGRlweli~e~n~~l~~~k~vkcLVlDEaDRmvekghF~Els~lL~~L~e~~~~~qrQTlVFSATlt~~~~~~~~~  396 (731)
T KOG0347|consen  317 VVATPGRLWELIEEDNTHLGNFKKVKCLVLDEADRMVEKGHFEELSKLLKHLNEEQKNRQRQTLVFSATLTLVLQQPLSS  396 (731)
T ss_pred             EEecchHHHHHHHhhhhhhhhhhhceEEEEccHHHHhhhccHHHHHHHHHHhhhhhcccccceEEEEEEeehhhcChhHH
Confidence            69999999999988322  2789999999999999999999999999998886     3689999999997654433333


Q ss_pred             hccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCC-cceeEeecCccccchhhccee
Q psy9740          74 TKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDP-VHVFVWESKQDVATVEELDQY  152 (189)
Q Consensus        74 ~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~q~  152 (189)
                      ..+..       +..+...+                           -++.++...+. +.+.++..+....+.+.|.+.
T Consensus       397 ~~k~~-------~k~~~~~~---------------------------kiq~Lmk~ig~~~kpkiiD~t~q~~ta~~l~Es  442 (731)
T KOG0347|consen  397 SRKKK-------DKEDELNA---------------------------KIQHLMKKIGFRGKPKIIDLTPQSATASTLTES  442 (731)
T ss_pred             hhhcc-------chhhhhhH---------------------------HHHHHHHHhCccCCCeeEecCcchhHHHHHHHH
Confidence            33220       00001111                           12223321111 113677788888999999999


Q ss_pred             EEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         153 YVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       153 ~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      .+.|+..+|..+|+++|-.+     .+++||||||.
T Consensus       443 ~I~C~~~eKD~ylyYfl~ry-----PGrTlVF~NsI  473 (731)
T KOG0347|consen  443 LIECPPLEKDLYLYYFLTRY-----PGRTLVFCNSI  473 (731)
T ss_pred             hhcCCccccceeEEEEEeec-----CCceEEEechH
Confidence            99999999999999999765     69999999983

>PRK11192 ATP-dependent RNA helicase SrmB; Provisional

Probab=99.80  E-value=2.7e-19  Score=158.40  Aligned_cols=128  Identities=27%  Similarity=0.393  Sum_probs=105.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCc-hHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTD-TLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~-~v~~l~~~~l~~p~   79 (189)
                      ||||||||++++.. +.+.++++++||+||||.|++.+|...+..|...++..+|+++||||++. .+..+++.++.+| 
T Consensus       127 lV~Tp~rl~~~~~~-~~~~~~~v~~lViDEah~~l~~~~~~~~~~i~~~~~~~~q~~~~SAT~~~~~~~~~~~~~~~~~-  204 (434)
T PRK11192        127 VVATPGRLLQYIKE-ENFDCRAVETLILDEADRMLDMGFAQDIETIAAETRWRKQTLLFSATLEGDAVQDFAERLLNDP-  204 (434)
T ss_pred             EEEChHHHHHHHHc-CCcCcccCCEEEEECHHHHhCCCcHHHHHHHHHhCccccEEEEEEeecCHHHHHHHHHHHccCC-
Confidence            68999999999988 88999999999999999999999999999999999999999999999986 4788888888773 


Q ss_pred             eeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecC-
Q psy9740          80 TLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPY-  158 (189)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~-  158 (189)
                                                                             ..+...........+.|+++.++. 
T Consensus       205 -------------------------------------------------------~~i~~~~~~~~~~~i~~~~~~~~~~  229 (434)
T PRK11192        205 -------------------------------------------------------VEVEAEPSRRERKKIHQWYYRADDL  229 (434)
T ss_pred             -------------------------------------------------------EEEEecCCcccccCceEEEEEeCCH
Confidence                                                                   222333333445678888888875 


Q ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         159 DVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       159 ~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      ..|...|..+++.    ....++||||||++
T Consensus       230 ~~k~~~l~~l~~~----~~~~~~lVF~~s~~  256 (434)
T PRK11192        230 EHKTALLCHLLKQ----PEVTRSIVFVRTRE  256 (434)
T ss_pred             HHHHHHHHHHHhc----CCCCeEEEEeCChH
Confidence            5687777777764    23689999999973

>PRK01297 ATP-dependent RNA helicase RhlB; Provisional

Probab=99.79  E-value=6.6e-19  Score=157.89  Aligned_cols=128  Identities=30%  Similarity=0.411  Sum_probs=106.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCC--CCcEEEEeecCCchHHHHHHhhcccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPK--QKQTLLFSATMTDTLEQVKSITKKQV   78 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~--~~Q~il~SATl~~~v~~l~~~~l~~p   78 (189)
                      ||+||++|++++.. +...+++++++|+||||.+++.+|.+.+.+|+..++.  .+|++++|||++.++.++++.++.+|
T Consensus       217 iv~TP~~Ll~~~~~-~~~~l~~l~~lViDEah~l~~~~~~~~l~~i~~~~~~~~~~q~i~~SAT~~~~~~~~~~~~~~~~  295 (475)
T PRK01297        217 LVATPGRLLDFNQR-GEVHLDMVEVMVLDEADRMLDMGFIPQVRQIIRQTPRKEERQTLLFSATFTDDVMNLAKQWTTDP  295 (475)
T ss_pred             EEECHHHHHHHHHc-CCcccccCceEEechHHHHHhcccHHHHHHHHHhCCCCCCceEEEEEeecCHHHHHHHHHhccCC
Confidence            68999999999887 7889999999999999999999999999999999974  68999999999999999999998874


Q ss_pred             ceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecC
Q psy9740          79 GTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPY  158 (189)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~  158 (189)
                                                                              ..+.+........++.|+++.+..
T Consensus       296 --------------------------------------------------------~~v~~~~~~~~~~~~~~~~~~~~~  319 (475)
T PRK01297        296 --------------------------------------------------------AIVEIEPENVASDTVEQHVYAVAG  319 (475)
T ss_pred             --------------------------------------------------------EEEEeccCcCCCCcccEEEEEecc
Confidence                                                                    222233333344667788888888


Q ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         159 DVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       159 ~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      .+|...|..++..    ....++||||||++
T Consensus       320 ~~k~~~l~~ll~~----~~~~~~IVF~~s~~  346 (475)
T PRK01297        320 SDKYKLLYNLVTQ----NPWERVMVFANRKD  346 (475)
T ss_pred             hhHHHHHHHHHHh----cCCCeEEEEeCCHH
Confidence            8898888888765    33679999999863

>KOG0332|consensus

Probab=99.78  E-value=1.8e-19  Score=154.28  Aligned_cols=129  Identities=33%  Similarity=0.459  Sum_probs=113.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhcc-ccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSG-IFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~-~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +|||||-+.|++...+-+.++.++.+|+||||.|++. ||+++--+|...+|++.|.++||||+.+.|..++....++  
T Consensus       211 viGTPGtv~Dlm~klk~id~~kikvfVlDEAD~Mi~tqG~~D~S~rI~~~lP~~~QllLFSATf~e~V~~Fa~kivpn--  288 (477)
T KOG0332|consen  211 VIGTPGTVLDLMLKLKCIDLEKIKVFVLDEADVMIDTQGFQDQSIRIMRSLPRNQQLLLFSATFVEKVAAFALKIVPN--  288 (477)
T ss_pred             eeCCCccHHHHHHHHHhhChhhceEEEecchhhhhhcccccccchhhhhhcCCcceEEeeechhHHHHHHHHHHhcCC--
Confidence            5899999999998767788999999999999999964 8999999999999999999999999999999999999999  


Q ss_pred             eeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecC-
Q psy9740          80 TLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPY-  158 (189)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~-  158 (189)
                                                                            +.++.+.......++|.|+|+.|+. 
T Consensus       289 ------------------------------------------------------~n~i~Lk~eel~L~~IkQlyv~C~~~  314 (477)
T KOG0332|consen  289 ------------------------------------------------------ANVIILKREELALDNIKQLYVLCACR  314 (477)
T ss_pred             ------------------------------------------------------Cceeeeehhhccccchhhheeeccch
Confidence                                                                  4444556777788999999999986 


Q ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         159 DVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       159 ~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      .+|...|..+.-..    ..+++||||.||+
T Consensus       315 ~~K~~~l~~lyg~~----tigqsiIFc~tk~  341 (477)
T KOG0332|consen  315 DDKYQALVNLYGLL----TIGQSIIFCHTKA  341 (477)
T ss_pred             hhHHHHHHHHHhhh----hhhheEEEEeehh
Confidence            56988887755443    3799999999974

>KOG0350|consensus

Probab=99.78  E-value=3.4e-19  Score=157.00  Aligned_cols=132  Identities=27%  Similarity=0.402  Sum_probs=105.5

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCC----------------------------
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPK----------------------------   52 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~----------------------------   52 (189)
                      ||+|||||.+|+.+.++++|++++|+|+||||+|++..|++|+..++..+..                            
T Consensus       274 lVaTPGRLVDHl~~~k~f~Lk~LrfLVIDEADRll~qsfQ~Wl~~v~~~~~~~k~~~~~~nii~~~~~~~pt~~~e~~t~  353 (620)
T KOG0350|consen  274 LVATPGRLVDHLNNTKSFDLKHLRFLVIDEADRLLDQSFQEWLDTVMSLCKTMKRVACLDNIIRQRQAPQPTVLSELLTK  353 (620)
T ss_pred             EEcCchHHHHhccCCCCcchhhceEEEechHHHHHHHHHHHHHHHHHHHhCCchhhcChhhhhhhcccCCchhhHHHHhh
Confidence            6999999999999879999999999999999999999999999988866632                            


Q ss_pred             ------CCcEEEEeecCCchHHHHHHhhccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHH
Q psy9740          53 ------QKQTLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQII  126 (189)
Q Consensus        53 ------~~Q~il~SATl~~~v~~l~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  126 (189)
                            ..+.++||||++..-..+...-++.|..+.+..+                                        
T Consensus       354 ~~~~~~~l~kL~~satLsqdP~Kl~~l~l~~Prl~~v~~~----------------------------------------  393 (620)
T KOG0350|consen  354 LGKLYPPLWKLVFSATLSQDPSKLKDLTLHIPRLFHVSKP----------------------------------------  393 (620)
T ss_pred             cCCcCchhHhhhcchhhhcChHHHhhhhcCCCceEEeecc----------------------------------------
Confidence                  1245566666666666666666665432222211                                        


Q ss_pred             hhcCCcceeEeecCccccchhhcceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         127 TQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                                  ....+.+++.+.|+++.++...|..+++.+++...    ..++|+|+||-
T Consensus       394 ------------~~~ryslp~~l~~~~vv~~~~~kpl~~~~lI~~~k----~~r~lcf~~S~  439 (620)
T KOG0350|consen  394 ------------LIGRYSLPSSLSHRLVVTEPKFKPLAVYALITSNK----LNRTLCFVNSV  439 (620)
T ss_pred             ------------cceeeecChhhhhceeecccccchHhHHHHHHHhh----cceEEEEecch
Confidence                        24678889999999999999999999999999866    89999999973

>KOG0334|consensus

Probab=99.76  E-value=6.9e-19  Score=165.26  Aligned_cols=129  Identities=30%  Similarity=0.404  Sum_probs=112.0

Q ss_pred             CeeehHhhHHHHhcC--CCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhcccc
Q psy9740           1 VIATPGRLADHLDTC--NTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQV   78 (189)
Q Consensus         1 lV~TPgrl~~ll~~~--~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p   78 (189)
                      +||||||..+++-.+  +..+++++.|||+||||+|+++||.+++..|++.++..+|+++||||+|..++.+++..++.|
T Consensus       492 vV~tpGRmiD~l~~n~grvtnlrR~t~lv~deaDrmfdmgfePq~~~Ii~nlrpdrQtvlfSatfpr~m~~la~~vl~~P  571 (997)
T KOG0334|consen  492 VVCTPGRMIDILCANSGRVTNLRRVTYLVLDEADRMFDMGFEPQITRILQNLRPDRQTVLFSATFPRSMEALARKVLKKP  571 (997)
T ss_pred             EEeccchhhhhHhhcCCccccccccceeeechhhhhheeccCcccchHHhhcchhhhhhhhhhhhhHHHHHHHHHhhcCC
Confidence            599999999998772  233677777999999999999999999999999999999999999999999999999999974


Q ss_pred             ceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEec-
Q psy9740          79 GTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCP-  157 (189)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~-  157 (189)
                                                                              ..+.+.....+...+.|.+.+|+ 
T Consensus       572 --------------------------------------------------------veiiv~~~svV~k~V~q~v~V~~~  595 (997)
T KOG0334|consen  572 --------------------------------------------------------VEIIVGGRSVVCKEVTQVVRVCAI  595 (997)
T ss_pred             --------------------------------------------------------eeEEEccceeEeccceEEEEEecC
Confidence                                                                    33445666677899999999999 


Q ss_pred             CcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         158 YDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       158 ~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      +.+|...|.++|...+   ...++||||.++
T Consensus       596 e~eKf~kL~eLl~e~~---e~~~tiiFv~~q  623 (997)
T KOG0334|consen  596 ENEKFLKLLELLGERY---EDGKTIIFVDKQ  623 (997)
T ss_pred             chHHHHHHHHHHHHHh---hcCCEEEEEcCc
Confidence            7889999999998765   278999999875

>PTZ00424 helicase 45; Provisional

Probab=99.73  E-value=2.6e-17  Score=143.78  Aligned_cols=128  Identities=30%  Similarity=0.444  Sum_probs=103.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +||||+++.+++.. +.+.+++++++|+||||.+++.+|...+..++..++++.|++++|||+|.++.++...++.+|. 
T Consensus       150 vv~Tp~~l~~~l~~-~~~~l~~i~lvViDEah~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~-  227 (401)
T PTZ00424        150 VVGTPGRVYDMIDK-RHLRVDDLKLFILDEADEMLSRGFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPK-  227 (401)
T ss_pred             EEECcHHHHHHHHh-CCcccccccEEEEecHHHHHhcchHHHHHHHHhhCCCCcEEEEEEecCCHHHHHHHHHHcCCCE-
Confidence            58999999999987 7888999999999999999999999999999999999999999999999999999888887742 


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecC-c
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPY-D  159 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~-~  159 (189)
                                                                             .+..........++.++++.++. .
T Consensus       228 -------------------------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~  252 (401)
T PTZ00424        228 -------------------------------------------------------RILVKKDELTLEGIRQFYVAVEKEE  252 (401)
T ss_pred             -------------------------------------------------------EEEeCCCCcccCCceEEEEecChHH
Confidence                                                                   11122223345667888887765 4


Q ss_pred             chHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         160 VKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       160 ~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      .+...+..+++.    ....++||||||++
T Consensus       253 ~~~~~l~~~~~~----~~~~~~ivF~~t~~  278 (401)
T PTZ00424        253 WKFDTLCDLYET----LTITQAIIYCNTRR  278 (401)
T ss_pred             HHHHHHHHHHHh----cCCCeEEEEecCcH
Confidence            466666666554    33678999999974

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

Probab=99.61  E-value=3.3e-15  Score=140.75  Aligned_cols=70  Identities=20%  Similarity=0.324  Sum_probs=59.5

Q ss_pred             CeeehHhhHHHHhcCCCcc----------------cCceeeEEeccchhhhccccHHHHHHHHhhC--CCC---CcEEEE
Q psy9740           1 VIATPGRLADHLDTCNTFS----------------LNRIKFLVLDEADRLLSGIFDEQMRTIFGAV--PKQ---KQTLLF   59 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~----------------l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l--~~~---~Q~il~   59 (189)
                      ||||    .||+.+ +.++                +++++++||||||  |+.+|.+++..|++.+  ++.   +|+++|
T Consensus       139 IVgT----~D~i~s-r~L~~gYg~~~~~~pi~ag~L~~v~~LVLDEAD--Ld~gF~~~l~~Il~~l~rp~~~rprQtLLF  211 (844)
T TIGR02621       139 IVGT----VDMIGS-RLLFSGYGCGFKSRPLHAGFLGQDALIVHDEAH--LEPAFQELLKQIMNEQQRPPDFLPLRVVEL  211 (844)
T ss_pred             EEEC----HHHHcC-CccccccccccccccchhhhhccceEEEEehhh--hccccHHHHHHHHHhcccCcccccceEEEE
Confidence            6899    477766 5552                7999999999999  8899999999999975  442   799999


Q ss_pred             eecCCchHHHHHHhhccc
Q psy9740          60 SATMTDTLEQVKSITKKQ   77 (189)
Q Consensus        60 SATl~~~v~~l~~~~l~~   77 (189)
                      |||+|.++.++++.++.+
T Consensus       212 SAT~p~ei~~l~~~~~~~  229 (844)
T TIGR02621       212 TATSRTDGPDRTTLLSAE  229 (844)
T ss_pred             ecCCCccHHHHHHHHccC
Confidence            999999999988888766

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.

>PRK09401 reverse gyrase; Reviewed

Probab=99.59  E-value=4.9e-15  Score=144.72  Aligned_cols=120  Identities=18%  Similarity=0.221  Sum_probs=89.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhc-----------cccH-HHHHHHHhhCCC----------------
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-----------GIFD-EQMRTIFGAVPK----------------   52 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~-----------~~f~-~~i~~Il~~l~~----------------   52 (189)
                      +|||||||.+++.   .+....++++|+||||.|++           .||. ++|..+++.++.                
T Consensus       183 lV~Tp~rL~~~~~---~l~~~~~~~lVvDEaD~~L~~~k~id~~l~~lGF~~~~i~~i~~~i~~~~~~~~~~~~i~~l~~  259 (1176)
T PRK09401        183 LVTTSQFLSKNFD---ELPKKKFDFVFVDDVDAVLKSSKNIDKLLYLLGFSEEDIEKAMELIRLKRKYEEIYEKIRELEE  259 (1176)
T ss_pred             EEECHHHHHHHHH---hccccccCEEEEEChHHhhhcccchhhHHHhCCCCHHHHHHHHHhcccccccchhhhHHHHHHH
Confidence            5999999999886   36677899999999999996           6885 789999988875                


Q ss_pred             --------CCcEEEEeecCCch-HHHHHHhhccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHH
Q psy9740          53 --------QKQTLLFSATMTDT-LEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVA  123 (189)
Q Consensus        53 --------~~Q~il~SATl~~~-v~~l~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (189)
                              .+|+++||||+++. +..   .++++                                              
T Consensus       260 ~i~~~~~~~~q~ilfSAT~~~~~~~~---~l~~~----------------------------------------------  290 (1176)
T PRK09401        260 KIAELKDKKGVLVVSSATGRPRGNRV---KLFRE----------------------------------------------  290 (1176)
T ss_pred             hhhhcccCCceEEEEeCCCCccchHH---HHhhc----------------------------------------------
Confidence                    68999999999875 432   22233                                              


Q ss_pred             HHHhhcCCcceeEeecCccccchhhcceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         124 QIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                                +.-+.++.......+|.|.|+.++  +|...|.++++..     ..++||||||++
T Consensus       291 ----------ll~~~v~~~~~~~rnI~~~yi~~~--~k~~~L~~ll~~l-----~~~~LIFv~t~~  339 (1176)
T PRK09401        291 ----------LLGFEVGSPVFYLRNIVDSYIVDE--DSVEKLVELVKRL-----GDGGLIFVPSDK  339 (1176)
T ss_pred             ----------cceEEecCcccccCCceEEEEEcc--cHHHHHHHHHHhc-----CCCEEEEEeccc
Confidence                      111222333345678999998776  6777888888654     358999999964

>KOG0344|consensus

Probab=99.50  E-value=3.2e-14  Score=127.58  Aligned_cols=127  Identities=28%  Similarity=0.345  Sum_probs=110.1

Q ss_pred             CeeehHhhHHHHhcCCC--cccCceeeEEeccchhhhcc-ccHHHHHHHHhhCC-CCCcEEEEeecCCchHHHHHHhhcc
Q psy9740           1 VIATPGRLADHLDTCNT--FSLNRIKFLVLDEADRLLSG-IFDEQMRTIFGAVP-KQKQTLLFSATMTDTLEQVKSITKK   76 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~--~~l~~l~~lVlDEaD~ll~~-~f~~~i~~Il~~l~-~~~Q~il~SATl~~~v~~l~~~~l~   76 (189)
                      +|+||-|++.++.. +.  +.+++|.++|+||||.+++. +|.+++..|+..+. ++.-+-+||||++..|++.++..+.
T Consensus       266 li~TP~ri~~~~~~-~~~~idl~~V~~lV~dEaD~lfe~~~f~~Qla~I~sac~s~~i~~a~FSat~~~~VEE~~~~i~~  344 (593)
T KOG0344|consen  266 LISTPMRIVGLLGL-GKLNIDLSKVEWLVVDEADLLFEPEFFVEQLADIYSACQSPDIRVALFSATISVYVEEWAELIKS  344 (593)
T ss_pred             HhcCHHHHHHHhcC-CCccchhheeeeEeechHHhhhChhhHHHHHHHHHHHhcCcchhhhhhhccccHHHHHHHHHhhc
Confidence            58999999999987 54  78999999999999999999 99999999999987 4566789999999999999999998


Q ss_pred             ccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEe
Q psy9740          77 QVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLC  156 (189)
Q Consensus        77 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~  156 (189)
                      +                                                        +..+.++........|.|..+.|
T Consensus       345 ~--------------------------------------------------------~~~vivg~~~sa~~~V~QelvF~  368 (593)
T KOG0344|consen  345 D--------------------------------------------------------LKRVIVGLRNSANETVDQELVFC  368 (593)
T ss_pred             c--------------------------------------------------------ceeEEEecchhHhhhhhhhheee
Confidence            8                                                        55555566666788999999999


Q ss_pred             cCc-chHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         157 PYD-VKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       157 ~~~-~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      +.+ .|..++.+++....    .++++||+.|.
T Consensus       369 gse~~K~lA~rq~v~~g~----~PP~lIfVQs~  397 (593)
T KOG0344|consen  369 GSEKGKLLALRQLVASGF----KPPVLIFVQSK  397 (593)
T ss_pred             ecchhHHHHHHHHHhccC----CCCeEEEEecH
Confidence            864 49999999998764    88999999874

>KOG0349|consensus

Probab=99.46  E-value=7.9e-14  Score=122.05  Aligned_cols=86  Identities=29%  Similarity=0.426  Sum_probs=77.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCC------CCcEEEEeecCCc-hHHHHHHh
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPK------QKQTLLFSATMTD-TLEQVKSI   73 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~------~~Q~il~SATl~~-~v~~l~~~   73 (189)
                      +||||||+.+++.. +.+.+..++|+|+||||.+|..||.+.|.+..+.+|+      +.|.+++|||+.. +|..+...
T Consensus       343 vvGtpgRl~~~is~-g~~~lt~crFlvlDead~lL~qgy~d~I~r~h~qip~~tsdg~rlq~~vCsatlh~feVkk~~er  421 (725)
T KOG0349|consen  343 VVGTPGRLLQPISK-GLVTLTHCRFLVLDEADLLLGQGYDDKIYRFHGQIPHMTSDGFRLQSPVCSATLHIFEVKKVGER  421 (725)
T ss_pred             eecCchhhhhhhhc-cceeeeeeEEEEecchhhhhhcccHHHHHHHhccchhhhcCCcccccceeeeEEeEEEeeehhhh
Confidence            58999999999998 9999999999999999999999999999999999984      5799999999965 79999999


Q ss_pred             hccccceeeeeccc
Q psy9740          74 TKKQVGTLLFSATM   87 (189)
Q Consensus        74 ~l~~p~~~~~~~~~   87 (189)
                      .|+-|-+.-...+.
T Consensus       422 vmhfptwVdLkgeD  435 (725)
T KOG0349|consen  422 VMHFPTWVDLKGED  435 (725)
T ss_pred             hccCceeEeccccc
Confidence            99997666555544

>TIGR01054 rgy reverse gyrase

Probab=99.41  E-value=7.8e-13  Score=129.46  Aligned_cols=118  Identities=20%  Similarity=0.274  Sum_probs=81.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhc-----------cccHHH-HHHHHh--------------------
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-----------GIFDEQ-MRTIFG--------------------   48 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~-----------~~f~~~-i~~Il~--------------------   48 (189)
                      ||||||||.+++..   +.. +++++|+||||.|++           .||.++ ++.|++                    
T Consensus       182 lV~Tp~rL~~~~~~---l~~-~~~~iVvDEaD~~L~~~k~vd~il~llGF~~e~i~~il~~~~~~~~~~~~~~~~~~~~~  257 (1171)
T TIGR01054       182 LITTTMFLSKNYDE---LGP-KFDFIFVDDVDALLKASKNVDKLLKLLGFSEELIEKAWKLIRLRLKLYRALHAKKRLEL  257 (1171)
T ss_pred             EEECHHHHHHHHHH---hcC-CCCEEEEeChHhhhhccccHHHHHHHcCCCHHHHHHHHHHhhhccccchHHHHHHHHHH
Confidence            69999999998865   222 899999999999998           688875 666543                    


Q ss_pred             --hCCCCCc--EEEEeec-CCchHHHHHHhhccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHH
Q psy9740          49 --AVPKQKQ--TLLFSAT-MTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVA  123 (189)
Q Consensus        49 --~l~~~~Q--~il~SAT-l~~~v~~l~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (189)
                        .+|+.+|  +++|||| +|..+..   .++++                                              
T Consensus       258 ~~~~~~~~q~~li~~SAT~~p~~~~~---~l~r~----------------------------------------------  288 (1171)
T TIGR01054       258 LEAIPGKKRGCLIVSSATGRPRGKRA---KLFRE----------------------------------------------  288 (1171)
T ss_pred             HHhhhhccCcEEEEEeCCCCccccHH---HHccc----------------------------------------------
Confidence              4566666  5679999 5665542   23333                                              


Q ss_pred             HHHhhcCCcceeEeecCccccchhhcceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         124 QIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                                ..-+.+........+|.|.|+.++.  +...|.++++..     ..++||||||+
T Consensus       289 ----------ll~~~v~~~~~~~r~I~~~~~~~~~--~~~~L~~ll~~l-----~~~~IVFv~t~  336 (1171)
T TIGR01054       289 ----------LLGFEVGGGSDTLRNVVDVYVEDED--LKETLLEIVKKL-----GTGGIVYVSID  336 (1171)
T ss_pred             ----------ccceEecCccccccceEEEEEeccc--HHHHHHHHHHHc-----CCCEEEEEecc
Confidence                      1112234444556789999886654  345677777653     36899999997

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.

>PRK14701 reverse gyrase; Provisional

Probab=99.41  E-value=6.6e-13  Score=132.86  Aligned_cols=120  Identities=16%  Similarity=0.179  Sum_probs=85.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhc-----------cccHHHHHH----HHh-----------------
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-----------GIFDEQMRT----IFG-----------------   48 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~-----------~~f~~~i~~----Il~-----------------   48 (189)
                      ||||||+|.+++..   +...+++++|+||||.|++           .||.+++..    |+.                 
T Consensus       182 LV~TPgrL~~~~~~---l~~~~i~~iVVDEAD~ml~~~knid~~L~llGF~~e~~~~~~~il~~~~~~~~~~~~~~~~~l  258 (1638)
T PRK14701        182 LVTTAQFLARNFPE---MKHLKFDFIFVDDVDAFLKASKNIDRSLQLLGFYEEIIEKAWKIIYLKKQGNIEDAMEKREIL  258 (1638)
T ss_pred             EEECCchhHHhHHH---HhhCCCCEEEEECceeccccccccchhhhcCCChHHHHHHHHHhhhcccccccchhhhhhhhh
Confidence            68999999988764   2227899999999999987           589888875    432                 


Q ss_pred             -----hCCCCCc-EEEEeecCCch--HHHHHHhhccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhh
Q psy9740          49 -----AVPKQKQ-TLLFSATMTDT--LEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH  120 (189)
Q Consensus        49 -----~l~~~~Q-~il~SATl~~~--v~~l~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  120 (189)
                           .+|+.+| .++||||++..  +..    ++++                                           
T Consensus       259 ~~~~~~~~~~~~~ll~~SAT~~~r~~~~~----l~~~-------------------------------------------  291 (1638)
T PRK14701        259 NKEIEKIGNKIGCLIVASATGKAKGDRVK----LYRE-------------------------------------------  291 (1638)
T ss_pred             hhhhhhcCCCccEEEEEecCCCchhHHHH----Hhhc-------------------------------------------
Confidence                 3456667 56799999864  332    3344                                           


Q ss_pred             HHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                                   +..+.++.......++.|.|+.++...| ..|.++++..     ..++||||||++
T Consensus       292 -------------~l~f~v~~~~~~lr~i~~~yi~~~~~~k-~~L~~ll~~~-----g~~gIVF~~t~~  341 (1638)
T PRK14701        292 -------------LLGFEVGSGRSALRNIVDVYLNPEKIIK-EHVRELLKKL-----GKGGLIFVPIDE  341 (1638)
T ss_pred             -------------CeEEEecCCCCCCCCcEEEEEECCHHHH-HHHHHHHHhC-----CCCeEEEEeccc
Confidence                         2223334444566789999988876555 4677777653     368999999974

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

Probab=99.41  E-value=6.9e-13  Score=125.02  Aligned_cols=76  Identities=20%  Similarity=0.261  Sum_probs=55.9

Q ss_pred             CeeehHhhHHHHhcCC---CcccCceeeEEeccchhhhccccHHHHHHHHhh-------CCCCCcEEEEeecCCchHHHH
Q psy9740           1 VIATPGRLADHLDTCN---TFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGA-------VPKQKQTLLFSATMTDTLEQV   70 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~---~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~-------l~~~~Q~il~SATl~~~v~~l   70 (189)
                      ||+||++|...+...+   ...+++++++|+||||.|.+ .|...+..+++.       .+.++|+++||||++...+ +
T Consensus       133 ivtTPd~L~~~~L~~~~~~~~~l~~l~~vViDEah~~~g-~fg~~~~~il~rL~ri~~~~g~~~q~i~~SATi~n~~~-~  210 (742)
T TIGR03817       133 VLTNPDMLHRGILPSHARWARFLRRLRYVVIDECHSYRG-VFGSHVALVLRRLRRLCARYGASPVFVLASATTADPAA-A  210 (742)
T ss_pred             EEEChHHHHHhhccchhHHHHHHhcCCEEEEeChhhccC-ccHHHHHHHHHHHHHHHHhcCCCCEEEEEecCCCCHHH-H
Confidence            5899999875332211   12389999999999999976 477776655544       4567899999999998754 6


Q ss_pred             HHhhcccc
Q psy9740          71 KSITKKQV   78 (189)
Q Consensus        71 ~~~~l~~p   78 (189)
                      ++.++.+|
T Consensus       211 ~~~l~g~~  218 (742)
T TIGR03817       211 ASRLIGAP  218 (742)
T ss_pred             HHHHcCCC
Confidence            77777764

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.

>PRK00254 ski2-like helicase; Provisional

Probab=99.39  E-value=1.5e-12  Score=122.44  Aligned_cols=72  Identities=22%  Similarity=0.218  Sum_probs=64.2

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhh
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSIT   74 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~   74 (189)
                      +|+||+++..++.. +...+++++++|+||+|.|.+.++...++.++..++.+.|++++|||++. ..+++.++
T Consensus       118 iV~Tpe~~~~ll~~-~~~~l~~l~lvViDE~H~l~~~~rg~~le~il~~l~~~~qiI~lSATl~n-~~~la~wl  189 (720)
T PRK00254        118 IIATAEKFDSLLRH-GSSWIKDVKLVVADEIHLIGSYDRGATLEMILTHMLGRAQILGLSATVGN-AEELAEWL  189 (720)
T ss_pred             EEEcHHHHHHHHhC-CchhhhcCCEEEEcCcCccCCccchHHHHHHHHhcCcCCcEEEEEccCCC-HHHHHHHh
Confidence            58999999999876 66779999999999999999999999999999999999999999999975 56776644

>PRK09751 putative ATP-dependent helicase Lhr; Provisional

Probab=99.33  E-value=6.1e-12  Score=124.65  Aligned_cols=74  Identities=18%  Similarity=0.217  Sum_probs=60.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccc----cHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI----FDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITK   75 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~----f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l   75 (189)
                      ||+||++|..++.......++++++||+||+|.|++..    +...+++|...++.+.|+|++|||+++ .+++++++.
T Consensus       103 LVTTPEsL~~LLtsk~r~~L~~Vr~VIVDE~H~L~g~kRG~~Lel~LeRL~~l~~~~~QrIgLSATI~n-~eevA~~L~  180 (1490)
T PRK09751        103 LITTPESLYLMLTSRARETLRGVETVIIDEVHAVAGSKRGAHLALSLERLDALLHTSAQRIGLSATVRS-ASDVAAFLG  180 (1490)
T ss_pred             EEecHHHHHHHHhhhhhhhhccCCEEEEecHHHhcccccccHHHHHHHHHHHhCCCCCeEEEEEeeCCC-HHHHHHHhc
Confidence            69999999998875233579999999999999999753    456677777778888999999999986 567776554

>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB

Probab=99.32  E-value=8e-12  Score=118.70  Aligned_cols=72  Identities=19%  Similarity=0.208  Sum_probs=57.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccch-hhhccccHH-HHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEAD-RLLSGIFDE-QMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD-~ll~~~f~~-~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      +|+|||+|++++..  ...+++++++|+|||| ++++.++.- .+..+...++++.|++++|||++.+.  + ..++.+
T Consensus        94 ~v~T~G~Llr~l~~--d~~L~~v~~VIiDEaHER~L~~Dl~L~ll~~i~~~lr~dlqlIlmSATl~~~~--l-~~~l~~  167 (819)
T TIGR01970        94 EVVTEGILTRMIQD--DPELDGVGALIFDEFHERSLDADLGLALALDVQSSLREDLKILAMSATLDGER--L-SSLLPD  167 (819)
T ss_pred             EEECCcHHHHHHhh--CcccccCCEEEEeccchhhhccchHHHHHHHHHHhcCCCceEEEEeCCCCHHH--H-HHHcCC
Confidence            48999999999975  4689999999999999 588877643 34567777888999999999998764  2 455554

This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.

>PRK11664 ATP-dependent RNA helicase HrpB; Provisional

Probab=99.30  E-value=9.4e-12  Score=118.22  Aligned_cols=72  Identities=17%  Similarity=0.212  Sum_probs=56.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchh-hhcccc-HHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADR-LLSGIF-DEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~-ll~~~f-~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      +|+|||+|++++..  ...+++++++|+||||. +++.++ ...+..+++.++++.|++++|||++.+.  + ..++.+
T Consensus        97 ~v~T~G~Llr~l~~--d~~L~~v~~IIlDEaHER~l~~Dl~L~ll~~i~~~lr~~lqlilmSATl~~~~--l-~~~~~~  170 (812)
T PRK11664         97 EVVTEGILTRMIQR--DPELSGVGLVILDEFHERSLQADLALALLLDVQQGLRDDLKLLIMSATLDNDR--L-QQLLPD  170 (812)
T ss_pred             EEEChhHHHHHHhh--CCCcCcCcEEEEcCCCccccccchHHHHHHHHHHhCCccceEEEEecCCCHHH--H-HHhcCC
Confidence            48999999999874  46899999999999997 566543 3445667788888999999999998752  3 345544

>cd00268 DEADc DEAD-box helicases

Probab=99.29  E-value=6.6e-12  Score=99.78  Aligned_cols=78  Identities=45%  Similarity=0.708  Sum_probs=72.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +||||+++.+++.. +...+++++++|+||||.|.+.+|...+..+.+.+++.+|++++|||++..+..+++.++.+|.
T Consensus       123 iv~T~~~l~~~l~~-~~~~~~~l~~lIvDE~h~~~~~~~~~~~~~~~~~l~~~~~~~~~SAT~~~~~~~~~~~~~~~~~  200 (203)
T cd00268         123 VVATPGRLLDLLER-GKLDLSKVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLLFSATMPKEVRDLARKFLRNPV  200 (203)
T ss_pred             EEEChHHHHHHHHc-CCCChhhCCEEEEeChHHhhccChHHHHHHHHHhCCcccEEEEEeccCCHHHHHHHHHHCCCCE
Confidence            58999999999987 7788999999999999999999999999999999999999999999999999999999888753

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.

>PRK02362 ski2-like helicase; Provisional

Probab=99.28  E-value=1.2e-11  Score=116.69  Aligned_cols=72  Identities=18%  Similarity=0.239  Sum_probs=60.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhC---CCCCcEEEEeecCCchHHHHHHhh
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV---PKQKQTLLFSATMTDTLEQVKSIT   74 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l---~~~~Q~il~SATl~~~v~~l~~~~   74 (189)
                      +||||+|+..++.. +...+++++++|+||+|.|.+.++...++.++..+   +.+.|++++|||++. ..+++.++
T Consensus       117 iV~Tpek~~~llr~-~~~~l~~v~lvViDE~H~l~d~~rg~~le~il~rl~~~~~~~qii~lSATl~n-~~~la~wl  191 (737)
T PRK02362        117 IVATSEKVDSLLRN-GAPWLDDITCVVVDEVHLIDSANRGPTLEVTLAKLRRLNPDLQVVALSATIGN-ADELADWL  191 (737)
T ss_pred             EEECHHHHHHHHhc-ChhhhhhcCEEEEECccccCCCcchHHHHHHHHHHHhcCCCCcEEEEcccCCC-HHHHHHHh
Confidence            58999999999886 66678999999999999999988998888886554   568999999999974 45666554

>PRK11131 ATP-dependent RNA helicase HrpA; Provisional

Probab=99.26  E-value=3.8e-11  Score=117.53  Aligned_cols=72  Identities=19%  Similarity=0.230  Sum_probs=54.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccch-hhhccccHHH-HHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEAD-RLLSGIFDEQ-MRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD-~ll~~~f~~~-i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      +++|||+|++++.. . ..|++++++|||||| ++++.+|.-. +..++..- ++.|++++|||++.  +.+++.+...
T Consensus       167 ~v~TpG~LL~~l~~-d-~~Ls~~~~IIIDEAHERsLn~DfLLg~Lk~lL~~r-pdlKvILmSATid~--e~fs~~F~~a  240 (1294)
T PRK11131        167 KLMTDGILLAEIQQ-D-RLLMQYDTIIIDEAHERSLNIDFILGYLKELLPRR-PDLKVIITSATIDP--ERFSRHFNNA  240 (1294)
T ss_pred             EEEChHHHHHHHhc-C-CccccCcEEEecCccccccccchHHHHHHHhhhcC-CCceEEEeeCCCCH--HHHHHHcCCC
Confidence            48999999999975 3 459999999999999 6899887653 44444332 46899999999974  4666665443

>TIGR01587 cas3_core CRISPR-associated helicase Cas3

Probab=99.23  E-value=1.6e-11  Score=106.01  Aligned_cols=75  Identities=16%  Similarity=0.176  Sum_probs=54.0

Q ss_pred             CeeehHhhHHHHhcC-CC--cccCc--eeeEEeccchhhhccccHHHHHHHHhhCC-CCCcEEEEeecCCchHHHHHHhh
Q psy9740           1 VIATPGRLADHLDTC-NT--FSLNR--IKFLVLDEADRLLSGIFDEQMRTIFGAVP-KQKQTLLFSATMTDTLEQVKSIT   74 (189)
Q Consensus         1 lV~TPgrl~~ll~~~-~~--~~l~~--l~~lVlDEaD~ll~~~f~~~i~~Il~~l~-~~~Q~il~SATl~~~v~~l~~~~   74 (189)
                      +|+||+++...+... +.  ..+..  .+++|+||||.|++.++.. +..+++.++ .+.|++++|||+|+.+.++++..
T Consensus        98 ~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~~~~~-l~~~l~~l~~~~~~~i~~SATlp~~l~~~~~~~  176 (358)
T TIGR01587        98 TVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEYTLAL-ILAVLEVLKDNDVPILLMSATLPKFLKEYAEKI  176 (358)
T ss_pred             eeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHHHHHH-HHHHHHHHHHcCCCEEEEecCchHHHHHHHhcC
Confidence            479999999877641 11  12222  3789999999999876544 677776665 47899999999997777766555


Q ss_pred             cc
Q psy9740          75 KK   76 (189)
Q Consensus        75 l~   76 (189)
                      ..
T Consensus       177 ~~  178 (358)
T TIGR01587       177 GY  178 (358)
T ss_pred             CC
Confidence            43

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.

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

Probab=99.17  E-value=5.6e-11  Score=91.19  Aligned_cols=69  Identities=28%  Similarity=0.550  Sum_probs=61.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCC--CCCcEEEEeecCCchHHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP--KQKQTLLFSATMTDTLEQV   70 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~--~~~Q~il~SATl~~~v~~l   70 (189)
                      +|+||++|.+++.. +..++.+++++|+||+|.+.+.++...+..|++.+.  ++.|++++|||++++++.+
T Consensus        99 lv~T~~~l~~~~~~-~~~~~~~~~~iViDE~h~l~~~~~~~~~~~i~~~~~~~~~~~~i~~SAT~~~~~~~~  169 (169)
T PF00270_consen   99 LVTTPEQLLDLISN-GKINISRLSLIVIDEAHHLSDETFRAMLKSILRRLKRFKNIQIILLSATLPSNVEKL  169 (169)
T ss_dssp             EEEEHHHHHHHHHT-TSSTGTTESEEEEETHHHHHHTTHHHHHHHHHHHSHTTTTSEEEEEESSSTHHHHHH
T ss_pred             cccCcchhhccccc-cccccccceeeccCcccccccccHHHHHHHHHHHhcCCCCCcEEEEeeCCChhHhhC
Confidence            58999999999998 556888899999999999999999999999998884  3689999999999777653

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 ....

>PRK11057 ATP-dependent DNA helicase RecQ; Provisional

Probab=99.15  E-value=1.3e-10  Score=107.43  Aligned_cols=69  Identities=19%  Similarity=0.113  Sum_probs=50.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccc--cHHHHHHH---HhhCCCCCcEEEEeecCCchHHHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI--FDEQMRTI---FGAVPKQKQTLLFSATMTDTLEQVK   71 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~--f~~~i~~I---l~~l~~~~Q~il~SATl~~~v~~l~   71 (189)
                      +++||+|+...... ..+...++.++|+||||.+.++|  |++++..|   ...+ ++.|++++|||.+..+..-.
T Consensus       119 l~~tPe~l~~~~~~-~~l~~~~l~~iVIDEaH~i~~~G~~fr~~y~~L~~l~~~~-p~~~~v~lTAT~~~~~~~di  192 (607)
T PRK11057        119 LYIAPERLMMDNFL-EHLAHWNPALLAVDEAHCISQWGHDFRPEYAALGQLRQRF-PTLPFMALTATADDTTRQDI  192 (607)
T ss_pred             EEEChHHhcChHHH-HHHhhCCCCEEEEeCccccccccCcccHHHHHHHHHHHhC-CCCcEEEEecCCChhHHHHH
Confidence            47899998732211 23455689999999999999987  77776555   3333 47889999999998876543

>PRK13767 ATP-dependent helicase; Provisional

Probab=99.15  E-value=1.1e-10  Score=112.05  Aligned_cols=72  Identities=25%  Similarity=0.332  Sum_probs=54.6

Q ss_pred             CeeehHhhHHHHhcCCCc--ccCceeeEEeccchhhhccccHHHH----HHHHhhCCCCCcEEEEeecCCchHHHHHHhh
Q psy9740           1 VIATPGRLADHLDTCNTF--SLNRIKFLVLDEADRLLSGIFDEQM----RTIFGAVPKQKQTLLFSATMTDTLEQVKSIT   74 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~--~l~~l~~lVlDEaD~ll~~~f~~~i----~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~   74 (189)
                      ||+||++|..++.. +.+  .++++++||+||||.|++..+...+    .++....+...|++++|||+++ ..++++++
T Consensus       150 lVtTPE~L~~ll~~-~~~~~~l~~l~~VVIDE~H~l~~~~RG~~l~~~L~rL~~l~~~~~q~IglSATl~~-~~~va~~L  227 (876)
T PRK13767        150 LITTPESLAILLNS-PKFREKLRTVKWVIVDEIHSLAENKRGVHLSLSLERLEELAGGEFVRIGLSATIEP-LEEVAKFL  227 (876)
T ss_pred             EEecHHHHHHHhcC-hhHHHHHhcCCEEEEechhhhccCccHHHHHHHHHHHHHhcCCCCeEEEEecccCC-HHHHHHHh
Confidence            58999999988865 443  5899999999999999987655554    4444444568899999999975 44555444

>PHA02653 RNA helicase NPH-II; Provisional

Probab=99.14  E-value=1.1e-10  Score=108.77  Aligned_cols=57  Identities=14%  Similarity=0.100  Sum_probs=45.1

Q ss_pred             ccCceeeEEeccchhhhccccHHHHHHHHhhC-CCCCcEEEEeecCCchHHHHHHhhcccc
Q psy9740          19 SLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV-PKQKQTLLFSATMTDTLEQVKSITKKQV   78 (189)
Q Consensus        19 ~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l-~~~~Q~il~SATl~~~v~~l~~~~l~~p   78 (189)
                      .|++++++|+||||++...+  +.+..+++.+ ++.+|+++||||++++++.+ ..++.+|
T Consensus       288 ~L~~v~~VVIDEaHEr~~~~--DllL~llk~~~~~~rq~ILmSATl~~dv~~l-~~~~~~p  345 (675)
T PHA02653        288 KLFDYGTVIIDEVHEHDQIG--DIIIAVARKHIDKIRSLFLMTATLEDDRDRI-KEFFPNP  345 (675)
T ss_pred             ccccCCEEEccccccCccch--hHHHHHHHHhhhhcCEEEEEccCCcHhHHHH-HHHhcCC
Confidence            58899999999999998775  4455566544 35579999999999999887 4677773

>TIGR01389 recQ ATP-dependent DNA helicase RecQ

Probab=99.14  E-value=1.5e-10  Score=106.65  Aligned_cols=75  Identities=17%  Similarity=0.157  Sum_probs=56.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccc--cHHHHHHHH---hhCCCCCcEEEEeecCCchHHHHHHhhc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI--FDEQMRTIF---GAVPKQKQTLLFSATMTDTLEQVKSITK   75 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~--f~~~i~~Il---~~l~~~~Q~il~SATl~~~v~~l~~~~l   75 (189)
                      +++||+++...... +.+...++.++|+||||.+.++|  |++.+..|.   ..+|.. +++++|||.++.+.+-....+
T Consensus       107 l~~tpe~l~~~~~~-~~l~~~~l~~iViDEaH~i~~~g~~frp~y~~l~~l~~~~~~~-~vi~lTAT~~~~~~~~i~~~l  184 (591)
T TIGR01389       107 LYVAPERLEQDYFL-NMLQRIPIALVAVDEAHCVSQWGHDFRPEYQRLGSLAERFPQV-PRIALTATADAETRQDIRELL  184 (591)
T ss_pred             EEEChhHhcChHHH-HHHhcCCCCEEEEeCCcccccccCccHHHHHHHHHHHHhCCCC-CEEEEEeCCCHHHHHHHHHHc
Confidence            46899998754433 44567899999999999999877  788776654   445544 499999999999887666555


Q ss_pred             cc
Q psy9740          76 KQ   77 (189)
Q Consensus        76 ~~   77 (189)
                      ..
T Consensus       185 ~~  186 (591)
T TIGR01389       185 RL  186 (591)
T ss_pred             CC
Confidence            43

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.

>PRK01172 ski2-like helicase; Provisional

Probab=99.13  E-value=1.5e-10  Score=108.22  Aligned_cols=72  Identities=18%  Similarity=0.283  Sum_probs=59.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhh---CCCCCcEEEEeecCCchHHHHHHhh
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGA---VPKQKQTLLFSATMTDTLEQVKSIT   74 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~---l~~~~Q~il~SATl~~~v~~l~~~~   74 (189)
                      +|+||+|+..++.. ....+++++++|+||||.+.+.++...++.++..   ++++.|++++|||++. ..++++++
T Consensus       115 iv~Tpek~~~l~~~-~~~~l~~v~lvViDEaH~l~d~~rg~~le~ll~~~~~~~~~~riI~lSATl~n-~~~la~wl  189 (674)
T PRK01172        115 VILTSEKADSLIHH-DPYIINDVGLIVADEIHIIGDEDRGPTLETVLSSARYVNPDARILALSATVSN-ANELAQWL  189 (674)
T ss_pred             EEECHHHHHHHHhC-ChhHHhhcCEEEEecchhccCCCccHHHHHHHHHHHhcCcCCcEEEEeCccCC-HHHHHHHh
Confidence            58999999998876 5667999999999999999998888888877654   4568999999999974 56676644

>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family

Probab=99.13  E-value=1.5e-10  Score=103.91  Aligned_cols=74  Identities=14%  Similarity=0.143  Sum_probs=53.3

Q ss_pred             CeeehHhhHHHHhcCCCc-ccCceeeEEeccchhhhccc--cHHHHHHH---HhhCCCCCcEEEEeecCCchHHHHHHhh
Q psy9740           1 VIATPGRLADHLDTCNTF-SLNRIKFLVLDEADRLLSGI--FDEQMRTI---FGAVPKQKQTLLFSATMTDTLEQVKSIT   74 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~-~l~~l~~lVlDEaD~ll~~~--f~~~i~~I---l~~l~~~~Q~il~SATl~~~v~~l~~~~   74 (189)
                      |++||+++.........+ ...+++++|+||||.++++|  |+++...|   ...+ ++.|++++|||++..+.+.....
T Consensus       105 l~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH~i~~~g~~fr~~~~~l~~l~~~~-~~~~~l~lTAT~~~~~~~di~~~  183 (470)
T TIGR00614       105 LYVTPEKCSASNRLLQTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGSLKQKF-PNVPIMALTATASPSVREDILRQ  183 (470)
T ss_pred             EEECHHHHcCchhHHHHHHhcCCcCEEEEeCCcccCccccccHHHHHHHHHHHHHc-CCCceEEEecCCCHHHHHHHHHH
Confidence            578999976422110223 57899999999999999987  77776665   3334 46789999999999887655444


Q ss_pred             c
Q psy9740          75 K   75 (189)
Q Consensus        75 l   75 (189)
                      +
T Consensus       184 l  184 (470)
T TIGR00614       184 L  184 (470)
T ss_pred             c
Confidence            3

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

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

Probab=99.08  E-value=4.4e-10  Score=108.71  Aligned_cols=76  Identities=18%  Similarity=0.173  Sum_probs=54.8

Q ss_pred             CeeehHhhHH---HHhcCCCc-ccCceeeEEeccchhhhccc--cHHHHHHH--HhhCCCCCcEEEEeecCCchHHHHHH
Q psy9740           1 VIATPGRLAD---HLDTCNTF-SLNRIKFLVLDEADRLLSGI--FDEQMRTI--FGAVPKQKQTLLFSATMTDTLEQVKS   72 (189)
Q Consensus         1 lV~TPgrl~~---ll~~~~~~-~l~~l~~lVlDEaD~ll~~~--f~~~i~~I--l~~l~~~~Q~il~SATl~~~v~~l~~   72 (189)
                      |++||+||..   ++.....+ ....+.++||||||.|+++|  |+++...+  +....+..|++++|||++..+.+.+.
T Consensus       556 LyvTPERL~~~d~ll~~L~~L~~~~~LslIVIDEAHcVSqWGhDFRpdYr~L~~Lr~~fp~vPilALTATAT~~V~eDI~  635 (1195)
T PLN03137        556 LYVTPEKVAKSDSLLRHLENLNSRGLLARFVIDEAHCVSQWGHDFRPDYQGLGILKQKFPNIPVLALTATATASVKEDVV  635 (1195)
T ss_pred             EEEChHHhhcchHHHHHHHhhhhccccceeccCcchhhhhcccchHHHHHHHHHHHHhCCCCCeEEEEecCCHHHHHHHH
Confidence            5899999863   22211112 23568999999999999998  88887764  44444578899999999999887655


Q ss_pred             hhcc
Q psy9740          73 ITKK   76 (189)
Q Consensus        73 ~~l~   76 (189)
                      ..+.
T Consensus       636 ~~L~  639 (1195)
T PLN03137        636 QALG  639 (1195)
T ss_pred             HHcC
Confidence            5544

>PRK10689 transcription-repair coupling factor; Provisional

Probab=98.99  E-value=1.9e-09  Score=105.73  Aligned_cols=67  Identities=16%  Similarity=0.201  Sum_probs=53.6

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhcccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQV   78 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p   78 (189)
                      |||||+.+     . ..+.++++.++|+||+|++   |+..  ...++.++.++|+++||||.++.+..++...+++|
T Consensus       707 VVgTp~lL-----~-~~v~~~~L~lLVIDEahrf---G~~~--~e~lk~l~~~~qvLl~SATpiprtl~l~~~gl~d~  773 (1147)
T PRK10689        707 LIGTHKLL-----Q-SDVKWKDLGLLIVDEEHRF---GVRH--KERIKAMRADVDILTLTATPIPRTLNMAMSGMRDL  773 (1147)
T ss_pred             EEECHHHH-----h-CCCCHhhCCEEEEechhhc---chhH--HHHHHhcCCCCcEEEEcCCCCHHHHHHHHhhCCCc
Confidence            68999633     2 4577899999999999997   4332  45567788999999999999888888888888773

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA

Probab=98.97  E-value=4e-09  Score=103.76  Aligned_cols=72  Identities=21%  Similarity=0.224  Sum_probs=56.6

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccch-hhhccccHHH-HHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEAD-RLLSGIFDEQ-MRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD-~ll~~~f~~~-i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      +++|||+|+..+..  .-.|++++++|+|||| ++++.+|.-. +..++... ++.|++++|||+..  +.+++.+...
T Consensus       160 ~~~TdGiLLr~l~~--d~~L~~~~~IIIDEaHERsL~~D~LL~lLk~il~~r-pdLKlIlmSATld~--~~fa~~F~~a  233 (1283)
T TIGR01967       160 KLMTDGILLAETQQ--DRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRR-PDLKIIITSATIDP--ERFSRHFNNA  233 (1283)
T ss_pred             eeccccHHHHHhhh--CcccccCcEEEEcCcchhhccchhHHHHHHHHHhhC-CCCeEEEEeCCcCH--HHHHHHhcCC
Confidence            47899999998865  3458999999999999 5999987764 77776554 47899999999964  5666666443

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.

>TIGR00580 mfd transcription-repair coupling factor (mfd)

Probab=98.93  E-value=5.4e-09  Score=100.65  Aligned_cols=66  Identities=18%  Similarity=0.264  Sum_probs=50.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      |||||. +   + . +.+.+++++++|+||+|++     .......++.++++.|++++|||..+....++...+.+
T Consensus       558 VIGTp~-l---l-~-~~v~f~~L~llVIDEahrf-----gv~~~~~L~~~~~~~~vL~~SATpiprtl~~~l~g~~d  623 (926)
T TIGR00580       558 LIGTHK-L---L-Q-KDVKFKDLGLLIIDEEQRF-----GVKQKEKLKELRTSVDVLTLSATPIPRTLHMSMSGIRD  623 (926)
T ss_pred             EEchHH-H---h-h-CCCCcccCCEEEeeccccc-----chhHHHHHHhcCCCCCEEEEecCCCHHHHHHHHhcCCC
Confidence            589993 3   2 2 5678999999999999994     33445667778889999999999877776666555555

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.

>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type

Probab=98.91  E-value=1.3e-08  Score=88.62  Aligned_cols=74  Identities=11%  Similarity=0.035  Sum_probs=48.1

Q ss_pred             CeeehHhhHHHHhcC---CCc----ccCceeeEEeccchhhhccc-----cHHHHHHHHhhCCCCCcEEEEeecCCchHH
Q psy9740           1 VIATPGRLADHLDTC---NTF----SLNRIKFLVLDEADRLLSGI-----FDEQMRTIFGAVPKQKQTLLFSATMTDTLE   68 (189)
Q Consensus         1 lV~TPgrl~~ll~~~---~~~----~l~~l~~lVlDEaD~ll~~~-----f~~~i~~Il~~l~~~~Q~il~SATl~~~v~   68 (189)
                      +++||..|..++...   +..    .+.+++++|+||+|.+-..+     +.-....++.......+++++|||+++.+.
T Consensus       117 llT~p~~l~~llr~~~~~~~~~~~~~~~~~~~iV~DE~H~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~lSAT~~~~~~  196 (357)
T TIGR03158       117 LLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFDEFHLYDAKQLVGMLFLLAYMQLIRFFECRRKFVFLSATPDPALI  196 (357)
T ss_pred             EEecHHHHHHHHhhhccCcccchhhhhcCCCEEEEecccccCcccchhhhhhhHHHHHHHhhhcCCcEEEEecCCCHHHH
Confidence            356677776555320   111    26899999999999975332     112334444444456799999999999877


Q ss_pred             HHHHhh
Q psy9740          69 QVKSIT   74 (189)
Q Consensus        69 ~l~~~~   74 (189)
                      +.....
T Consensus       197 ~~l~~~  202 (357)
T TIGR03158       197 LRLQNA  202 (357)
T ss_pred             HHHHhc
Confidence            766544

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.

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

Probab=98.86  E-value=1e-08  Score=92.85  Aligned_cols=125  Identities=20%  Similarity=0.221  Sum_probs=91.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhh---CCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGA---VPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~---l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      ||||-.-+-.++.. + -.+.++..+|+||.|.|=+....+.+.-+++.   +.+..|.+..|||+- +-+++|+.+-.+
T Consensus       319 IVGTYEGiD~lLRt-g-~~lgdiGtVVIDEiHtL~deERG~RLdGLI~RLr~l~~~AQ~i~LSATVg-Np~elA~~l~a~  395 (830)
T COG1202         319 IVGTYEGIDYLLRT-G-KDLGDIGTVVIDEIHTLEDEERGPRLDGLIGRLRYLFPGAQFIYLSATVG-NPEELAKKLGAK  395 (830)
T ss_pred             EEeechhHHHHHHc-C-CcccccceEEeeeeeeccchhcccchhhHHHHHHHhCCCCeEEEEEeecC-ChHHHHHHhCCe
Confidence            58899888888876 4 78999999999999999876666666665544   446899999999984 346777776555


Q ss_pred             cceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEec
Q psy9740          78 VGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCP  157 (189)
Q Consensus        78 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~  157 (189)
                                                                              .+..  +..   |--|..+.+.+.
T Consensus       396 --------------------------------------------------------lV~y--~~R---PVplErHlvf~~  414 (830)
T COG1202         396 --------------------------------------------------------LVLY--DER---PVPLERHLVFAR  414 (830)
T ss_pred             --------------------------------------------------------eEee--cCC---CCChhHeeeeec
Confidence                                                                    2221  111   123444555565


Q ss_pred             -CcchHHHHHHHHHHHH----hcCCCCeEEEEecCCC
Q psy9740         158 -YDVKDGYLVETVRLYR----EKSPRGAIVIFTDTCR  189 (189)
Q Consensus       158 -~~~K~~~L~~lL~~~~----~~~~~~~~iIF~ns~~  189 (189)
                       +.+|......+.+...    ++.-.+|+|||+||||
T Consensus       415 ~e~eK~~ii~~L~k~E~~~~sskg~rGQtIVFT~SRr  451 (830)
T COG1202         415 NESEKWDIIARLVKREFSTESSKGYRGQTIVFTYSRR  451 (830)
T ss_pred             CchHHHHHHHHHHHHHHhhhhccCcCCceEEEecchh
Confidence             7789999888888655    4566799999999985

>COG1204 Superfamily II helicase [General function prediction only]

Probab=98.80  E-value=1.6e-08  Score=95.75  Aligned_cols=75  Identities=17%  Similarity=0.252  Sum_probs=63.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCC---CCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPK---QKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~---~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      ||+||.++-.+..+ .......+++||+||+|.+.+....+-++.|+..+..   ..|++..|||+| +..++|++.--+
T Consensus       126 iVtT~EK~Dsl~R~-~~~~~~~V~lvViDEiH~l~d~~RG~~lE~iv~r~~~~~~~~rivgLSATlp-N~~evA~wL~a~  203 (766)
T COG1204         126 IVTTPEKLDSLTRK-RPSWIEEVDLVVIDEIHLLGDRTRGPVLESIVARMRRLNELIRIVGLSATLP-NAEEVADWLNAK  203 (766)
T ss_pred             EEEchHHhhHhhhc-CcchhhcccEEEEeeeeecCCcccCceehhHHHHHHhhCcceEEEEEeeecC-CHHHHHHHhCCc
Confidence            69999999998887 5568999999999999999988778888888776653   479999999996 478888887766

>PRK10917 ATP-dependent DNA helicase RecG; Provisional

Probab=98.56  E-value=4e-07  Score=85.56  Aligned_cols=59  Identities=17%  Similarity=0.268  Sum_probs=42.6

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQV   70 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l   70 (189)
                      |||||+++.      ..+.+++++++|+||+|++-     ......+......+|++++|||..+....+
T Consensus       368 vVgT~~ll~------~~v~~~~l~lvVIDE~Hrfg-----~~qr~~l~~~~~~~~iL~~SATp~prtl~~  426 (681)
T PRK10917        368 VIGTHALIQ------DDVEFHNLGLVIIDEQHRFG-----VEQRLALREKGENPHVLVMTATPIPRTLAM  426 (681)
T ss_pred             EEchHHHhc------ccchhcccceEEEechhhhh-----HHHHHHHHhcCCCCCEEEEeCCCCHHHHHH
Confidence            589999874      34568999999999999962     222333444456799999999976654433

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

Probab=98.52  E-value=5e-07  Score=85.63  Aligned_cols=74  Identities=24%  Similarity=0.288  Sum_probs=58.3

Q ss_pred             CeeehHhhHHHHhcCCCc--ccCceeeEEeccchhhhccccHHH----HHHHHhhCCCCCcEEEEeecCCchHHHHHHhh
Q psy9740           1 VIATPGRLADHLDTCNTF--SLNRIKFLVLDEADRLLSGIFDEQ----MRTIFGAVPKQKQTLLFSATMTDTLEQVKSIT   74 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~--~l~~l~~lVlDEaD~ll~~~f~~~----i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~   74 (189)
                      ||.||+-|.-++.. +.+  .|++++|+|+||.|.|.+....-+    ++++-...+ +.|.+..|||.. +.+++++++
T Consensus       127 LiTTPEsL~lll~~-~~~r~~l~~vr~VIVDEiHel~~sKRG~~Lsl~LeRL~~l~~-~~qRIGLSATV~-~~~~varfL  203 (814)
T COG1201         127 LITTPESLAILLNS-PKFRELLRDVRYVIVDEIHALAESKRGVQLALSLERLRELAG-DFQRIGLSATVG-PPEEVAKFL  203 (814)
T ss_pred             EEeChhHHHHHhcC-HHHHHHhcCCcEEEeehhhhhhccccchhhhhhHHHHHhhCc-ccEEEeehhccC-CHHHHHHHh
Confidence            68999999988876 444  599999999999999997654444    455555555 999999999997 566777777


Q ss_pred             ccc
Q psy9740          75 KKQ   77 (189)
Q Consensus        75 l~~   77 (189)
                      ...
T Consensus       204 ~g~  206 (814)
T COG1201         204 VGF  206 (814)
T ss_pred             cCC
Confidence            655

>smart00487 DEXDc DEAD-like helicases superfamily

Probab=98.52  E-value=2.8e-07  Score=70.85  Aligned_cols=76  Identities=36%  Similarity=0.635  Sum_probs=68.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      +++||+++.+.+.. .......+.++|+||||.+....+...+..++..+++..+++++|||.+..+...+..+...
T Consensus       109 ~~~t~~~l~~~~~~-~~~~~~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~~~~~~~~~~~~~~~  184 (201)
T smart00487      109 LVTTPGRLLDLLEN-DLLELSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFLND  184 (201)
T ss_pred             EEeChHHHHHHHHc-CCcCHhHCCEEEEECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCCchhHHHHHHHhcCC
Confidence            47899999999987 55788899999999999999878999999999999889999999999999999988888876

>PF06862 DUF1253: Protein of unknown function (DUF1253); InterPro: IPR010678 This family is defined by a C-terminal region of approximately 500 residues, Digestive organ expansion factor (DEF) is thought to Regulate the p53 pathway to control the expansion growth of digestive organs and is required for the expansion growth of intestine, liver and exocrine pancreas, but not endocrine pancreas [, ]

Probab=98.36  E-value=5.9e-06  Score=73.80  Aligned_cols=76  Identities=28%  Similarity=0.430  Sum_probs=58.3

Q ss_pred             CeeehHhhHHHHhcC----CCc-ccCceeeEEeccchhhhccccHHHHHHHH---hhCCCC-------------------
Q psy9740           1 VIATPGRLADHLDTC----NTF-SLNRIKFLVLDEADRLLSGIFDEQMRTIF---GAVPKQ-------------------   53 (189)
Q Consensus         1 lV~TPgrl~~ll~~~----~~~-~l~~l~~lVlDEaD~ll~~~f~~~i~~Il---~~l~~~-------------------   53 (189)
                      |||+|--|.-.+...    +.. .|+++..+|+|.||.|+-++| +.+..|+   ...|+.                   
T Consensus       135 IiASPLGLr~~i~~~~~~~~d~DFLSSIEv~iiD~ad~l~MQNW-~Hv~~v~~~lN~~P~~~~~~DfsRVR~w~Ldg~a~  213 (442)
T PF06862_consen  135 IIASPLGLRMIIGEEGEKKRDYDFLSSIEVLIIDQADVLLMQNW-EHVLHVFEHLNLQPKKSHDTDFSRVRPWYLDGQAK  213 (442)
T ss_pred             EEEChHHHHHHhccccccccccchhheeeeEeechhhHHHHhhH-HHHHHHHHHhccCCCCCCCCCHHHHHHHHHcCcch
Confidence            689999999888741    222 489999999999999986643 3344444   445531                   


Q ss_pred             --CcEEEEeecCCchHHHHHHhhccc
Q psy9740          54 --KQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus        54 --~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                        +|++++|+...+++..+....+.+
T Consensus       214 ~~RQtii~S~~~~pe~~slf~~~~~N  239 (442)
T PF06862_consen  214 YYRQTIIFSSFQTPEINSLFNRHCQN  239 (442)
T ss_pred             heeEeEEecCCCCHHHHHHHHhhCcC
Confidence              599999999999999999887776

; GO: 0005634 nucleus

>TIGR00643 recG ATP-dependent DNA helicase RecG

Probab=98.27  E-value=4.6e-06  Score=77.75  Aligned_cols=57  Identities=21%  Similarity=0.298  Sum_probs=39.5

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCC--CCCcEEEEeecCCchH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP--KQKQTLLFSATMTDTL   67 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~--~~~Q~il~SATl~~~v   67 (189)
                      |||||+++.+      .+.+.++.++|+||+|++-.    .+-..+.....  ..+|++++|||..+..
T Consensus       342 iVgT~~ll~~------~~~~~~l~lvVIDEaH~fg~----~qr~~l~~~~~~~~~~~~l~~SATp~prt  400 (630)
T TIGR00643       342 VVGTHALIQE------KVEFKRLALVIIDEQHRFGV----EQRKKLREKGQGGFTPHVLVMSATPIPRT  400 (630)
T ss_pred             EEecHHHHhc------cccccccceEEEechhhccH----HHHHHHHHhcccCCCCCEEEEeCCCCcHH
Confidence            5899998753      46689999999999998522    12222333332  3689999999976543

>TIGR03714 secA2 accessory Sec system translocase SecA2

Probab=98.09  E-value=1.6e-05  Score=75.20  Aligned_cols=34  Identities=15%  Similarity=0.195  Sum_probs=27.1

Q ss_pred             EEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         153 YVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       153 ~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      .+++...+|..++.+.++...  ....++||||+|+
T Consensus       401 ~i~~~~~~K~~ai~~~i~~~~--~~~~pvLIft~s~  434 (762)
T TIGR03714       401 KIYATLPEKLMATLEDVKEYH--ETGQPVLLITGSV  434 (762)
T ss_pred             eEEECHHHHHHHHHHHHHHHh--hCCCCEEEEECcH
Confidence            566777789999999887654  3468999999986

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.

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

Probab=98.06  E-value=9.3e-06  Score=74.72  Aligned_cols=72  Identities=19%  Similarity=0.174  Sum_probs=53.0

Q ss_pred             ehHhhHHHHhcCCCcccCceeeEEeccchhhhccc--cHHHHHHHH---hhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           4 TPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI--FDEQMRTIF---GAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         4 TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~--f~~~i~~Il---~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      +|.||..---. ..+.-..+..+|+||||.+.++|  |+++..++-   ..+| +..++.++||-++.+..-+...+.-
T Consensus       114 sPErl~~~~f~-~~L~~~~i~l~vIDEAHCiSqWGhdFRP~Y~~lg~l~~~~~-~~p~~AlTATA~~~v~~DI~~~L~l  190 (590)
T COG0514         114 SPERLMSPRFL-ELLKRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRAGLP-NPPVLALTATATPRVRDDIREQLGL  190 (590)
T ss_pred             CchhhcChHHH-HHHHhCCCceEEechHHHHhhcCCccCHhHHHHHHHHhhCC-CCCEEEEeCCCChHHHHHHHHHhcC
Confidence            56665532222 23345778899999999999998  999987765   4454 7889999999999988766555543

>PRK09200 preprotein translocase subunit SecA; Reviewed

Probab=98.02  E-value=3.3e-05  Score=73.52  Aligned_cols=35  Identities=23%  Similarity=0.364  Sum_probs=27.9

Q ss_pred             CeeehHhh-HHHHhcC-----CCcccCceeeEEeccchhhh
Q psy9740           1 VIATPGRL-ADHLDTC-----NTFSLNRIKFLVLDEADRLL   35 (189)
Q Consensus         1 lV~TPgrl-~~ll~~~-----~~~~l~~l~~lVlDEaD~ll   35 (189)
                      ++||||+| .|++..+     ....++.++|+|+||||.||
T Consensus       172 vygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDEaDsiL  212 (790)
T PRK09200        172 IYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDEIDSIL  212 (790)
T ss_pred             EEECCccccchhHHhccccchhhhcccccceEEEeccccce
Confidence            58999999 6666652     12367999999999999998

>PHA02558 uvsW UvsW helicase; Provisional

Probab=97.94  E-value=8.2e-06  Score=74.13  Aligned_cols=58  Identities=12%  Similarity=0.196  Sum_probs=46.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCch
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDT   66 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~   66 (189)
                      +|+||+++.+...    ..++++.++|+||||.+.+.    .+..++..+++.+|++++|||.+..
T Consensus       205 ~VaT~qsl~~~~~----~~~~~~~~iIvDEaH~~~~~----~~~~il~~~~~~~~~lGLTATp~~~  262 (501)
T PHA02558        205 VVSTWQSAVKQPK----EWFDQFGMVIVDECHLFTGK----SLTSIITKLDNCKFKFGLTGSLRDG  262 (501)
T ss_pred             EEeeHHHHhhchh----hhccccCEEEEEchhcccch----hHHHHHHhhhccceEEEEeccCCCc
Confidence            5899999976432    24789999999999999764    4567778888889999999998754

>PRK05580 primosome assembly protein PriA; Validated

Probab=97.91  E-value=7.8e-05  Score=70.24  Aligned_cols=63  Identities=17%  Similarity=0.108  Sum_probs=41.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhcccc---HHHHHH--HHhhCCCCCcEEEEeecCCchHHHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIF---DEQMRT--IFGAVPKQKQTLLFSATMTDTLEQVK   71 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f---~~~i~~--Il~~l~~~~Q~il~SATl~~~v~~l~   71 (189)
                      |||||+++.        ..++++.++|+||+|...-.+.   .-....  ++.....+.|++++|||.+.+....+
T Consensus       245 VVgTrsal~--------~p~~~l~liVvDEeh~~s~~~~~~p~y~~r~va~~ra~~~~~~~il~SATps~~s~~~~  312 (679)
T PRK05580        245 VIGARSALF--------LPFKNLGLIIVDEEHDSSYKQQEGPRYHARDLAVVRAKLENIPVVLGSATPSLESLANA  312 (679)
T ss_pred             EEeccHHhc--------ccccCCCEEEEECCCccccccCcCCCCcHHHHHHHHhhccCCCEEEEcCCCCHHHHHHH
Confidence            588998764        3478899999999997642211   111222  23334568999999999766655443

>PRK12904 preprotein translocase subunit SecA; Reviewed

Probab=97.89  E-value=5.1e-05  Score=72.41  Aligned_cols=34  Identities=24%  Similarity=0.363  Sum_probs=29.5

Q ss_pred             CeeehHhh-HHHHhcCCC------cccCceeeEEeccchhhh
Q psy9740           1 VIATPGRL-ADHLDTCNT------FSLNRIKFLVLDEADRLL   35 (189)
Q Consensus         1 lV~TPgrl-~~ll~~~~~------~~l~~l~~lVlDEaD~ll   35 (189)
                      ++||||+| .|++.. +.      ..++.+.|+|+||||.||
T Consensus       174 ~ygT~~elgfDyLrd-~~~~~~~~~~~r~~~~aIvDEaDsiL  214 (830)
T PRK12904        174 TYGTNNEFGFDYLRD-NMVFSLEERVQRGLNYAIVDEVDSIL  214 (830)
T ss_pred             EEECCcchhhhhhhc-ccccchhhhcccccceEEEechhhhe
Confidence            58999999 999987 33      357899999999999998

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=97.89  E-value=2.9e-05  Score=56.05  Aligned_cols=62  Identities=45%  Similarity=0.641  Sum_probs=47.6

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecC
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATM   63 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl   63 (189)
                      +++|++.+...... .........++|+||+|.+....+...............+++++|||.
T Consensus        83 ~i~t~~~~~~~~~~-~~~~~~~~~~iiiDE~h~~~~~~~~~~~~~~~~~~~~~~~~i~~saTp  144 (144)
T cd00046          83 VVGTPGRLLDELER-LKLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKDRQVLLLSATP  144 (144)
T ss_pred             EEECcHHHHHHHHc-CCcchhcCCEEEEeCHHHHhhcchHHHHHHHHhhCCccceEEEEeccC
Confidence            47899999988876 445567889999999999987765554433444456788999999994

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

>PRK13104 secA preprotein translocase subunit SecA; Reviewed

Probab=97.88  E-value=5.5e-05  Score=72.52  Aligned_cols=35  Identities=34%  Similarity=0.515  Sum_probs=29.9

Q ss_pred             CeeehHhh-HHHHhcCCCccc-----CceeeEEeccchhhh
Q psy9740           1 VIATPGRL-ADHLDTCNTFSL-----NRIKFLVLDEADRLL   35 (189)
Q Consensus         1 lV~TPgrl-~~ll~~~~~~~l-----~~l~~lVlDEaD~ll   35 (189)
                      ++|||||| .|++..+-.+++     +.+.|+|+||||.||
T Consensus       175 vygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsiL  215 (896)
T PRK13104        175 VYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSIL  215 (896)
T ss_pred             EEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhhh
Confidence            58999999 999987324555     699999999999998

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

Probab=97.88  E-value=0.00011  Score=70.71  Aligned_cols=75  Identities=19%  Similarity=0.234  Sum_probs=47.3

Q ss_pred             CeeehHhhHHHHhcCCC---cccCceeeEEeccchhhhccccHHHHHHHH----h---hCCCCCcEEEEeecCCchHHHH
Q psy9740           1 VIATPGRLADHLDTCNT---FSLNRIKFLVLDEADRLLSGIFDEQMRTIF----G---AVPKQKQTLLFSATMTDTLEQV   70 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~---~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il----~---~l~~~~Q~il~SATl~~~v~~l   70 (189)
                      |+++|.=|-.++...+.   .-+++++|||+||+|..- ..|...+.-++    .   ..+...|+++.|||+...- +.
T Consensus       171 llTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElHtYr-Gv~GS~vA~llRRL~~~~~~~~~~~q~i~~SAT~~np~-e~  248 (851)
T COG1205         171 LLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYR-GVQGSEVALLLRRLLRRLRRYGSPLQIICTSATLANPG-EF  248 (851)
T ss_pred             EEeCHHHHHHHhccCcchHHHHHhcCcEEEEecceecc-ccchhHHHHHHHHHHHHHhccCCCceEEEEeccccChH-HH
Confidence            46677666664444121   246889999999999983 22444444333    3   3346899999999996553 44


Q ss_pred             HHhhccc
Q psy9740          71 KSITKKQ   77 (189)
Q Consensus        71 ~~~~l~~   77 (189)
                      ++.+...
T Consensus       249 ~~~l~~~  255 (851)
T COG1205         249 AEELFGR  255 (851)
T ss_pred             HHHhcCC
Confidence            4444444

>TIGR00595 priA primosomal protein N'

Probab=97.81  E-value=0.00014  Score=66.33  Aligned_cols=59  Identities=19%  Similarity=0.131  Sum_probs=37.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccc-----c-HHHHHHHHhhCCCCCcEEEEeecCCchHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-----F-DEQMRTIFGAVPKQKQTLLFSATMTDTLE   68 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~-----f-~~~i~~Il~~l~~~~Q~il~SATl~~~v~   68 (189)
                      ||||++.+.        ..++++.++|+||+|...-.+     | ..++.... ....+.+++++|||-+.+..
T Consensus        80 VVGTrsalf--------~p~~~l~lIIVDEeh~~sykq~~~p~y~ar~~a~~r-a~~~~~~vil~SATPsles~  144 (505)
T TIGR00595        80 VIGTRSALF--------LPFKNLGLIIVDEEHDSSYKQEEGPRYHARDVAVYR-AKKFNCPVVLGSATPSLESY  144 (505)
T ss_pred             EECChHHHc--------CcccCCCEEEEECCCccccccccCCCCcHHHHHHHH-HHhcCCCEEEEeCCCCHHHH
Confidence            578887653        247889999999998765222     1 12232222 23358899999999544433

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

>KOG0952|consensus

Probab=97.81  E-value=4.2e-05  Score=73.64  Aligned_cols=75  Identities=16%  Similarity=0.227  Sum_probs=52.9

Q ss_pred             CeeehHhhHHHHhcCC--CcccCceeeEEeccchhhhccccHHHHHHHHhhCC-------CCCcEEEEeecCCchHHHHH
Q psy9740           1 VIATPGRLADHLDTCN--TFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP-------KQKQTLLFSATMTDTLEQVK   71 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~--~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~-------~~~Q~il~SATl~~~v~~l~   71 (189)
                      ||.||.+.--.-....  .--++.++.||+||+|.|-+. ..+-++.|+..+.       ..-.++.+|||+| +.+++|
T Consensus       215 iVTTPEKwDvvTRk~~~d~~l~~~V~LviIDEVHlLhd~-RGpvlEtiVaRtlr~vessqs~IRivgLSATlP-N~eDvA  292 (1230)
T KOG0952|consen  215 IVTTPEKWDVVTRKSVGDSALFSLVRLVIIDEVHLLHDD-RGPVLETIVARTLRLVESSQSMIRIVGLSATLP-NYEDVA  292 (1230)
T ss_pred             EEecccceeeeeeeeccchhhhhheeeEEeeeehhhcCc-ccchHHHHHHHHHHHHHhhhhheEEEEeeccCC-CHHHHH
Confidence            5889998654433311  124689999999999977554 6777777765543       3557789999996 477787


Q ss_pred             Hhhccc
Q psy9740          72 SITKKQ   77 (189)
Q Consensus        72 ~~~l~~   77 (189)
                      +++--+
T Consensus       293 ~fL~vn  298 (1230)
T KOG0952|consen  293 RFLRVN  298 (1230)
T ss_pred             HHhcCC
Confidence            776655

>PRK09694 helicase Cas3; Provisional

Probab=97.72  E-value=0.00013  Score=70.33  Aligned_cols=73  Identities=16%  Similarity=0.190  Sum_probs=48.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCce----eeEEeccchhhhccccHHHHHHHHhhCC-CCCcEEEEeecCCchHHH-HHHhh
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRI----KFLVLDEADRLLSGIFDEQMRTIFGAVP-KQKQTLLFSATMTDTLEQ-VKSIT   74 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l----~~lVlDEaD~ll~~~f~~~i~~Il~~l~-~~~Q~il~SATl~~~v~~-l~~~~   74 (189)
                      +|||+-.++..+-..+...++..    +.||+||+|-. +......+..+++.+. ....++++|||+|...++ +.+.+
T Consensus       414 ~V~TiDQlL~a~l~~kh~~lR~~~La~svvIiDEVHAy-D~ym~~lL~~~L~~l~~~g~~vIllSATLP~~~r~~L~~a~  492 (878)
T PRK09694        414 GVCTIDQVLISVLPVKHRFIRGFGLGRSVLIVDEVHAY-DAYMYGLLEAVLKAQAQAGGSVILLSATLPATLKQKLLDTY  492 (878)
T ss_pred             EEcCHHHHHHHHHccchHHHHHHhhccCeEEEechhhC-CHHHHHHHHHHHHHHHhcCCcEEEEeCCCCHHHHHHHHHHh
Confidence            47888887755444233333333    48999999997 5545556667776654 366799999999998764 44433

>PRK12899 secA preprotein translocase subunit SecA; Reviewed

Probab=97.44  E-value=6e-05  Score=72.46  Aligned_cols=35  Identities=29%  Similarity=0.445  Sum_probs=30.2

Q ss_pred             CeeehHhh-HHHHhcCCCcccC-------ceeeEEeccchhhhc
Q psy9740           1 VIATPGRL-ADHLDTCNTFSLN-------RIKFLVLDEADRLLS   36 (189)
Q Consensus         1 lV~TPgrl-~~ll~~~~~~~l~-------~l~~lVlDEaD~ll~   36 (189)
                      +||||||| .+++.. +.+.++       .++|+|+||||.||-
T Consensus       187 VygTPgRLgfDyLrd-~~~~~~~~~~vqr~~~~~IIDEADsmLi  229 (970)
T PRK12899        187 VYGTASEFGFDYLRD-NSIATRKEEQVGRGFYFAIIDEVDSILI  229 (970)
T ss_pred             EEECCChhHHHHhhC-CCCCcCHHHhhcccccEEEEechhhhhh
Confidence            58999999 999988 666666       558999999999984

>PRK13766 Hef nuclease; Provisional

Probab=97.37  E-value=0.00043  Score=65.84  Aligned_cols=63  Identities=22%  Similarity=0.307  Sum_probs=49.6

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCC
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMT   64 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~   64 (189)
                      +|+||+.+...+.. +.+.+.++.++|+||||++........+...+....+..+++.+|||-.
T Consensus       111 iv~T~~~l~~~l~~-~~~~~~~~~liVvDEaH~~~~~~~~~~i~~~~~~~~~~~~il~lTaTP~  173 (773)
T PRK13766        111 IVATPQVIENDLIA-GRISLEDVSLLIFDEAHRAVGNYAYVYIAERYHEDAKNPLVLGLTASPG  173 (773)
T ss_pred             EEECHHHHHHHHHc-CCCChhhCcEEEEECCccccccccHHHHHHHHHhcCCCCEEEEEEcCCC
Confidence            58999999887766 7788999999999999999865444455555544556788999999953

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

Probab=97.18  E-value=0.0015  Score=63.70  Aligned_cols=72  Identities=19%  Similarity=0.238  Sum_probs=59.0

Q ss_pred             eeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhc
Q psy9740           2 IATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITK   75 (189)
Q Consensus         2 V~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l   75 (189)
                      |-|-.-|..|+.. +...+..+.+||+||+|-|-+....--=+.++-.+|+..|++++|||+|.. .+++.+.-
T Consensus       210 vMTTEILRnMlyr-g~~~~~~i~~ViFDEvHyi~D~eRG~VWEE~Ii~lP~~v~~v~LSATv~N~-~EF~~Wi~  281 (1041)
T COG4581         210 VMTTEILRNMLYR-GSESLRDIEWVVFDEVHYIGDRERGVVWEEVIILLPDHVRFVFLSATVPNA-EEFAEWIQ  281 (1041)
T ss_pred             EeeHHHHHHHhcc-CcccccccceEEEEeeeeccccccchhHHHHHHhcCCCCcEEEEeCCCCCH-HHHHHHHH
Confidence            4566778899988 889999999999999999988865555567788899999999999999764 55655554

>KOG0948|consensus

Probab=97.09  E-value=0.0011  Score=62.42  Aligned_cols=75  Identities=13%  Similarity=0.149  Sum_probs=55.6

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      ||-|-.-|..|+.. ++--++.+.++|+||.|-|-|....--=+.=+=.+|++...+++|||+|. ..++|+|..+-
T Consensus       215 LVMTTEILRsMLYR-GSEvmrEVaWVIFDEIHYMRDkERGVVWEETIIllP~~vr~VFLSATiPN-A~qFAeWI~~i  289 (1041)
T KOG0948|consen  215 LVMTTEILRSMLYR-GSEVMREVAWVIFDEIHYMRDKERGVVWEETIILLPDNVRFVFLSATIPN-ARQFAEWICHI  289 (1041)
T ss_pred             eeeHHHHHHHHHhc-cchHhheeeeEEeeeehhccccccceeeeeeEEeccccceEEEEeccCCC-HHHHHHHHHHH
Confidence            46677788889988 88889999999999999999764221111112356899999999999976 45666666543

>KOG0351|consensus

Probab=96.96  E-value=0.0038  Score=60.78  Aligned_cols=55  Identities=15%  Similarity=0.059  Sum_probs=42.3

Q ss_pred             eeeEEeccchhhhccc--cHHHHHHHHhhCC--CCCcEEEEeecCCchHHHHHHhhccc
Q psy9740          23 IKFLVLDEADRLLSGI--FDEQMRTIFGAVP--KQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus        23 l~~lVlDEaD~ll~~~--f~~~i~~Il~~l~--~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      +..+|+||||....+|  |+++-.++-....  ...-+|..+||.+..|++-+-..+.-
T Consensus       386 lal~vIDEAHCVSqWgHdFRp~Yk~l~~l~~~~~~vP~iALTATAT~~v~~DIi~~L~l  444 (941)
T KOG0351|consen  386 LALFVIDEAHCVSQWGHDFRPSYKRLGLLRIRFPGVPFIALTATATERVREDVIRSLGL  444 (941)
T ss_pred             eEEEEecHHHHhhhhcccccHHHHHHHHHHhhCCCCCeEEeehhccHHHHHHHHHHhCC
Confidence            8999999999999998  9999877654332  23568899999999988765444443

>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit

Probab=96.85  E-value=0.00085  Score=55.99  Aligned_cols=28  Identities=43%  Similarity=0.711  Sum_probs=26.7

Q ss_pred             eeehHhhHHHHhcCCCcccCceeeEEecc
Q psy9740           2 IATPGRLADHLDTCNTFSLNRIKFLVLDE   30 (189)
Q Consensus         2 V~TPgrl~~ll~~~~~~~l~~l~~lVlDE   30 (189)
                      |||||||.++++. +.+.+++++++|+|-
T Consensus       182 vGTP~Rl~kLle~-~~L~l~~l~~ivlD~  209 (252)
T PF14617_consen  182 VGTPGRLSKLLEN-GALSLSNLKRIVLDW  209 (252)
T ss_pred             EeChHHHHHHHHc-CCCCcccCeEEEEcC
Confidence            8999999999988 999999999999995

>KOG0951|consensus

Probab=96.75  E-value=0.0017  Score=63.99  Aligned_cols=64  Identities=16%  Similarity=0.212  Sum_probs=42.9

Q ss_pred             CeeehHhhHHHHhcCCC-cccCceeeEEeccchhhhccccHHHHHHHHhhCC-------CCCcEEEEeecCCc
Q psy9740           1 VIATPGRLADHLDTCNT-FSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP-------KQKQTLLFSATMTD   65 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~-~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~-------~~~Q~il~SATl~~   65 (189)
                      +||||.+.--.-++.+. -..+-++.+|+||.|.+-|. ..+-++.|....-       ..+..+..|||+|.
T Consensus       415 IV~TPEK~DiITRk~gdraY~qlvrLlIIDEIHLLhDd-RGpvLESIVaRt~r~ses~~e~~RlVGLSATLPN  486 (1674)
T KOG0951|consen  415 IVTTPEKWDIITRKSGDRAYEQLVRLLIIDEIHLLHDD-RGPVLESIVARTFRRSESTEEGSRLVGLSATLPN  486 (1674)
T ss_pred             EEeccchhhhhhcccCchhHHHHHHHHhhhhhhhcccc-cchHHHHHHHHHHHHhhhcccCceeeeecccCCc
Confidence            58999986544333122 23556788999999977554 5566666554432       36788999999985

>TIGR00963 secA preprotein translocase, SecA subunit

Probab=96.75  E-value=0.0006  Score=64.51  Aligned_cols=36  Identities=25%  Similarity=0.286  Sum_probs=30.9

Q ss_pred             CeeehHhh-HHHHhcCC-----CcccCceeeEEeccchhhhc
Q psy9740           1 VIATPGRL-ADHLDTCN-----TFSLNRIKFLVLDEADRLLS   36 (189)
Q Consensus         1 lV~TPgrl-~~ll~~~~-----~~~l~~l~~lVlDEaD~ll~   36 (189)
                      ++|||||| .+++..+-     .+.++++.++|+||||.||-
T Consensus       149 vyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs~LI  190 (745)
T TIGR00963       149 TYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDSILI  190 (745)
T ss_pred             EEECCCchhhHHHhcccccchhhhhccccceeEeecHHHHhH
Confidence            58999999 99998731     35789999999999999984

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.

>PRK12898 secA preprotein translocase subunit SecA; Reviewed

Probab=96.65  E-value=0.012  Score=55.36  Aligned_cols=40  Identities=13%  Similarity=0.006  Sum_probs=31.2

Q ss_pred             hhcceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         147 EELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       147 ~~l~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      ....+.+++++..+|...|.+.++...  ....++||||+|+
T Consensus       444 r~~~~~~v~~t~~~K~~aL~~~i~~~~--~~~~pvLIft~t~  483 (656)
T PRK12898        444 RRHLPDEVFLTAAAKWAAVAARVRELH--AQGRPVLVGTRSV  483 (656)
T ss_pred             ceecCCEEEeCHHHHHHHHHHHHHHHH--hcCCCEEEEeCcH
Confidence            335567788888889999999998754  2346899999986

>KOG0947|consensus

Probab=96.62  E-value=0.0011  Score=63.68  Aligned_cols=71  Identities=20%  Similarity=0.250  Sum_probs=55.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHh
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSI   73 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~   73 (189)
                      ||-|-.-|..|+.+ +.=-.+++.+||+||+|-+=|....--=+.++=++|++.+++|.|||.|... ++|.|
T Consensus       383 LIMTTEILRsMLYr-gadliRDvE~VIFDEVHYiND~eRGvVWEEViIMlP~HV~~IlLSATVPN~~-EFA~W  453 (1248)
T KOG0947|consen  383 LIMTTEILRSMLYR-GADLIRDVEFVIFDEVHYINDVERGVVWEEVIIMLPRHVNFILLSATVPNTL-EFADW  453 (1248)
T ss_pred             EeehHHHHHHHHhc-ccchhhccceEEEeeeeecccccccccceeeeeeccccceEEEEeccCCChH-HHHHH
Confidence            46677788889887 6666899999999999998776654444566778999999999999998764 44443

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

Probab=96.33  E-value=0.053  Score=47.35  Aligned_cols=63  Identities=27%  Similarity=0.327  Sum_probs=38.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHH-HHhhCCCCCcEEEEeecCCchHHHHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRT-IFGAVPKQKQTLLFSATMTDTLEQVKS   72 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~-Il~~l~~~~Q~il~SATl~~~v~~l~~   72 (189)
                      +|||--.|+.+-+.        .+.+++||+|..-=.. -+.++. +-+...+.--++..|||-|.+.++-+.
T Consensus       189 vVaTtHQLlrFk~a--------FD~liIDEVDAFP~~~-d~~L~~Av~~ark~~g~~IylTATp~k~l~r~~~  252 (441)
T COG4098         189 VVATTHQLLRFKQA--------FDLLIIDEVDAFPFSD-DQSLQYAVKKARKKEGATIYLTATPTKKLERKIL  252 (441)
T ss_pred             EEEehHHHHHHHhh--------ccEEEEeccccccccC-CHHHHHHHHHhhcccCceEEEecCChHHHHHHhh
Confidence            46666666655433        4589999999863211 122222 223344566789999999887765443

>KOG0950|consensus

Probab=96.06  E-value=0.0071  Score=58.25  Aligned_cols=48  Identities=17%  Similarity=0.208  Sum_probs=38.7

Q ss_pred             ccCceeeEEeccchhhhccccHHHHHHHHhhC-----CCCCcEEEEeecCCch
Q psy9740          19 SLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV-----PKQKQTLLFSATMTDT   66 (189)
Q Consensus        19 ~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l-----~~~~Q~il~SATl~~~   66 (189)
                      .+..+.++|+||.|.+.+.+....++.++..+     ....|++..|||+|..
T Consensus       338 ~~~~~g~vvVdElhmi~d~~rg~~lE~~l~k~~y~~~~~~~~iIGMSATi~N~  390 (1008)
T KOG0950|consen  338 RLDFLGMVVVDELHMIGDKGRGAILELLLAKILYENLETSVQIIGMSATIPNN  390 (1008)
T ss_pred             CccccCcEEEeeeeeeeccccchHHHHHHHHHHHhccccceeEeeeecccCCh
Confidence            46778899999999999999888888777543     2346799999999753

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

Probab=95.91  E-value=0.09  Score=50.88  Aligned_cols=63  Identities=17%  Similarity=0.261  Sum_probs=47.3

Q ss_pred             eeehHhhHHHHhcCCCcccCceeeEEeccchhh-hccc-cHHHHHHHHhhCCCCCcEEEEeecCCch
Q psy9740           2 IATPGRLADHLDTCNTFSLNRIKFLVLDEADRL-LSGI-FDEQMRTIFGAVPKQKQTLLFSATMTDT   66 (189)
Q Consensus         2 V~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~l-l~~~-f~~~i~~Il~~l~~~~Q~il~SATl~~~   66 (189)
                      +-|.|-|+..+..  ...|+...++|+||||.= ++.. ....+..++...+.+-.++++|||+..+
T Consensus       144 ~mTdGiLlrei~~--D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLKiIimSATld~~  208 (845)
T COG1643         144 VMTDGILLREIQN--DPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLKLIIMSATLDAE  208 (845)
T ss_pred             EeccHHHHHHHhh--CcccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcCCCceEEEEecccCHH
Confidence            4588999988874  456999999999999964 3333 3344566677777778999999998654

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

Probab=95.83  E-value=0.022  Score=51.67  Aligned_cols=67  Identities=22%  Similarity=0.375  Sum_probs=51.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhcc-ccHHHHHHHHhhCCCCCcEEEEeecCCchHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSG-IFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQ   69 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~-~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~   69 (189)
                      +|+||.-+.+=+.. +.+++.++.++|+||||+=--. .|..-.+..++. .+++-++.+|||=-.+.+.
T Consensus       111 fvaTPQvveNDl~~-Grid~~dv~~lifDEAHRAvGnyAYv~Va~~y~~~-~k~~~ilgLTASPGs~~ek  178 (542)
T COG1111         111 FVATPQVVENDLKA-GRIDLDDVSLLIFDEAHRAVGNYAYVFVAKEYLRS-AKNPLILGLTASPGSDLEK  178 (542)
T ss_pred             EEeccHHHHhHHhc-CccChHHceEEEechhhhccCcchHHHHHHHHHHh-ccCceEEEEecCCCCCHHH
Confidence            48999999988887 9999999999999999996533 354444545544 4677899999996554433

>KOG0920|consensus

Probab=95.38  E-value=0.2  Score=48.77  Aligned_cols=71  Identities=18%  Similarity=0.143  Sum_probs=50.1

Q ss_pred             eeehHhhHHHHhcCCCcccCceeeEEeccchhhh-ccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           2 IATPGRLADHLDTCNTFSLNRIKFLVLDEADRLL-SGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         2 V~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll-~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      .||-|-|+..+.  ..-.+..+.++|+||+|.=- +..|.--+-+.+-...++-+++++|||+..   ++.+.|+..
T Consensus       269 fcTtGvLLr~L~--~~~~l~~vthiivDEVHER~i~~DflLi~lk~lL~~~p~LkvILMSAT~da---e~fs~YF~~  340 (924)
T KOG0920|consen  269 FCTTGVLLRRLQ--SDPTLSGVTHIIVDEVHERSINTDFLLILLKDLLPRNPDLKVILMSATLDA---ELFSDYFGG  340 (924)
T ss_pred             EecHHHHHHHhc--cCcccccCceeeeeeEEEccCCcccHHHHHHHHhhhCCCceEEEeeeecch---HHHHHHhCC
Confidence            589999998886  46789999999999999753 344444433333333478899999999973   344455554

>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]

Probab=95.37  E-value=0.021  Score=54.42  Aligned_cols=55  Identities=18%  Similarity=0.200  Sum_probs=41.8

Q ss_pred             eeEEeccchhhhccccHHHHHHHHhhCC-CCCcEEEEeecCCchHHHHHHhhcccc
Q psy9740          24 KFLVLDEADRLLSGIFDEQMRTIFGAVP-KQKQTLLFSATMTDTLEQVKSITKKQV   78 (189)
Q Consensus        24 ~~lVlDEaD~ll~~~f~~~i~~Il~~l~-~~~Q~il~SATl~~~v~~l~~~~l~~p   78 (189)
                      ..+|+||+|.+-+.....-+..++..+. -+.-++++|||+|+-.++..+..+.+.
T Consensus       340 S~vIlDE~h~~~~~~~~~~l~~~i~~l~~~g~~ill~SATlP~~~~~~l~~~~~~~  395 (733)
T COG1203         340 SLVILDEVHLYADETMLAALLALLEALAEAGVPVLLMSATLPPFLKEKLKKALGKG  395 (733)
T ss_pred             hchhhccHHhhcccchHHHHHHHHHHHHhCCCCEEEEecCCCHHHHHHHHHHHhcc
Confidence            5789999999987754444555555544 377789999999999999887777763

>KOG0354|consensus

Probab=95.23  E-value=0.044  Score=51.95  Aligned_cols=69  Identities=25%  Similarity=0.316  Sum_probs=53.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhcc-ccHHHHHHHHhhCCCCCcEEEEeecCCchHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSG-IFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQ   69 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~-~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~   69 (189)
                      +++||.-|.+.++..-...|+.+.++|+||||+=... .|-.-|+..+..-....|++.+|||...+...
T Consensus       158 ff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~kn~~Y~~Vmr~~l~~k~~~~qILgLTASpG~~~~~  227 (746)
T KOG0354|consen  158 FFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSKNHPYNNIMREYLDLKNQGNQILGLTASPGSKLEQ  227 (746)
T ss_pred             EEeChHhhhhhcccccccccceEEEEEEcccccccccccHHHHHHHHHHhhhccccEEEEecCCCccHHH
Confidence            4789999999888733334799999999999998744 47777777776655666999999998765433

>PRK04914 ATP-dependent helicase HepA; Validated

Probab=95.21  E-value=0.15  Score=50.05  Aligned_cols=58  Identities=19%  Similarity=0.170  Sum_probs=31.8

Q ss_pred             ceeeEEeccchhhhcc-ccHHHHHHHHhhCC-CCCcEEEEeecCCc-hHHH-HHHhhccccc
Q psy9740          22 RIKFLVLDEADRLLSG-IFDEQMRTIFGAVP-KQKQTLLFSATMTD-TLEQ-VKSITKKQVG   79 (189)
Q Consensus        22 ~l~~lVlDEaD~ll~~-~f~~~i~~Il~~l~-~~~Q~il~SATl~~-~v~~-l~~~~l~~p~   79 (189)
                      .-.++|+||||.+-.. +-...-.+.+..+. +.+-.++.|||=-. ...+ .+..-+-+|.
T Consensus       272 ~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~e~falL~lLdP~  333 (956)
T PRK04914        272 EWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLDPD  333 (956)
T ss_pred             CCCEEEEechhhhccCCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcHHHHHhhhhhCCC
Confidence            4579999999999621 11111133343333 34567999999532 3333 2333444454

>KOG3089|consensus

Probab=95.03  E-value=0.018  Score=47.08  Aligned_cols=27  Identities=41%  Similarity=0.866  Sum_probs=25.2

Q ss_pred             eeehHhhHHHHhcCCCcccCceeeEEec
Q psy9740           2 IATPGRLADHLDTCNTFSLNRIKFLVLD   29 (189)
Q Consensus         2 V~TPgrl~~ll~~~~~~~l~~l~~lVlD   29 (189)
                      ||||||+.+++++ +.++++++.++|+|
T Consensus       201 IgTp~Ri~~lv~~-~~f~~~~lk~iIlD  227 (271)
T KOG3089|consen  201 IGTPGRIKELVKQ-GGFNLSPLKFIILD  227 (271)
T ss_pred             ecCcHHHHHHHHh-cCCCCCcceeEEee
Confidence            8999999999999 77999999999876

>TIGR00603 rad25 DNA repair helicase rad25

Probab=94.66  E-value=0.16  Score=48.42  Aligned_cols=40  Identities=20%  Similarity=0.336  Sum_probs=27.4

Q ss_pred             CceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCc
Q psy9740          21 NRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTD   65 (189)
Q Consensus        21 ~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~   65 (189)
                      ..-.++|+||||.+-...|.    .++..+.. .-.+.+|||...
T Consensus       374 ~~~gLII~DEvH~lpA~~fr----~il~~l~a-~~RLGLTATP~R  413 (732)
T TIGR00603       374 REWGLILLDEVHVVPAAMFR----RVLTIVQA-HCKLGLTATLVR  413 (732)
T ss_pred             ccCCEEEEEccccccHHHHH----HHHHhcCc-CcEEEEeecCcc
Confidence            35568999999999654443    45555543 345899999853

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).

>KOG0922|consensus

Probab=94.36  E-value=0.51  Score=44.26  Aligned_cols=59  Identities=24%  Similarity=0.313  Sum_probs=35.9

Q ss_pred             ehHhhHHHHhcCCCcccCceeeEEeccchhh-hcc-ccHHHHHHHHhhCCCCCcEEEEeecCCc
Q psy9740           4 TPGRLADHLDTCNTFSLNRIKFLVLDEADRL-LSG-IFDEQMRTIFGAVPKQKQTLLFSATMTD   65 (189)
Q Consensus         4 TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~l-l~~-~f~~~i~~Il~~l~~~~Q~il~SATl~~   65 (189)
                      |-|-|+..+.  ..-.|+.-.++|+||||.= +.. =...-+++|++.- ++-.+++.|||+..
T Consensus       147 TDG~LLRE~l--~Dp~LskYsvIIlDEAHERsl~TDiLlGlLKki~~~R-~~LklIimSATlda  207 (674)
T KOG0922|consen  147 TDGMLLREIL--KDPLLSKYSVIILDEAHERSLHTDILLGLLKKILKKR-PDLKLIIMSATLDA  207 (674)
T ss_pred             cchHHHHHHh--cCCccccccEEEEechhhhhhHHHHHHHHHHHHHhcC-CCceEEEEeeeecH
Confidence            5666665554  3456888999999999962 111 0222233333221 34578999999964

>PRK13107 preprotein translocase subunit SecA; Reviewed

Probab=94.32  E-value=0.018  Score=55.72  Aligned_cols=36  Identities=25%  Similarity=0.379  Sum_probs=29.7

Q ss_pred             CeeehHhh-HHHHhcCCCccc-----CceeeEEeccchhhhc
Q psy9740           1 VIATPGRL-ADHLDTCNTFSL-----NRIKFLVLDEADRLLS   36 (189)
Q Consensus         1 lV~TPgrl-~~ll~~~~~~~l-----~~l~~lVlDEaD~ll~   36 (189)
                      ++||||+| .|++..+-.++.     +.+.|+|+||||.||-
T Consensus       175 ~YgT~~e~gfDyLrdnm~~~~~~~vqr~~~~aIvDEvDsiLi  216 (908)
T PRK13107        175 TYGTNNEFGFDYLRDNMAFSPQERVQRPLHYALIDEVDSILI  216 (908)
T ss_pred             EEeCCCcccchhhhccCccchhhhhccccceeeecchhhhcc
Confidence            47999999 999987324444     8899999999999984

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3

Probab=94.20  E-value=0.091  Score=39.97  Aligned_cols=40  Identities=28%  Similarity=0.254  Sum_probs=27.4

Q ss_pred             cCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCC
Q psy9740          20 LNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMT   64 (189)
Q Consensus        20 l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~   64 (189)
                      .....++|+||||.+-...-   .+.|+.  .+..-++.+|||.+
T Consensus       144 ~~~~~~vI~DEaH~~~~~~~---~~~i~~--~~~~~~l~lTATp~  183 (184)
T PF04851_consen  144 KNKFDLVIIDEAHHYPSDSS---YREIIE--FKAAFILGLTATPF  183 (184)
T ss_dssp             GGSESEEEEETGGCTHHHHH---HHHHHH--SSCCEEEEEESS-S
T ss_pred             cccCCEEEEehhhhcCCHHH---HHHHHc--CCCCeEEEEEeCcc
Confidence            45667999999999976551   223333  45667899999964

1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....

>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3

Probab=94.08  E-value=0.051  Score=53.43  Aligned_cols=73  Identities=18%  Similarity=0.094  Sum_probs=45.0

Q ss_pred             CeeehHhhHHHHhc--CCCcccCc----eeeEEeccchhhhccccHHHHHHHHhhCC-CCCcEEEEeecCCchHHH-HHH
Q psy9740           1 VIATPGRLADHLDT--CNTFSLNR----IKFLVLDEADRLLSGIFDEQMRTIFGAVP-KQKQTLLFSATMTDTLEQ-VKS   72 (189)
Q Consensus         1 lV~TPgrl~~ll~~--~~~~~l~~----l~~lVlDEaD~ll~~~f~~~i~~Il~~l~-~~~Q~il~SATl~~~v~~-l~~   72 (189)
                      +|||+..++-....  .+...+.-    =+.||+||+|.. |......+.+++.-+. -+.-+++.|||+|+.+.+ +.+
T Consensus       566 ~V~TIDQlL~a~~~~r~~~~~l~ll~La~svlVlDEVHaY-D~~~~~~L~rlL~w~~~lG~~VlLmSATLP~~l~~~L~~  644 (1110)
T TIGR02562       566 LVCTIDHLIPATESHRGGHHIAPMLRLMSSDLILDEPDDY-EPEDLPALLRLVQLAGLLGSRVLLSSATLPPALVKTLFR  644 (1110)
T ss_pred             EEecHHHHHHHhhhcccchhHHHHHHhcCCCEEEECCccC-CHHHHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHH
Confidence            48999998877632  12222211    257899999975 3333344555554332 267789999999998654 334


Q ss_pred             hh
Q psy9740          73 IT   74 (189)
Q Consensus        73 ~~   74 (189)
                      -|
T Consensus       645 Ay  646 (1110)
T TIGR02562       645 AY  646 (1110)
T ss_pred             HH
Confidence            44

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.

>KOG2340|consensus

Probab=93.92  E-value=0.024  Score=51.90  Aligned_cols=76  Identities=29%  Similarity=0.437  Sum_probs=58.4

Q ss_pred             CeeehHhhHHHHhcCC----Cc-ccCceeeEEeccchhhhccccHHHHHHHHhhC---CCC-------------------
Q psy9740           1 VIATPGRLADHLDTCN----TF-SLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV---PKQ-------------------   53 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~----~~-~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l---~~~-------------------   53 (189)
                      |||+|--|.-++.+++    .+ .|+.+.++|+|.||.|+-++| +.+..|+..+   |..                   
T Consensus       389 lVaSPLGLRmil~n~gdkkrd~dfLSSIEl~iIDQa~~~l~QNw-Ehl~~ifdHLn~~P~k~h~~DfSRVR~wyL~~qsr  467 (698)
T KOG2340|consen  389 LVASPLGLRMILGNTGDKKRDFDFLSSIELLIIDQADIMLMQNW-EHLLHIFDHLNLQPSKQHDVDFSRVRMWYLDGQSR  467 (698)
T ss_pred             EEecchhhhhhhcCCCcccccchhhhhhhhhhhhhHHHHHHhhH-HHHHHHHHHhhcCcccccCCChhheehheeccHHH
Confidence            6899999887777422    22 379999999999999998764 4455666554   432                   


Q ss_pred             --CcEEEEeecCCchHHHHHHhhccc
Q psy9740          54 --KQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus        54 --~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                        +|+++||+-..+.+..+...++.+
T Consensus       468 ~~rQtl~Fs~y~~~~~nS~fn~~c~N  493 (698)
T KOG2340|consen  468 YFRQTLLFSRYSHPLFNSLFNQYCQN  493 (698)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHhhhh
Confidence              599999999999998888777776

>KOG0353|consensus

Probab=92.30  E-value=0.59  Score=41.59  Aligned_cols=75  Identities=16%  Similarity=0.150  Sum_probs=55.2

Q ss_pred             eeehHhhHHH---Hhc-CCCcccCceeeEEeccchhhhccc--cHHHHHH--HHhhCCCCCcEEEEeecCCchHHHHHHh
Q psy9740           2 IATPGRLADH---LDT-CNTFSLNRIKFLVLDEADRLLSGI--FDEQMRT--IFGAVPKQKQTLLFSATMTDTLEQVKSI   73 (189)
Q Consensus         2 V~TPgrl~~l---l~~-~~~~~l~~l~~lVlDEaD~ll~~~--f~~~i~~--Il~~l~~~~Q~il~SATl~~~v~~l~~~   73 (189)
                      .-||.++..-   +.. ++.+..+..+.+-+||+|.--.+|  |+++...  |++.--++.-++.++||-+.+|..-++.
T Consensus       191 yvtpekiaksk~~mnkleka~~~~~~~~iaidevhccsqwghdfr~dy~~l~ilkrqf~~~~iigltatatn~vl~d~k~  270 (695)
T KOG0353|consen  191 YVTPEKIAKSKKFMNKLEKALEAGFFKLIAIDEVHCCSQWGHDFRPDYKALGILKRQFKGAPIIGLTATATNHVLDDAKD  270 (695)
T ss_pred             EecHHHHHHHHHHHHHHHHHhhcceeEEEeecceeehhhhCcccCcchHHHHHHHHhCCCCceeeeehhhhcchhhHHHH
Confidence            4588887642   111 255677889999999999999887  8888664  4555446777899999999988777666


Q ss_pred             hcc
Q psy9740          74 TKK   76 (189)
Q Consensus        74 ~l~   76 (189)
                      .+-
T Consensus       271 il~  273 (695)
T KOG0353|consen  271 ILC  273 (695)
T ss_pred             HHh
Confidence            554

>KOG0352|consensus

Probab=91.55  E-value=0.21  Score=44.91  Aligned_cols=61  Identities=15%  Similarity=0.135  Sum_probs=45.3

Q ss_pred             ccCceeeEEeccchhhhccc--cHHHHHHHHh--hCCCCCcEEEEeecCCchHHHH--HHhhccccc
Q psy9740          19 SLNRIKFLVLDEADRLLSGI--FDEQMRTIFG--AVPKQKQTLLFSATMTDTLEQV--KSITKKQVG   79 (189)
Q Consensus        19 ~l~~l~~lVlDEaD~ll~~~--f~~~i~~Il~--~l~~~~Q~il~SATl~~~v~~l--~~~~l~~p~   79 (189)
                      +-.-++|+|+||||..-.+|  |+++.-++=.  .--.+.--+.++||-+.+|.+-  +..-+++|.
T Consensus       138 ~r~~L~Y~vVDEAHCVSQWGHDFRPDYL~LG~LRS~~~~vpwvALTATA~~~VqEDi~~qL~L~~PV  204 (641)
T KOG0352|consen  138 NRDVLRYIVVDEAHCVSQWGHDFRPDYLTLGSLRSVCPGVPWVALTATANAKVQEDIAFQLKLRNPV  204 (641)
T ss_pred             hhceeeeEEechhhhHhhhccccCcchhhhhhHHhhCCCCceEEeecccChhHHHHHHHHHhhcCcH
Confidence            45678999999999999998  8998766532  2223555678899999999773  455666765

>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []

Probab=90.38  E-value=0.3  Score=39.04  Aligned_cols=40  Identities=25%  Similarity=0.397  Sum_probs=33.3

Q ss_pred             CceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEe
Q psy9740          21 NRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS   60 (189)
Q Consensus        21 ~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~S   60 (189)
                      .+.-+++|||+|.=||......+..++..+.+..|+++.|
T Consensus       157 ~~~p~~ilDEvd~~LD~~~~~~l~~~l~~~~~~~Q~ii~T  196 (220)
T PF02463_consen  157 KPSPFLILDEVDAALDEQNRKRLADLLKELSKQSQFIITT  196 (220)
T ss_dssp             S--SEEEEESTTTTS-HHHHHHHHHHHHHHTTTSEEEEE-
T ss_pred             cccccccccccccccccccccccccccccccccccccccc
Confidence            4566899999999999999999999999999999999885

The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....

>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e

Probab=89.79  E-value=0.52  Score=38.85  Aligned_cols=46  Identities=24%  Similarity=0.355  Sum_probs=28.1

Q ss_pred             ceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeec-CCchHHHH
Q psy9740          22 RIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSAT-MTDTLEQV   70 (189)
Q Consensus        22 ~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SAT-l~~~v~~l   70 (189)
                      +-.++|+||+|.+  .+........+..+. ....+++||| ++....++
T Consensus       134 ~~~~vIvDEaH~~--k~~~s~~~~~l~~l~-~~~~~lLSgTP~~n~~~dl  180 (299)
T PF00176_consen  134 KWDRVIVDEAHRL--KNKDSKRYKALRKLR-ARYRWLLSGTPIQNSLEDL  180 (299)
T ss_dssp             EEEEEEETTGGGG--TTTTSHHHHHHHCCC-ECEEEEE-SS-SSSGSHHH
T ss_pred             cceeEEEeccccc--ccccccccccccccc-cceEEeecccccccccccc
Confidence            4788999999999  333333333344454 5667889999 34444443

g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=88.92  E-value=0.61  Score=33.67  Aligned_cols=36  Identities=33%  Similarity=0.528  Sum_probs=20.8

Q ss_pred             eeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEee
Q psy9740          24 KFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSA   61 (189)
Q Consensus        24 ~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SA   61 (189)
                      ..+|+||||.|.+..+.+.+..+.+  ..+.++++++.
T Consensus        89 ~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~  124 (131)
T PF13401_consen   89 VLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGT  124 (131)
T ss_dssp             EEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEES
T ss_pred             eEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEEC
Confidence            7899999999653334444444333  23445555543

>PRK12906 secA preprotein translocase subunit SecA; Reviewed

Probab=88.46  E-value=3.1  Score=40.32  Aligned_cols=34  Identities=12%  Similarity=0.083  Sum_probs=26.4

Q ss_pred             EEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         153 YVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       153 ~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      .++.+...|..++.+.+....  ....++||||+|+
T Consensus       417 ~i~~t~~~K~~al~~~i~~~~--~~g~pvLI~t~si  450 (796)
T PRK12906        417 LLYPTLDSKFNAVVKEIKERH--AKGQPVLVGTVAI  450 (796)
T ss_pred             eEEcCHHHHHHHHHHHHHHHH--hCCCCEEEEeCcH
Confidence            445566779999999987654  4578999999985

>KOG0925|consensus

Probab=88.11  E-value=5.5  Score=36.71  Aligned_cols=61  Identities=23%  Similarity=0.336  Sum_probs=39.7

Q ss_pred             eehHhhHHHHhcCCC--------cccCceeeEEeccchhh-hcc-ccHHHHHHHHhhCCCCCcEEEEeecCCc
Q psy9740           3 ATPGRLADHLDTCNT--------FSLNRIKFLVLDEADRL-LSG-IFDEQMRTIFGAVPKQKQTLLFSATMTD   65 (189)
Q Consensus         3 ~TPgrl~~ll~~~~~--------~~l~~l~~lVlDEaD~l-l~~-~f~~~i~~Il~~l~~~~Q~il~SATl~~   65 (189)
                      +||..++.++.. +.        -.++.-..+|+||||.= +.. -...-++.++..-| +-.++..|||+-.
T Consensus       133 ~~~~T~Lky~tD-gmLlrEams~p~l~~y~viiLDeahERtlATDiLmGllk~v~~~rp-dLk~vvmSatl~a  203 (699)
T KOG0925|consen  133 TSPNTLLKYCTD-GMLLREAMSDPLLGRYGVIILDEAHERTLATDILMGLLKEVVRNRP-DLKLVVMSATLDA  203 (699)
T ss_pred             CChhHHHHHhcc-hHHHHHHhhCcccccccEEEechhhhhhHHHHHHHHHHHHHHhhCC-CceEEEeecccch
Confidence            466666666655 32        24788899999999963 222 23444555554444 7789999999743

>TIGR00596 rad1 DNA repair protein (rad1)

Probab=87.93  E-value=1.1  Score=43.43  Aligned_cols=63  Identities=17%  Similarity=0.112  Sum_probs=50.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCC
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMT   64 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~   64 (189)
                      +++||.-|..=+.. +.++++.+.-+|+||||++....-...|-++...-.+..=+..|||.-.
T Consensus        11 ~~~T~rIl~~DlL~-~ri~~~~itgiiv~~Ahr~~~~~~eaFI~rlyr~~n~~gfIkafSdsP~   73 (814)
T TIGR00596        11 FSITSRILVVDLLT-GIIPPELITGILVLRADRIIESSQEAFILRLYRQKNKTGFIKAFSDNPE   73 (814)
T ss_pred             EEEechhhHhHHhc-CCCCHHHccEEEEeecccccccccHHHHHHHHHHhCCCcceEEecCCCc
Confidence            46799887744445 8899999999999999999887777777788777666667788888843

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

>KOG0926|consensus

Probab=87.75  E-value=1.3  Score=42.88  Aligned_cols=59  Identities=27%  Similarity=0.363  Sum_probs=37.0

Q ss_pred             ehHhhHHHHhcCCCcccCceeeEEeccchhhh-cc-ccHHHHHHHHhhC---CC------CCcEEEEeecCC
Q psy9740           4 TPGRLADHLDTCNTFSLNRIKFLVLDEADRLL-SG-IFDEQMRTIFGAV---PK------QKQTLLFSATMT   64 (189)
Q Consensus         4 TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll-~~-~f~~~i~~Il~~l---~~------~~Q~il~SATl~   64 (189)
                      |-|-|+.=+.  +.+-|..-..+|+||||.=- .. -....+.+|+..-   .+      .-..|++|||+-
T Consensus       356 TDGVLLrEi~--~DflL~kYSvIIlDEAHERSvnTDILiGmLSRiV~LR~k~~ke~~~~kpLKLIIMSATLR  425 (1172)
T KOG0926|consen  356 TDGVLLREIE--NDFLLTKYSVIILDEAHERSVNTDILIGMLSRIVPLRQKYYKEQCQIKPLKLIIMSATLR  425 (1172)
T ss_pred             cchHHHHHHH--HhHhhhhceeEEechhhhccchHHHHHHHHHHHHHHHHHHhhhhcccCceeEEEEeeeEE
Confidence            6677776554  56778888999999999631 11 1344444554321   11      335689999974

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

Probab=87.65  E-value=2  Score=41.18  Aligned_cols=47  Identities=13%  Similarity=0.143  Sum_probs=30.0

Q ss_pred             ccCceeeEEeccchhhh---ccc---cHHHHHHHHhhCCCCCcEEEEeecCCch
Q psy9740          19 SLNRIKFLVLDEADRLL---SGI---FDEQMRTIFGAVPKQKQTLLFSATMTDT   66 (189)
Q Consensus        19 ~l~~l~~lVlDEaD~ll---~~~---f~~~i~~Il~~l~~~~Q~il~SATl~~~   66 (189)
                      .++++..+|+||=|.--   +.+   +..++.-.... ..++.++|-|||=+-+
T Consensus       310 Pf~~LGLIIvDEEHD~sYKq~~~prYhARdvA~~Ra~-~~~~pvvLgSATPSLE  362 (730)
T COG1198         310 PFKNLGLIIVDEEHDSSYKQEDGPRYHARDVAVLRAK-KENAPVVLGSATPSLE  362 (730)
T ss_pred             chhhccEEEEeccccccccCCcCCCcCHHHHHHHHHH-HhCCCEEEecCCCCHH
Confidence            47999999999977642   122   33333333222 3588999999995444

>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain

Probab=85.99  E-value=1.9  Score=33.17  Aligned_cols=60  Identities=12%  Similarity=0.183  Sum_probs=32.6

Q ss_pred             ehHhhHHHHhcCCCcccCceeeEEeccchhhhccc---cHHHHHHHHhhCCCCCcEEEEeecCCchHH
Q psy9740           4 TPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI---FDEQMRTIFGAVPKQKQTLLFSATMTDTLE   68 (189)
Q Consensus         4 TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~---f~~~i~~Il~~l~~~~Q~il~SATl~~~v~   68 (189)
                      |-+-+.+.+.+  ...+.+-+++|+||+|-+ |..   +...+......  ....+++.|||=|....
T Consensus        79 c~at~~~~~~~--p~~~~~yd~II~DEcH~~-Dp~sIA~rg~l~~~~~~--g~~~~i~mTATPPG~~~  141 (148)
T PF07652_consen   79 CHATYGHFLLN--PCRLKNYDVIIMDECHFT-DPTSIAARGYLRELAES--GEAKVIFMTATPPGSED  141 (148)
T ss_dssp             EHHHHHHHHHT--SSCTTS-SEEEECTTT---SHHHHHHHHHHHHHHHT--TS-EEEEEESS-TT---
T ss_pred             ccHHHHHHhcC--cccccCccEEEEeccccC-CHHHHhhheeHHHhhhc--cCeeEEEEeCCCCCCCC
Confidence            34445555543  455788999999999985 332   33344443222  24568999999887653

The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....

>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1

Probab=85.51  E-value=1  Score=38.67  Aligned_cols=67  Identities=16%  Similarity=0.211  Sum_probs=43.3

Q ss_pred             hHhhHHHHhcCCCcccCceeeEEeccchhhhcccc--------HHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhcc
Q psy9740           5 PGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIF--------DEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKK   76 (189)
Q Consensus         5 Pgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f--------~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~   76 (189)
                      ..||-+++...+ -++..  .+|+||+|.+=...-        ...+..+-+.+|+.+ ++.+|||-..+.+.++  ||.
T Consensus       158 ~sRl~ql~~W~g-~dfdg--vivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~LP~AR-vvY~SATgasep~Nma--Ym~  231 (303)
T PF13872_consen  158 RSRLDQLVDWCG-EDFDG--VIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRLPNAR-VVYASATGASEPRNMA--YMS  231 (303)
T ss_pred             cchHHHHHHHHh-cCCCc--eEEeccchhcCCCCccCccccHHHHHHHHHHHhCCCCc-EEEecccccCCCceee--eee
Confidence            345665554422 23333  899999999965432        123444556677655 8999999988888884  554


Q ss_pred             c
Q psy9740          77 Q   77 (189)
Q Consensus        77 ~   77 (189)
                      +
T Consensus       232 R  232 (303)
T PF13872_consen  232 R  232 (303)
T ss_pred             e
Confidence            4

>KOG0949|consensus

Probab=84.64  E-value=1.3  Score=43.66  Aligned_cols=63  Identities=19%  Similarity=0.210  Sum_probs=43.9

Q ss_pred             CeeehHhhHHHHhcC--CCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCc
Q psy9740           1 VIATPGRLADHLDTC--NTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTD   65 (189)
Q Consensus         1 lV~TPgrl~~ll~~~--~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~   65 (189)
                      +|+-|.-+-.++...  +....+++||+|+||+|.+-...-.--.+.++..+  .+-++..|||+..
T Consensus       609 LITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll~li--~CP~L~LSATigN  673 (1330)
T KOG0949|consen  609 LITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNEEDGLLWEQLLLLI--PCPFLVLSATIGN  673 (1330)
T ss_pred             EEEchHHHHHHhcCchhhhhhhhcceEEEechhhhccccccchHHHHHHHhc--CCCeeEEecccCC
Confidence            467788887777662  34578999999999999997554333333344333  4568999999854

>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein

Probab=84.06  E-value=3.7  Score=39.72  Aligned_cols=60  Identities=18%  Similarity=0.391  Sum_probs=44.2

Q ss_pred             cCceeeEEeccchhhhccccHHHHHH------HH-hhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740          20 LNRIKFLVLDEADRLLSGIFDEQMRT------IF-GAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus        20 l~~l~~lVlDEaD~ll~~~f~~~i~~------Il-~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +.+-+.|||||+...+..=|.+-|++      ++ ..+.....++++-|++.....++.+.+..+..
T Consensus       140 l~~yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~lI~~ak~VI~~DA~ln~~tvdFl~~~Rp~~~  206 (824)
T PF02399_consen  140 LDRYDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKELIRNAKTVIVMDADLNDQTVDFLASCRPDEN  206 (824)
T ss_pred             ccccCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHHHHHhCCeEEEecCCCCHHHHHHHHHhCCCCc
Confidence            45678999999999987644333332      22 33456788899999999999999888876644

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

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

Probab=83.99  E-value=1.3  Score=41.89  Aligned_cols=59  Identities=22%  Similarity=0.366  Sum_probs=34.8

Q ss_pred             CeeehHhhHHHHhcC-CCcccCce-eeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecC
Q psy9740           1 VIATPGRLADHLDTC-NTFSLNRI-KFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATM   63 (189)
Q Consensus         1 lV~TPgrl~~ll~~~-~~~~l~~l-~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl   63 (189)
                      +|+|..++...+... ..+....- -++|+||||+.-..++...|.   +.+| +...+.||||-
T Consensus       342 ivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaHrs~~~~~~~~l~---~~~p-~a~~lGfTaTP  402 (667)
T TIGR00348       342 IITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAHRSQYGELAKNLK---KALK-NASFFGFTGTP  402 (667)
T ss_pred             EEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCccccchHHHHHHH---hhCC-CCcEEEEeCCC
Confidence            467877777543320 11111111 178999999976555554443   3444 46789999995

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

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

Probab=83.95  E-value=1.1  Score=40.21  Aligned_cols=41  Identities=22%  Similarity=0.313  Sum_probs=31.8

Q ss_pred             cCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCC
Q psy9740          20 LNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMT   64 (189)
Q Consensus        20 l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~   64 (189)
                      .+.-.++|+||+|.+.+..|......+-...+    .+.+|||.+
T Consensus       144 ~~~~~liI~DE~Hh~~a~~~~~~~~~~~~~~~----~LGLTATp~  184 (442)
T COG1061         144 GNEFGLIIFDEVHHLPAPSYRRILELLSAAYP----RLGLTATPE  184 (442)
T ss_pred             ccccCEEEEEccccCCcHHHHHHHHhhhcccc----eeeeccCce
Confidence            34678999999999988877776666654443    899999965

>KOG0923|consensus

Probab=83.72  E-value=6.8  Score=37.42  Aligned_cols=60  Identities=23%  Similarity=0.192  Sum_probs=37.6

Q ss_pred             ehHhhHHHHhcCCCcccCceeeEEeccchhh-hccc-cHHHHHHHHhhCCCCCcEEEEeecCCch
Q psy9740           4 TPGRLADHLDTCNTFSLNRIKFLVLDEADRL-LSGI-FDEQMRTIFGAVPKQKQTLLFSATMTDT   66 (189)
Q Consensus         4 TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~l-l~~~-f~~~i~~Il~~l~~~~Q~il~SATl~~~   66 (189)
                      |-|-|+.=+.  ...+|.+-..+++||||.= |... ...-+..|.+. .++-..++.||||..+
T Consensus       362 TDGmLlREfL--~epdLasYSViiiDEAHERTL~TDILfgLvKDIar~-RpdLKllIsSAT~DAe  423 (902)
T KOG0923|consen  362 TDGMLLREFL--SEPDLASYSVIIVDEAHERTLHTDILFGLVKDIARF-RPDLKLLISSATMDAE  423 (902)
T ss_pred             cchhHHHHHh--ccccccceeEEEeehhhhhhhhhhHHHHHHHHHHhh-CCcceEEeeccccCHH
Confidence            4555554332  3467889999999999963 2211 33344444443 3567789999999653

>PRK12900 secA preprotein translocase subunit SecA; Reviewed

Probab=83.12  E-value=6.6  Score=38.98  Aligned_cols=35  Identities=14%  Similarity=0.029  Sum_probs=27.7

Q ss_pred             eEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         152 YYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       152 ~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      -.++....+|..++++.+....  ....++||||+|+
T Consensus       574 d~vy~t~~eK~~Ali~~I~~~~--~~grpVLIft~Sv  608 (1025)
T PRK12900        574 DLVYKTRREKYNAIVLKVEELQ--KKGQPVLVGTASV  608 (1025)
T ss_pred             CeEecCHHHHHHHHHHHHHHHh--hCCCCEEEEeCcH
Confidence            3455677789999999997764  3478999999996

>TIGR00963 secA preprotein translocase, SecA subunit

Probab=81.95  E-value=15  Score=35.40  Aligned_cols=34  Identities=12%  Similarity=0.088  Sum_probs=24.7

Q ss_pred             EEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         153 YVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       153 ~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      .++....+|..++.+.+....  ...+++||||+|.
T Consensus       382 ~i~~t~~~k~~ai~~~i~~~~--~~grpvLV~t~si  415 (745)
T TIGR00963       382 LVYKTEEEKWKAVVDEIKERH--AKGQPVLVGTTSV  415 (745)
T ss_pred             eEEcCHHHHHHHHHHHHHHHH--hcCCCEEEEeCcH
Confidence            334556678888888776554  4578999999985

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.

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=81.72  E-value=3.2  Score=32.21  Aligned_cols=56  Identities=16%  Similarity=0.235  Sum_probs=46.6

Q ss_pred             ccCceeeEEeccchhhhcccc--HHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhh
Q psy9740          19 SLNRIKFLVLDEADRLLSGIF--DEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSIT   74 (189)
Q Consensus        19 ~l~~l~~lVlDEaD~ll~~~f--~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~   74 (189)
                      .....++|||||.=-.++.|+  .+++-.+++.-|.+.-+++++-..|+++.++|+..
T Consensus        92 ~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p~~l~e~AD~V  149 (159)
T cd00561          92 ASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAPKELIEAADLV  149 (159)
T ss_pred             hcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhCcee
Confidence            346788999999999998884  55677888888888889999999999999887643

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=81.49  E-value=3.1  Score=32.85  Aligned_cols=55  Identities=13%  Similarity=0.205  Sum_probs=46.2

Q ss_pred             cCceeeEEeccchhhhcccc--HHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhh
Q psy9740          20 LNRIKFLVLDEADRLLSGIF--DEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSIT   74 (189)
Q Consensus        20 l~~l~~lVlDEaD~ll~~~f--~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~   74 (189)
                      -....+|||||+=-.++.|+  .+++-.+++.-|.+.-++++.-..|+++.++|+..
T Consensus        95 ~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p~~l~e~AD~V  151 (173)
T TIGR00708        95 DPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLELADLV  151 (173)
T ss_pred             cCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCcee
Confidence            35678999999999999884  45677888888888899999999999999987654

Alternate name: corrinoid adenosyltransferase.

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

Probab=81.41  E-value=9.8  Score=37.95  Aligned_cols=35  Identities=20%  Similarity=0.434  Sum_probs=22.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI   38 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~   38 (189)
                      +|+|-+-|.+.+.....   -+-+++.+|.+|.+|..+
T Consensus       185 litTs~FL~k~~e~L~~---~kFdfifVDDVDA~Lkas  219 (1187)
T COG1110         185 LITTSQFLSKRFEELSK---LKFDFIFVDDVDAILKAS  219 (1187)
T ss_pred             EEEeHHHHHhhHHHhcc---cCCCEEEEccHHHHHhcc
Confidence            46666666655554111   246789999999998643

>KOG0991|consensus

Probab=80.98  E-value=2.1  Score=36.00  Aligned_cols=43  Identities=23%  Similarity=0.339  Sum_probs=30.6

Q ss_pred             CCccc--CceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEE
Q psy9740          16 NTFSL--NRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLF   59 (189)
Q Consensus        16 ~~~~l--~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~   59 (189)
                      +++.+  ..-+.+|+||||.|-+ |-+..+++-++...+.....+.
T Consensus       105 ~kv~lp~grhKIiILDEADSMT~-gAQQAlRRtMEiyS~ttRFala  149 (333)
T KOG0991|consen  105 KKVTLPPGRHKIIILDEADSMTA-GAQQALRRTMEIYSNTTRFALA  149 (333)
T ss_pred             hhccCCCCceeEEEeeccchhhh-HHHHHHHHHHHHHcccchhhhh
Confidence            44444  7788999999999954 4677777777776665555444

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=80.90  E-value=2.5  Score=35.61  Aligned_cols=41  Identities=22%  Similarity=0.266  Sum_probs=30.0

Q ss_pred             CceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEee
Q psy9740          21 NRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSA   61 (189)
Q Consensus        21 ~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SA   61 (189)
                      ..-+.+|+||+|.|-.......+..+++..+.+.++++.+.
T Consensus        99 ~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n  139 (316)
T PHA02544         99 GGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITAN  139 (316)
T ss_pred             CCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcC
Confidence            45689999999998444456777888888777777666543

>PRK06893 DNA replication initiation factor; Validated

Probab=80.45  E-value=1.9  Score=35.09  Aligned_cols=47  Identities=19%  Similarity=0.365  Sum_probs=33.1

Q ss_pred             cCceeeEEeccchhhh-ccccHHHHHHHHhhCCC-CCcEEEEeecCCch
Q psy9740          20 LNRIKFLVLDEADRLL-SGIFDEQMRTIFGAVPK-QKQTLLFSATMTDT   66 (189)
Q Consensus        20 l~~l~~lVlDEaD~ll-~~~f~~~i~~Il~~l~~-~~Q~il~SATl~~~   66 (189)
                      +++.+.+++||+|.+. +..+...+..++..+.. +.+++++|++.++.
T Consensus        89 ~~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~  137 (229)
T PRK06893         89 LEQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPH  137 (229)
T ss_pred             cccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChH
Confidence            5677899999999986 33455667777766543 45677788876544

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

Probab=80.39  E-value=3.3  Score=41.66  Aligned_cols=63  Identities=14%  Similarity=0.183  Sum_probs=41.1

Q ss_pred             CeeehHhhHHHHhcC----CCcccCceeeEEeccchhhhc------c---c------cHHHHHHHHhhCCCCCcEEEEee
Q psy9740           1 VIATPGRLADHLDTC----NTFSLNRIKFLVLDEADRLLS------G---I------FDEQMRTIFGAVPKQKQTLLFSA   61 (189)
Q Consensus         1 lV~TPgrl~~ll~~~----~~~~l~~l~~lVlDEaD~ll~------~---~------f~~~i~~Il~~l~~~~Q~il~SA   61 (189)
                      +|||...+...+...    ..+.+....++|+||||+-..      .   +      +....+.|+.+..  .-.+.|||
T Consensus       515 ~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs~~~d~~~~~~~~~~~~~~~~~~~yr~iL~yFd--A~~IGLTA  592 (1123)
T PRK11448        515 HVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRGYTLDKEMSEGELQFRDQLDYVSKYRRVLDYFD--AVKIGLTA  592 (1123)
T ss_pred             EEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCCCccccccccchhccchhhhHHHHHHHHHhhcC--ccEEEEec
Confidence            478888877654321    124567888999999999531      0   1      2345677777652  45689999


Q ss_pred             cCCc
Q psy9740          62 TMTD   65 (189)
Q Consensus        62 Tl~~   65 (189)
                      |--.
T Consensus       593 TP~r  596 (1123)
T PRK11448        593 TPAL  596 (1123)
T ss_pred             CCcc
Confidence            9643

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

Probab=80.28  E-value=7  Score=37.10  Aligned_cols=45  Identities=16%  Similarity=0.327  Sum_probs=31.7

Q ss_pred             CCcccCceeeEEeccchhhhccccHHHHHHHHhhCCC-CCcEEEEeecCCc
Q psy9740          16 NTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPK-QKQTLLFSATMTD   65 (189)
Q Consensus        16 ~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~-~~Q~il~SATl~~   65 (189)
                      ..+.++++.++|+||-|+.     .-.=+..+..-.. .+-.+++|||==+
T Consensus       378 d~V~F~~LgLVIiDEQHRF-----GV~QR~~L~~KG~~~Ph~LvMTATPIP  423 (677)
T COG1200         378 DKVEFHNLGLVIIDEQHRF-----GVHQRLALREKGEQNPHVLVMTATPIP  423 (677)
T ss_pred             cceeecceeEEEEeccccc-----cHHHHHHHHHhCCCCCcEEEEeCCCch
Confidence            5577999999999999994     3333334444344 5678999999433

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	189
3ber_A	249	Human Dead-Box Rna-Helicase Ddx47, Conserved Domain		4e-14
3ly5_A	262	Ddx18 Dead-Domain Length = 262		2e-12
2pl3_A	236	Human Dead-Box Rna Helicase Ddx10, Dead Domain In C		1e-11
3mwj_A	207	Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Ap		3e-10
2gxq_A	207	Hera N-Terminal Domain In Complex With Amp, Crystal		3e-10
3fe2_A	242	Human Dead-Box Rna Helicase Ddx5 (P68), Conserved D		3e-10
4a4d_A	253	Crystal Structure Of The N-Terminal Domain Of The H		3e-10
3iuy_A	228	Crystal Structure Of Ddx53 Dead-Box Domain Length =		9e-10
1hv8_A	367	Crystal Structure Of A Dead Box Protein From The Hy		1e-09
2vso_A	395	Crystal Structure Of A Translation Initiation Compl		5e-09
1qva_A	223	Yeast Initiation Factor 4a N-Terminal Domain Length		9e-09
1qde_A	224	Crystal Structure Of The Atpase Domain Of Translati		1e-08
1wrb_A	253	Crystal Structure Of The N-Terminal Reca-Like Domai		2e-08
2db3_A	434	Structural Basis For Rna Unwinding By The Dead-Box		2e-08
1fuu_A	394	Yeast Initiation Factor 4a Length = 394		9e-08
1vec_A	206	Crystal Structure Of The N-Terminal Domain Of RckP5		2e-07
3sqw_A	579	Structure Of Mss116p (Nte Deletion) Bound To Ssrna		3e-07
3sqx_A	512	Structure Of Mss116p (Nte And C-Tail Double Deletio		3e-07
3i5x_A	563	Structure Of Mss116p Bound To Ssrna And Amp-Pnp Len		3e-07
2zu6_A	388	Crystal Structure Of The Eif4a-Pdcd4 Complex Length		3e-07
3bor_A	237	Crystal Structure Of The Deadc Domain Of Human Tran		3e-07
3eiq_A	414	Crystal Structure Of Pdcd4-eif4a Length = 414		3e-07
2i4i_A	417	Crystal Structure Of Human Dead-Box Rna Helicase Dd		2e-06
1xtk_A	390	Structure Of Decd To Dead Mutation Of Human Uap56 L		6e-06
2g9n_A	221	Structure Of The Dead Domain Of Human Eukaryotic In		6e-06
2oxc_A	230	Human Dead-Box Rna Helicase Ddx20, Dead Domain In C		1e-05
1t6n_A	220	Crystal Structure Of The N-Terminal Domain Of Human		1e-05
2j0u_A	374	The Crystal Structure Of Eif4aiii-Barentsz Complex		2e-05
2j0u_B	374	The Crystal Structure Of Eif4aiii-Barentsz Complex		2e-05
2hxy_A	391	Crystal Structure Of Human Apo-Eif4aiii Length = 39		2e-05
2j0q_A	410	The Crystal Structure Of The Exon Junction Complex		2e-05
2hyi_C	413	Structure Of The Human Exon Junction Complex With A		2e-05
2xb2_A	411	Crystal Structure Of The Core Mago-Y14-Eif4aiii-Bar		2e-05
1xtj_A	386	Structure Of Human Uap56 In Complex With Adp Length		2e-05
1xti_A	391	Structure Of Wildtype Human Uap56 Length = 391		2e-05
3fho_B	508	Structure Of S. Pombe Dbp5 Length = 508		7e-05
1s2m_A	400	Crystal Structure Of The Dead Box Protein Dhh1p Len		1e-04
2z0m_A	337	Crystal Structure Of Hypothetical Atp-Dependent Rna		1e-04
3pew_A	395	S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3		2e-04
3pey_A	395	S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3 Length		2e-04
2kbe_A	226	Solution Structure Of Amino-Terminal Domain Of Dbp5		2e-04
3fhc_B	235	Crystal Structure Of Human Dbp5 In Complex With Nup		2e-04
3fht_A	412	Crystal Structure Of Human Dbp5 In Complex With Amp		2e-04
3fmo_B	300	Crystal Structure Of The Nucleoporin Nup214 In Comp		3e-04
3g0h_A	424	Human Dead-box Rna Helicase Ddx19, In Complex With		3e-04
3ews_A	445	Human Dead-Box Rna-Helicase Ddx19 In Complex With A		3e-04
3fmp_B	479	Crystal Structure Of The Nucleoporin Nup214 In Comp		3e-04

>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In Complex With Amp Length = 249

Iteration: 1
 Score = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 32/71 (45%), Positives = 52/71 (73%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           +IATPGRL DHL+    F+L  +K+LV+DEADR+L+  F+ ++  I   +P+ ++T LFS
Sbjct: 165 IIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFS 224
Query: 61  ATMTDTLEQVK 71
           ATMT  +++++
Sbjct: 225 ATMTKKVQKLQ 235

>pdb|3LY5|A Chain A, Ddx18 Dead-Domain Length = 262

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 32/77 (41%), Positives = 51/77 (66%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ATPGRL DH+     F    ++ LV+DEADR+L   F+E+++ I   +P ++QT+LFS
Sbjct: 180 IVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFS 239
Query: 61  ATMTDTLEQVKSITKKQ 77
           AT T  +E +  I+ K+
Sbjct: 240 ATQTRKVEDLARISLKK 256

>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex With Adp Length = 236

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/77 (40%), Positives = 49/77 (63%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGRL  H+D   +F    ++ LVLDEADR+L   F + M  +   +PK++QTLLFS
Sbjct: 150 LVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFS 209
Query: 61  ATMTDTLEQVKSITKKQ 77
           AT T +++ +  ++ K 
Sbjct: 210 ATQTKSVKDLARLSLKN 226

>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form Length = 207

Iteration: 1
 Score = 61.2 bits (147), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 30/63 (47%), Positives = 42/63 (66%), Gaps = 1/63 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGR  D+L       L+R++  VLDEAD +LS  F+E++  +  A P  +QTLLFS
Sbjct: 124 VVATPGRALDYLRQ-GVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFS 182
Query: 61  ATM 63
           AT+
Sbjct: 183 ATL 185

>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1 Length = 207

Iteration: 1
 Score = 61.2 bits (147), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 30/63 (47%), Positives = 42/63 (66%), Gaps = 1/63 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGR  D+L       L+R++  VLDEAD +LS  F+E++  +  A P  +QTLLFS
Sbjct: 124 VVATPGRALDYLRQ-GVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFS 182
Query: 61  ATM 63
           AT+
Sbjct: 183 ATL 185

>pdb|3FE2|A Chain A, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I In Complex With Adp Length = 242

Iteration: 1
 Score = 61.2 bits (147), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 32/69 (46%), Positives = 44/69 (63%), Gaps = 1/69 (1%)
Query: 2   IATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSA 61
           IATPGRL D L+ C   +L R  +LVLDEADR+L   F+ Q+R I   +   +QTL++SA
Sbjct: 157 IATPGRLIDFLE-CGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSA 215
Query: 62  TMTDTLEQV 70
           T    + Q+
Sbjct: 216 TWPKEVRQL 224

>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human Dead-Box Rna Helicase Ddx5 (P68) Length = 253

Iteration: 1
 Score = 61.2 bits (147), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 32/69 (46%), Positives = 44/69 (63%), Gaps = 1/69 (1%)
Query: 2   IATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSA 61
           IATPGRL D L+ C   +L R  +LVLDEADR+L   F+ Q+R I   +   +QTL++SA
Sbjct: 171 IATPGRLIDFLE-CGKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSA 229
Query: 62  TMTDTLEQV 70
           T    + Q+
Sbjct: 230 TWPKEVRQL 238

>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain Length = 228

Iteration: 1
 Score = 59.7 bits (143), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 32/70 (45%), Positives = 46/70 (65%), Gaps = 1/70 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           +IATPGRL D L   N+ +L  I +LV+DEAD++L   F+ Q+R I   V   +QT++ S
Sbjct: 147 IIATPGRLND-LQMNNSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTS 205
Query: 61  ATMTDTLEQV 70
           AT  DT+ Q+
Sbjct: 206 ATWPDTVRQL 215

>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The Hyperthermophile Methanococcus Jannaschii Length = 367

Iteration: 1
 Score = 58.9 bits (141), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 34/94 (36%), Positives = 52/94 (55%), Gaps = 5/94 (5%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ DH++   T +L  +K+ +LDEAD  L+  F + +  I  A  K K+ LLFS
Sbjct: 127 VVGTPGRILDHINRG-TLNLKNVKYFILDEADEXLNXGFIKDVEKILNACNKDKRILLFS 185
Query: 61  ATMTDTLEQVKSITKKQVGTLLF-SATMTDTLEQ 93
           AT      ++ ++ KK  G   F  A +   +EQ
Sbjct: 186 ATXP---REILNLAKKYXGDYSFIKAKINANIEQ 216

>pdb|2VSO|A Chain A, Crystal Structure Of A Translation Initiation Complex Length = 395

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 37/96 (38%), Positives = 52/96 (54%), Gaps = 4/96 (4%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ D++     F  ++IK  +LDEAD +LS  F EQ+  IF  +P   Q +L S
Sbjct: 143 VVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 201
Query: 61  ATM-TDTLEQVKSITKKQVGTLLFSATMTDTLEQVK 95
           ATM  D LE      +  V  L+    +  TLE +K
Sbjct: 202 ATMPNDVLEVTTKFMRNPVRILVKKDEL--TLEGIK 235

>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain Length = 223

Iteration: 1
 Score = 56.6 bits (135), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 42/69 (60%), Gaps = 2/69 (2%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ D++     F  ++IK  +LDEAD +LS  F EQ+  IF  +P   Q +L S
Sbjct: 142 VVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 200
Query: 61  ATM-TDTLE 68
           ATM  D LE
Sbjct: 201 ATMPNDVLE 209

>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation Initiation Factor 4a From Saccharomyces Cerevisiae-The Prototype Of The Dead Box Protein Family Length = 224

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/69 (44%), Positives = 42/69 (60%), Gaps = 2/69 (2%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ D++     F  ++IK  +LDEAD +LS  F EQ+  IF  +P   Q +L S
Sbjct: 135 VVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 193
Query: 61  ATM-TDTLE 68
           ATM  D LE
Sbjct: 194 ATMPNDVLE 202

>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of Djvlgb, A Pranarian Vasa-Like Rna Helicase Length = 253

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/76 (40%), Positives = 48/76 (63%), Gaps = 5/76 (6%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIF--GAVPK--QKQT 56
           ++ATPGRL D ++  N  SL   K++VLDEADR+L   F+ Q+R I     +P    +QT
Sbjct: 154 LVATPGRLVDFIEK-NKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQT 212
Query: 57  LLFSATMTDTLEQVKS 72
           L+FSAT    ++++ +
Sbjct: 213 LMFSATFPKEIQKLAA 228

>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein Drosophila Vasa Length = 434

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 36/73 (49%), Positives = 46/73 (63%), Gaps = 5/73 (6%)
Query: 1   VIATPGRLADHLD-TCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP--KQKQTL 57
           VIATPGRL D +D T  TF   R  F+VLDEADR+L   F E MR I   V    + QTL
Sbjct: 183 VIATPGRLLDFVDRTFITFEDTR--FVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTL 240
Query: 58  LFSATMTDTLEQV 70
           +FSAT  + ++++
Sbjct: 241 MFSATFPEEIQRM 253

>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a Length = 394

Iteration: 1
 Score = 53.1 bits (126), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 36/96 (37%), Positives = 50/96 (52%), Gaps = 4/96 (4%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ D++     F  ++IK  +LDEAD  LS  F EQ+  IF  +P   Q +L S
Sbjct: 142 VVGTPGRVFDNIQR-RRFRTDKIKXFILDEADEXLSSGFKEQIYQIFTLLPPTTQVVLLS 200
Query: 61  ATM-TDTLEQVKSITKKQVGTLLFSATMTDTLEQVK 95
           AT   D LE      +  V  L+    +  TLE +K
Sbjct: 201 ATXPNDVLEVTTKFXRNPVRILVKKDEL--TLEGIK 234

>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A Human Dead-Box Protein Length = 206

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 29/62 (46%), Positives = 40/62 (64%), Gaps = 1/62 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           VIATPGR+ D L       ++ ++ +VLDEAD+LLS  F + M  I   +PK +Q LL+S
Sbjct: 126 VIATPGRILD-LIKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYS 184
Query: 61  AT 62
           AT
Sbjct: 185 AT 186

>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And Amp-Pnp Length = 579

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 42/132 (31%), Positives = 66/132 (50%), Gaps = 10/132 (7%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQK------ 54
           VIATPGRL D L+  +      + + VLDEADRLL   F + + TI G + ++       
Sbjct: 154 VIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADN 213
Query: 55  -QTLLFSATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQA 113
            +TLLFSAT+ D ++++ +    +   L       +  E  + I +  V + K  +S  A
Sbjct: 214 IKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFA 273
Query: 114 FLLCQQHIVAQI 125
            +   +HI  QI
Sbjct: 274 AV---EHIKKQI 282

>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 = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 31/77 (40%), Positives = 46/77 (59%), Gaps = 7/77 (9%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQK------ 54
           VIATPGRL D L+  +      + + VLDEADRLL   F + + TI G + ++       
Sbjct: 154 VIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADN 213
Query: 55  -QTLLFSATMTDTLEQV 70
            +TLLFSAT+ D ++++
Sbjct: 214 IKTLLFSATLDDKVQKL 230

>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp Length = 563

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 31/77 (40%), Positives = 46/77 (59%), Gaps = 7/77 (9%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQK------ 54
           VIATPGRL D L+  +      + + VLDEADRLL   F + + TI G + ++       
Sbjct: 205 VIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADN 264
Query: 55  -QTLLFSATMTDTLEQV 70
            +TLLFSAT+ D ++++
Sbjct: 265 IKTLLFSATLDDKVQKL 281

>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex Length = 388

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/89 (37%), Positives = 47/89 (52%), Gaps = 2/89 (2%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGR+ D L+     S   IK  VLDEAD +LS  F +Q+  IF  +    Q +L S
Sbjct: 137 IVGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLS 195
Query: 61  ATM-TDTLEQVKSITKKQVGTLLFSATMT 88
           ATM +D LE  K   +  +  L+    +T
Sbjct: 196 ATMPSDVLEVTKKFMRDPIRILVKKEELT 224

>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation Initiation Factor 4a-2 Length = 237

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 34/83 (40%), Positives = 45/83 (54%), Gaps = 2/83 (2%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ D L+     S   IK  VLDEAD +LS  F +Q+  IF  +    Q +L S
Sbjct: 153 VVGTPGRVFDMLNR-RYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLS 211
Query: 61  ATM-TDTLEQVKSITKKQVGTLL 82
           ATM TD LE  K   +  +  L+
Sbjct: 212 ATMPTDVLEVTKKFMRDPIRILV 234

>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a Length = 414

Iteration: 1
 Score = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/89 (37%), Positives = 47/89 (52%), Gaps = 2/89 (2%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGR+ D L+     S   IK  VLDEAD +LS  F +Q+  IF  +    Q +L S
Sbjct: 163 IVGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLS 221
Query: 61  ATM-TDTLEQVKSITKKQVGTLLFSATMT 88
           ATM +D LE  K   +  +  L+    +T
Sbjct: 222 ATMPSDVLEVTKKFMRDPIRILVKKEELT 250

>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x Length = 417

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/74 (37%), Positives = 45/74 (60%), Gaps = 5/74 (6%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIF--GAVPKQ--KQT 56
           ++ATPGRL D ++      L+  K+LVLDEADR+L   F+ Q+R I     +P +  + T
Sbjct: 155 LVATPGRLVDMMER-GKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHT 213
Query: 57  LLFSATMTDTLEQV 70
           ++FSAT    ++ +
Sbjct: 214 MMFSATFPKEIQML 227

>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56 Length = 390

Iteration: 1
 Score = 47.0 bits (110), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 25/71 (35%), Positives = 41/71 (57%), Gaps = 2/71 (2%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
           V+ TPGR+   L    + +L  IK  +LDEAD++L  +     ++ IF   P +KQ ++F
Sbjct: 131 VVGTPGRIL-ALARNKSLNLKHIKHFILDEADKMLEQLDMRRDVQEIFRMTPHEKQVMMF 189
Query: 60  SATMTDTLEQV 70
           SAT++  +  V
Sbjct: 190 SATLSKEIRPV 200

>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic Initiation Factor 4a, Eif4a Length = 221

Iteration: 1
 Score = 47.0 bits (110), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 29/69 (42%), Positives = 39/69 (56%), Gaps = 2/69 (2%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGR+ D L+     S   I   VLDEAD +LS  F +Q+  IF  +    Q +L S
Sbjct: 138 IVGTPGRVFDMLNR-RYLSPXYIXMFVLDEADEMLSRGFXDQIYDIFQXLNSNTQVVLLS 196
Query: 61  ATM-TDTLE 68
           ATM +D LE
Sbjct: 197 ATMPSDVLE 205

>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex With Adp Length = 230

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/70 (40%), Positives = 39/70 (55%), Gaps = 6/70 (8%)
Query: 1   VIATPGRLAD--HLDTCNTFSLNRIKFLVLDEADRLLS-GIFDEQMRTIFGAVPKQKQTL 57
            + +PGR+     LD  N  S   I+  +LDEAD+LL  G F EQ+  I+ ++P  KQ L
Sbjct: 146 AVGSPGRIKQLIELDYLNPGS---IRLFILDEADKLLEEGSFQEQINWIYSSLPASKQML 202
Query: 58  LFSATMTDTL 67
             SAT  + L
Sbjct: 203 AVSATYPEFL 212

>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56 Length = 220

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
           V+ TPGR+   L    + +L  IK  +LDE D++L  +     ++ IF   P +KQ ++F
Sbjct: 138 VVGTPGRILA-LARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMF 196
Query: 60  SATMTDTLEQV 70
           SAT++  +  V
Sbjct: 197 SATLSKEIRPV 207

>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0 A Resolution Length = 374

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V  TPGR+ D +    +     IK LVLDEAD +L+  F EQ+  ++  +P   Q +L S
Sbjct: 123 VAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 61  ATM 63
           AT+
Sbjct: 182 ATL 184

>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0 A Resolution Length = 374

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V  TPGR+ D +    +     IK LVLDEAD +L+  F EQ+  ++  +P   Q +L S
Sbjct: 123 VAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 181
Query: 61  ATM 63
           AT+
Sbjct: 182 ATL 184

>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii Length = 391

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V  TPGR+ D +    +     IK LVLDEAD +L+  F EQ+  ++  +P   Q +L S
Sbjct: 138 VAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 196
Query: 61  ATM 63
           AT+
Sbjct: 197 ATL 199

>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2 A Resolution Length = 410

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V  TPGR+ D +    +     IK LVLDEAD +L+  F EQ+  ++  +P   Q +L S
Sbjct: 159 VAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 217
Query: 61  ATM 63
           AT+
Sbjct: 218 ATL 220

>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 = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V  TPGR+ D +    +     IK LVLDEAD +L+  F EQ+  ++  +P   Q +L S
Sbjct: 160 VAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 218
Query: 61  ATM 63
           AT+
Sbjct: 219 ATL 221

>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 = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V  TPGR+ D +    +     IK LVLDEAD +L+  F EQ+  ++  +P   Q +L S
Sbjct: 160 VAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 218
Query: 61  ATM 63
           AT+
Sbjct: 219 ATL 221

>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp Length = 386

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
           V+ TPGR+   L    + +L  IK  +LDE D++L  +     ++ IF   P +KQ ++F
Sbjct: 132 VVGTPGRIL-ALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMF 190
Query: 60  SATMTDTLEQV 70
           SAT++  +  V
Sbjct: 191 SATLSKEIRPV 201

>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56 Length = 391

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 40/71 (56%), Gaps = 2/71 (2%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
           V+ TPGR+   L    + +L  IK  +LDE D++L  +     ++ IF   P +KQ ++F
Sbjct: 132 VVGTPGRIL-ALARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMF 190
Query: 60  SATMTDTLEQV 70
           SAT++  +  V
Sbjct: 191 SATLSKEIRPV 201

>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p Length = 400

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/69 (34%), Positives = 39/69 (56%), Gaps = 1/69 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGR+ D L +     L+     ++DEAD++LS  F   +  I   +P   Q+LLFS
Sbjct: 143 LVGTPGRVLD-LASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFS 201
Query: 61  ATMTDTLEQ 69
           AT   T+++
Sbjct: 202 ATFPLTVKE 210

>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna Helicase From Sulfolobus Tokodaii Length = 337

Iteration: 1
 Score = 42.4 bits (98), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/70 (34%), Positives = 40/70 (57%), Gaps = 1/70 (1%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRL D L +     L+  + +++DEAD +    F + ++ I      +K T LFS
Sbjct: 109 VVATPGRLLD-LWSKGVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFS 167
Query: 61  ATMTDTLEQV 70
           AT+ + + +V
Sbjct: 168 ATIPEEIRKV 177

>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3 Length = 395

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/71 (39%), Positives = 40/71 (56%), Gaps = 4/71 (5%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS--GIFDEQMRTIFGAVPKQKQTLL 58
           ++ TPG + D L       L +IK  VLDEAD +L   G+ D+ +R +   +PK  Q +L
Sbjct: 125 IVGTPGTVLD-LMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIR-VKRFLPKDTQLVL 182
Query: 59  FSATMTDTLEQ 69
           FSAT  D + Q
Sbjct: 183 FSATFADAVRQ 193

>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3 Length = 395

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/71 (39%), Positives = 40/71 (56%), Gaps = 4/71 (5%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS--GIFDEQMRTIFGAVPKQKQTLL 58
           ++ TPG + D L       L +IK  VLDEAD +L   G+ D+ +R +   +PK  Q +L
Sbjct: 125 IVGTPGTVLD-LMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIR-VKRFLPKDTQLVL 182
Query: 59  FSATMTDTLEQ 69
           FSAT  D + Q
Sbjct: 183 FSATFADAVRQ 193

>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p Length = 226

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/71 (39%), Positives = 40/71 (56%), Gaps = 4/71 (5%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLL--SGIFDEQMRTIFGAVPKQKQTLL 58
           ++ TPG + D L       L +IK  VLDEAD +L   G+ D+ +R +   +PK  Q +L
Sbjct: 142 IVGTPGTVLD-LMRRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIR-VKRFLPKDTQLVL 199
Query: 59  FSATMTDTLEQ 69
           FSAT  D + Q
Sbjct: 200 FSATFADAVRQ 210

>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214 Length = 235

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/69 (39%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS--GIFDEQMRTIFGAVPKQKQTLL 58
           VI TPG + D           +IK  VLDEAD +++  G  D+ +R I   +P+  Q LL
Sbjct: 147 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR-IQRMLPRNCQMLL 205
Query: 59  FSATMTDTL 67
           FSAT  D++
Sbjct: 206 FSATFEDSV 214

>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And Rna Length = 412

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/69 (39%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS--GIFDEQMRTIFGAVPKQKQTLL 58
           VI TPG + D           +IK  VLDEAD +++  G  D+ +R I   +P+  Q LL
Sbjct: 147 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR-IQRMLPRNCQMLL 205
Query: 59  FSATMTDTL 67
           FSAT  D++
Sbjct: 206 FSATFEDSV 214

>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex With The Dead- Box Helicase Ddx19 Length = 300

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/69 (39%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS--GIFDEQMRTIFGAVPKQKQTLL 58
           VI TPG + D           +IK  VLDEAD +++  G  D+ +R I   +P+  Q LL
Sbjct: 214 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR-IQRMLPRNCQMLL 272
Query: 59  FSATMTDTL 67
           FSAT  D++
Sbjct: 273 FSATFEDSV 281

>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An Atp-analogue And Rna Length = 424

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/69 (39%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS--GIFDEQMRTIFGAVPKQKQTLL 58
           VI TPG + D           +IK  VLDEAD +++  G  D+ +R I   +P+  Q LL
Sbjct: 163 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR-IQRMLPRNCQMLL 221
Query: 59  FSATMTDTL 67
           FSAT  D++
Sbjct: 222 FSATFEDSV 230

>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp Length = 445

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/69 (39%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS--GIFDEQMRTIFGAVPKQKQTLL 58
           VI TPG + D           +IK  VLDEAD +++  G  D+ +R I   +P+  Q LL
Sbjct: 184 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR-IQRMLPRNCQMLL 242
Query: 59  FSATMTDTL 67
           FSAT  D++
Sbjct: 243 FSATFEDSV 251

>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex With The Dead- Box Helicase Ddx19 Length = 479

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/69 (39%), Positives = 38/69 (55%), Gaps = 3/69 (4%)
Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS--GIFDEQMRTIFGAVPKQKQTLL 58
           VI TPG + D           +IK  VLDEAD +++  G  D+ +R I   +P+  Q LL
Sbjct: 214 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIR-IQRMLPRNCQMLL 272
Query: 59  FSATMTDTL 67
           FSAT  D++
Sbjct: 273 FSATFEDSV 281

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	189
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	4e-30
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	3e-28
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	4e-28
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	4e-28
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	4e-28
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	1e-25
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	1e-23
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	2e-23
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	3e-23
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	8e-23
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	1e-22
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	2e-22
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	2e-22
3bor_A	237	Human initiation factor 4A-II; translation initiat	2e-22
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	3e-22
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	3e-22
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	4e-22
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	4e-22
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	5e-22
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	8e-22
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	1e-21
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	2e-21
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	3e-21
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	4e-21
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	4e-21
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	4e-21
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	9e-21
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	5e-20
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	3e-19
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	4e-19
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	4e-18
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	8e-04

>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural genomics, structural GEN consortium, SGC, ATP-binding, hydrolase; HET: AMP PGE; 1.40A {Homo sapiens} Length = 249

 Score =  109 bits (275), Expect = 4e-30
 Identities = 32/69 (46%), Positives = 50/69 (72%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           +IATPGRL DHL+    F+L  +K+LV+DEADR+L+  F+ ++  I   +P+ ++T LFS
Sbjct: 165 IIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFS 224

Query: 61  ATMTDTLEQ 69
           ATMT  +++
Sbjct: 225 ATMTKKVQK 233

>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 =  109 bits (273), Expect = 3e-28
 Identities = 46/193 (23%), Positives = 70/193 (36%), Gaps = 51/193 (26%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           VIATPGRL D L+  +      + + VLDEADRLL   F + + TI G + ++       
Sbjct: 205 VIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNS----- 259

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
                     KS    +  TLLFSAT+ D   +V+ +       M               
Sbjct: 260 ----------KSADNIK--TLLFSATLDD---KVQKLANN---IMN-------------- 287

Query: 121 IVAQIITQLDPVHVFV-WESKQDVATVEELDQYYVLCPYDVKDGYLVETV---RLYREKS 176
                        +F+    K +    E +DQ  V+        +        ++    S
Sbjct: 288 ---------KKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDS 338

Query: 177 PRGAIVIFTDTCR 189
              AI+ F  T +
Sbjct: 339 NYKAII-FAPTVK 350

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens} Length = 236

 Score =  104 bits (261), Expect = 4e-28
 Identities = 30/69 (43%), Positives = 45/69 (65%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGRL  H+D   +F    ++ LVLDEADR+L   F + M  +   +PK++QTLLFS
Sbjct: 150 LVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFS 209

Query: 61  ATMTDTLEQ 69
           AT T +++ 
Sbjct: 210 ATQTKSVKD 218

>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 =  108 bits (272), Expect = 4e-28
 Identities = 46/193 (23%), Positives = 70/193 (36%), Gaps = 51/193 (26%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           VIATPGRL D L+  +      + + VLDEADRLL   F + + TI G + ++       
Sbjct: 154 VIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNS----- 208

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
                     KS    +  TLLFSAT+ D   +V+ +       M               
Sbjct: 209 ----------KSADNIK--TLLFSATLDD---KVQKLANN---IMN-------------- 236

Query: 121 IVAQIITQLDPVHVFV-WESKQDVATVEELDQYYVLCPYDVKDGYLVETV---RLYREKS 176
                        +F+    K +    E +DQ  V+        +        ++    S
Sbjct: 237 ---------KKECLFLDTVDKNEPEAHERIDQSVVISEKFANSIFAAVEHIKKQIKERDS 287

Query: 177 PRGAIVIFTDTCR 189
              AI+ F  T +
Sbjct: 288 NYKAII-FAPTVK 299

>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics, structural genomics consort ATP-binding, hydrolase, nucleotide-binding, RNA-B; 2.80A {Homo sapiens} Length = 262

 Score =  104 bits (262), Expect = 4e-28
 Identities = 30/69 (43%), Positives = 46/69 (66%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ATPGRL DH+     F    ++ LV+DEADR+L   F+E+++ I   +P ++QT+LFS
Sbjct: 180 IVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFS 239

Query: 61  ATMTDTLEQ 69
           AT T  +E 
Sbjct: 240 ATQTRKVED 248

>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 = 94.9 bits (237), Expect = 1e-23
 Identities = 52/189 (27%), Positives = 75/189 (39%), Gaps = 64/189 (33%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ D++     F  ++IK  +LDEAD +LS  F EQ+  IF  +P   Q +L S
Sbjct: 142 VVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 200

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           ATM +    V  +T K      F                     M+              
Sbjct: 201 ATMPN---DVLEVTTK------F---------------------MR-------------- 216

Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLC-PYDVKDGYLVET-VRLYREKSPR 178
                    +PV + V   K+D  T+E + Q+YV     + K     E    LY   S  
Sbjct: 217 ---------NPVRILV---KKDELTLEGIKQFYVNVEEEEYK----YECLTDLYDSISVT 260

Query: 179 GAIVIFTDT 187
            A+ IF +T
Sbjct: 261 QAV-IFCNT 268

>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 = 94.9 bits (237), Expect = 2e-23
 Identities = 48/188 (25%), Positives = 76/188 (40%), Gaps = 62/188 (32%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGR+ D L+     S   IK  VLDEAD +LS  F +Q+  IF  +    Q +L S
Sbjct: 163 IVGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLS 221

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           ATM      V  +TKK      F                     M+              
Sbjct: 222 ATMPS---DVLEVTKK------F---------------------MR-------------- 237

Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETV-RLYREKSPRG 179
                    DP+ + V   K++  T+E + Q+Y+      ++ + ++T+  LY   +   
Sbjct: 238 ---------DPIRILV---KKEELTLEGIRQFYINVE---REEWKLDTLCDLYETLTITQ 282

Query: 180 AIVIFTDT 187
           A+ IF +T
Sbjct: 283 AV-IFINT 289

>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 = 94.2 bits (235), Expect = 3e-23
 Identities = 45/188 (23%), Positives = 74/188 (39%), Gaps = 62/188 (32%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V  TPGR+ D +    +     IK LVLDEAD +L+  F EQ+  ++  +P   Q +L S
Sbjct: 159 VAGTPGRVFDMIR-RRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 217

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           AT+     ++  +T K      F                     M               
Sbjct: 218 ATLPH---EILEMTNK------F---------------------MT-------------- 233

Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETV-RLYREKSPRG 179
                    DP+ + V   K+D  T+E + Q++V      ++ +  +T+  LY   +   
Sbjct: 234 ---------DPIRILV---KRDELTLEGIKQFFVAVE---REEWKFDTLCDLYDTLTITQ 278

Query: 180 AIVIFTDT 187
           A+ IF +T
Sbjct: 279 AV-IFCNT 285

>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding, hydrolase, nucleotide- RNA-binding, methylation, mRNA processing, mRNA S nucleus; HET: ADP; 2.60A {Homo sapiens} Length = 242

 Score = 90.3 bits (225), Expect = 8e-23
 Identities = 30/63 (47%), Positives = 40/63 (63%), Gaps = 1/63 (1%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
            IATPGRL D L+     +L R  +LVLDEADR+L   F+ Q+R I   +   +QTL++S
Sbjct: 156 CIATPGRLIDFLEC-GKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWS 214

Query: 61  ATM 63
           AT 
Sbjct: 215 ATW 217

>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX, structural genomics, structural genomi consortium, SGC, ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens} Length = 228

 Score = 89.5 bits (223), Expect = 1e-22
 Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 1/69 (1%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           +IATPGRL D     N+ +L  I +LV+DEAD++L   F+ Q+R I   V   +QT++ S
Sbjct: 147 IIATPGRLNDLQMN-NSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTS 205

Query: 61  ATMTDTLEQ 69
           AT  DT+ Q
Sbjct: 206 ATWPDTVRQ 214

>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural genomics, structural genomics consortium, SGC, hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A* Length = 230

 Score = 89.2 bits (222), Expect = 2e-22
 Identities = 25/77 (32%), Positives = 41/77 (53%), Gaps = 5/77 (6%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GIFDEQMRTIFGAVPKQKQTLLF 59
            + +PGR+   ++  +  +   I+  +LDEAD+LL  G F EQ+  I+ ++P  KQ L  
Sbjct: 146 AVGSPGRIKQLIEL-DYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAV 204

Query: 60  SATMTDTLEQVKSITKK 76
           SAT     E + +   K
Sbjct: 205 SATYP---EFLANALTK 218

>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19 Length = 206

 Score = 88.7 bits (221), Expect = 2e-22
 Identities = 29/76 (38%), Positives = 42/76 (55%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           VIATPGR+ D +       ++ ++ +VLDEAD+LLS  F + M  I   +PK +Q LL+S
Sbjct: 126 VIATPGRILDLIKK-GVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYS 184

Query: 61  ATMTDTLEQVKSITKK 76
           AT       V+     
Sbjct: 185 ATFP---LSVQKFMNS 197

>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX, structural genomics, helic binding, HOST-virus interaction, hydrolase; 1.85A {Homo sapiens} PDB: 2g9n_A* Length = 237

 Score = 89.2 bits (222), Expect = 2e-22
 Identities = 32/76 (42%), Positives = 41/76 (53%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ D L+     S   IK  VLDEAD +LS  F +Q+  IF  +    Q +L S
Sbjct: 153 VVGTPGRVFDMLNR-RYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLS 211

Query: 61  ATMTDTLEQVKSITKK 76
           ATM      V  +TKK
Sbjct: 212 ATMP---TDVLEVTKK 224

>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family, gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.19 PDB: 1qva_A Length = 224

 Score = 88.8 bits (221), Expect = 3e-22
 Identities = 31/76 (40%), Positives = 43/76 (56%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ D++     F  ++IK  +LDEAD +LS  F EQ+  IF  +P   Q +L S
Sbjct: 135 VVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 193

Query: 61  ATMTDTLEQVKSITKK 76
           ATM      V  +T K
Sbjct: 194 ATMP---NDVLEVTTK 206

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19 Length = 219

 Score = 88.4 bits (220), Expect = 3e-22
 Identities = 28/76 (36%), Positives = 40/76 (52%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           VI TPGR+ D +       ++    LV+DEAD +L   F   +  I   +PK  Q L+FS
Sbjct: 130 VIGTPGRINDFIRE-QALDVHTAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFS 188

Query: 61  ATMTDTLEQVKSITKK 76
           AT+    E++K   KK
Sbjct: 189 ATIP---EKLKPFLKK 201

>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 = 91.1 bits (227), Expect = 4e-22
 Identities = 36/188 (19%), Positives = 61/188 (32%), Gaps = 64/188 (34%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGR+ D         L+     ++DEAD++LS  F   +  I   +P   Q+LLFS
Sbjct: 143 LVGTPGRVLDLASR-KVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFS 201

Query: 61  ATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQH 120
           AT                               VK    K    +               
Sbjct: 202 ATFPL---------------------------TVKEFMVKH---LH-------------- 217

Query: 121 IVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVET-VRLYREKSPRG 179
                     P  + +     +  T++ + QYY      V++   +     L+ +     
Sbjct: 218 ---------KPYEINL----MEELTLKGITQYY----AFVEERQKLHCLNTLFSKLQINQ 260

Query: 180 AIVIFTDT 187
           AI IF ++
Sbjct: 261 AI-IFCNS 267

>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic resolution, AMP complex, ribosome biogenesis, thermophilic, hydrolase; HET: AMP; 1.20A {Thermus thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A* 3mwl_A* 3nbf_A* 3nej_A Length = 207

 Score = 87.6 bits (218), Expect = 4e-22
 Identities = 31/76 (40%), Positives = 46/76 (60%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGR  D+L       L+R++  VLDEAD +LS  F+E++  +  A P  +QTLLFS
Sbjct: 124 VVATPGRALDYLRQ-GVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFS 182

Query: 61  ATMTDTLEQVKSITKK 76
           AT+       K + ++
Sbjct: 183 ATLPS---WAKRLAER 195

>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 = 91.1 bits (227), Expect = 5e-22
 Identities = 43/189 (22%), Positives = 63/189 (33%), Gaps = 62/189 (32%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
           VI TPG + D           +IK  VLDEAD +++     +Q   I   +P+  Q LLF
Sbjct: 147 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLF 206

Query: 60  SATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQ 119
           SAT  D                            V    +K    +              
Sbjct: 207 SATFED---------------------------SVWKFAQK---VVP------------- 223

Query: 120 HIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVET-VRLYREKSPR 178
                     DP  + +   K++  T++ + QYYVLC          +    LY   +  
Sbjct: 224 ----------DPNVIKL---KREEETLDTIKQYYVLCS---SRDEKFQALCNLYGAITIA 267

Query: 179 GAIVIFTDT 187
            A+ IF  T
Sbjct: 268 QAM-IFCHT 275

>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural genomics, structural GEN consortium, SGC, rRNA, ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens} Length = 245

 Score = 88.0 bits (219), Expect = 8e-22
 Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 5/74 (6%)

Query: 1   VIATPGRLADHLDTCNTF-SLNRIKFLVLDEADRLLSGI---FDEQMRTIFGAV-PKQKQ 55
           ++ TP RL   L        L  +++LV+DE+D+L       F +Q+ +IF A    + +
Sbjct: 153 LVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVR 212

Query: 56  TLLFSATMTDTLEQ 69
             +FSAT    +EQ
Sbjct: 213 RAMFSATFAYDVEQ 226

>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP: c.37.1.19 Length = 220

 Score = 86.9 bits (216), Expect = 1e-21
 Identities = 23/77 (29%), Positives = 43/77 (55%), Gaps = 5/77 (6%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
           V+ TPGR+        + +L  IK  +LDE D++L  +     ++ IF   P +KQ ++F
Sbjct: 138 VVGTPGRILALARN-KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMF 196

Query: 60  SATMTDTLEQVKSITKK 76
           SAT++    +++ + +K
Sbjct: 197 SATLSK---EIRPVCRK 210

>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 = 88.3 bits (220), Expect = 2e-21
 Identities = 23/76 (30%), Positives = 40/76 (52%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ATPGRL D         L+  + +++DEAD +    F + ++ I      +K T LFS
Sbjct: 109 VVATPGRLLDLWSK-GVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFS 167

Query: 61  ATMTDTLEQVKSITKK 76
           AT+ +   +++ + K 
Sbjct: 168 ATIPE---EIRKVVKD 180

>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 = 89.3 bits (222), Expect = 3e-21
 Identities = 43/189 (22%), Positives = 63/189 (33%), Gaps = 62/189 (32%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
           VI TPG + D           +IK  VLDEAD +++     +Q   I   +P+  Q LLF
Sbjct: 214 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLF 273

Query: 60  SATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQ 119
           SAT  D                            V    +K    +              
Sbjct: 274 SATFED---------------------------SVWKFAQK---VVP------------- 290

Query: 120 HIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVET-VRLYREKSPR 178
                     DP  + +   K++  T++ + QYYVLC          +    LY   +  
Sbjct: 291 ----------DPNVIKL---KREEETLDTIKQYYVLCS---SRDEKFQALCNLYGAITIA 334

Query: 179 GAIVIFTDT 187
            A+ IF  T
Sbjct: 335 QAM-IFCHT 342

>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 = 88.0 bits (219), Expect = 4e-21
 Identities = 30/76 (39%), Positives = 47/76 (61%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ DH++   T +L  +K+ +LDEAD +L+  F + +  I  A  K K+ LLFS
Sbjct: 127 VVGTPGRILDHINR-GTLNLKNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFS 185

Query: 61  ATMTDTLEQVKSITKK 76
           ATM     ++ ++ KK
Sbjct: 186 ATMP---REILNLAKK 198

>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore complex, nucleocytoplasmic trans mRNA export, protein interaction, beta-propeller; HET: ADP; 2.51A {Homo sapiens} Length = 300

 Score = 87.1 bits (216), Expect = 4e-21
 Identities = 27/77 (35%), Positives = 36/77 (46%), Gaps = 4/77 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
           VI TPG + D           +IK  VLDEAD +++     +Q   I   +P+  Q LLF
Sbjct: 214 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLF 273

Query: 60  SATMTDTLEQVKSITKK 76
           SAT  D    V    +K
Sbjct: 274 SATFED---SVWKFAQK 287

>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 = 88.0 bits (219), Expect = 4e-21
 Identities = 40/188 (21%), Positives = 70/188 (37%), Gaps = 61/188 (32%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
           V+ TPGR+        + +L  IK  +LDE D++L  +     ++ IF   P +KQ ++F
Sbjct: 132 VVGTPGRILALARN-KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMF 190

Query: 60  SATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQ 119
           SAT++    +++ + +K      F                     M+             
Sbjct: 191 SATLSK---EIRPVCRK------F---------------------MQ------------- 207

Query: 120 HIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRG 179
                     DP+ +FV +  +   T+  L QYYV    + K+  L     L        
Sbjct: 208 ----------DPMEIFVDDETK--LTLHGLQQYYVKLKDNEKNRKL---FDLLDVLEFNQ 252

Query: 180 AIVIFTDT 187
            + IF  +
Sbjct: 253 VV-IFVKS 259

>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 = 87.2 bits (217), Expect = 9e-21
 Identities = 37/189 (19%), Positives = 61/189 (32%), Gaps = 63/189 (33%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLF 59
           ++ TPG + D +       L +IK  VLDEAD +L      +Q   +   +PK  Q +LF
Sbjct: 125 IVGTPGTVLDLMRR-KLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLF 183

Query: 60  SATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQ 119
           SAT  D                            V+   KK    +              
Sbjct: 184 SATFAD---------------------------AVRQYAKK---IVP------------- 200

Query: 120 HIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDVKDGYLVET-VRLYREKSPR 178
                     +   + +   + +   V+ + Q Y+ C     +    +    LY   +  
Sbjct: 201 ----------NANTLEL---QTNEVNVDAIKQLYMDCK---NEADKFDVLTELYGLMTIG 244

Query: 179 GAIVIFTDT 187
            +I IF  T
Sbjct: 245 SSI-IFVAT 252

>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 = 85.3 bits (212), Expect = 5e-20
 Identities = 32/65 (49%), Positives = 39/65 (60%), Gaps = 3/65 (4%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV--PKQKQTLL 58
           VIATPGRL D +D     +    +F+VLDEADR+L   F E MR I   V    + QTL+
Sbjct: 183 VIATPGRLLDFVDRTFI-TFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLM 241

Query: 59  FSATM 63
           FSAT 
Sbjct: 242 FSATF 246

>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA, N project on protein structural and functional analyses; 2.40A {Dugesia japonica} SCOP: c.37.1.19 Length = 253

 Score = 81.4 bits (202), Expect = 3e-19
 Identities = 29/67 (43%), Positives = 40/67 (59%), Gaps = 5/67 (7%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV----PKQKQT 56
           ++ATPGRL D ++     SL   K++VLDEADR+L   F+ Q+R I           +QT
Sbjct: 154 LVATPGRLVDFIEKNKI-SLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQT 212

Query: 57  LLFSATM 63
           L+FSAT 
Sbjct: 213 LMFSATF 219

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens} Length = 417

 Score = 82.6 bits (205), Expect = 4e-19
 Identities = 28/68 (41%), Positives = 40/68 (58%), Gaps = 7/68 (10%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLL-SGIFDEQMRTIFGAV----PKQKQ 55
           ++ATPGRL D ++      L+  K+LVLDEADR+L  G F+ Q+R I           + 
Sbjct: 155 LVATPGRLVDMMERGKI-GLDFCKYLVLDEADRMLDMG-FEPQIRRIVEQDTMPPKGVRH 212

Query: 56  TLLFSATM 63
           T++FSAT 
Sbjct: 213 TMMFSATF 220

>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 = 4e-18
 Identities = 12/96 (12%), Positives = 36/96 (37%), Gaps = 8/96 (8%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLL-SGIFDEQMRTIFGAVPKQKQTLLF 59
           ++ +   ++ + +     S  R  F+ +D+ D +L +   +     +   +P++     F
Sbjct: 121 LVFSTQFVSKNREKL---SQKRFDFVFVDDVDAVLKAS-RNIDTLLMMVGIPEEIIRKAF 176

Query: 60  SATMTDTLEQVKSITKKQVGTLLFSATMTDTLEQVK 95
           S        ++    K     +L  ++ T     ++
Sbjct: 177 STIK---QGKIYERPKNLKPGILVVSSATAKPRGIR 209

>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 = 38.2 bits (88), Expect = 8e-04
 Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 1/73 (1%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ATP  + + L      SL  +  +V DEA R +       +   +    K    +  +
Sbjct: 105 IVATPQTIENDL-LAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLT 163

Query: 61  ATMTDTLEQVKSI 73
           A+   T E++  +
Sbjct: 164 ASPGSTPEKIMEV 176

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	189
2db3_A	434	ATP-dependent RNA helicase VASA; DEAD-BOX, protein	99.84
2j0s_A	410	ATP-dependent RNA helicase DDX48; mRNA processing,	99.78
2i4i_A	417	ATP-dependent RNA helicase DDX3X; DEAD, structural	99.76
3fmp_B	479	ATP-dependent RNA helicase DDX19B; nuclear porin,	99.75
3eiq_A	414	Eukaryotic initiation factor 4A-I; PDCD4, anti-onc	99.75
3fht_A	412	ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box	99.73
1xti_A	391	Probable ATP-dependent RNA helicase P47; alpha-bet	99.71
3fmo_B	300	ATP-dependent RNA helicase DDX19B; nuclear porin,	99.71
3fe2_A	242	Probable ATP-dependent RNA helicase DDX5; DEAD, AD	99.7
1fuu_A	394	Yeast initiation factor 4A; IF4A, helicase, DEAD-b	99.7
1s2m_A	400	Putative ATP-dependent RNA helicase DHH1; ATP-bind	99.69
3pey_A	395	ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, A	99.68
3sqw_A	579	ATP-dependent RNA helicase MSS116, mitochondrial;	99.67
3i5x_A	563	ATP-dependent RNA helicase MSS116; protein-RNA com	99.67
3iuy_A	228	Probable ATP-dependent RNA helicase DDX53; REC-A-l	99.67
1wrb_A	253	DJVLGB; RNA helicase, DEAD BOX, VASA, structural g	99.67
1hv8_A	367	Putative ATP-dependent RNA helicase MJ0669; RNA-bi	99.65
3bor_A	237	Human initiation factor 4A-II; translation initiat	99.64
1q0u_A	219	Bstdead; DEAD protein, RNA binding protein; 1.85A	99.63
3ly5_A	262	ATP-dependent RNA helicase DDX18; alpha-beta, stru	99.63
2pl3_A	236	Probable ATP-dependent RNA helicase DDX10; DEAD, s	99.63
3fho_A	508	ATP-dependent RNA helicase DBP5; mRNA export, ATPa	99.62
2oxc_A	230	Probable ATP-dependent RNA helicase DDX20; DEAD, s	99.62
3ber_A	249	Probable ATP-dependent RNA helicase DDX47; DEAD, A	99.62
2gxq_A	207	Heat resistant RNA dependent ATPase; RNA helicase,	99.6
1vec_A	206	ATP-dependent RNA helicase P54; DEAD-box protein,	99.6
2z0m_A	337	337AA long hypothetical ATP-dependent RNA helicase	99.6
1qde_A	224	EIF4A, translation initiation factor 4A; DEAD box	99.58
1t6n_A	220	Probable ATP-dependent RNA helicase; RECA-like fol	99.57
3dkp_A	245	Probable ATP-dependent RNA helicase DDX52; DEAD, A	99.55
3oiy_A	414	Reverse gyrase helicase domain; topoisomerase, DNA	99.53
4ddu_A	1104	Reverse gyrase; topoisomerase, DNA supercoiling, a	99.5
1tf5_A	844	Preprotein translocase SECA subunit; ATPase, helic	99.49
3l9o_A	1108	ATP-dependent RNA helicase DOB1; REC-A fold, winge	99.47
2fsf_A	853	Preprotein translocase SECA subunit; ATPase, DNA-R	99.45
1gku_B	1054	Reverse gyrase, TOP-RG; topoisomerase, DNA superco	99.41
1nkt_A	922	Preprotein translocase SECA 1 subunit; preprotein	99.4
2xgj_A	1010	ATP-dependent RNA helicase DOB1; hydrolase-RNA com	99.33
4a4z_A	997	Antiviral helicase SKI2; hydrolase, ATPase, mRNA d	99.31
2zj8_A	720	DNA helicase, putative SKI2-type helicase; RECA fo	99.3
3llm_A	235	ATP-dependent RNA helicase A; alpha-beta-alpha, st	99.3
2v1x_A	591	ATP-dependent DNA helicase Q1; DNA strand annealin	99.29
2p6r_A	702	Afuhel308 helicase; protein-DNA complex, SF2 helic	99.28
2va8_A	715	SSO2462, SKI2-type helicase; hydrolase, DNA repair	99.25
1oyw_A	523	RECQ helicase, ATP-dependent DNA helicase; winged	99.2
4a2p_A	556	RIG-I, retinoic acid inducible protein I; hydrolas	99.16
2ykg_A	696	Probable ATP-dependent RNA helicase DDX58; hydrola	99.15
1wp9_A	494	ATP-dependent RNA helicase, putative; ATPase, DNA	99.14
3tbk_A	555	RIG-I helicase domain; DECH helicase, ATP binding,	99.11
2xau_A	773	PRE-mRNA-splicing factor ATP-dependent RNA helica;	99.11
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	99.06
2whx_A	618	Serine protease/ntpase/helicase NS3; transcription	99.06
3o8b_A	666	HCV NS3 protease/helicase; ntpase, RNA, translocat	99.02
4a2q_A	797	RIG-I, retinoic acid inducible protein I; hydrolas	99.02
1yks_A	440	Genome polyprotein [contains: flavivirin protease	99.01
4f92_B	1724	U5 small nuclear ribonucleoprotein 200 kDa helica;	99.0
4a2w_A	936	RIG-I, retinoic acid inducible protein I; hydrolas	98.91
4gl2_A	699	Interferon-induced helicase C domain-containing P;	98.84
2wv9_A	673	Flavivirin protease NS2B regulatory subunit, FLAV	98.78
2eyq_A	1151	TRCF, transcription-repair coupling factor; MFD, S	98.78
2jlq_A	451	Serine protease subunit NS3; ribonucleoprotein, nu	98.71
3h1t_A	590	Type I site-specific restriction-modification syst	98.67
3b6e_A	216	Interferon-induced helicase C domain-containing P;	98.64
2fwr_A	472	DNA repair protein RAD25; DNA unwinding, XPB, DNA	98.61
2z83_A	459	Helicase/nucleoside triphosphatase; hydrolase, mem	98.56
2v6i_A	431	RNA helicase; membrane, hydrolase, transmembrane,	98.46
2d7d_A	661	Uvrabc system protein B; helicase, protein-DNA-ADP	98.4
1rif_A	282	DAR protein, DNA helicase UVSW; bacteriophage, REC	98.35
2oca_A	510	DAR protein, ATP-dependent DNA helicase UVSW; ATP-	98.35
1gm5_A	780	RECG; helicase, replication restart; HET: DNA ADP;	98.23
1c4o_A	664	DNA nucleotide excision repair enzyme UVRB; uvrabc	98.18
2w00_A	1038	HSDR, R.ECOR124I; ATP-binding, DNA-binding, restri	98.16
3rc3_A	677	ATP-dependent RNA helicase SUPV3L1, mitochondrial;	97.9
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	97.61
1z63_A	500	Helicase of the SNF2/RAD54 hamily; protein-DNA com	97.59
2ipc_A	997	Preprotein translocase SECA subunit; nucleotide bi	97.08
2p6n_A	191	ATP-dependent RNA helicase DDX41; DEAD, structural	97.02
3dmq_A	968	RNA polymerase-associated protein RAPA; SWF2/SNF2,	96.93
3mwy_W	800	Chromo domain-containing protein 1; SWI2/SNF2 ATPa	96.58
3crv_A	551	XPD/RAD3 related DNA helicase; XPD helicase DNA re	93.96
3jux_A	822	Protein translocase subunit SECA; protein transloc	93.55
1w36_D	608	RECD, exodeoxyribonuclease V alpha chain; recombin	93.18
1z3i_X	644	Similar to RAD54-like; recombination ATPase helica	91.38
2vl7_A	540	XPD; helicase, unknown function; 2.25A {Sulfolobus	87.34
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	82.27
3kta_B	173	Chromosome segregation protein SMC; structural mai	80.37

>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=99.84  E-value=5.4e-21  Score=167.53  Aligned_cols=126  Identities=31%  Similarity=0.412  Sum_probs=109.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhC--CCCCcEEEEeecCCchHHHHHHhhcccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV--PKQKQTLLFSATMTDTLEQVKSITKKQV   78 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l--~~~~Q~il~SATl~~~v~~l~~~~l~~p   78 (189)
                      +|||||||.+++.. +.+.+++++++|+||||+|++.||.+++..|+..+  ++.+|+++||||+|.++.++++.++.+ 
T Consensus       183 vv~Tp~~l~~~l~~-~~~~l~~~~~lVlDEah~~~~~gf~~~~~~i~~~~~~~~~~q~l~~SAT~~~~~~~~~~~~l~~-  260 (434)
T 2db3_A          183 VIATPGRLLDFVDR-TFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLMFSATFPEEIQRMAGEFLKN-  260 (434)
T ss_dssp             EEECHHHHHHHHHT-TSCCCTTCCEEEEETHHHHTSTTTHHHHHHHHHCTTSCSSCEEEEEESCCCHHHHHHHHTTCSS-
T ss_pred             EEEChHHHHHHHHh-CCcccccCCeEEEccHhhhhccCcHHHHHHHHHhcCCCCCceEEEEeccCCHHHHHHHHHhccC-
Confidence            58999999999988 78899999999999999999999999999999885  578999999999999999999999987 


Q ss_pred             ceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecC
Q psy9740          79 GTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPY  158 (189)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~  158 (189)
                                                                             +..+...........+.|.++.++.
T Consensus       261 -------------------------------------------------------~~~i~~~~~~~~~~~i~~~~~~~~~  285 (434)
T 2db3_A          261 -------------------------------------------------------YVFVAIGIVGGACSDVKQTIYEVNK  285 (434)
T ss_dssp             -------------------------------------------------------CEEEEESSTTCCCTTEEEEEEECCG
T ss_pred             -------------------------------------------------------CEEEEeccccccccccceEEEEeCc
Confidence                                                                   3333444444556788999999999


Q ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         159 DVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       159 ~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      ..|...|.+++....     .++||||||+
T Consensus       286 ~~k~~~l~~~l~~~~-----~~~lVF~~t~  310 (434)
T 2db3_A          286 YAKRSKLIEILSEQA-----DGTIVFVETK  310 (434)
T ss_dssp             GGHHHHHHHHHHHCC-----TTEEEECSSH
T ss_pred             HHHHHHHHHHHHhCC-----CCEEEEEeCc
Confidence            999999999987642     3499999986

>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=99.78  E-value=7.1e-19  Score=151.13  Aligned_cols=127  Identities=29%  Similarity=0.395  Sum_probs=108.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|||||+|.+++.. +.+.+++++++|+||||.|++.+|...+..++..+++..|++++|||++.++.++++.++.+|  
T Consensus       159 vv~Tp~~l~~~l~~-~~~~~~~~~~vViDEah~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~--  235 (410)
T 2j0s_A          159 VAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDP--  235 (410)
T ss_dssp             EEECHHHHHHHHHT-TSSCCTTCCEEEEETHHHHTSTTTHHHHHHHHTTSCTTCEEEEEESCCCHHHHTTGGGTCSSC--
T ss_pred             EEcCHHHHHHHHHh-CCccHhheeEEEEccHHHHHhhhhHHHHHHHHHhCccCceEEEEEcCCCHHHHHHHHHHcCCC--
Confidence            58999999999988 788899999999999999999999999999999999999999999999999998888888773  


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                            ..+..........++.+++..++...
T Consensus       236 ------------------------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~  261 (410)
T 2j0s_A          236 ------------------------------------------------------IRILVKRDELTLEGIKQFFVAVEREE  261 (410)
T ss_dssp             ------------------------------------------------------EEECCCGGGCSCTTEEEEEEEESSTT
T ss_pred             ------------------------------------------------------EEEEecCccccCCCceEEEEEeCcHH
Confidence                                                                  33333444445678889999887655


Q ss_pred             -hHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         161 -KDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       161 -K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                       |...|.++++...    .+++||||||+
T Consensus       262 ~k~~~l~~~~~~~~----~~~~lVf~~~~  286 (410)
T 2j0s_A          262 WKFDTLCDLYDTLT----ITQAVIFCNTK  286 (410)
T ss_dssp             HHHHHHHHHHHHHT----SSEEEEECSSH
T ss_pred             hHHHHHHHHHHhcC----CCcEEEEEcCH
Confidence             8888888887754    67999999986

>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC, structural GE consortium, hydrolase; HET: AMP; 2.20A {Homo sapiens}

Probab=99.76  E-value=2.2e-18  Score=147.96  Aligned_cols=128  Identities=28%  Similarity=0.435  Sum_probs=106.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhh--CCC--CCcEEEEeecCCchHHHHHHhhcc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGA--VPK--QKQTLLFSATMTDTLEQVKSITKK   76 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~--l~~--~~Q~il~SATl~~~v~~l~~~~l~   76 (189)
                      +|||||+|.+++.. +.+.+++++++|+||||.|++.+|.+.+..++..  ++.  .+|++++|||++.++..+++.++.
T Consensus       155 ~v~Tp~~l~~~l~~-~~~~~~~~~~iViDEah~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~  233 (417)
T 2i4i_A          155 LVATPGRLVDMMER-GKIGLDFCKYLVLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLD  233 (417)
T ss_dssp             EEECHHHHHHHHHT-TSBCCTTCCEEEESSHHHHHHTTCHHHHHHHHTSSSCCCBTTBEEEEEESCCCHHHHHHHHHHCS
T ss_pred             EEEChHHHHHHHHc-CCcChhhCcEEEEEChhHhhccCcHHHHHHHHHhccCCCcCCcEEEEEEEeCCHHHHHHHHHHcC
Confidence            58999999999988 7888999999999999999999999999999985  443  689999999999999999998888


Q ss_pred             ccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEe
Q psy9740          77 QVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLC  156 (189)
Q Consensus        77 ~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~  156 (189)
                      +                                                        +..+.........+++.+.++.+
T Consensus       234 ~--------------------------------------------------------~~~~~~~~~~~~~~~i~~~~~~~  257 (417)
T 2i4i_A          234 E--------------------------------------------------------YIFLAVGRVGSTSENITQKVVWV  257 (417)
T ss_dssp             S--------------------------------------------------------CEEEEEC----CCSSEEEEEEEC
T ss_pred             C--------------------------------------------------------CEEEEeCCCCCCccCceEEEEEe
Confidence            7                                                        33333344445567888999999


Q ss_pred             cCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         157 PYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       157 ~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      +...|...|.++++..   ...+++||||||+
T Consensus       258 ~~~~~~~~l~~~l~~~---~~~~~~lVf~~~~  286 (417)
T 2i4i_A          258 EESDKRSFLLDLLNAT---GKDSLTLVFVETK  286 (417)
T ss_dssp             CGGGHHHHHHHHHHTC---CTTCEEEEECSSH
T ss_pred             ccHhHHHHHHHHHHhc---CCCCeEEEEECCH
Confidence            9999999999888763   3468999999986

>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=99.75  E-value=1.4e-18  Score=153.12  Aligned_cols=129  Identities=31%  Similarity=0.404  Sum_probs=75.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhc-cccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~-~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +|||||+|.+++...+.+.+++++++|+||||.|++ .+|...+..|+..+++++|++++|||++.++..++..++.+  
T Consensus       214 vv~Tp~~l~~~l~~~~~~~~~~~~~iViDEah~~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~--  291 (479)
T 3fmp_B          214 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPD--  291 (479)
T ss_dssp             EEECHHHHHHHHTTSCCCCGGGCCEEEECCHHHHHTSTTHHHHHHHHHTTSCTTSEEEEEESCCCHHHHHHHHHHSSS--
T ss_pred             EEECchHHHHHHHhcCCcCcccCCEEEEECHHHHhhcCCcHHHHHHHHhhCCccceEEEEeCCCCHHHHHHHHHHcCC--
Confidence            589999999999775678899999999999999997 68999999999999999999999999999999999999988  


Q ss_pred             eeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecC-
Q psy9740          80 TLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPY-  158 (189)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~-  158 (189)
                                                                            +..+...........+.|+++.++. 
T Consensus       292 ------------------------------------------------------~~~i~~~~~~~~~~~~~~~~~~~~~~  317 (479)
T 3fmp_B          292 ------------------------------------------------------PNVIKLKREEETLDTIKQYYVLCSSR  317 (479)
T ss_dssp             ------------------------------------------------------EEEEEEC-------------------
T ss_pred             ------------------------------------------------------CeEEeccccccCcCCceEEEEEeCCH
Confidence                                                                  4444455555567788899988875 


Q ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         159 DVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       159 ~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      ..|...|..++....    .+++||||+|++
T Consensus       318 ~~~~~~l~~~~~~~~----~~~~lvF~~s~~  344 (479)
T 3fmp_B          318 DEKFQALCNLYGAIT----IAQAMIFCHTRK  344 (479)
T ss_dssp             -------------------------------
T ss_pred             HHHHHHHHHHHhhcc----CCceEEEeCcHH
Confidence            568777777776543    679999999974

>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=99.75  E-value=3.6e-18  Score=146.31  Aligned_cols=127  Identities=31%  Similarity=0.410  Sum_probs=109.2

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|||||+|.+++.. +.+.+++++++|+||||.|++.+|...+..++..++++.|++++|||++.++.++++.++.+   
T Consensus       163 iv~T~~~l~~~l~~-~~~~~~~~~~vViDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~---  238 (414)
T 3eiq_A          163 IVGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRD---  238 (414)
T ss_dssp             EEECHHHHHHHHHH-TSSCSTTCCEEEECSHHHHHHTTTHHHHHHHHTTSCTTCEEEEECSCCCHHHHHHHTTTCSS---
T ss_pred             EEECHHHHHHHHHc-CCcccccCcEEEEECHHHhhccCcHHHHHHHHHhCCCCCeEEEEEEecCHHHHHHHHHHcCC---
Confidence            58999999999988 88889999999999999999999999999999999999999999999999999999999987   


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                           +..+...........+.++++.++...
T Consensus       239 -----------------------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (414)
T 3eiq_A          239 -----------------------------------------------------PIRILVKKEELTLEGIRQFYINVEREE  265 (414)
T ss_dssp             -----------------------------------------------------CEEECCCCCCCCTTSCCEEEEECSSST
T ss_pred             -----------------------------------------------------CEEEEecCCccCCCCceEEEEEeChHH
Confidence                                                                 333444455556678889888887654


Q ss_pred             -hHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         161 -KDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       161 -K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                       |...|.++++..    ..+++||||||+
T Consensus       266 ~~~~~l~~~~~~~----~~~~~lvf~~~~  290 (414)
T 3eiq_A          266 WKLDTLCDLYETL----TITQAVIFINTR  290 (414)
T ss_dssp             THHHHHHHHHHSS----CCSSCEEECSCH
T ss_pred             hHHHHHHHHHHhC----CCCcEEEEeCCH
Confidence             888888877654    368999999986

>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=99.73  E-value=1.6e-17  Score=141.97  Aligned_cols=128  Identities=31%  Similarity=0.400  Sum_probs=109.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhc-cccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~-~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +|||||+|.+++...+.+.+++++++|+||||.|++ .+|...+..+...++++.|++++|||++..+..++..++.+  
T Consensus       147 vv~T~~~l~~~~~~~~~~~~~~~~~iViDEah~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~--  224 (412)
T 3fht_A          147 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPD--  224 (412)
T ss_dssp             EEECHHHHHHHHTTSCSSCGGGCCEEEEETHHHHHSTTTTHHHHHHHHHTSCTTCEEEEEESCCCHHHHHHHHHHSSS--
T ss_pred             EEECchHHHHHHHhcCCcChhhCcEEEEeCHHHHhhcCCcHHHHHHHHhhCCCCceEEEEEeecCHHHHHHHHHhcCC--
Confidence            589999999999765778899999999999999997 68999999999999999999999999999999999999887  


Q ss_pred             eeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecC-
Q psy9740          80 TLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPY-  158 (189)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~-  158 (189)
                                                                            +..+...........+.++++.++. 
T Consensus       225 ------------------------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (412)
T 3fht_A          225 ------------------------------------------------------PNVIKLKREEETLDTIKQYYVLCSSR  250 (412)
T ss_dssp             ------------------------------------------------------CEEECCCGGGSSCTTEEEEEEECSSH
T ss_pred             ------------------------------------------------------CeEEeeccccccccCceEEEEEcCCh
Confidence                                                                  4444445555567788888888876 


Q ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         159 DVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       159 ~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      ..|...|.+++....    .+++||||||+
T Consensus       251 ~~~~~~l~~~~~~~~----~~~~lvf~~~~  276 (412)
T 3fht_A          251 DEKFQALCNLYGAIT----IAQAMIFCHTR  276 (412)
T ss_dssp             HHHHHHHHHHHHHHS----SSEEEEECSSH
T ss_pred             HHHHHHHHHHHhhcC----CCCEEEEeCCH
Confidence            458888888887654    68999999986

>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=99.71  E-value=4.1e-17  Score=138.75  Aligned_cols=127  Identities=27%  Similarity=0.421  Sum_probs=107.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhc-cccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~-~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +|+||+++..++.. +.+.+++++++|+||||.+++ .+|...+..++..+++..|++++|||++..+.++++.++.+|.
T Consensus       132 iv~T~~~l~~~~~~-~~~~~~~~~~vViDEaH~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~  210 (391)
T 1xti_A          132 VVGTPGRILALARN-KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPM  210 (391)
T ss_dssp             EEECHHHHHHHHHT-TSSCCTTCSEEEECSHHHHTSSHHHHHHHHHHHHTSCSSSEEEEEESSCCSTHHHHHHHHCSSCE
T ss_pred             EEECHHHHHHHHHc-CCccccccCEEEEeCHHHHhhccchHHHHHHHHhhCCCCceEEEEEeeCCHHHHHHHHHHcCCCe
Confidence            58999999999987 778899999999999999998 4899999999999999999999999999999999999888742


Q ss_pred             eeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecC-ccccchhhcceeEEEecC
Q psy9740          80 TLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESK-QDVATVEELDQYYVLCPY  158 (189)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~q~~~~~~~  158 (189)
                                                                              .+... ........+.+++..++.
T Consensus       211 --------------------------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~  234 (391)
T 1xti_A          211 --------------------------------------------------------EIFVDDETKLTLHGLQQYYVKLKD  234 (391)
T ss_dssp             --------------------------------------------------------EEECCCCCCCCCTTCEEEEEECCG
T ss_pred             --------------------------------------------------------EEEecCccccCcccceEEEEEcCc
Confidence                                                                    12222 222345678889999998


Q ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         159 DVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       159 ~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      ..|...|.++++..    ..+++||||+|+
T Consensus       235 ~~~~~~l~~~l~~~----~~~~~lvf~~~~  260 (391)
T 1xti_A          235 NEKNRKLFDLLDVL----EFNQVVIFVKSV  260 (391)
T ss_dssp             GGHHHHHHHHHHHS----CCSEEEEECSCH
T ss_pred             hhHHHHHHHHHHhc----CCCcEEEEeCcH
Confidence            89999999888764    478999999985

>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=99.71  E-value=1.3e-17  Score=139.97  Aligned_cols=84  Identities=30%  Similarity=0.397  Sum_probs=77.6

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhc-cccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~-~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      ||||||||++++...+.+.+++++++|+||||.|++ .+|...+..|+..+++++|+++||||+|.++..+++.++++|.
T Consensus       214 lV~TP~~l~~~l~~~~~~~l~~l~~lVlDEad~l~~~~~~~~~~~~i~~~~~~~~q~i~~SAT~~~~v~~~a~~~l~~p~  293 (300)
T 3fmo_B          214 VIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPN  293 (300)
T ss_dssp             EEECHHHHHHHHTTTCCCCGGGCSEEEETTHHHHHHSTTHHHHHHHHHTTSCTTCEEEEEESCCCHHHHHHHHHHSSSCE
T ss_pred             EEECHHHHHHHHHhcCCCChhhceEEEEeCHHHHhhccCcHHHHHHHHHhCCCCCEEEEEeccCCHHHHHHHHHHCCCCe
Confidence            699999999999765678899999999999999998 7899999999999999999999999999999999999999987


Q ss_pred             eeeee
Q psy9740          80 TLLFS   84 (189)
Q Consensus        80 ~~~~~   84 (189)
                      .+.+.
T Consensus       294 ~i~~~  298 (300)
T 3fmo_B          294 VIKLK  298 (300)
T ss_dssp             EEEEC
T ss_pred             EEEec
Confidence            66553

>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=99.70  E-value=3e-17  Score=132.77  Aligned_cols=84  Identities=39%  Similarity=0.541  Sum_probs=78.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|||||+|.+++.. +...+++++++|+||||.|++.+|.+++..|++.+++++|+++||||+|.+++++++.++++|..
T Consensus       156 ~v~Tp~~l~~~l~~-~~~~~~~~~~lViDEah~l~~~~~~~~~~~i~~~~~~~~q~~~~SAT~~~~~~~~~~~~l~~~~~  234 (242)
T 3fe2_A          156 CIATPGRLIDFLEC-GKTNLRRTTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIH  234 (242)
T ss_dssp             EEECHHHHHHHHHH-TSCCCTTCCEEEETTHHHHHHTTCHHHHHHHHTTSCSSCEEEEEESCCCHHHHHHHHHHCSSCEE
T ss_pred             EEECHHHHHHHHHc-CCCCcccccEEEEeCHHHHhhhCcHHHHHHHHHhCCccceEEEEEeecCHHHHHHHHHHCCCCEE
Confidence            58999999999988 78899999999999999999999999999999999999999999999999999999999999876


Q ss_pred             eeeec
Q psy9740          81 LLFSA   85 (189)
Q Consensus        81 ~~~~~   85 (189)
                      +.+..
T Consensus       235 i~~~~  239 (242)
T 3fe2_A          235 INIGA  239 (242)
T ss_dssp             EEECC
T ss_pred             EEecC
Confidence            66554

>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=99.70  E-value=3e-17  Score=139.54  Aligned_cols=128  Identities=34%  Similarity=0.472  Sum_probs=74.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +||||++|.+++.. +.+.+.+++++|+||||.+++.+|...+..++..+++..|++++|||++..+.++...++.+|. 
T Consensus       142 ~v~T~~~l~~~~~~-~~~~~~~~~~vIiDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~-  219 (394)
T 1fuu_A          142 VVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPV-  219 (394)
T ss_dssp             EEECHHHHHHHHHT-TSSCCTTCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEECSSCCHHHHHHHHHHCCSCE-
T ss_pred             EEECHHHHHHHHHh-CCcchhhCcEEEEEChHHhhCCCcHHHHHHHHHhCCCCceEEEEEEecCHHHHHHHHHhcCCCe-
Confidence            58999999999987 7788999999999999999999999999999999999999999999999999999888888742 


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                             .+..........++.+++..++...
T Consensus       220 -------------------------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~  244 (394)
T 1fuu_A          220 -------------------------------------------------------RILVKKDELTLEGIKQFYVNVEEEE  244 (394)
T ss_dssp             -------------------------------------------------------EEEECC-------------------
T ss_pred             -------------------------------------------------------EEEecCccccCCCceEEEEEcCchh
Confidence                                                                   2222333344566777777776544


Q ss_pred             -hHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         161 -KDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       161 -K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                       |...+.++++...    .+++||||||++
T Consensus       245 ~~~~~l~~~~~~~~----~~~~lVf~~~~~  270 (394)
T 1fuu_A          245 YKYECLTDLYDSIS----VTQAVIFCNTRR  270 (394)
T ss_dssp             ------------------------------
T ss_pred             hHHHHHHHHHhcCC----CCcEEEEECCHH
Confidence             7777777776543    679999999864

>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=99.69  E-value=1.4e-16  Score=136.11  Aligned_cols=126  Identities=25%  Similarity=0.375  Sum_probs=105.5

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +||||++|.+++.. +...+++++++|+||||.+++.+|...+..++..+++..|++++|||+|..+.+....++.+|  
T Consensus       143 vv~T~~~l~~~~~~-~~~~~~~~~~vIiDEaH~~~~~~~~~~~~~i~~~~~~~~~~i~lSAT~~~~~~~~~~~~~~~~--  219 (400)
T 1s2m_A          143 LVGTPGRVLDLASR-KVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKP--  219 (400)
T ss_dssp             EEECHHHHHHHHHT-TCSCCTTCCEEEEESHHHHSSHHHHHHHHHHHTTSCSSCEEEEEESCCCHHHHHHHHHHCSSC--
T ss_pred             EEEchHHHHHHHHh-CCcccccCCEEEEeCchHhhhhchHHHHHHHHHhCCcCceEEEEEecCCHHHHHHHHHHcCCC--
Confidence            58999999999987 778899999999999999999999999999999999999999999999999998888887763  


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                            ..+... ......++.+++..++...
T Consensus       220 ------------------------------------------------------~~~~~~-~~~~~~~~~~~~~~~~~~~  244 (400)
T 1s2m_A          220 ------------------------------------------------------YEINLM-EELTLKGITQYYAFVEERQ  244 (400)
T ss_dssp             ------------------------------------------------------EEESCC-SSCBCTTEEEEEEECCGGG
T ss_pred             ------------------------------------------------------eEEEec-cccccCCceeEEEEechhh
Confidence                                                                  111111 1233567888888888888


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      |...+..+++..    ..+++||||||+
T Consensus       245 k~~~l~~~~~~~----~~~~~lVf~~~~  268 (400)
T 1s2m_A          245 KLHCLNTLFSKL----QINQAIIFCNST  268 (400)
T ss_dssp             HHHHHHHHHHHS----CCSEEEEECSSH
T ss_pred             HHHHHHHHHhhc----CCCcEEEEEecH
Confidence            988888888764    368999999985

>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=99.68  E-value=1.7e-16  Score=134.55  Aligned_cols=127  Identities=30%  Similarity=0.422  Sum_probs=103.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhc-cccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~-~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +||||++|.+++.. +.+.+++++++|+||||.+.+ .++...+..+...++++.|++++|||++..+..+++.++.++ 
T Consensus       125 iv~T~~~l~~~~~~-~~~~~~~~~~iIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~-  202 (395)
T 3pey_A          125 IVGTPGTVLDLMRR-KLMQLQKIKIFVLDEADNMLDQQGLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYAKKIVPNA-  202 (395)
T ss_dssp             EEECHHHHHHHHHT-TCBCCTTCCEEEEETHHHHHHSTTHHHHHHHHHHTSCTTCEEEEEESCCCHHHHHHHHHHSCSC-
T ss_pred             EEEcHHHHHHHHHc-CCcccccCCEEEEEChhhhcCccccHHHHHHHHHhCCCCcEEEEEEecCCHHHHHHHHHhCCCC-
Confidence            58999999999987 788899999999999999998 689999999999999999999999999999999999888773 


Q ss_pred             eeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecC-
Q psy9740          80 TLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPY-  158 (189)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~-  158 (189)
                                                                             ..+...........+.+.+..+.. 
T Consensus       203 -------------------------------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~  227 (395)
T 3pey_A          203 -------------------------------------------------------NTLELQTNEVNVDAIKQLYMDCKNE  227 (395)
T ss_dssp             -------------------------------------------------------EEECCCGGGCSCTTEEEEEEECSSH
T ss_pred             -------------------------------------------------------eEEEccccccccccccEEEEEcCch
Confidence                                                                   233333444445677888888765 


Q ss_pred             cchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         159 DVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       159 ~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      ..|...+..+++.    ...+++||||||+
T Consensus       228 ~~~~~~l~~~~~~----~~~~~~lvf~~~~  253 (395)
T 3pey_A          228 ADKFDVLTELYGL----MTIGSSIIFVATK  253 (395)
T ss_dssp             HHHHHHHHHHHTT----TTSSEEEEECSCH
T ss_pred             HHHHHHHHHHHHh----ccCCCEEEEeCCH
Confidence            4566666666654    3478999999986

>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA dependent ATPase, RNA helicase; HET: ANP; 1.91A {Saccharomyces cerevisiae S288C}

Probab=99.67  E-value=7.1e-17  Score=145.92  Aligned_cols=136  Identities=30%  Similarity=0.394  Sum_probs=99.5

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCC-------CCcEEEEeecCCchHHHHHHh
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPK-------QKQTLLFSATMTDTLEQVKSI   73 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~-------~~Q~il~SATl~~~v~~l~~~   73 (189)
                      ||||||+|.+++.......++.++++|+||||.|+++||.+++..|+..+++       .+|+++||||+++.+.++++.
T Consensus       154 lV~Tp~~l~~~l~~~~~~~~~~~~~lViDEah~l~~~gf~~~~~~i~~~l~~~~~~~~~~~~~l~~SAT~~~~v~~~~~~  233 (579)
T 3sqw_A          154 VIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANN  233 (579)
T ss_dssp             EEECHHHHHHHHHHHHHHHCTTCCEEEEETHHHHTSTTTHHHHHHHHHHHHHHCSSCTTCCEEEEEESSCCTHHHHHTTT
T ss_pred             EEECHHHHHHHHHhccccccccCCEEEEEChHHhhcCCCHHHHHHHHHHhhhhhcccccCceEEEEeccCChHHHHHHHH
Confidence            6899999999998633557899999999999999999999999999887643       779999999999999999999


Q ss_pred             hccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeE
Q psy9740          74 TKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYY  153 (189)
Q Consensus        74 ~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~  153 (189)
                      ++.+|..+.+...                                                    ..........+.+.+
T Consensus       234 ~l~~~~~~~~~~~----------------------------------------------------~~~~~~~~~~i~~~~  261 (579)
T 3sqw_A          234 IMNKKECLFLDTV----------------------------------------------------DKNEPEAHERIDQSV  261 (579)
T ss_dssp             TCCSSEEEEEESS----------------------------------------------------CSSSCSSCTTEEEEE
T ss_pred             HcCCCceEEEeec----------------------------------------------------CccccccccccceEE
Confidence            9988532111110                                                    012233356677877


Q ss_pred             EEecCc-chHHH-HHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         154 VLCPYD-VKDGY-LVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       154 ~~~~~~-~K~~~-L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      ..++.. .+... +..+.+......+..++||||+|+
T Consensus       262 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iVF~~t~  298 (579)
T 3sqw_A          262 VISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTV  298 (579)
T ss_dssp             EEESSTTHHHHHHHHHHHHHHHHTTTCCEEEEECSSH
T ss_pred             EEecchhhhHHHHHHHHHHHHhhcCCCCcEEEECCcH
Confidence            777653 33333 333333333346678999999986

>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=99.67  E-value=7.6e-17  Score=144.53  Aligned_cols=136  Identities=32%  Similarity=0.418  Sum_probs=99.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCC-------CCCcEEEEeecCCchHHHHHHh
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP-------KQKQTLLFSATMTDTLEQVKSI   73 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~-------~~~Q~il~SATl~~~v~~l~~~   73 (189)
                      ||||||+|.+++.......++.++++|+||||.|++++|.+.+..|+..++       ..+|++++|||++..+.+++..
T Consensus       205 iv~Tp~~l~~~l~~~~~~~~~~~~~lViDEah~l~~~~f~~~~~~i~~~l~~~~~~~~~~~~~l~~SAT~~~~v~~~~~~  284 (563)
T 3i5x_A          205 VIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIGFRDDLETISGILNEKNSKSADNIKTLLFSATLDDKVQKLANN  284 (563)
T ss_dssp             EEECHHHHHHHHHHHHHHHCTTCCEEEEETHHHHTSTTTHHHHHHHHHHHHHHCSSCTTCCEEEEEESSCCTHHHHHTTT
T ss_pred             EEECcHHHHHHHHhccccccccceEEEEeCHHHHhccchHHHHHHHHHhhhhccccCccCceEEEEEccCCHHHHHHHHH
Confidence            689999999999863345789999999999999999999999999987764       3779999999999999999999


Q ss_pred             hccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeE
Q psy9740          74 TKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYY  153 (189)
Q Consensus        74 ~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~  153 (189)
                      ++.+|..+.+...                                                    ..........+.+.+
T Consensus       285 ~~~~~~~~~~~~~----------------------------------------------------~~~~~~~~~~~~~~~  312 (563)
T 3i5x_A          285 IMNKKECLFLDTV----------------------------------------------------DKNEPEAHERIDQSV  312 (563)
T ss_dssp             TCCSSEEEEEESS----------------------------------------------------CSSSCSSCTTEEEEE
T ss_pred             hcCCCceEEEecc----------------------------------------------------CCCCccccccCceEE
Confidence            9987532211110                                                    012233356677777


Q ss_pred             EEecCc-chHHHHHHHH-HHHHhcCCCCeEEEEecCC
Q psy9740         154 VLCPYD-VKDGYLVETV-RLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       154 ~~~~~~-~K~~~L~~lL-~~~~~~~~~~~~iIF~ns~  188 (189)
                      ..++.. .+...+...+ +.........++||||+|+
T Consensus       313 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iVF~~s~  349 (563)
T 3i5x_A          313 VISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTV  349 (563)
T ss_dssp             EEESSTTHHHHHHHHHHHHHHHHTTTCCEEEEECSCH
T ss_pred             EECchhHhhHHHHHHHHHHHHhhcCCCCcEEEEcCcH
Confidence            777653 3333333333 3333346678999999986

>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=99.67  E-value=1e-16  Score=128.12  Aligned_cols=81  Identities=40%  Similarity=0.526  Sum_probs=76.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|||||++.+++.. +.+.+++++++|+||||.|++.+|.+.+..|+..+++++|++++|||+|++++++++.++++|..
T Consensus       147 iv~Tp~~l~~~~~~-~~~~~~~~~~lViDEah~~~~~~~~~~~~~i~~~~~~~~~~l~~SAT~~~~~~~~~~~~l~~p~~  225 (228)
T 3iuy_A          147 IIATPGRLNDLQMN-NSVNLRSITYLVIDEADKMLDMEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMI  225 (228)
T ss_dssp             EEECHHHHHHHHHT-TCCCCTTCCEEEECCHHHHHHTTCHHHHHHHHHHSCSSCEEEEEESCCCHHHHHHHHTTCSSCEE
T ss_pred             EEECHHHHHHHHHc-CCcCcccceEEEEECHHHHhccchHHHHHHHHHhCCcCCeEEEEEeeCCHHHHHHHHHHCCCCEE
Confidence            58999999999987 88899999999999999999999999999999999999999999999999999999999999864


Q ss_pred             ee
Q psy9740          81 LL   82 (189)
Q Consensus        81 ~~   82 (189)
                      ++
T Consensus       226 i~  227 (228)
T 3iuy_A          226 VY  227 (228)
T ss_dssp             EE
T ss_pred             Ee
Confidence            43

>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=99.67  E-value=9.6e-17  Score=130.31  Aligned_cols=77  Identities=40%  Similarity=0.653  Sum_probs=71.2

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhh--CCC--CCcEEEEeecCCchHHHHHHhhcc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGA--VPK--QKQTLLFSATMTDTLEQVKSITKK   76 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~--l~~--~~Q~il~SATl~~~v~~l~~~~l~   76 (189)
                      +|||||+|.+++.. +.+.+++++++|+||||.|++.+|.+++..|+..  +++  ++|++++|||++.++.++++.++.
T Consensus       154 vv~Tp~~l~~~l~~-~~~~~~~~~~lViDEah~~~~~~~~~~~~~i~~~~~~~~~~~~q~l~~SAT~~~~~~~~~~~~l~  232 (253)
T 1wrb_A          154 LVATPGRLVDFIEK-NKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLY  232 (253)
T ss_dssp             EEECHHHHHHHHHT-TSBCCTTCCEEEEETHHHHHHTTCHHHHHHHHHSSCCCCGGGCEEEEEESSCCHHHHHHHHHHCS
T ss_pred             EEECHHHHHHHHHc-CCCChhhCCEEEEeCHHHHHhCchHHHHHHHHhhccCCCCCCcEEEEEEEeCCHHHHHHHHHHcC
Confidence            58999999999988 7788999999999999999999999999999995  454  789999999999999999999999


Q ss_pred             cc
Q psy9740          77 QV   78 (189)
Q Consensus        77 ~p   78 (189)
                      +|
T Consensus       233 ~~  234 (253)
T 1wrb_A          233 NY  234 (253)
T ss_dssp             SC
T ss_pred             CC
Confidence            84

>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=99.65  E-value=8.4e-16  Score=128.97  Aligned_cols=122  Identities=29%  Similarity=0.414  Sum_probs=102.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|+||++|.+++.. +.+.+++++++|+||||.+.+.+|...+..++..+++..|++++|||++.++.+..+.++.+   
T Consensus       127 iv~T~~~l~~~~~~-~~~~~~~~~~iIiDEah~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~---  202 (367)
T 1hv8_A          127 VVGTPGRILDHINR-GTLNLKNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFSATMPREILNLAKKYMGD---  202 (367)
T ss_dssp             EEECHHHHHHHHHT-TCSCTTSCCEEEEETHHHHHTTTTHHHHHHHHHTSCSSCEEEEECSSCCHHHHHHHHHHCCS---
T ss_pred             EEecHHHHHHHHHc-CCcccccCCEEEEeCchHhhhhchHHHHHHHHHhCCCCceEEEEeeccCHHHHHHHHHHcCC---
Confidence            58999999999987 77889999999999999999999999999999999999999999999999999888888876   


Q ss_pred             eeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhcceeEEEecCcc
Q psy9740          81 LLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEELDQYYVLCPYDV  160 (189)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~  160 (189)
                                                                           ...+...    ....+.+.++.++...
T Consensus       203 -----------------------------------------------------~~~~~~~----~~~~~~~~~~~~~~~~  225 (367)
T 1hv8_A          203 -----------------------------------------------------YSFIKAK----INANIEQSYVEVNENE  225 (367)
T ss_dssp             -----------------------------------------------------EEEEECC----SSSSSEEEEEECCGGG
T ss_pred             -----------------------------------------------------CeEEEec----CCCCceEEEEEeChHH
Confidence                                                                 2222211    1236778888888888


Q ss_pred             hHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         161 KDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       161 K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      |...|.++++     ....++||||+|+
T Consensus       226 ~~~~l~~~l~-----~~~~~~lvf~~~~  248 (367)
T 1hv8_A          226 RFEALCRLLK-----NKEFYGLVFCKTK  248 (367)
T ss_dssp             HHHHHHHHHC-----STTCCEEEECSSH
T ss_pred             HHHHHHHHHh-----cCCCcEEEEECCH
Confidence            9888888775     3467999999985

>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=99.64  E-value=3.6e-16  Score=126.15  Aligned_cols=82  Identities=37%  Similarity=0.493  Sum_probs=76.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|||||+|.+++.. +.+.+++++++|+||||.|++.+|...+..|+..+++.+|++++|||+|+++.++++.++++|..
T Consensus       153 lv~Tp~~l~~~l~~-~~~~~~~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~l~~p~~  231 (237)
T 3bor_A          153 VVGTPGRVFDMLNR-RYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEVTKKFMRDPIR  231 (237)
T ss_dssp             EEECHHHHHHHHHT-TSSCSTTCCEEEEESHHHHHHTTCHHHHHHHHHHSCTTCEEEEECSSCCHHHHHHHHHHCSSCEE
T ss_pred             EEECHHHHHHHHHh-CCcCcccCcEEEECCchHhhccCcHHHHHHHHHhCCCCCeEEEEEEecCHHHHHHHHHHCCCCEE
Confidence            58999999999987 78889999999999999999999999999999999999999999999999999999999999865


Q ss_pred             eee
Q psy9740          81 LLF   83 (189)
Q Consensus        81 ~~~   83 (189)
                      +.+
T Consensus       232 i~v  234 (237)
T 3bor_A          232 ILV  234 (237)
T ss_dssp             EC-
T ss_pred             EEe
Confidence            544

>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus stearothermophilus} SCOP: c.37.1.19

Probab=99.63  E-value=5.8e-16  Score=123.11  Aligned_cols=81  Identities=31%  Similarity=0.445  Sum_probs=75.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|||||++.+++.. +.+.+++++++|+||||.|++.+|...+..|++.+++++|++++|||+|.++.++++.++.+|..
T Consensus       130 iv~Tp~~l~~~l~~-~~~~~~~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~l~~SAT~~~~~~~~~~~~~~~p~~  208 (219)
T 1q0u_A          130 VIGTPGRINDFIRE-QALDVHTAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTF  208 (219)
T ss_dssp             EEECHHHHHHHHHT-TCCCGGGCCEEEECSHHHHHHTTCHHHHHHHHHTSCTTCEEEEEESCCCGGGHHHHHHHCSSCEE
T ss_pred             EEeCHHHHHHHHHc-CCCCcCcceEEEEcCchHHhhhChHHHHHHHHHhCCcccEEEEEecCCCHHHHHHHHHHcCCCeE
Confidence            58999999999987 78889999999999999999999999999999999999999999999999999999999999864


Q ss_pred             ee
Q psy9740          81 LL   82 (189)
Q Consensus        81 ~~   82 (189)
                      +.
T Consensus       209 ~~  210 (219)
T 1q0u_A          209 VH  210 (219)
T ss_dssp             EE
T ss_pred             EE
Confidence            43

>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=99.63  E-value=4.5e-16  Score=127.81  Aligned_cols=79  Identities=41%  Similarity=0.682  Sum_probs=73.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +|||||++.+++.....+.+++++++|+||||.|++.+|.+.+..|++.+++.+|++++|||+|.+++++++.++++|.
T Consensus       180 iv~Tp~~l~~~~~~~~~~~~~~l~~lViDEah~l~~~~~~~~l~~i~~~~~~~~q~l~~SAT~~~~v~~~~~~~l~~~~  258 (262)
T 3ly5_A          180 IVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEP  258 (262)
T ss_dssp             EEECHHHHHHHHHHCTTCCCTTCCEEEECSHHHHHHTTCHHHHHHHHHHSCSSSEEEEECSSCCHHHHHHHHHHCSSCC
T ss_pred             EEEcHHHHHHHHHccCCcccccCCEEEEcChHHHhhhhHHHHHHHHHHhCCCCCeEEEEEecCCHHHHHHHHHHcCCCC
Confidence            5899999999998755688999999999999999999999999999999999999999999999999999999988753

>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; HET: ADP; 2.15A {Homo sapiens}

Probab=99.63  E-value=6e-16  Score=124.22  Aligned_cols=84  Identities=37%  Similarity=0.628  Sum_probs=76.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|||||+|.+++.....+.+++++++|+||||.|++.+|.+.+..++..+++.+|++++|||++.+++++++.++.+|..
T Consensus       150 iv~Tp~~l~~~l~~~~~~~~~~~~~lViDEah~~~~~~~~~~~~~i~~~~~~~~~~l~~SAT~~~~~~~~~~~~~~~p~~  229 (236)
T 2pl3_A          150 LVCTPGRLLQHMDETVSFHATDLQMLVLDEADRILDMGFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEY  229 (236)
T ss_dssp             EEECHHHHHHHHHHCSSCCCTTCCEEEETTHHHHHHTTTHHHHHHHHHTSCTTSEEEEEESSCCHHHHHHHHHSCSSCEE
T ss_pred             EEECHHHHHHHHHhcCCcccccccEEEEeChHHHhcCCcHHHHHHHHHhCCCCCeEEEEEeeCCHHHHHHHHHhCCCCEE
Confidence            58999999999887456789999999999999999999999999999999999999999999999999999999999865


Q ss_pred             eeee
Q psy9740          81 LLFS   84 (189)
Q Consensus        81 ~~~~   84 (189)
                      +.+.
T Consensus       230 i~~~  233 (236)
T 2pl3_A          230 VWVH  233 (236)
T ss_dssp             EECC
T ss_pred             EEeC
Confidence            5443

>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=99.62  E-value=6.6e-16  Score=123.94  Aligned_cols=80  Identities=29%  Similarity=0.491  Sum_probs=74.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccc-cHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~-f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +|||||+|.+++.. +.+.+++++++|+||||.|++.| |.+.+..|++.+++.+|++++|||+|.++.++++.++.+|.
T Consensus       146 iv~Tp~~l~~~~~~-~~~~~~~~~~lViDEah~~~~~~~~~~~~~~i~~~~~~~~~~l~lSAT~~~~~~~~~~~~~~~p~  224 (230)
T 2oxc_A          146 AVGSPGRIKQLIEL-DYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPT  224 (230)
T ss_dssp             EEECHHHHHHHHHT-TSSCGGGCCEEEESSHHHHHSTTSSHHHHHHHHHHSCSSCEEEEEESCCCHHHHHHHTTTCSSCE
T ss_pred             EEECHHHHHHHHhc-CCcccccCCEEEeCCchHhhcCcchHHHHHHHHHhCCCCCeEEEEEeccCHHHHHHHHHHcCCCe
Confidence            58999999999987 78889999999999999999998 99999999999999999999999999999999999999875


Q ss_pred             ee
Q psy9740          80 TL   81 (189)
Q Consensus        80 ~~   81 (189)
                      .+
T Consensus       225 ~i  226 (230)
T 2oxc_A          225 FV  226 (230)
T ss_dssp             EE
T ss_pred             EE
Confidence            44

>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=99.62  E-value=8.7e-16  Score=125.23  Aligned_cols=82  Identities=40%  Similarity=0.703  Sum_probs=75.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +|||||+|.+++...+.+.+++++++|+||||+|++.+|...+..|+..+++.+|++++|||++.+++++++.++.+|..
T Consensus       165 ~v~Tp~~l~~~l~~~~~~~l~~~~~lViDEah~l~~~~~~~~l~~i~~~~~~~~~~l~~SAT~~~~v~~~~~~~l~~p~~  244 (249)
T 3ber_A          165 IIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVK  244 (249)
T ss_dssp             EEECHHHHHHHHHHSTTCCCTTCCEEEECSHHHHHHTTCHHHHHHHHHSSCSSSEEEEEESSCCHHHHHHHHHHCSSCEE
T ss_pred             EEECHHHHHHHHHcCCCcCccccCEEEEcChhhhhccChHHHHHHHHHhCCCCCeEEEEeccCCHHHHHHHHHHCCCCEE
Confidence            58999999999987566789999999999999999999999999999999999999999999999999999999999864


Q ss_pred             ee
Q psy9740          81 LL   82 (189)
Q Consensus        81 ~~   82 (189)
                      +.
T Consensus       245 i~  246 (249)
T 3ber_A          245 CA  246 (249)
T ss_dssp             EE
T ss_pred             EE
Confidence            43

>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=99.60  E-value=1.4e-15  Score=119.11  Aligned_cols=80  Identities=39%  Similarity=0.559  Sum_probs=75.2

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +||||+++.+++.. +.+.+++++++|+||||.|++.+|...+..++..+++++|++++|||+|.+++++++.++.+|..
T Consensus       124 ~v~T~~~l~~~~~~-~~~~~~~~~~iViDEah~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~p~~  202 (207)
T 2gxq_A          124 VVATPGRALDYLRQ-GVLDLSRVEVAVLDEADEMLSMGFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVL  202 (207)
T ss_dssp             EEECHHHHHHHHHH-TSSCCTTCSEEEEESHHHHHHTTCHHHHHHHHHTSCTTSEEEEECSSCCHHHHHHHHHHCSSCEE
T ss_pred             EEECHHHHHHHHHc-CCcchhhceEEEEEChhHhhccchHHHHHHHHHhCCccCeEEEEEEecCHHHHHHHHHHcCCCeE
Confidence            58999999999988 88899999999999999999999999999999999999999999999999999999999999754


Q ss_pred             e
Q psy9740          81 L   81 (189)
Q Consensus        81 ~   81 (189)
                      +
T Consensus       203 i  203 (207)
T 2gxq_A          203 I  203 (207)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.60  E-value=1.7e-15  Score=118.74  Aligned_cols=78  Identities=36%  Similarity=0.540  Sum_probs=73.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +|||||++.+++.. +...+++++++|+||||.|++.+|...+..++..+++++|++++|||+|.++.++++.++.+|.
T Consensus       126 ~v~T~~~l~~~~~~-~~~~~~~~~~lViDEah~~~~~~~~~~l~~i~~~~~~~~~~l~~SAT~~~~~~~~~~~~l~~p~  203 (206)
T 1vec_A          126 VIATPGRILDLIKK-GVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPY  203 (206)
T ss_dssp             EEECHHHHHHHHHT-TCSCCTTCCEEEEETHHHHTSTTTHHHHHHHHHHSCTTCEEEEEESCCCHHHHHHHHHHCSSCE
T ss_pred             EEeCHHHHHHHHHc-CCcCcccCCEEEEEChHHhHhhCcHHHHHHHHHhCCccceEEEEEeeCCHHHHHHHHHHcCCCe
Confidence            58999999999987 7788999999999999999999999999999999999999999999999999999999999874

>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=99.60  E-value=5.2e-15  Score=122.96  Aligned_cols=76  Identities=30%  Similarity=0.465  Sum_probs=71.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      +|+||++|.+++.. +.+.+++++++|+||||.+.+.+|...+..++..++...|++++|||+|..+.+....++.+
T Consensus       109 ~v~T~~~l~~~~~~-~~~~~~~~~~iViDEah~~~~~~~~~~~~~~~~~~~~~~~~~~~SAT~~~~~~~~~~~~~~~  184 (337)
T 2z0m_A          109 VVATPGRLLDLWSK-GVIDLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITN  184 (337)
T ss_dssp             EEECHHHHHHHHHT-TSCCGGGCSEEEEESHHHHHHTTCHHHHHHHHHHCTTCSEEEEEESCCCHHHHHHHHHHSCS
T ss_pred             EEECHHHHHHHHHc-CCcchhhCcEEEEEChHHhhccccHHHHHHHHhhCCcccEEEEEeCcCCHHHHHHHHHhcCC
Confidence            58999999999887 77889999999999999999999999999999999999999999999999999888888876

>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=99.58  E-value=2.8e-15  Score=119.05  Aligned_cols=83  Identities=36%  Similarity=0.594  Sum_probs=76.2

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +||||++|.+++.. +.+.+++++++|+||||.|++.+|...+..++..+++..|++++|||++.++.++++.++.+|..
T Consensus       135 iv~Tp~~l~~~~~~-~~~~~~~~~~iViDEah~~~~~~~~~~l~~i~~~~~~~~~~i~lSAT~~~~~~~~~~~~~~~p~~  213 (224)
T 1qde_A          135 VVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVR  213 (224)
T ss_dssp             EEECHHHHHHHHHT-TSSCCTTCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESSCCHHHHHHHHHHCSSCEE
T ss_pred             EEECHHHHHHHHHh-CCcchhhCcEEEEcChhHHhhhhhHHHHHHHHHhCCccCeEEEEEeecCHHHHHHHHHHCCCCEE
Confidence            58999999999988 78889999999999999999999999999999999999999999999999999999999999865


Q ss_pred             eeee
Q psy9740          81 LLFS   84 (189)
Q Consensus        81 ~~~~   84 (189)
                      +.+.
T Consensus       214 i~~~  217 (224)
T 1qde_A          214 ILVK  217 (224)
T ss_dssp             EC--
T ss_pred             EEec
Confidence            5544

>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=99.57  E-value=4.3e-15  Score=117.86  Aligned_cols=79  Identities=29%  Similarity=0.500  Sum_probs=73.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhc-cccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLS-GIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~-~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      +|+||+++.+++.. +.+.+++++++|+||||.|++ .+|...+..+++.+++++|++++|||++.+++++++.++.+|.
T Consensus       138 ~v~T~~~l~~~~~~-~~~~~~~~~~lViDEah~~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~p~  216 (220)
T 1t6n_A          138 VVGTPGRILALARN-KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPM  216 (220)
T ss_dssp             EEECHHHHHHHHHT-TSSCCTTCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEESCCCTTTHHHHHTTCSSCE
T ss_pred             EEeCHHHHHHHHHh-CCCCcccCCEEEEcCHHHHhcccCcHHHHHHHHHhCCCcCeEEEEEeecCHHHHHHHHHHcCCCe
Confidence            58999999999987 778899999999999999997 5899999999999999999999999999999999999999975


Q ss_pred             e
Q psy9740          80 T   80 (189)
Q Consensus        80 ~   80 (189)
                      .
T Consensus       217 ~  217 (220)
T 1t6n_A          217 E  217 (220)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.55  E-value=8.6e-15  Score=118.04  Aligned_cols=85  Identities=29%  Similarity=0.428  Sum_probs=74.0

Q ss_pred             CeeehHhhHHHHhcCC-CcccCceeeEEeccchhhhc---cccHHHHHHHHhhCC-CCCcEEEEeecCCchHHHHHHhhc
Q psy9740           1 VIATPGRLADHLDTCN-TFSLNRIKFLVLDEADRLLS---GIFDEQMRTIFGAVP-KQKQTLLFSATMTDTLEQVKSITK   75 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~-~~~l~~l~~lVlDEaD~ll~---~~f~~~i~~Il~~l~-~~~Q~il~SATl~~~v~~l~~~~l   75 (189)
                      +|||||+|.+++.... .+.+++++++|+||||.|++   .+|.+.+..++..+. .+.|++++|||+|.++.++++.++
T Consensus       153 ~v~Tp~~l~~~l~~~~~~~~~~~~~~lViDEah~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~SAT~~~~v~~~~~~~l  232 (245)
T 3dkp_A          153 LVTTPNRLIYLLKQDPPGIDLASVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNL  232 (245)
T ss_dssp             EEECHHHHHHHHHSSSCSCCCTTCCEEEESSHHHHHHHC--CHHHHHHHHHHHCCCTTCEEEEEESSCCHHHHHHHHHHS
T ss_pred             EEECHHHHHHHHHhCCCCcccccCcEEEEeChHHhcccccccHHHHHHHHHHhcCCCCcEEEEEeccCCHHHHHHHHHhC
Confidence            5899999999998732 57899999999999999998   579999999998875 588999999999999999999999


Q ss_pred             cccceeeeec
Q psy9740          76 KQVGTLLFSA   85 (189)
Q Consensus        76 ~~p~~~~~~~   85 (189)
                      ++|..+.++.
T Consensus       233 ~~p~~i~~~~  242 (245)
T 3dkp_A          233 DNVISVSIGA  242 (245)
T ss_dssp             SSCEEEEECC
T ss_pred             CCCEEEEeCC
Confidence            9987665543

>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling, archaea, isomeras; 2.35A {Thermotoga maritima} PDB: 3p4y_A 3p4x_A*

Probab=99.53  E-value=4.9e-15  Score=127.89  Aligned_cols=117  Identities=20%  Similarity=0.255  Sum_probs=87.5

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccc----------hhhhc-cccHHH-HHHHHhhCC-----------CCCcEE
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEA----------DRLLS-GIFDEQ-MRTIFGAVP-----------KQKQTL   57 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEa----------D~ll~-~~f~~~-i~~Il~~l~-----------~~~Q~i   57 (189)
                      +|||||+|.+++..   +.+++++++|+|||          |+|++ .||.++ +..+++.++           ...|++
T Consensus       121 iv~Tp~~l~~~l~~---~~~~~~~~iViDEaH~~~~~~~~~d~~l~~~~~~~~~~~~i~~~~~~~~~~~~l~~~~~~~~i  197 (414)
T 3oiy_A          121 LVFSTQFVSKNREK---LSQKRFDFVFVDDVDAVLKASRNIDTLLMMVGIPEEIIRKAFSTIKQGKIYERPKNLKPGILV  197 (414)
T ss_dssp             EEEEHHHHHHCHHH---HTTCCCSEEEESCHHHHHHCHHHHHHHHHHTTCCHHHHHHHHHHHHHTCCCCCCTTCCCCEEE
T ss_pred             EEECHHHHHHHHHH---hccccccEEEEeChHhhhhccchhhhHHhhcCCcHHHHHHHHHhcccchhhhhcccCCCceEE
Confidence            58999999988864   77889999999999          67777 899999 899999887           889999


Q ss_pred             EEeec-CCchHHH-HHHhhccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCccee
Q psy9740          58 LFSAT-MTDTLEQ-VKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVF  135 (189)
Q Consensus        58 l~SAT-l~~~v~~-l~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  135 (189)
                      ++||| .|..+.. +.+.++.-                                                          
T Consensus       198 ~~SAT~~~~~~~~~~~~~~~~~----------------------------------------------------------  219 (414)
T 3oiy_A          198 VSSATAKPRGIRPLLFRDLLNF----------------------------------------------------------  219 (414)
T ss_dssp             ESSCCSSCCSSTTHHHHHHHSC----------------------------------------------------------
T ss_pred             EEecCCCcchhHHHHHHHhhcc----------------------------------------------------------
Confidence            99999 6666542 22222221                                                          


Q ss_pred             EeecCccccchhhcceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         136 VWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       136 ~~~~~~~~~~~~~l~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                        ..........++.|.++.+   .|...|.++++. .    .+++||||||+
T Consensus       220 --~~~~~~~~~~~i~~~~~~~---~~~~~l~~~l~~-~----~~~~lVF~~~~  262 (414)
T 3oiy_A          220 --TVGRLVSVARNITHVRISS---RSKEKLVELLEI-F----RDGILIFAQTE  262 (414)
T ss_dssp             --CSSCCCCCCCSEEEEEESS---CCHHHHHHHHHH-H----CSSEEEEESSH
T ss_pred             --CcCccccccccchheeecc---CHHHHHHHHHHH-c----CCCEEEEECCH
Confidence              1122334456778888766   466677888876 2    48999999986

>4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A

Probab=99.50  E-value=8.4e-15  Score=141.67  Aligned_cols=118  Identities=19%  Similarity=0.294  Sum_probs=90.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccc----------hhhhc-cccHHH-HHHHHhhCC-----------CCCcEE
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEA----------DRLLS-GIFDEQ-MRTIFGAVP-----------KQKQTL   57 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEa----------D~ll~-~~f~~~-i~~Il~~l~-----------~~~Q~i   57 (189)
                      ||||||+|.+++..   +.+++++++|+|||          |+||+ .||.++ +..|++.+|           +.+|++
T Consensus       178 lV~Tp~rL~~~l~~---l~~~~l~~lViDEaH~l~~~~r~~Dr~L~~~gf~~~~i~~il~~l~~~~~~~~~~~~~~~q~l  254 (1104)
T 4ddu_A          178 LVFSTQFVSKNREK---LSQKRFDFVFVDDVDAVLKASRNIDTLLMMVGIPEEIIRKAFSTIKQGKIYERPKNLKPGILV  254 (1104)
T ss_dssp             EEEEHHHHHHSHHH---HHTSCCSEEEESCHHHHTTSSHHHHHHHHTSSCCHHHHHHHHHHHHHTSCCCCCSSCCCCEEE
T ss_pred             EEECHHHHHHHHHh---hcccCcCEEEEeCCCccccccccchhhhHhcCCCHHHHHHHHHhcccchhhhhhccCCCceEE
Confidence            59999999998864   77899999999999          78888 999999 999999888           889999


Q ss_pred             EEeec-CCchHHHH-HHhhccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCccee
Q psy9740          58 LFSAT-MTDTLEQV-KSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVF  135 (189)
Q Consensus        58 l~SAT-l~~~v~~l-~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  135 (189)
                      +|||| .|..+... .+.++.                                                           
T Consensus       255 l~SAT~~p~~~~~~~~~~~l~-----------------------------------------------------------  275 (1104)
T 4ddu_A          255 VSSATAKPRGIRPLLFRDLLN-----------------------------------------------------------  275 (1104)
T ss_dssp             EECBSSCCCSSTTHHHHHHTC-----------------------------------------------------------
T ss_pred             EEcCCCCcHHHHHHHhhccee-----------------------------------------------------------
Confidence            99999 56665432 222221                                                           


Q ss_pred             EeecCccccchhhcceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         136 VWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       136 ~~~~~~~~~~~~~l~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                       +.+........++.|.++.+   .|...|.++|+..     .+++||||||++
T Consensus       276 -i~v~~~~~~~~~i~~~~~~~---~k~~~L~~ll~~~-----~~~~LVF~~s~~  320 (1104)
T 4ddu_A          276 -FTVGRLVSVARNITHVRISS---RSKEKLVELLEIF-----RDGILIFAQTEE  320 (1104)
T ss_dssp             -CCCCBCCCCCCCEEEEEESC---CCHHHHHHHHHHH-----CSSEEEEESSSH
T ss_pred             -EEeccCCCCcCCceeEEEec---CHHHHHHHHHHhc-----CCCEEEEECcHH
Confidence             11233344567788888777   4677778888773     489999999973

>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=99.49  E-value=4.4e-14  Score=132.33  Aligned_cols=76  Identities=21%  Similarity=0.301  Sum_probs=59.8

Q ss_pred             CeeehHhh-HHHHhcC-----CCcccCceeeEEeccchhhh-ccc---------------cHHHHHHHHhhCC-------
Q psy9740           1 VIATPGRL-ADHLDTC-----NTFSLNRIKFLVLDEADRLL-SGI---------------FDEQMRTIFGAVP-------   51 (189)
Q Consensus         1 lV~TPgrl-~~ll~~~-----~~~~l~~l~~lVlDEaD~ll-~~~---------------f~~~i~~Il~~l~-------   51 (189)
                      +||||||| .+++..+     +.+.++.++|+|+||||.|| +.+               |.+++..|+..++       
T Consensus       176 v~gTpgrlgfD~L~D~m~~~~~~l~lr~~~~lVlDEaD~mLiDea~tplIisg~~~~~~~~~~~i~~iv~~l~~~~~y~v  255 (844)
T 1tf5_A          176 TYSTNNELGFDYLRDNMVLYKEQMVQRPLHFAVIDEVDSILIDEARTPLIISGQAAKSTKLYVQANAFVRTLKAEKDYTY  255 (844)
T ss_dssp             EEEEHHHHHHHHHHHTTCSSGGGCCCCCCCEEEEETHHHHHTTTTTCEEEEEEEEECCCHHHHHHHHHHTTCCSSSSBCC
T ss_pred             EEECchhhhHHHHHHhhhcchhhhcccCCCEEEECchhhhhhhccccchhhcCCcccchhHHHHHHHHHHhCccccccee
Confidence            58999999 6776652     24678999999999999999 664               7899999999997       


Q ss_pred             --CCCcEE-----------------EEeecCCc---hHHHH--HHhhcc
Q psy9740          52 --KQKQTL-----------------LFSATMTD---TLEQV--KSITKK   76 (189)
Q Consensus        52 --~~~Q~i-----------------l~SATl~~---~v~~l--~~~~l~   76 (189)
                        +.+|++                 |||||++.   .+...  |+.++.
T Consensus       256 d~k~rq~~lt~~g~~~~e~~~~i~~Lfsat~~~~~~~i~~al~A~~l~~  304 (844)
T 1tf5_A          256 DIKTKAVQLTEEGMTKAEKAFGIDNLFDVKHVALNHHINQALKAHVAMQ  304 (844)
T ss_dssp             CSSSCCCCBCHHHHHHHHHHTTCSCTTSGGGHHHHHHHHHHHHHHHTCC
T ss_pred             ccccceEEecHHHHHHHHHHhCccccCCCccchhHHHHHHHHHHHHHhh
Confidence              478998                 99999874   44443  444444

>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=99.47  E-value=1.3e-13  Score=133.33  Aligned_cols=77  Identities=13%  Similarity=0.168  Sum_probs=66.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCch--HHHHHHhhcccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDT--LEQVKSITKKQV   78 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~--v~~l~~~~l~~p   78 (189)
                      +|+|||+|.+++.. +...++++++||+||||.|.+.+|...+..++..+++..|++++|||+|..  +.+........|
T Consensus       270 lV~Tpe~L~~~L~~-~~~~l~~l~lVVIDEaH~l~d~~rg~~~e~ii~~l~~~~qvl~lSATipn~~e~a~~l~~~~~~~  348 (1108)
T 3l9o_A          270 LVMTTEILRSMLYR-GSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQP  348 (1108)
T ss_dssp             EEEEHHHHHHHHHH-CSSHHHHEEEEEEETGGGTTSHHHHHHHHHHHHHSCTTSEEEEEECSCSSCHHHHHHHHHHTCSC
T ss_pred             EEeChHHHHHHHHc-CccccccCCEEEEhhhhhccccchHHHHHHHHHhcCCCceEEEEcCCCCCHHHHHHHHHhhcCCC
Confidence            58999999999988 777899999999999999999999999999999999999999999999875  334444444444

>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=99.45  E-value=2.4e-13  Score=127.28  Aligned_cols=52  Identities=15%  Similarity=0.225  Sum_probs=31.2

Q ss_pred             CeeehHhh-HHHHhcCC-----CcccCceeeEEeccchhhh-cc---------------ccHHHHHHHHhhCCC
Q psy9740           1 VIATPGRL-ADHLDTCN-----TFSLNRIKFLVLDEADRLL-SG---------------IFDEQMRTIFGAVPK   52 (189)
Q Consensus         1 lV~TPgrl-~~ll~~~~-----~~~l~~l~~lVlDEaD~ll-~~---------------~f~~~i~~Il~~l~~   52 (189)
                      +||||||| .+++..+-     .+.+++++|+|+||||.|| +.               +|..++..|+..+++
T Consensus       167 vvgTpgrl~fDyLrd~~~~~~~~~~~~~l~~lVlDEaD~mLiD~a~tpLIiSg~~~~~~~~y~~i~~iv~~L~~  240 (853)
T 2fsf_A          167 TYGTNNEYGFDYLRDNMAFSPEERVQRKLHYALVDEVDSILIDEARTPLIISGPAEDSSEMYKRVNKIIPHLIR  240 (853)
T ss_dssp             EEEEHHHHHHHHHHHTTCSSGGGCCCCSCCEEEESCHHHHTTTTTTCEEEEEEC--------------------
T ss_pred             EEECCchhhHHHHHhhhhccHhHhcccCCcEEEECchHHHHHhcCcccccccCCCccchhHHHHHHHHHHhchh
Confidence            58999999 79888621     3678999999999999999 54               367889999999975

>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=99.41  E-value=3.1e-14  Score=137.22  Aligned_cols=116  Identities=19%  Similarity=0.258  Sum_probs=87.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhC-----------CCCCcEEEEeecCCchHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV-----------PKQKQTLLFSATMTDTLEQ   69 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l-----------~~~~Q~il~SATl~~~v~~   69 (189)
                      +|||||+|.+++..     +++++++|+||||.|++  |..+++.++..+           +..+|++++|||++.. ..
T Consensus       159 lV~TP~~L~~~l~~-----L~~l~~lViDEah~~l~--~~~~~~~i~~~lgf~~~~~~~~~~~~~q~~l~SAT~t~~-~~  230 (1054)
T 1gku_B          159 VITTTQFLSKHYRE-----LGHFDFIFVDDVDAILK--ASKNVDKLLHLLGFHYDLKTKSWVGEARGCLMVSTATAK-KG  230 (1054)
T ss_dssp             EEEEHHHHHHCSTT-----SCCCSEEEESCHHHHHT--STHHHHHHHHHTTEEEETTTTEEEECCSSEEEECCCCSC-CC
T ss_pred             EEEcHHHHHHHHHH-----hccCCEEEEeChhhhhh--ccccHHHHHHHhCcchhhhhhhcccCCceEEEEecCCCc-hh
Confidence            58999999998764     77999999999999999  567888887776           3578999999999988 66


Q ss_pred             HHHhhccccceeeeeccccchHHHHHHhhhhhhccccccchhHHHHHhhhhHHHHHHhhcCCcceeEeecCccccchhhc
Q psy9740          70 VKSITKKQVGTLLFSATMTDTLEQVKSITKKQVGTMKKKSSYQAFLLCQQHIVAQIITQLDPVHVFVWESKQDVATVEEL  149 (189)
Q Consensus        70 l~~~~l~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  149 (189)
                      ++..++.++                                                        ..+.+........++
T Consensus       231 ~~~~~~~~~--------------------------------------------------------~~i~v~~~~~~~~~i  254 (1054)
T 1gku_B          231 KKAELFRQL--------------------------------------------------------LNFDIGSSRITVRNV  254 (1054)
T ss_dssp             TTHHHHHHH--------------------------------------------------------HCCCCSCCEECCCCE
T ss_pred             HHHHHhhcc--------------------------------------------------------eEEEccCcccCcCCc
Confidence            666666552                                                        112223334445677


Q ss_pred             ceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         150 DQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       150 ~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      .|+++   ...|...|.++++..     .+++||||||+
T Consensus       255 ~~~~~---~~~k~~~L~~ll~~~-----~~~~LVF~~t~  285 (1054)
T 1gku_B          255 EDVAV---NDESISTLSSILEKL-----GTGGIIYARTG  285 (1054)
T ss_dssp             EEEEE---SCCCTTTTHHHHTTS-----CSCEEEEESSH
T ss_pred             eEEEe---chhHHHHHHHHHhhc-----CCCEEEEEcCH
Confidence            77776   456777777777653     47899999996

>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=99.40  E-value=1.1e-12  Score=123.41  Aligned_cols=66  Identities=14%  Similarity=0.236  Sum_probs=56.9

Q ss_pred             CeeehHhh-HHHHhcC-----CCcccCceeeEEeccchhhh-c---------------cccHHHHHHHHhhCC-------
Q psy9740           1 VIATPGRL-ADHLDTC-----NTFSLNRIKFLVLDEADRLL-S---------------GIFDEQMRTIFGAVP-------   51 (189)
Q Consensus         1 lV~TPgrl-~~ll~~~-----~~~~l~~l~~lVlDEaD~ll-~---------------~~f~~~i~~Il~~l~-------   51 (189)
                      +||||||| .+++..+     +.+.++.+.|+|+||||.|| +               .+|..++..|+..++       
T Consensus       204 vygTpgrlgfDyLrD~m~~~~~~l~lr~l~~lIVDEaDsmLiDeartPLiiSg~~~~~~~~y~~i~~iv~~L~~~~dy~v  283 (922)
T 1nkt_A          204 TYGTNNEFGFDYLRDNMAHSLDDLVQRGHHYAIVDEVDSILIDEARTPLIISGPADGASNWYTEFARLAPLMEKDVHYEV  283 (922)
T ss_dssp             EEEEHHHHHHHHHHHTTCSSGGGCCCCCCCEEEETTHHHHHTTGGGSCEEEEEECCCCHHHHHHHHHHHHHSCBTTTEEE
T ss_pred             EEECchHhhHHHHHhhhhccHhhhccCCCCEEEEeChHHHHHhcCccceeecCCCCcchhHHHHHHHHHHhCccccccee
Confidence            58999999 7888762     24678999999999999999 4               358899999999998       


Q ss_pred             --CCCcEE-----------------EEeecCCch
Q psy9740          52 --KQKQTL-----------------LFSATMTDT   66 (189)
Q Consensus        52 --~~~Q~i-----------------l~SATl~~~   66 (189)
                        +.+|++                 +||||++.-
T Consensus       284 Dek~rqv~Lte~G~~~~e~~l~i~~Lfsat~~~l  317 (922)
T 1nkt_A          284 DLRKRTVGVHEKGVEFVEDQLGIDNLYEAANSPL  317 (922)
T ss_dssp             ETTTTEEEECHHHHHHHHHHHTCSSTTCSTTCCH
T ss_pred             ccCcceEEecHhHHHHHHHHhCCccccCCcchhH
Confidence              789999                 999999863

>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase, tramp, exosome, DEAD, nucleotide-binding; HET: ADP; 2.90A {Saccharomyces cerevisiae}

Probab=99.33  E-value=9.6e-12  Score=119.46  Aligned_cols=71  Identities=13%  Similarity=0.181  Sum_probs=63.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHh
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSI   73 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~   73 (189)
                      +|+||++|..++.. +...+++++++|+||||.|.+.++...++.++..++++.|++++|||+|.. .+++.+
T Consensus       172 vV~Tpe~L~~~L~~-~~~~l~~l~lVViDEaH~l~d~~rg~~~e~il~~l~~~~~il~LSATi~n~-~e~a~~  242 (1010)
T 2xgj_A          172 LVMTTEILRSMLYR-GSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNA-MEFAEW  242 (1010)
T ss_dssp             EEEEHHHHHHHHHH-TCTTGGGEEEEEEETGGGGGCTTTHHHHHHHHHHSCTTCEEEEEECCCTTH-HHHHHH
T ss_pred             EEEcHHHHHHHHHc-CcchhhcCCEEEEechhhhcccchhHHHHHHHHhcCCCCeEEEEcCCCCCH-HHHHHH
Confidence            58999999999987 778899999999999999999999999999999999999999999998764 344444

>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A

Probab=99.31  E-value=3.9e-12  Score=121.99  Aligned_cols=73  Identities=18%  Similarity=0.219  Sum_probs=64.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITK   75 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l   75 (189)
                      +|+|||+|..++.. ....++++.++|+||||.+.+.+|...+..++..++++.|++++|||+|... +++.++.
T Consensus       127 lV~Tpe~L~~~l~~-~~~~l~~l~lvViDEaH~l~d~~~g~~~e~ii~~l~~~v~iIlLSAT~~n~~-ef~~~l~  199 (997)
T 4a4z_A          127 LIMTTEILRSMLYR-GADLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATVPNTY-EFANWIG  199 (997)
T ss_dssp             EEEEHHHHHHHHHH-TCSGGGGEEEEEECCTTCCCTTCTTCCHHHHHHHSCTTCEEEEEECCCTTHH-HHHHHHH
T ss_pred             EEECHHHHHHHHHh-CchhhcCCCEEEEECcccccccchHHHHHHHHHhcccCCCEEEEcCCCCChH-HHHHHHh
Confidence            58999999999987 7778999999999999999999999999999999999999999999997654 5555554

>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=99.30  E-value=6.4e-12  Score=116.20  Aligned_cols=73  Identities=22%  Similarity=0.242  Sum_probs=63.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITK   75 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l   75 (189)
                      +|+|||++..++.. +...+++++++|+||||.+.+.++...++.++..++++.|++++|||++. ..++++++.
T Consensus       118 iv~Tpe~l~~~~~~-~~~~l~~~~~vIiDE~H~l~~~~r~~~~~~ll~~l~~~~~ii~lSATl~n-~~~~~~~l~  190 (720)
T 2zj8_A          118 IIATAEKFDSLLRH-GSSWIKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSATIGN-PEELAEWLN  190 (720)
T ss_dssp             EEECHHHHHHHHHH-TCTTGGGEEEEEEETGGGGGCTTTHHHHHHHHHHHBTTBEEEEEECCCSC-HHHHHHHTT
T ss_pred             EEECHHHHHHHHHc-ChhhhhcCCEEEEECCcccCCCcccHHHHHHHHHhhcCCeEEEEcCCcCC-HHHHHHHhC
Confidence            58999999999987 66678999999999999999989999999999998878999999999975 466666553

>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural genomics, structural genomics consortium, SGC, activator, ATP-binding, DNA-binding; HET: ADP; 2.80A {Homo sapiens}

Probab=99.30  E-value=2.6e-12  Score=103.50  Aligned_cols=71  Identities=21%  Similarity=0.308  Sum_probs=59.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhh-hccccH-HHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhcccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRL-LSGIFD-EQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQV   78 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~l-l~~~f~-~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p   78 (189)
                      +|||||||.+++..    .+++++++|+||||.+ ++.+|. ..++.++...+ +.|++++|||++.+.  +++.+...|
T Consensus       159 vv~Tpg~l~~~l~~----~l~~~~~lVlDEah~~~~~~~~~~~~l~~i~~~~~-~~~~il~SAT~~~~~--~~~~~~~~p  231 (235)
T 3llm_A          159 MFCTVGVLLRKLEA----GIRGISHVIVDEIHERDINTDFLLVVLRDVVQAYP-EVRIVLMSATIDTSM--FCEYFFNCP  231 (235)
T ss_dssp             EEEEHHHHHHHHHH----CCTTCCEEEECCTTSCCHHHHHHHHHHHHHHHHCT-TSEEEEEECSSCCHH--HHHHTTSCC
T ss_pred             EEECHHHHHHHHHh----hhcCCcEEEEECCccCCcchHHHHHHHHHHHhhCC-CCeEEEEecCCCHHH--HHHHcCCCC
Confidence            58999999999975    3899999999999997 888887 57778877764 789999999999886  666665544

>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=99.29  E-value=5.7e-12  Score=114.79  Aligned_cols=75  Identities=16%  Similarity=0.180  Sum_probs=58.8

Q ss_pred             CeeehHhhH------HHHhcCCCcccCceeeEEeccchhhhccc--cHHHHHH--HHhhCCCCCcEEEEeecCCchHHHH
Q psy9740           1 VIATPGRLA------DHLDTCNTFSLNRIKFLVLDEADRLLSGI--FDEQMRT--IFGAVPKQKQTLLFSATMTDTLEQV   70 (189)
Q Consensus         1 lV~TPgrl~------~ll~~~~~~~l~~l~~lVlDEaD~ll~~~--f~~~i~~--Il~~l~~~~Q~il~SATl~~~v~~l   70 (189)
                      ||+||++|.      +++.  +...++++.++|+||||.+.++|  |.+++..  ++....++.|++++|||++..+.+.
T Consensus       140 lv~Tpe~L~~~~~~~~~l~--~~~~~~~i~~iViDEAH~is~~g~dfr~~~~~l~~l~~~~~~~~ii~lSAT~~~~v~~~  217 (591)
T 2v1x_A          140 IYVTPEKIAKSKMFMSRLE--KAYEARRFTRIAVDEVHCCSQWGHDFRPDYKALGILKRQFPNASLIGLTATATNHVLTD  217 (591)
T ss_dssp             EEECHHHHHSCHHHHHHHH--HHHHTTCEEEEEEETGGGGSTTCTTCCGGGGGGGHHHHHCTTSEEEEEESSCCHHHHHH
T ss_pred             EEEChhHhhccHHHHHHHH--hhhhccCCcEEEEECcccccccccccHHHHHHHHHHHHhCCCCcEEEEecCCCHHHHHH
Confidence            589999874      3332  34567899999999999999988  8887765  3444445799999999999999888


Q ss_pred             HHhhccc
Q psy9740          71 KSITKKQ   77 (189)
Q Consensus        71 ~~~~l~~   77 (189)
                      +..++..
T Consensus       218 i~~~l~~  224 (591)
T 2v1x_A          218 AQKILCI  224 (591)
T ss_dssp             HHHHTTC
T ss_pred             HHHHhCC
Confidence            8777765

>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=99.28  E-value=1.2e-11  Score=114.00  Aligned_cols=73  Identities=15%  Similarity=0.198  Sum_probs=62.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhC---CCCCcEEEEeecCCchHHHHHHhhc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV---PKQKQTLLFSATMTDTLEQVKSITK   75 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l---~~~~Q~il~SATl~~~v~~l~~~~l   75 (189)
                      +|+|||++..++.. +...+++++++|+||||.+.+.++...++.++..+   .++.|++++|||++. ..++++++.
T Consensus       118 iv~Tpe~l~~~l~~-~~~~l~~~~~vIiDE~H~l~~~~r~~~~~~ll~~l~~~~~~~~ii~lSATl~n-~~~~~~~l~  193 (702)
T 2p6r_A          118 IVTTSEKADSLIRN-RASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSATAPN-VTEIAEWLD  193 (702)
T ss_dssp             EEEEHHHHHHHHHT-TCSGGGGCCEEEETTGGGGGCTTTHHHHHHHHHHHHHHCTTCEEEEEECCCTT-HHHHHHHTT
T ss_pred             EEECHHHHHHHHHc-ChhHHhhcCEEEEeeeeecCCCCcccHHHHHHHHHHhcCcCceEEEECCCcCC-HHHHHHHhC
Confidence            58999999999987 66679999999999999999988888888887766   578999999999985 566766553

>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}

Probab=99.25  E-value=2.4e-11  Score=112.12  Aligned_cols=72  Identities=21%  Similarity=0.236  Sum_probs=62.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITK   75 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l   75 (189)
                      +|+|||++..++.. +...+++++++|+||||.+.+.++...++.++..++ +.|++++|||++. ..++++++-
T Consensus       125 iv~Tpe~l~~~~~~-~~~~l~~~~~vIiDE~H~l~~~~~~~~l~~i~~~~~-~~~ii~lSATl~n-~~~~~~~l~  196 (715)
T 2va8_A          125 IITTYEKLDSLWRH-RPEWLNEVNYFVLDELHYLNDPERGPVVESVTIRAK-RRNLLALSATISN-YKQIAKWLG  196 (715)
T ss_dssp             EEECHHHHHHHHHH-CCGGGGGEEEEEECSGGGGGCTTTHHHHHHHHHHHH-TSEEEEEESCCTT-HHHHHHHHT
T ss_pred             EEEcHHHHHHHHhC-ChhHhhccCEEEEechhhcCCcccchHHHHHHHhcc-cCcEEEEcCCCCC-HHHHHHHhC
Confidence            58999999999987 666799999999999999998889999999988877 8999999999975 466666553

>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=99.20  E-value=1.8e-11  Score=109.72  Aligned_cols=69  Identities=20%  Similarity=0.142  Sum_probs=51.2

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccc--cHHHHHHH---HhhCCCCCcEEEEeecCCchHHHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI--FDEQMRTI---FGAVPKQKQTLLFSATMTDTLEQVK   71 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~--f~~~i~~I---l~~l~~~~Q~il~SATl~~~v~~l~   71 (189)
                      +|+||++|...... ..+...++.++|+||||.+.++|  |.+.+..|   ...+| +.|++++|||.+..+.+-.
T Consensus       119 lv~Tpe~l~~~~~~-~~l~~~~~~~vViDEaH~i~~~g~~fr~~~~~l~~l~~~~~-~~~~i~lSAT~~~~~~~~i  192 (523)
T 1oyw_A          119 LYIAPERLMLDNFL-EHLAHWNPVLLAVDEAHCISQWGHDFRPEYAALGQLRQRFP-TLPFMALTATADDTTRQDI  192 (523)
T ss_dssp             EEECHHHHTSTTHH-HHHTTSCEEEEEESSGGGGCTTSSCCCHHHHGGGGHHHHCT-TSCEEEEESCCCHHHHHHH
T ss_pred             EEECHHHHhChHHH-HHHhhCCCCEEEEeCccccCcCCCccHHHHHHHHHHHHhCC-CCCEEEEeCCCCHHHHHHH
Confidence            57999999632222 23445889999999999999987  77776654   44444 6899999999998876543

>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=99.16  E-value=1.6e-10  Score=102.28  Aligned_cols=64  Identities=17%  Similarity=0.272  Sum_probs=49.2

Q ss_pred             CeeehHhhHHHHhcCCCc-ccCceeeEEeccchhhhccccHHHH-HHHHhh-C---CCCCcEEEEeecCCc
Q psy9740           1 VIATPGRLADHLDTCNTF-SLNRIKFLVLDEADRLLSGIFDEQM-RTIFGA-V---PKQKQTLLFSATMTD   65 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~-~l~~l~~lVlDEaD~ll~~~f~~~i-~~Il~~-l---~~~~Q~il~SATl~~   65 (189)
                      +|||||+|.+++.. +.+ .+++++++|+||||.+.+.+....+ ...+.. +   ++..|++++|||.+.
T Consensus       109 ~v~T~~~l~~~~~~-~~~~~~~~~~~vViDEah~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~lSAT~~~  178 (556)
T 4a2p_A          109 IVVTPQILVNSFED-GTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGV  178 (556)
T ss_dssp             EEECHHHHHHHHHS-SSCCCSTTCSEEEEETGGGCSTTSHHHHHHHHHHHHHHCC---CCEEEEEESCCCC
T ss_pred             EEECHHHHHHHHHh-CcccccccCCEEEEECCcccCCcchHHHHHHHHHHhhhcccCCCCeEEEEeCCccc
Confidence            58999999999987 666 8999999999999999988744333 333322 1   356899999999854

>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*

Probab=99.15  E-value=6.6e-11  Score=108.27  Aligned_cols=63  Identities=21%  Similarity=0.304  Sum_probs=49.3

Q ss_pred             CeeehHhhHHHHhcCCCc-ccCceeeEEeccchhhhccc-cHHHHHHHHhh-----CCCCCcEEEEeecCC
Q psy9740           1 VIATPGRLADHLDTCNTF-SLNRIKFLVLDEADRLLSGI-FDEQMRTIFGA-----VPKQKQTLLFSATMT   64 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~-~l~~l~~lVlDEaD~ll~~~-f~~~i~~Il~~-----l~~~~Q~il~SATl~   64 (189)
                      +|||||+|.+++.. +.+ .+++++++|+||||.+.... |...+...+..     .++..|++++|||..
T Consensus       115 iv~Tp~~L~~~l~~-~~~~~l~~~~~vViDEaH~~~~~~~~~~i~~~~l~~~~~~~~~~~~~il~LTATp~  184 (696)
T 2ykg_A          115 IILTPQILVNNLKK-GTIPSLSIFTLMIFDECHNTSKQHPYNMIMFNYLDQKLGGSSGPLPQVIGLTASVG  184 (696)
T ss_dssp             EEECHHHHHHHHHT-TSSCCGGGCSEEEEETGGGCSTTCHHHHHHHHHHHHHHTTCCSCCCEEEEEESCCC
T ss_pred             EEECHHHHHHHHhc-CcccccccccEEEEeCCCcccCcccHHHHHHHHHHHhhcccCCCCCeEEEEeCccc
Confidence            58999999999987 666 79999999999999998554 44444333332     246789999999987

>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=99.14  E-value=4.7e-10  Score=96.24  Aligned_cols=68  Identities=22%  Similarity=0.309  Sum_probs=55.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQ   69 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~   69 (189)
                      +|+||++|...+.. +.+.+.++.++|+||||.+.+......+...+....+..+++++|||.+....+
T Consensus       105 vv~T~~~l~~~~~~-~~~~~~~~~~vIiDEaH~~~~~~~~~~~~~~~~~~~~~~~~l~lTaTp~~~~~~  172 (494)
T 1wp9_A          105 IVATPQTIENDLLA-GRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEK  172 (494)
T ss_dssp             EEECHHHHHHHHHT-TSCCTTSCSEEEEETGGGCSTTCHHHHHHHHHHHHCSSCCEEEEESCSCSSHHH
T ss_pred             EEecHHHHHHHHhc-CCcchhhceEEEEECCcccCCCCcHHHHHHHHHhcCCCCeEEEEecCCCCCcHH
Confidence            58999999999987 778899999999999999987655555666666667789999999999754333

>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET: ANP; 2.14A {Mus musculus}

Probab=99.11  E-value=2.8e-10  Score=100.32  Aligned_cols=64  Identities=19%  Similarity=0.303  Sum_probs=50.6

Q ss_pred             CeeehHhhHHHHhcCCCc-ccCceeeEEeccchhhhccc-cHHHHHHHHhhC-----CCCCcEEEEeecCCc
Q psy9740           1 VIATPGRLADHLDTCNTF-SLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAV-----PKQKQTLLFSATMTD   65 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~-~l~~l~~lVlDEaD~ll~~~-f~~~i~~Il~~l-----~~~~Q~il~SATl~~   65 (189)
                      +|||||+|.+++.. +.+ .+++++++|+||||.+.+.+ +...+...+...     ....|++++|||.+.
T Consensus       106 ~v~T~~~l~~~~~~-~~~~~~~~~~~vViDEah~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~lSAT~~~  176 (555)
T 3tbk_A          106 IILTPQILVNNLNN-GAIPSLSVFTLMIFDECHNTSKNHPYNQIMFRYLDHKLGESRDPLPQVVGLTASVGV  176 (555)
T ss_dssp             EEECHHHHHHHHHT-SSSCCGGGCSEEEETTGGGCSTTCHHHHHHHHHHHHHTSSCCSCCCEEEEEESCCCC
T ss_pred             EEECHHHHHHHHhc-CcccccccCCEEEEECccccCCcchHHHHHHHHHHhhhccccCCCCeEEEEecCccc
Confidence            58999999999987 666 89999999999999999875 444444444432     246799999999854

>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=99.11  E-value=1.8e-10  Score=107.88  Aligned_cols=69  Identities=20%  Similarity=0.254  Sum_probs=51.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchh-hhccc-cHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhh
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADR-LLSGI-FDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSIT   74 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~-ll~~~-f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~   74 (189)
                      +|+|||++..++..  ...+.+++++|+||||. +++.. +...+..|.... ++.|++++|||++.  +.+++.+
T Consensus       189 ~v~T~G~l~r~l~~--~~~l~~~~~lIlDEah~R~ld~d~~~~~l~~l~~~~-~~~~iIl~SAT~~~--~~l~~~~  259 (773)
T 2xau_A          189 KYMTDGMLLREAME--DHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRR-PDLKIIIMSATLDA--EKFQRYF  259 (773)
T ss_dssp             EEEEHHHHHHHHHH--STTCTTEEEEEECSGGGCCHHHHHHHHHHHHHHHHC-TTCEEEEEESCSCC--HHHHHHT
T ss_pred             EEECHHHHHHHHhh--CccccCCCEEEecCccccccchHHHHHHHHHHHHhC-CCceEEEEeccccH--HHHHHHh
Confidence            47999999988765  35699999999999996 77754 344555565544 57899999999964  4454433

>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=99.06  E-value=3.5e-10  Score=113.50  Aligned_cols=75  Identities=13%  Similarity=0.189  Sum_probs=56.0

Q ss_pred             CeeehHhhHHHHhcC-CCcccCceeeEEeccchhhhccccHHHHHHH-------HhhCCCCCcEEEEeecCCchHHHHHH
Q psy9740           1 VIATPGRLADHLDTC-NTFSLNRIKFLVLDEADRLLSGIFDEQMRTI-------FGAVPKQKQTLLFSATMTDTLEQVKS   72 (189)
Q Consensus         1 lV~TPgrl~~ll~~~-~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~I-------l~~l~~~~Q~il~SATl~~~v~~l~~   72 (189)
                      |||||||+..++... ..-.+++++++|+||+|.|.+. ....++.+       ...+++..|++++|||++ +.+++++
T Consensus      1024 iV~TPEkld~llr~~~~~~~l~~v~lvViDE~H~l~d~-rg~~le~il~rl~~i~~~~~~~~riI~lSATl~-N~~dla~ 1101 (1724)
T 4f92_B         1024 IISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGGE-NGPVLEVICSRMRYISSQIERPIRIVALSSSLS-NAKDVAH 1101 (1724)
T ss_dssp             EEECHHHHHHHHTTTTTCHHHHSCSEEEECCGGGGGST-THHHHHHHHHHHHHHHHTTSSCCEEEEEESCBT-THHHHHH
T ss_pred             EEECHHHHHHHHhCcccccccceeeEEEeechhhcCCC-CCccHHHHHHHHHHHHhhcCCCceEEEEeCCCC-CHHHHHH
Confidence            699999998887652 2335899999999999988764 44444433       345678899999999997 4678887


Q ss_pred             hhccc
Q psy9740          73 ITKKQ   77 (189)
Q Consensus        73 ~~l~~   77 (189)
                      ++-..
T Consensus      1102 WL~~~ 1106 (1724)
T 4f92_B         1102 WLGCS 1106 (1724)
T ss_dssp             HHTCC
T ss_pred             HhCCC
Confidence            76544

>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=99.06  E-value=2.7e-12  Score=117.56  Aligned_cols=67  Identities=16%  Similarity=0.117  Sum_probs=53.2

Q ss_pred             eeehHhhHHHHhcCCC--------cccCceeeEEeccchhhhccccHHHHHHHHhhCC-CCCcEEEEeecCCchHHHH
Q psy9740           2 IATPGRLADHLDTCNT--------FSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP-KQKQTLLFSATMTDTLEQV   70 (189)
Q Consensus         2 V~TPgrl~~ll~~~~~--------~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~-~~~Q~il~SATl~~~v~~l   70 (189)
                      ++|||++++++.. +.        ..+++++++|+||||.| +.+|...+..|+..++ +++|+++||||++..+.++
T Consensus       250 ~~tp~~~i~~~t~-~~l~~~l~~~~~l~~~~~iViDEah~~-~~~~~~~~~~i~~~l~~~~~q~il~SAT~~~~~~~~  325 (618)
T 2whx_A          250 DHTGREIVDLMCH-ATFTTRLLSSTRVPNYNLIVMDEAHFT-DPCSVAARGYISTRVEMGEAAAIFMTATPPGSTDPF  325 (618)
T ss_dssp             CCCSSSCEEEEEH-HHHHHHHHHCSSCCCCSEEEEESTTCC-SHHHHHHHHHHHHHHHHTSCEEEEECSSCTTCCCSS
T ss_pred             ccCCCceEEEECh-HHHHHHHhccccccCCeEEEEECCCCC-CccHHHHHHHHHHHhcccCccEEEEECCCchhhhhh
Confidence            5677776554433 22        34899999999999998 8889999999998886 6899999999998876543

>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=99.02  E-value=1.9e-10  Score=106.08  Aligned_cols=61  Identities=15%  Similarity=0.132  Sum_probs=53.5

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCc--EEEEeecCCch
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQ--TLLFSATMTDT   66 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q--~il~SATl~~~   66 (189)
                      +|+|||||+   .. +.+.+++++++|+||| +|++.+|...+..|++.++..+|  ++++|||++..
T Consensus       301 lV~TPGrLl---~~-~~l~l~~l~~lVlDEA-H~l~~~~~~~l~~Il~~l~~~~~~llil~SAT~~~~  363 (666)
T 3o8b_A          301 TYSTYGKFL---AD-GGCSGGAYDIIICDEC-HSTDSTTILGIGTVLDQAETAGARLVVLATATPPGS  363 (666)
T ss_dssp             EEEEHHHHH---HT-TSCCTTSCSEEEETTT-TCCSHHHHHHHHHHHHHTTTTTCSEEEEEESSCTTC
T ss_pred             EEECcHHHH---hC-CCcccCcccEEEEccc-hhcCccHHHHHHHHHHhhhhcCCceEEEECCCCCcc
Confidence            589999983   44 7788999999999999 78899999999999999998777  56779999884

>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=99.02  E-value=1.2e-09  Score=102.06  Aligned_cols=63  Identities=19%  Similarity=0.348  Sum_probs=49.8

Q ss_pred             CeeehHhhHHHHhcCCCc-ccCceeeEEeccchhhhccc-cHHHHHHHHhhC----CCCCcEEEEeecCC
Q psy9740           1 VIATPGRLADHLDTCNTF-SLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAV----PKQKQTLLFSATMT   64 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~-~l~~l~~lVlDEaD~ll~~~-f~~~i~~Il~~l----~~~~Q~il~SATl~   64 (189)
                      +|||||+|.+++.. +.+ .+++++++|+||||.+.+.+ +...+..++...    .+..|++++|||.+
T Consensus       350 vv~Tp~~l~~~l~~-~~~~~~~~~~~iViDEaH~~~~~~~~~~i~~~~~~~~~~~~~~~~~~l~lSATp~  418 (797)
T 4a2q_A          350 IVVTPQILVNSFED-GTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVG  418 (797)
T ss_dssp             EEECHHHHHHHHHS-SSCCCGGGCSEEEETTGGGCSTTSHHHHHHHHHHHHHHTTCCCCCEEEEEESCCC
T ss_pred             EEEchHHHHHHHHh-ccccccccCCEEEEECccccCCCccHHHHHHHHHHHhhccCCCCCeEEEEcCCcc
Confidence            58999999999987 666 89999999999999999775 333343444331    45689999999985

>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=99.01  E-value=5e-12  Score=111.12  Aligned_cols=67  Identities=16%  Similarity=0.144  Sum_probs=49.8

Q ss_pred             eeehHhhHHHHhcCCCc--------ccCceeeEEeccchhhhccccHHHHHHHHhhC-CCCCcEEEEeecCCchHHHH
Q psy9740           2 IATPGRLADHLDTCNTF--------SLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV-PKQKQTLLFSATMTDTLEQV   70 (189)
Q Consensus         2 V~TPgrl~~ll~~~~~~--------~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l-~~~~Q~il~SATl~~~v~~l   70 (189)
                      |+|||++++++.. +.+        .+++++++|+||||.| +.+|...+..+...+ ++++|++++|||+++.+..+
T Consensus        72 v~Tp~~l~~~l~~-~~l~~~~~~~~~~~~l~~vViDEah~~-~~~~~~~~~~~~~~~~~~~~~~l~~SAT~~~~~~~~  147 (440)
T 1yks_A           72 HGSGREVIDAMCH-ATLTYRMLEPTRVVNWEVIIMDEAHFL-DPASIAARGWAAHRARANESATILMTATPPGTSDEF  147 (440)
T ss_dssp             CCCSSCCEEEEEH-HHHHHHHTSSSCCCCCSEEEETTTTCC-SHHHHHHHHHHHHHHHTTSCEEEEECSSCTTCCCSS
T ss_pred             ccCCccceeeecc-cchhHhhhCcccccCccEEEEECcccc-CcchHHHHHHHHHHhccCCceEEEEeCCCCchhhhh
Confidence            7899998876654 333        3899999999999999 555555555554444 36899999999998875533

>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=99.00  E-value=1.6e-09  Score=108.73  Aligned_cols=74  Identities=15%  Similarity=0.213  Sum_probs=53.8

Q ss_pred             CeeehHhhHHHHhcCCC--cccCceeeEEeccchhhhccccHHHHHHHH-------hhCCCCCcEEEEeecCCchHHHHH
Q psy9740           1 VIATPGRLADHLDTCNT--FSLNRIKFLVLDEADRLLSGIFDEQMRTIF-------GAVPKQKQTLLFSATMTDTLEQVK   71 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~--~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il-------~~l~~~~Q~il~SATl~~~v~~l~   71 (189)
                      ||+||+++-.++.. ..  -.++++++||+||+|.+-+ +....++.++       ..+++..|++++|||+| ++++++
T Consensus       185 lVtTpEkld~llr~-~~~~~~l~~v~~vIiDEvH~l~d-~RG~~lE~~l~rl~~~~~~~~~~~riI~LSATl~-N~~dvA  261 (1724)
T 4f92_B          185 IVCTPEKWDIITRK-GGERTYTQLVRLIILDEIHLLHD-DRGPVLEALVARAIRNIEMTQEDVRLIGLSATLP-NYEDVA  261 (1724)
T ss_dssp             EEECHHHHHHHTTS-STTHHHHTTEEEEEETTGGGGGS-TTHHHHHHHHHHHHHHHHHHTCCCEEEEEECSCT-THHHHH
T ss_pred             EEECHHHHHHHHcC-CccchhhcCcCEEEEecchhcCC-ccHHHHHHHHHHHHHHHHhCCCCCcEEEEecccC-CHHHHH
Confidence            69999998766654 22  2489999999999996544 4544444443       34577899999999997 477888


Q ss_pred             Hhhccc
Q psy9740          72 SITKKQ   77 (189)
Q Consensus        72 ~~~l~~   77 (189)
                      +++-.+
T Consensus       262 ~wL~~~  267 (1724)
T 4f92_B          262 TFLRVD  267 (1724)
T ss_dssp             HHTTCC
T ss_pred             HHhCCC
Confidence            766543

>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=98.91  E-value=5.8e-09  Score=99.41  Aligned_cols=63  Identities=19%  Similarity=0.348  Sum_probs=49.9

Q ss_pred             CeeehHhhHHHHhcCCCc-ccCceeeEEeccchhhhccc-cHHHHHHHHhhC----CCCCcEEEEeecCC
Q psy9740           1 VIATPGRLADHLDTCNTF-SLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAV----PKQKQTLLFSATMT   64 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~-~l~~l~~lVlDEaD~ll~~~-f~~~i~~Il~~l----~~~~Q~il~SATl~   64 (189)
                      +|+|||+|.+++.. +.+ .+++++++|+||||.+...+ +...+..++...    .+..|++++|||.+
T Consensus       350 vI~Tp~~L~~~l~~-~~~~~l~~~~liViDEaH~~~~~~~~~~i~~~~~~~~~~~~~~~~~~l~LSATp~  418 (936)
T 4a2w_A          350 IVVTPQILVNSFED-GTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVG  418 (936)
T ss_dssp             EEECHHHHHHHHHS-SSCCCGGGCSEEEEETGGGCSTTCHHHHHHHHHHHHHHTTCSCCCEEEEEESCCC
T ss_pred             EEecHHHHHHHHHc-CccccccCCCEEEEECccccCCCccHHHHHHHHHHHhhccCCCcCeEEEecCCcc
Confidence            58999999999987 666 89999999999999998775 444444444332    45689999999985

>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=98.84  E-value=1.4e-09  Score=99.45  Aligned_cols=65  Identities=18%  Similarity=0.199  Sum_probs=47.6

Q ss_pred             CeeehHhhHHHHhc-----CCCcccCceeeEEeccchhhhccc-cHHHHHHHHhhC-------------CCCCcEEEEee
Q psy9740           1 VIATPGRLADHLDT-----CNTFSLNRIKFLVLDEADRLLSGI-FDEQMRTIFGAV-------------PKQKQTLLFSA   61 (189)
Q Consensus         1 lV~TPgrl~~ll~~-----~~~~~l~~l~~lVlDEaD~ll~~~-f~~~i~~Il~~l-------------~~~~Q~il~SA   61 (189)
                      ||+||++|.+++..     .+.+.+.+++++|+||||.+...+ |...+...+...             .+..|++++||
T Consensus       110 lv~Tp~~L~~~l~~~~~~~~~~~~~~~~~lvViDEaH~~~~~~~~~~i~~~~l~~~~~~~~~~~~~~~~~~~~~il~lTA  189 (699)
T 4gl2_A          110 IISTAQILENSLLNLENGEDAGVQLSDFSLIIIDECHHTNKEAVYNNIMRHYLMQKLKNNRLKKENKPVIPLPQILGLTA  189 (699)
T ss_dssp             EEEEHHHHHHHTC--------CCCGGGCSEEEEESGGGCBTTBSSCSHHHHHHHHHHHHHHHHC----CCCCCEEEEECS
T ss_pred             EEECHHHHHHHHhccccccccceecccCcEEEEECccccCccchHHHHHHHHHHhhhcccccccccccCCCCCEEEEecc
Confidence            58999999998842     156789999999999999997654 444444333221             15679999999


Q ss_pred             cCCc
Q psy9740          62 TMTD   65 (189)
Q Consensus        62 Tl~~   65 (189)
                      |.+.
T Consensus       190 Tp~~  193 (699)
T 4gl2_A          190 SPGV  193 (699)
T ss_dssp             CCCC
T ss_pred             cccc
Confidence            9986

>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3 catalytic subunit; nucleotide-binding, capsid protein; 2.75A {Murray valley encephalitis virus}

Probab=98.78  E-value=8.4e-11  Score=108.66  Aligned_cols=65  Identities=17%  Similarity=0.146  Sum_probs=47.5

Q ss_pred             eeehHhhHHHHhcCCC--------cccCceeeEEeccchhhhccccHHHHHHHHhhCC-CCCcEEEEeecCCchHH
Q psy9740           2 IATPGRLADHLDTCNT--------FSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP-KQKQTLLFSATMTDTLE   68 (189)
Q Consensus         2 V~TPgrl~~ll~~~~~--------~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~-~~~Q~il~SATl~~~v~   68 (189)
                      ++||+++++++.. +.        ..+++++++|+||||.| +.++...+..+...++ +.+|++++|||++..+.
T Consensus       305 v~tp~~ll~~l~~-~~l~~~l~~~~~l~~l~lvViDEaH~~-~~~~~~~~~~l~~~~~~~~~~vl~~SAT~~~~i~  378 (673)
T 2wv9_A          305 EHSGNEIVDVMCH-ATLTHRLMSPLRVPNYNLFVMDEAHFT-DPASIAARGYIATRVEAGEAAAIFMTATPPGTSD  378 (673)
T ss_dssp             CCCSCCCEEEEEH-HHHHHHHHSSSCCCCCSEEEEESTTCC-CHHHHHHHHHHHHHHHTTSCEEEEECSSCTTCCC
T ss_pred             cCCHHHHHHHHHh-hhhHHHHhcccccccceEEEEeCCccc-CccHHHHHHHHHHhccccCCcEEEEcCCCChhhh
Confidence            6788888765554 32        36899999999999998 4334445555554443 68999999999987754

>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=98.78  E-value=1.6e-08  Score=98.36  Aligned_cols=66  Identities=17%  Similarity=0.220  Sum_probs=53.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      +||||+.+.      +.+.++++.++|+||||++     ......+++.++.+.|++++|||.++....++...+.+
T Consensus       710 vV~T~~ll~------~~~~~~~l~lvIiDEaH~~-----g~~~~~~l~~l~~~~~vl~lSATp~p~~l~~~~~~~~~  775 (1151)
T 2eyq_A          710 LIGTHKLLQ------SDVKFKDLGLLIVDEEHRF-----GVRHKERIKAMRANVDILTLTATPIPRTLNMAMSGMRD  775 (1151)
T ss_dssp             EEECTHHHH------SCCCCSSEEEEEEESGGGS-----CHHHHHHHHHHHTTSEEEEEESSCCCHHHHHHHTTTSE
T ss_pred             EEECHHHHh------CCccccccceEEEechHhc-----ChHHHHHHHHhcCCCCEEEEcCCCChhhHHHHHhcCCC
Confidence            589997653      4577999999999999994     33456667777788999999999988888777777666

>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=98.71  E-value=3.7e-09  Score=92.95  Aligned_cols=64  Identities=13%  Similarity=0.107  Sum_probs=48.8

Q ss_pred             eeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhh-CCCCCcEEEEeecCCchHH
Q psy9740           2 IATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGA-VPKQKQTLLFSATMTDTLE   68 (189)
Q Consensus         2 V~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~-l~~~~Q~il~SATl~~~v~   68 (189)
                      ++|||.+.+.+..  ...+++++++|+||||.+ +.++...+..+... .+++.|++++|||+|..+.
T Consensus        92 ~~t~~~l~~~l~~--~~~l~~~~~iViDEah~~-~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~  156 (451)
T 2jlq_A           92 LMCHATFTTRLLS--STRVPNYNLIVMDEAHFT-DPCSVAARGYISTRVEMGEAAAIFMTATPPGSTD  156 (451)
T ss_dssp             EEEHHHHHHHHHH--CSCCCCCSEEEEETTTCC-SHHHHHHHHHHHHHHHTTSCEEEEECSSCTTCCC
T ss_pred             EEChHHHHHHhhC--cccccCCCEEEEeCCccC-CcchHHHHHHHHHhhcCCCceEEEEccCCCccch
Confidence            6899999988865  366899999999999977 55555555444433 3568999999999987653

>3h1t_A Type I site-specific restriction-modification system, R (restriction) subunit; hydrolase, restriction enzyme HSDR, ATP-binding; 2.30A {Vibrio vulnificus}

Probab=98.67  E-value=3.4e-08  Score=89.06  Aligned_cols=65  Identities=15%  Similarity=0.120  Sum_probs=39.5

Q ss_pred             CeeehHhhHHHHhcC---CCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchH
Q psy9740           1 VIATPGRLADHLDTC---NTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTL   67 (189)
Q Consensus         1 lV~TPgrl~~ll~~~---~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v   67 (189)
                      +|+||++|..+....   +.+....+.++|+||||++...+ ...+..+++.++ ..+++++|||.....
T Consensus       278 ~v~T~~~l~~~~~~~~~~~~~~~~~~~lvIiDEaH~~~~~~-~~~~~~il~~~~-~~~~l~lTATP~~~~  345 (590)
T 3h1t_A          278 YFAIYQSIASDERRPGLYKEFPQDFFDLIIIDECHRGSARD-NSNWREILEYFE-PAFQIGMTATPLRED  345 (590)
T ss_dssp             EEEEGGGC------CCGGGGSCTTSCSEEEESCCC----------CHHHHHHST-TSEEEEEESSCSCTT
T ss_pred             EEEEhhhhccccccccccccCCCCccCEEEEECCccccccc-hHHHHHHHHhCC-cceEEEecccccccc
Confidence            589999999876531   34567789999999999997653 245567777776 478999999976543

>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H RNA-binding helicase, innate immunity, IFIH1, S genomics; 1.60A {Homo sapiens}

Probab=98.64  E-value=2.3e-08  Score=77.80  Aligned_cols=62  Identities=18%  Similarity=0.217  Sum_probs=40.5

Q ss_pred             CeeehHhhHHHHhcCCC-----cccCceeeEEeccchhhhccccHHHH-HHHHhhC-------------CCCCcEEEEee
Q psy9740           1 VIATPGRLADHLDTCNT-----FSLNRIKFLVLDEADRLLSGIFDEQM-RTIFGAV-------------PKQKQTLLFSA   61 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~-----~~l~~l~~lVlDEaD~ll~~~f~~~i-~~Il~~l-------------~~~~Q~il~SA   61 (189)
                      +|+||++|..++.....     +.+.++.++|+||||.+++.++...+ ..++...             ....+++++||
T Consensus       136 ~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~lSA  215 (216)
T 3b6e_A          136 IISTAQILENSLLNLENGEDAGVQLSDFSLIIIDECHHTNKEAVYNNIMRHYLMQKLKNNRLKKENKPVIPLPQILGLTA  215 (216)
T ss_dssp             EEEEHHHHHHHHHC-------CCCGGGCSEEEETTC-------CHHHHHHHHHHHHHHHHHHHHTTCCCCCCCEEEEEEC
T ss_pred             EEECHHHHHHHHhccCcccccccchhcccEEEEECchhhccCCcHHHHHHHHHHHhcccccccccccCCCCcceEEEeec
Confidence            58999999999887322     67899999999999999988766654 3333221             15789999999


Q ss_pred             c
Q psy9740          62 T   62 (189)
Q Consensus        62 T   62 (189)
                      |
T Consensus       216 T  216 (216)
T 3b6e_A          216 S  216 (216)
T ss_dssp             C
T ss_pred             C
Confidence            8

>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=98.61  E-value=1.4e-08  Score=88.83  Aligned_cols=55  Identities=20%  Similarity=0.178  Sum_probs=43.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCC
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMT   64 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~   64 (189)
                      +||||+++...+..    ..+++.++|+||||.+.+.+|..    +++.+ +..+++++|||.+
T Consensus       175 vv~T~~~l~~~~~~----~~~~~~liIvDEaH~~~~~~~~~----~~~~~-~~~~~l~lSATp~  229 (472)
T 2fwr_A          175 TVSTYDSAYVNAEK----LGNRFMLLIFDEVHHLPAESYVQ----IAQMS-IAPFRLGLTATFE  229 (472)
T ss_dssp             EEEEHHHHHHTHHH----HTTTCSEEEEETGGGTTSTTTHH----HHHTC-CCSEEEEEESCCC
T ss_pred             EEEEcHHHHHHHHH----hcCCCCEEEEECCcCCCChHHHH----HHHhc-CCCeEEEEecCcc
Confidence            58999999877653    12458999999999999888865    45555 4678999999987

>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=98.56  E-value=1.1e-08  Score=90.07  Aligned_cols=59  Identities=15%  Similarity=0.172  Sum_probs=41.9

Q ss_pred             eehHhhHHHHhcCCCcccCceeeEEeccchh-----hhccccHHHHHHHHhhCCCCCcEEEEeecCCchHH
Q psy9740           3 ATPGRLADHLDTCNTFSLNRIKFLVLDEADR-----LLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLE   68 (189)
Q Consensus         3 ~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~-----ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~   68 (189)
                      +|.|.+...+..  ...+++++++|+||||.     ++..+|...+..     ++..|++++|||+|.++.
T Consensus        95 ~~~~~l~~~l~~--~~~l~~~~~iViDEaH~~~~~~~~~~~~~~~~~~-----~~~~~~il~SAT~~~~~~  158 (459)
T 2z83_A           95 MCHATLTHRLMS--PNRVPNYNLFVMDEAHFTDPASIAARGYIATKVE-----LGEAAAIFMTATPPGTTD  158 (459)
T ss_dssp             EEHHHHHHHHHS--CC-CCCCSEEEESSTTCCSHHHHHHHHHHHHHHH-----TTSCEEEEECSSCTTCCC
T ss_pred             EchHHHHHHhhc--cccccCCcEEEEECCccCCchhhHHHHHHHHHhc-----cCCccEEEEEcCCCcchh
Confidence            445555544432  35689999999999999     666666555432     368999999999997654

>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication, viral replication, nucleotide-binding; 2.10A {Kokobera virus} PDB: 2v6j_A

Probab=98.46  E-value=3.4e-08  Score=86.33  Aligned_cols=62  Identities=18%  Similarity=0.110  Sum_probs=44.0

Q ss_pred             ehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhC-CCCCcEEEEeecCCchHH
Q psy9740           4 TPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV-PKQKQTLLFSATMTDTLE   68 (189)
Q Consensus         4 TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l-~~~~Q~il~SATl~~~v~   68 (189)
                      |.|.+...+..  ...+++++++|+||||.+ +.++......+.... +.++|++++|||++..+.
T Consensus        77 ~~~~l~~~l~~--~~~~~~l~~vViDEaH~~-~~~~~~~~~~l~~~~~~~~~~~l~~SAT~~~~~~  139 (431)
T 2v6i_A           77 CHSTFTMKLLQ--GVRVPNYNLYIMDEAHFL-DPASVAARGYIETRVSMGDAGAIFMTATPPGTTE  139 (431)
T ss_dssp             EHHHHHHHHHH--TCCCCCCSEEEEESTTCC-SHHHHHHHHHHHHHHHTTSCEEEEEESSCTTCCC
T ss_pred             chHHHHHHHhc--CccccCCCEEEEeCCccC-CccHHHHHHHHHHHhhCCCCcEEEEeCCCCcchh
Confidence            44555444432  345899999999999997 555566655555543 568999999999997543

>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=98.40  E-value=5.8e-07  Score=82.77  Aligned_cols=57  Identities=18%  Similarity=0.130  Sum_probs=38.0

Q ss_pred             eehHhhHHHHhcCCCcccCceeeEEeccchhhhcc--ccHHHHH----HHHhh------------------CCCCCcEEE
Q psy9740           3 ATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSG--IFDEQMR----TIFGA------------------VPKQKQTLL   58 (189)
Q Consensus         3 ~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~--~f~~~i~----~Il~~------------------l~~~~Q~il   58 (189)
                      ||||+|++++.. .       .++|+||+|+|++.  ++...+.    .++..                  .++.+|+++
T Consensus       320 ~tpg~LlDyl~~-~-------~llVlDEa~~~l~~~~~~~~~~~~~~~~l~~~G~~lp~~l~~~~l~~~e~~~~~~q~i~  391 (661)
T 2d7d_A          320 STPYTLLDYFPD-D-------FMIVVDESHVTIPQVRGMFNGDQARKQVLVDHGFRLPSALDNRPLRFEEFEKHMHNIVY  391 (661)
T ss_dssp             CCCBCGGGGSCS-S-------CEEEEETHHHHHHHHHHHHHHHHHHHHHHHHTTSSCGGGGGSCCCCHHHHHHTCSEEEE
T ss_pred             CCccHHHHHccc-C-------cEEEEecHHHHHHHHHHHHHHHHHHHHHHHHccccchhhhhcccccHHHHhccCCCEEE
Confidence            689999998864 2       28999999999843  2222221    12111                  124789999


Q ss_pred             EeecCCchH
Q psy9740          59 FSATMTDTL   67 (189)
Q Consensus        59 ~SATl~~~v   67 (189)
                      ||||.+...
T Consensus       392 ~SAT~~~~~  400 (661)
T 2d7d_A          392 VSATPGPYE  400 (661)
T ss_dssp             ECSSCCHHH
T ss_pred             EecCCChhH
Confidence            999997654

>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA binding protein; HET: DNA; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.23

Probab=98.35  E-value=2.3e-07  Score=76.09  Aligned_cols=61  Identities=11%  Similarity=0.145  Sum_probs=49.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQ   69 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~   69 (189)
                      +|+||+++...    ....+++++++|+||||.|..    +.+..++..+++.+|++++|||.+.....
T Consensus       208 ~v~T~~~l~~~----~~~~~~~~~~vIiDEaH~~~~----~~~~~il~~~~~~~~~l~lSATp~~~~~~  268 (282)
T 1rif_A          208 VVGTWQTVVKQ----PKEWFSQFGMMMNDECHLATG----KSISSIISGLNNCMFKFGLSGSLRDGKAN  268 (282)
T ss_dssp             EEECHHHHTTS----CGGGGGGEEEEEEETGGGCCH----HHHHHHTTTCTTCCEEEEECSSCCTTSTT
T ss_pred             EEEchHHHHhh----HHHHHhhCCEEEEECCccCCc----ccHHHHHHHhhcCCeEEEEeCCCCCcchH
Confidence            58999987542    334678999999999999974    47788889888899999999999866433

>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase, T4-bacteriophage, recombination, hydrolase; 2.70A {Enterobacteria phage T4}

Probab=98.35  E-value=3.6e-07  Score=80.57  Aligned_cols=60  Identities=12%  Similarity=0.137  Sum_probs=49.2

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLE   68 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~   68 (189)
                      +||||+++..   . ....++++.++|+||||.+..    +....+++.+++..+++++|||.+....
T Consensus       208 ~i~T~~~l~~---~-~~~~~~~~~liIiDE~H~~~~----~~~~~il~~~~~~~~~l~lSATp~~~~~  267 (510)
T 2oca_A          208 VVGTWQTVVK---Q-PKEWFSQFGMMMNDECHLATG----KSISSIISGLNNCMFKFGLSGSLRDGKA  267 (510)
T ss_dssp             EEEEHHHHTT---S-CGGGGGGEEEEEEETGGGCCH----HHHHHHGGGCTTCCEEEEEESCGGGCSS
T ss_pred             EEEeHHHHhh---c-hhhhhhcCCEEEEECCcCCCc----ccHHHHHHhcccCcEEEEEEeCCCCCcc
Confidence            5899997653   2 446788999999999999976    5677888899889999999999976643

>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=98.23  E-value=1.2e-06  Score=82.28  Aligned_cols=59  Identities=22%  Similarity=0.290  Sum_probs=40.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQV   70 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l   70 (189)
                      +||||+++.+      .+.++++.++|+||||++.   +..  ...+......+|++++|||..+....+
T Consensus       475 vVgT~~ll~~------~~~~~~l~lVVIDEaHr~g---~~q--r~~l~~~~~~~~vL~mSATp~p~tl~~  533 (780)
T 1gm5_A          475 VIGTHALIQE------DVHFKNLGLVIIDEQHRFG---VKQ--REALMNKGKMVDTLVMSATPIPRSMAL  533 (780)
T ss_dssp             EEECTTHHHH------CCCCSCCCEEEEESCCCC----------CCCCSSSSCCCEEEEESSCCCHHHHH
T ss_pred             EEECHHHHhh------hhhccCCceEEecccchhh---HHH--HHHHHHhCCCCCEEEEeCCCCHHHHHH
Confidence            5899998754      4668999999999999963   211  122233345789999999987665443

>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=98.18  E-value=5.8e-07  Score=82.78  Aligned_cols=57  Identities=19%  Similarity=0.167  Sum_probs=37.0

Q ss_pred             eehHhhHHHHhcCCCcccCceeeEEeccchhhhcc--ccHHHH----HHHHhh------------------CCCCCcEEE
Q psy9740           3 ATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSG--IFDEQM----RTIFGA------------------VPKQKQTLL   58 (189)
Q Consensus         3 ~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~--~f~~~i----~~Il~~------------------l~~~~Q~il   58 (189)
                      +|||+|++++.. .       .++|+||+|+|++.  ++....    ..+...                  .++..|+++
T Consensus       314 ~tp~~LlDyl~~-~-------~llVlDEah~~~~~~~~~~~~~~~~~~~l~~~G~~lp~~l~~~~l~~~e~~~~~~q~i~  385 (664)
T 1c4o_A          314 EPPYTLLDYFPE-D-------FLVFLDESHVTVPQLQGMYRGDYARKKTLVDYGFRLPSALDNRPLRFEEFLERVSQVVF  385 (664)
T ss_dssp             SCCCCGGGGSCT-T-------CEEEEETHHHHHHHHHHHHHHHHHHHHHHHHTTSSCGGGGGSSCCCHHHHHHTCSEEEE
T ss_pred             CCchHHHHHHhh-c-------cEEEEecccccHHHHHHHHHHHHHHHHHHHHccccchhhhhcCcccHHHHHhhcCCEEE
Confidence            689999988854 2       28999999999853  122221    111111                  124689999


Q ss_pred             EeecCCchH
Q psy9740          59 FSATMTDTL   67 (189)
Q Consensus        59 ~SATl~~~v   67 (189)
                      +|||.+...
T Consensus       386 ~SAT~~~~~  394 (664)
T 1c4o_A          386 VSATPGPFE  394 (664)
T ss_dssp             EESSCCHHH
T ss_pred             EecCCCHHH
Confidence            999997653

>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system, helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP; 2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*

Probab=98.16  E-value=4.9e-06  Score=80.19  Aligned_cols=61  Identities=15%  Similarity=0.157  Sum_probs=46.9

Q ss_pred             CeeehHhhHHHHhcCCC-cccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCc
Q psy9740           1 VIATPGRLADHLDTCNT-FSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTD   65 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~-~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~   65 (189)
                      +|+||++|..++..... ..++...++|+||||++...+   ....|.+.+| +.++++||||...
T Consensus       379 iVtTiqkl~~~l~~~~~~~~~~~~~lvIiDEAHrs~~~~---~~~~I~~~~p-~a~~lgfTATP~~  440 (1038)
T 2w00_A          379 IVTTIQKLNNLMKAESDLPVYNQQVVFIFDECHRSQFGE---AQKNLKKKFK-RYYQFGFTGTPIF  440 (1038)
T ss_dssp             EEEEHHHHHHHHHHCCCCGGGGSCEEEEEESCCTTHHHH---HHHHHHHHCS-SEEEEEEESSCCC
T ss_pred             EEEEHHHHHHHHhcccchhccccccEEEEEccchhcchH---HHHHHHHhCC-cccEEEEeCCccc
Confidence            58999999998875222 256778899999999987543   3456667776 4799999999764

>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus, hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A

Probab=97.90  E-value=2.3e-06  Score=79.15  Aligned_cols=72  Identities=13%  Similarity=0.071  Sum_probs=56.6

Q ss_pred             CeeehHhhHHHHhcCC-Ccc-cCceeeEEeccchhhhccccHHHHHHHHhhCC-CCCcEEEEeecCCchHHHHHHh
Q psy9740           1 VIATPGRLADHLDTCN-TFS-LNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP-KQKQTLLFSATMTDTLEQVKSI   73 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~-~~~-l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~-~~~Q~il~SATl~~~v~~l~~~   73 (189)
                      +++||||+.+++..+. .+. .+.++++|+||||.|++.+|...+..++..++ +..|++++|||. +.+..++..
T Consensus       216 iv~TpGr~~~il~~T~e~~~l~~~v~lvVIDEaH~l~d~~~g~~~~~~l~~l~~~~i~il~~SAT~-~~i~~l~~~  290 (677)
T 3rc3_A          216 TVQPNGKQASHVSCTVEMCSVTTPYEVAVIDEIQMIRDPARGWAWTRALLGLCAEEVHLCGEPAAI-DLVMELMYT  290 (677)
T ss_dssp             CCSTTCCCCSEEEEEGGGCCSSSCEEEEEECSGGGGGCTTTHHHHHHHHHHCCEEEEEEEECGGGH-HHHHHHHHH
T ss_pred             EecCCCcccceeEecHhHhhhcccCCEEEEecceecCCccchHHHHHHHHccCccceEEEeccchH-HHHHHHHHh
Confidence            4689999888775521 222 46789999999999999999999999999888 788999999995 335555543

>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus fulgidus} SCOP: c.37.1.19

Probab=97.61  E-value=4.4e-05  Score=61.25  Aligned_cols=56  Identities=20%  Similarity=0.170  Sum_probs=41.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTD   65 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~   65 (189)
                      +|+||+++......    ..+...++|+||||.+.+..|..    ++..++ ..+++++|||.+.
T Consensus       175 ~v~T~~~l~~~~~~----~~~~~~llIiDEaH~l~~~~~~~----i~~~~~-~~~~l~LSATp~r  230 (237)
T 2fz4_A          175 TVSTYDSAYVNAEK----LGNRFMLLIFDEVHHLPAESYVQ----IAQMSI-APFRLGLTATFER  230 (237)
T ss_dssp             EEEEHHHHHHTHHH----HTTTCSEEEEECSSCCCTTTHHH----HHHTCC-CSEEEEEEESCC-
T ss_pred             EEEeHHHHHhhHHH----hcccCCEEEEECCccCCChHHHH----HHHhcc-CCEEEEEecCCCC
Confidence            48999998876543    12458999999999998876653    555554 6788999999864

>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=97.59  E-value=0.0002  Score=62.67  Aligned_cols=57  Identities=16%  Similarity=0.209  Sum_probs=39.5

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCC
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMT   64 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~   64 (189)
                      +|+||+++.....    +......++|+||||.+-+.+  ....+.+..++ ....+++|||-.
T Consensus       132 vi~t~~~l~~~~~----l~~~~~~~vIvDEaH~~kn~~--~~~~~~l~~l~-~~~~l~LTaTP~  188 (500)
T 1z63_A          132 ILTTYAVLLRDTR----LKEVEWKYIVIDEAQNIKNPQ--TKIFKAVKELK-SKYRIALTGTPI  188 (500)
T ss_dssp             EEEEHHHHTTCHH----HHTCCEEEEEEETGGGGSCTT--SHHHHHHHTSC-EEEEEEECSSCS
T ss_pred             EEeeHHHHhccch----hcCCCcCEEEEeCccccCCHh--HHHHHHHHhhc-cCcEEEEecCCC
Confidence            5789998865432    334567899999999997654  23445555554 456799999963

>2ipc_A Preprotein translocase SECA subunit; nucleotide binding fold, ATPase, parallel dimer; 2.80A {Thermus thermophilus}

Probab=97.08  E-value=0.00023  Score=67.55  Aligned_cols=35  Identities=26%  Similarity=0.411  Sum_probs=30.1

Q ss_pred             CeeehHhh-HHHHhcCC-----CcccC---ceeeEEeccchhhh
Q psy9740           1 VIATPGRL-ADHLDTCN-----TFSLN---RIKFLVLDEADRLL   35 (189)
Q Consensus         1 lV~TPgrl-~~ll~~~~-----~~~l~---~l~~lVlDEaD~ll   35 (189)
                      +|||||+| .+++..+-     .+.++   ++.++|+||||.||
T Consensus       172 vyGTpgrlgfDyLrd~m~~~~~~l~~r~d~~l~~lIIDEaDsmL  215 (997)
T 2ipc_A          172 TYVTNSELGFDYLRDNMAISPDQLVLRHDHPLHYAIIDEVDSIL  215 (997)
T ss_dssp             EEEEHHHHHHHHHHHTSCSSTTTCCSCSSSSSCEEEETTHHHHT
T ss_pred             EEECchhhhhHHHHHhhhcchhhcccccCCCcceEEEechHHHH
Confidence            58999999 89998731     35788   99999999999998

>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics, structural genomic consortium, SGC, hydrolase; 2.60A {Homo sapiens}

Probab=97.02  E-value=0.00032  Score=54.43  Aligned_cols=50  Identities=16%  Similarity=0.047  Sum_probs=32.5

Q ss_pred             eeEeecCccccchhhcceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         134 VFVWESKQDVATVEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       134 ~~~~~~~~~~~~~~~l~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      +..+.++.....+.+|.|+|+.+++..|...|.++|...     .+++||||+|+
T Consensus        15 p~~i~v~~~~~~~~~i~q~~~~~~~~~K~~~L~~~l~~~-----~~~~lVF~~~~   64 (191)
T 2p6n_A           15 TENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQKT-----PPPVLIFAEKK   64 (191)
T ss_dssp             -------------CCSEEEEEECCGGGHHHHHHHHHTTS-----CSCEEEECSCH
T ss_pred             CEEEEECCCCCCCcCceEEEEEcChHHHHHHHHHHHHhC-----CCCEEEEECCH
Confidence            334445555667789999999999999999999988652     46899999986

>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=96.93  E-value=0.0011  Score=63.46  Aligned_cols=63  Identities=19%  Similarity=0.138  Sum_probs=38.3

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccH-HHHHHHHhhC-CCCCcEEEEeecC
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFD-EQMRTIFGAV-PKQKQTLLFSATM   63 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~-~~i~~Il~~l-~~~~Q~il~SATl   63 (189)
                      +|+|++.+.........+...+..++|+||||.+-..+.. ......+..+ .+.+.++++|||-
T Consensus       252 vI~T~~~L~~~~~~~~~l~~~~~dlVIvDEAH~~kn~~~~~s~~~~~l~~L~~~~~~~L~LTATP  316 (968)
T 3dmq_A          252 VICSLDFARRSKQRLEHLCEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLLTATP  316 (968)
T ss_dssp             EEECHHHHHTSTTTTHHHHTSCCCEEEECCSSCCCCBTTBCCHHHHHHHHHHTTCSSEEESCSSC
T ss_pred             EEEcHHHHhhCHHHHHHhhhcCCCEEEehhhHhhcCCCCcchHHHHHHHHHhhcCCcEEEEEcCC
Confidence            4788887754221112244567889999999999754421 1112223222 3456789999995

>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces cerevisiae}

Probab=96.58  E-value=0.0072  Score=56.48  Aligned_cols=57  Identities=16%  Similarity=0.272  Sum_probs=36.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecC
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATM   63 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl   63 (189)
                      +|+|++.+......   +.--...++|+||||++-..  .......+..++ ....+++|||-
T Consensus       349 vitTy~~l~~~~~~---l~~~~w~~vIvDEaH~lkn~--~s~~~~~l~~l~-~~~rl~LTgTP  405 (800)
T 3mwy_W          349 LLTTYEYILKDRAE---LGSIKWQFMAVDEAHRLKNA--ESSLYESLNSFK-VANRMLITGTP  405 (800)
T ss_dssp             EEECTTHHHHTHHH---HHTSEEEEEEETTGGGGCCS--SSHHHHHHTTSE-EEEEEEECSCC
T ss_pred             EEecHHHHHhhHHH---HhcCCcceeehhhhhhhcCc--hhHHHHHHHHhh-hccEEEeeCCc
Confidence            47788887654332   33345789999999999543  234445555553 34458899995

>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer aging, hydrolase; HET: FLC; 2.00A {Sulfolobus acidocaldarius} PDB: 3crw_1*

Probab=93.96  E-value=0.027  Score=50.31  Aligned_cols=35  Identities=20%  Similarity=0.099  Sum_probs=27.7

Q ss_pred             CeeehHhhHHHHhcCCCccc-CceeeEEeccchhhhc
Q psy9740           1 VIATPGRLADHLDTCNTFSL-NRIKFLVLDEADRLLS   36 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l-~~l~~lVlDEaD~ll~   36 (189)
                      ||+|+++|++.... ..+.+ ....++|+||||.|.+
T Consensus       152 VV~~~~~l~~~~~~-~~~~~~~~~~~vIiDEAHnl~d  187 (551)
T 3crv_A          152 IALTYPYFFIDRYR-EFIDIDLREYMIVIDEAHNLDK  187 (551)
T ss_dssp             EEEETHHHHCHHHH-TTSCCCSTTEEEEETTGGGGGG
T ss_pred             EEeCchHhcCHHHH-HhcCCCcCCeEEEEecccchHH
Confidence            68999999988655 33433 4678899999999998

>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=93.55  E-value=0.069  Score=49.95  Aligned_cols=35  Identities=14%  Similarity=0.058  Sum_probs=26.9

Q ss_pred             eEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCC
Q psy9740         152 YYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTC  188 (189)
Q Consensus       152 ~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~  188 (189)
                      -.++.....|...+.+.+....  ...+++||||+|+
T Consensus       450 d~vy~t~~eK~~al~~~I~~~~--~~gqpVLVFt~S~  484 (822)
T 3jux_A          450 DLVFRTQKEKYEKIVEEIEKRY--KKGQPVLVGTTSI  484 (822)
T ss_dssp             CEEESSHHHHHHHHHHHHHHHH--HHTCCEEEEESSH
T ss_pred             cEEEecHHHHHHHHHHHHHHHh--hCCCCEEEEECCH
Confidence            4566777889999999887643  1257999999996

>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*

Probab=93.18  E-value=0.086  Score=47.78  Aligned_cols=37  Identities=22%  Similarity=0.488  Sum_probs=32.3

Q ss_pred             ceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeec
Q psy9740          22 RIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSAT   62 (189)
Q Consensus        22 ~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SAT   62 (189)
                      +.+++|+|||+ |++   .+.+..|+..++...|++++.-.
T Consensus       262 ~~d~lIIDEAs-ml~---~~~~~~Ll~~l~~~~~liLvGD~  298 (608)
T 1w36_D          262 HLDVLVVDEAS-MID---LPMMSRLIDALPDHARVIFLGDR  298 (608)
T ss_dssp             SCSEEEECSGG-GCB---HHHHHHHHHTCCTTCEEEEEECT
T ss_pred             CCCEEEEechh-hCC---HHHHHHHHHhCCCCCEEEEEcch
Confidence            67899999999 776   56789999999999999998755

>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=91.38  E-value=0.23  Score=45.08  Aligned_cols=57  Identities=18%  Similarity=0.272  Sum_probs=36.9

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecC
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATM   63 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl   63 (189)
                      +|+|++.+.....   .+.-....++|+||||++-..+  ......+..++ ....+++|||-
T Consensus       174 vi~ty~~l~~~~~---~l~~~~~~~vI~DEaH~ikn~~--~~~~~al~~l~-~~~rl~LTgTP  230 (644)
T 1z3i_X          174 LIISYETFRLHAE---VLHKGKVGLVICDEGHRLKNSD--NQTYLALNSMN-AQRRVLISGTP  230 (644)
T ss_dssp             EEEEHHHHHHHTT---TTTTSCCCEEEETTGGGCCTTC--HHHHHHHHHHC-CSEEEEECSSC
T ss_pred             EEeeHHHHHhhHH---HhhcCCccEEEEECceecCChh--hHHHHHHHhcc-cCcEEEEecCc
Confidence            4778888775442   3444567899999999996543  22333333443 44568999995

>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}

Probab=87.34  E-value=0.16  Score=45.17  Aligned_cols=35  Identities=26%  Similarity=0.171  Sum_probs=25.6

Q ss_pred             CeeehHhhHHHHhcCCCc-------ccCceeeEEeccchhhhc
Q psy9740           1 VIATPGRLADHLDTCNTF-------SLNRIKFLVLDEADRLLS   36 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~-------~l~~l~~lVlDEaD~ll~   36 (189)
                      ||+|++.|++.... +.+       .+.....+|+||||.|.+
T Consensus       148 VV~n~~~l~~~~~~-~~~~~~~~~~~~~~~~~vIiDEAHnl~~  189 (540)
T 2vl7_A          148 IAMTYPYLFQKPIR-NSVFCNKDDCLKLEDYLIVIDEAHNLLE  189 (540)
T ss_dssp             EEEETHHHHSHHHH-HHHSCSSTTSCCGGGEEEEETTGGGGGG
T ss_pred             EEEChHHhcCHHHH-HhhCcccccccCcCCCEEEEEccccHHH
Confidence            58999999875543 222       245678999999999943

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=82.27  E-value=1.2  Score=36.40  Aligned_cols=43  Identities=19%  Similarity=0.335  Sum_probs=30.8

Q ss_pred             cCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecC
Q psy9740          20 LNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATM   63 (189)
Q Consensus        20 l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl   63 (189)
                      ..+-+.+++||+|. ++....+.+.++++..+++..+++.|-..
T Consensus       132 ~~~~~vlilDE~~~-L~~~~~~~L~~~le~~~~~~~~Il~t~~~  174 (354)
T 1sxj_E          132 AHRYKCVIINEANS-LTKDAQAALRRTMEKYSKNIRLIMVCDSM  174 (354)
T ss_dssp             --CCEEEEEECTTS-SCHHHHHHHHHHHHHSTTTEEEEEEESCS
T ss_pred             CCCCeEEEEeCccc-cCHHHHHHHHHHHHhhcCCCEEEEEeCCH
Confidence            34677999999999 77777788888888877666555555433

>3kta_B Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xew_Y 1xex_B*

Probab=80.37  E-value=1.2  Score=33.77  Aligned_cols=40  Identities=18%  Similarity=0.295  Sum_probs=33.7

Q ss_pred             CceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEe
Q psy9740          21 NRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS   60 (189)
Q Consensus        21 ~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~S   60 (189)
                      ++..++++||.+.-||......+..++..+.+..|+++.|
T Consensus        85 ~~~~~llLDEp~a~LD~~~~~~~~~~l~~~~~~~~~ivit  124 (173)
T 3kta_B           85 KPAPFYLFDEIDAHLDDANVKRVADLIKESSKESQFIVIT  124 (173)
T ss_dssp             SCCSEEEEESTTTTCCHHHHHHHHHHHHHHTTTSEEEEEC
T ss_pred             CCCCEEEECCCccCCCHHHHHHHHHHHHHhccCCEEEEEE
Confidence            4457999999999999988888888888877778877775

---

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	189
d1hv8a1	208	c.37.1.19 (A:3-210) Putative DEAD box RNA helicase	5e-22
d1qdea_	212	c.37.1.19 (A:) Initiation factor 4a {Baker's yeast	9e-14
d2g9na1	218	c.37.1.19 (A:21-238) Initiation factor 4a {Human (	4e-12
d1veca_	206	c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Huma	3e-11
d2j0sa1	222	c.37.1.19 (A:22-243) Probable ATP-dependent RNA he	3e-11
d1t6na_	207	c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP5	9e-11
d1gkub1	237	c.37.1.16 (B:1-250) Helicase-like "domain" of reve	3e-09
d1s2ma1	206	c.37.1.19 (A:46-251) Putative ATP-dependent RNA he	3e-09
d1wrba1	238	c.37.1.19 (A:164-401) putative ATP-dependent RNA h	2e-08
d1q0ua_	209	c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR	2e-06
d1wp9a1	200	c.37.1.19 (A:1-200) putative ATP-dependent RNA hel	1e-04
d2bmfa2	305	c.37.1.14 (A:178-482) Dengue virus helicase {Dengu	6e-04
d1oywa2	206	c.37.1.19 (A:1-206) RecQ helicase domain {Escheric	0.002

>d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 208

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative DEAD box RNA helicase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

 Score = 86.7 bits (214), Expect = 5e-22
 Identities = 28/70 (40%), Positives = 43/70 (61%), Gaps = 1/70 (1%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ DH++   T +L  +K+ +LDEAD +L+  F + +  I  A  K K+ LLFS
Sbjct: 125 VVGTPGRILDHINR-GTLNLKNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFS 183

Query: 61  ATMTDTLEQV 70
           ATM   +  +
Sbjct: 184 ATMPREILNL 193

>d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 212

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 64.4 bits (156), Expect = 9e-14
 Identities = 31/76 (40%), Positives = 43/76 (56%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V+ TPGR+ D+      F  ++IK  +LDEAD +LS  F EQ+  IF  +P   Q +L S
Sbjct: 131 VVGTPGRVFDN-IQRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLS 189

Query: 61  ATMTDTLEQVKSITKK 76
           ATM +    V  +T K
Sbjct: 190 ATMPN---DVLEVTTK 202

>d2g9na1 c.37.1.19 (A:21-238) Initiation factor 4a {Human (Homo sapiens) [TaxId: 9606]} Length = 218

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Initiation factor 4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.3 bits (145), Expect = 4e-12
 Identities = 31/76 (40%), Positives = 41/76 (53%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGR+ D L+     S   IK  VLDEAD +LS  F +Q+  IF  +    Q +L S
Sbjct: 135 IVGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLS 193

Query: 61  ATMTDTLEQVKSITKK 76
           ATM      V  +TKK
Sbjct: 194 ATMPS---DVLEVTKK 206

>d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo sapiens) [TaxId: 9606]} Length = 206

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEAD box RNA helicase rck/p54
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.7 bits (138), Expect = 3e-11
 Identities = 29/76 (38%), Positives = 41/76 (53%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           VIATPGR+ D         ++ ++ +VLDEAD+LLS  F + M  I   +PK +Q LL+S
Sbjct: 126 VIATPGRILDL-IKKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYS 184

Query: 61  ATMTDTLEQVKSITKK 76
           AT       V+     
Sbjct: 185 ATFPL---SVQKFMNS 197

>d2j0sa1 c.37.1.19 (A:22-243) Probable ATP-dependent RNA helicase DDX48 {Human (Homo sapiens) [TaxId: 9606]} Length = 222

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable ATP-dependent RNA helicase DDX48
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.9 bits (139), Expect = 3e-11
 Identities = 27/76 (35%), Positives = 40/76 (52%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           V  TPGR+ D      +     IK LVLDEAD +L+  F EQ+  ++  +P   Q +L S
Sbjct: 139 VAGTPGRVFDM-IRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLIS 197

Query: 61  ATMTDTLEQVKSITKK 76
           AT+     ++  +T K
Sbjct: 198 ATLPH---EILEMTNK 210

>d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Spliceosome RNA helicase BAT1 (UAP56)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 56.4 bits (135), Expect = 9e-11
 Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 2/71 (2%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFD-EQMRTIFGAVPKQKQTLLF 59
           V+ TPGR+        + +L  IK  +LDE D++L  +     ++ IF   P +KQ ++F
Sbjct: 125 VVGTPGRILALARN-KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMF 183

Query: 60  SATMTDTLEQV 70
           SAT++  +  V
Sbjct: 184 SATLSKEIRPV 194

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 237

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

 Score = 52.6 bits (125), Expect = 3e-09
 Identities = 14/80 (17%), Positives = 26/80 (32%), Gaps = 16/80 (20%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI-----------FDEQMRTIFGA 49
           VI T   L+ H        L    F+ +D+ D +L              F   ++T    
Sbjct: 146 VITTTQFLSKHY-----RELGHFDFIFVDDVDAILKASKNVDKLLHLLGFHYDLKTKSWV 200

Query: 50  VPKQKQTLLFSATMTDTLEQ 69
              +   ++ +AT     + 
Sbjct: 201 GEARGCLMVSTATAKKGKKA 220

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 206

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 51.9 bits (123), Expect = 3e-09
 Identities = 25/76 (32%), Positives = 37/76 (48%), Gaps = 4/76 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++ TPGR+ D   +     L+     ++DEAD++LS  F   +  I   +P   Q+LLFS
Sbjct: 123 LVGTPGRVLDL-ASRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFS 181

Query: 61  ATMTDTLEQVKSITKK 76
           AT       VK    K
Sbjct: 182 ATFPL---TVKEFMVK 194

>d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]} Length = 238

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase VlgB
species: Flatworm (Dugesia japonica) [TaxId: 6161]

 Score = 49.9 bits (118), Expect = 2e-08
 Identities = 30/74 (40%), Positives = 45/74 (60%), Gaps = 5/74 (6%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAV----PKQKQT 56
           ++ATPGRL D ++  N  SL   K++VLDEADR+L   F+ Q+R I           +QT
Sbjct: 152 LVATPGRLVDFIE-KNKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQT 210

Query: 57  LLFSATMTDTLEQV 70
           L+FSAT    ++++
Sbjct: 211 LMFSATFPKEIQKL 224

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {Bacillus stearothermophilus [TaxId: 1422]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

 Score = 43.9 bits (102), Expect = 2e-06
 Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 3/76 (3%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
           ++       +         ++    LV+DEAD +L   F   +  I   +PK  Q L+FS
Sbjct: 126 IVIGTPGRINDFIREQALDVHTAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFS 185

Query: 61  ATMTDTLEQVKSITKK 76
           AT+ +   ++K   KK
Sbjct: 186 ATIPE---KLKPFLKK 198

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

 Score = 39.0 bits (89), Expect = 1e-04
 Identities = 11/67 (16%), Positives = 24/67 (35%)

Query: 10  DHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQ 69
           ++       SL  +  +V DEA R +       +   +    K    +  +A+   T E+
Sbjct: 113 ENDLLAGRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEK 172

Query: 70  VKSITKK 76
           +  +   
Sbjct: 173 IMEVINN 179

>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 = 37.2 bits (85), Expect = 6e-04
 Identities = 6/70 (8%), Positives = 18/70 (25%), Gaps = 2/70 (2%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFS 60
            +         L   +   +     +++DEA          +          +   +  +
Sbjct: 81  DLMCHATFTMRLL--SPIRVPNYNLIIMDEAHFTDPASIAARGYISTRVEMGEAAGIFMT 138

Query: 61  ATMTDTLEQV 70
           AT   + +  
Sbjct: 139 ATPPGSRDPF 148

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]} Length = 206

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

 Score = 35.0 bits (79), Expect = 0.002
 Identities = 9/73 (12%), Positives = 18/73 (24%), Gaps = 4/73 (5%)

Query: 1   VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLL----SGIFDEQMRTIFGAVPKQKQT 56
           ++          +     +      L +DEA  +         +                
Sbjct: 118 LLYIAPERLMLDNFLEHLAHWNPVLLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPF 177

Query: 57  LLFSATMTDTLEQ 69
           +  +AT  DT  Q
Sbjct: 178 MALTATADDTTRQ 190

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	189
d1veca_	206	DEAD box RNA helicase rck/p54 {Human (Homo sapiens	99.86
d2j0sa1	222	Probable ATP-dependent RNA helicase DDX48 {Human (	99.85
d1t6na_	207	Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo	99.84
d1s2ma1	206	Putative ATP-dependent RNA helicase DHH1 {Baker's	99.84
d2g9na1	218	Initiation factor 4a {Human (Homo sapiens) [TaxId:	99.84
d1qdea_	212	Initiation factor 4a {Baker's yeast (Saccharomyces	99.83
d1hv8a1	208	Putative DEAD box RNA helicase {Archaeon Methanoco	99.81
d1q0ua_	209	Probable DEAD box RNA helicase YqfR {Bacillus stea	99.8
d1wrba1	238	putative ATP-dependent RNA helicase VlgB {Flatworm	99.76
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	98.83
d1oywa2	206	RecQ helicase domain {Escherichia coli [TaxId: 562	98.76
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	98.73
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	98.55
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	98.38
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	97.9
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	96.98
d1rifa_	282	DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]	96.2
d1jr6a_	138	HCV helicase domain {Human hepatitis C virus (HCV)	90.58
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	89.7
d1z3ix2	298	Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxI	84.83
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	84.76
d1g5ta_	157	ATP:corrinoid adenosyltransferase CobA {Salmonella	80.04

>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=99.86  E-value=2.7e-22  Score=158.57  Aligned_cols=79  Identities=35%  Similarity=0.533  Sum_probs=76.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||.+++.. +.+.+++++++|+||||.|++.||.+++..|++.+|+++|+++||||+|++++++++.+|++|..
T Consensus       126 vv~TPgrl~~~~~~-~~~~~~~l~~lVlDEaD~ll~~~f~~~i~~I~~~~~~~~Q~~l~SAT~~~~v~~l~~~~l~~P~~  204 (206)
T d1veca_         126 VIATPGRILDLIKK-GVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLEKPYE  204 (206)
T ss_dssp             EEECHHHHHHHHHT-TCSCCTTCCEEEEETHHHHTSTTTHHHHHHHHHHSCTTCEEEEEESCCCHHHHHHHHHHCSSCEE
T ss_pred             EEeCCccccccccc-hhccccccceEEEeccccccccchHHHHHHHHHhCCCCCEEEEEEecCCHHHHHHHHHHCCCCEE
Confidence            68999999999988 89999999999999999999999999999999999999999999999999999999999999853

>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=99.85  E-value=2.4e-22  Score=160.89  Aligned_cols=82  Identities=32%  Similarity=0.480  Sum_probs=77.6

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||.+++.. +.+++++++|+|+||||+|++.||.+++..|++.+|+++|+++||||+|.+++++++.++++|.+
T Consensus       139 lv~TPgrl~~~~~~-~~~~~~~l~~lVlDEaD~ll~~~f~~~i~~I~~~l~~~~Q~ilfSAT~~~~v~~l~~~~l~~Pv~  217 (222)
T d2j0sa1         139 VAGTPGRVFDMIRR-RSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIR  217 (222)
T ss_dssp             EEECHHHHHHHHHT-TSSCCTTCCEEEEETHHHHTSTTTHHHHHHHHTTSCTTCEEEEEESCCCHHHHTTGGGTCSSCEE
T ss_pred             EeCCCCcHHhcccc-cccccccceeeeecchhHhhhcCcHHHHHHHHHhCCCCCEEEEEEEeCCHHHHHHHHHHCCCCEE
Confidence            68999999999988 88999999999999999999999999999999999999999999999999999999999999865


Q ss_pred             eee
Q psy9740          81 LLF   83 (189)
Q Consensus        81 ~~~   83 (189)
                      +.+
T Consensus       218 I~V  220 (222)
T d2j0sa1         218 ILV  220 (222)
T ss_dssp             ECC
T ss_pred             EEE
Confidence            543

>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=99.84  E-value=1.6e-21  Score=154.08  Aligned_cols=81  Identities=28%  Similarity=0.522  Sum_probs=76.7

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhcc-ccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSG-IFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~-~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      |||||||+.+++.. +.+++++++++|+||||+|++. ||.++++.|++.+|+++|+++||||+|++++++++.++++|.
T Consensus       125 lI~TP~rl~~~~~~-~~~~l~~l~~lVlDEaD~ll~~~~~~~~i~~I~~~~~~~~Q~il~SAT~~~~v~~l~~~~l~~P~  203 (207)
T d1t6na_         125 VVGTPGRILALARN-KSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPM  203 (207)
T ss_dssp             EEECHHHHHHHHHT-TSSCCTTCCEEEEESHHHHHSSHHHHHHHHHHHHTSCSSSEEEEEESCCCTTTHHHHHTTCSSCE
T ss_pred             EEeCcchhhhhccC-CceeccccceeehhhhhhhhhcCCcHHHHHHHHHhCCCCCEEEEEeeeCCHHHHHHHHHHCCCCE
Confidence            69999999999998 8899999999999999999985 899999999999999999999999999999999999999986


Q ss_pred             eee
Q psy9740          80 TLL   82 (189)
Q Consensus        80 ~~~   82 (189)
                      .+.
T Consensus       204 ~I~  206 (207)
T d1t6na_         204 EIF  206 (207)
T ss_dssp             EEE
T ss_pred             EEe
Confidence            554

>d1s2ma1 c.37.1.19 (A:46-251) Putative ATP-dependent RNA helicase DHH1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Putative ATP-dependent RNA helicase DHH1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.84  E-value=1.4e-21  Score=153.98  Aligned_cols=80  Identities=29%  Similarity=0.457  Sum_probs=76.5

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      ||||||||.++++. +.+++++++|+|+||||.|++.||.+++..|++.+|+.+|+++||||+|+++.++++.+|++|..
T Consensus       123 li~TP~~l~~~l~~-~~~~l~~l~~lV~DEaD~l~~~~f~~~v~~I~~~l~~~~Q~il~SATl~~~v~~~~~~~l~~P~~  201 (206)
T d1s2ma1         123 LVGTPGRVLDLASR-KVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPYE  201 (206)
T ss_dssp             EEECHHHHHHHHHT-TCSCCTTCCEEEEESHHHHSSHHHHHHHHHHHTTSCSSCEEEEEESCCCHHHHHHHHHHCSSCEE
T ss_pred             EEECCccccccccc-ceeecccceEEEeechhhhhhhhhHHHHHHHHHhCCCCCEEEEEEEeCCHHHHHHHHHHCCCCEE
Confidence            68999999999998 88999999999999999999999999999999999999999999999999999999999999854


Q ss_pred             e
Q psy9740          81 L   81 (189)
Q Consensus        81 ~   81 (189)
                      +
T Consensus       202 I  202 (206)
T d1s2ma1         202 I  202 (206)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.84  E-value=2.2e-21  Score=154.75  Aligned_cols=82  Identities=35%  Similarity=0.504  Sum_probs=78.1

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      |||||||+.+++.. +...+++++++|+||||.|++.||.+++..|++.+|+++|+++||||+|++++++++.++++|..
T Consensus       135 vV~TP~rl~~~l~~-~~~~~~~l~~lVlDEaD~ll~~~f~~~~~~Il~~~~~~~Q~il~SAT~~~~v~~~~~~~l~~pv~  213 (218)
T d2g9na1         135 IVGTPGRVFDMLNR-RYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQKLNSNTQVVLLSATMPSDVLEVTKKFMRDPIR  213 (218)
T ss_dssp             EEECHHHHHHHHHT-TSSCSTTCCEEEEESHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESCCCHHHHHHHHHHCSSCEE
T ss_pred             EEeCChhHHHHHhc-CCcccccceEEEeeecchhhcCchHHHHHHHHHhCCCCCeEEEEEecCCHHHHHHHHHHCCCCEE
Confidence            59999999999988 88999999999999999999999999999999999999999999999999999999999999876


Q ss_pred             eee
Q psy9740          81 LLF   83 (189)
Q Consensus        81 ~~~   83 (189)
                      +.+
T Consensus       214 i~v  216 (218)
T d2g9na1         214 ILV  216 (218)
T ss_dssp             EEC
T ss_pred             EEE
Confidence            554

>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=99.83  E-value=3.9e-21  Score=152.56  Aligned_cols=81  Identities=37%  Similarity=0.608  Sum_probs=77.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +||||||+.+++.. +.+++++++++|+||||.|++.+|.+++..|++.+|+++|+++||||+|++++++++.++++|.+
T Consensus       131 vI~TP~~l~~~~~~-~~~~l~~l~~lVlDEad~lld~~f~~~v~~I~~~~~~~~Q~vl~SAT~~~~v~~l~~~~l~~Pv~  209 (212)
T d1qdea_         131 VVGTPGRVFDNIQR-RRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVR  209 (212)
T ss_dssp             EEECHHHHHHHHHT-TSSCCTTCCEEEEETHHHHHHTTCHHHHHHHHHHSCTTCEEEEEESSCCHHHHHHHHHHCSSCEE
T ss_pred             EEECCCcccccccc-CceecCcceEEeehhhhhhcccchHHHHHHHHHhCCCCCeEEEEEeeCCHHHHHHHHHHCCCCEE
Confidence            58999999999998 89999999999999999999999999999999999999999999999999999999999999875


Q ss_pred             ee
Q psy9740          81 LL   82 (189)
Q Consensus        81 ~~   82 (189)
                      +.
T Consensus       210 i~  211 (212)
T d1qdea_         210 IL  211 (212)
T ss_dssp             EC
T ss_pred             Ee
Confidence            54

>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=99.81  E-value=1.8e-20  Score=147.97  Aligned_cols=78  Identities=36%  Similarity=0.590  Sum_probs=75.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVG   79 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~   79 (189)
                      ||||||||.++++. +.+++++++++|+||||.|++.+|.+++.+|++.+|+++|++++|||+|+++.++++.++++|.
T Consensus       125 lV~TP~~l~~~l~~-~~~~~~~l~~lViDEad~l~~~~~~~~i~~I~~~~~~~~Q~i~~SAT~~~~v~~~~~~~l~~~~  202 (208)
T d1hv8a1         125 VVGTPGRILDHINR-GTLNLKNVKYFILDEADEMLNMGFIKDVEKILNACNKDKRILLFSATMPREILNLAKKYMGDYS  202 (208)
T ss_dssp             EEECHHHHHHHHHT-TCSCTTSCCEEEEETHHHHHTTTTHHHHHHHHHTSCSSCEEEEECSSCCHHHHHHHHHHCCSEE
T ss_pred             EEEChHHHHHHHHc-CCCCcccCcEEEEEChHHhhcCCChHHHHHHHHhCCCCCeEEEEEccCCHHHHHHHHHHCCCCe
Confidence            69999999999988 8899999999999999999999999999999999999999999999999999999999999864

>d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Probable DEAD box RNA helicase YqfR
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.80  E-value=4.4e-20  Score=144.85  Aligned_cols=81  Identities=31%  Similarity=0.445  Sum_probs=76.5

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhhccccce
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSITKKQVGT   80 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~l~~p~~   80 (189)
                      +||||+|+.+++.+ +...+++++++|+||||.|++.+|.+++..|++.+|+++|+++||||+|+++.++++.++++|..
T Consensus       127 lv~TP~~l~~~~~~-~~~~~~~l~~lViDEad~ll~~~f~~~v~~I~~~~~~~~Q~il~SATl~~~v~~l~~~~l~~p~~  205 (209)
T d1q0ua_         127 VIGTPGRINDFIRE-QALDVHTAHILVVDEADLMLDMGFITDVDQIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTF  205 (209)
T ss_dssp             EEECHHHHHHHHHT-TCCCGGGCCEEEECSHHHHHHTTCHHHHHHHHHTSCTTCEEEEEESCCCGGGHHHHHHHCSSCEE
T ss_pred             EEecCchhhhhhhh-hccccccceEEEEeecccccccccHHHHHHHHHHCCCCCEEEEEEccCCHHHHHHHHHHCCCCEE
Confidence            58999999999988 88899999999999999999999999999999999999999999999999999999999999864


Q ss_pred             ee
Q psy9740          81 LL   82 (189)
Q Consensus        81 ~~   82 (189)
                      +.
T Consensus       206 i~  207 (209)
T d1q0ua_         206 VH  207 (209)
T ss_dssp             EE
T ss_pred             EE
Confidence            43

>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=99.76  E-value=4.7e-19  Score=142.69  Aligned_cols=81  Identities=37%  Similarity=0.545  Sum_probs=74.4

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCC----CCCcEEEEeecCCchHHHHHHhhcc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVP----KQKQTLLFSATMTDTLEQVKSITKK   76 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~----~~~Q~il~SATl~~~v~~l~~~~l~   76 (189)
                      ||||||||.+++.. +.+.+++++++|+||||.|++.||.+++..|++.+.    .++|+++||||+|.+++++++.+|+
T Consensus       152 vV~TP~~l~~~~~~-~~~~l~~v~~lViDEaD~ll~~~f~~~i~~Il~~~~~~~~~~~Q~il~SAT~~~~v~~l~~~~~~  230 (238)
T d1wrba1         152 LVATPGRLVDFIEK-NKISLEFCKYIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLY  230 (238)
T ss_dssp             EEECHHHHHHHHHT-TSBCCTTCCEEEEETHHHHHHTTCHHHHHHHHHSSCCCCGGGCEEEEEESSCCHHHHHHHHHHCS
T ss_pred             eecCHHHHHhHHcc-CceeccccceeeeehhhhhhhhccHHHHHHHHHHhcCCCCCCCEEEEEeeeCCHHHHHHHHHHCC
Confidence            69999999999998 889999999999999999999999999999998764    3679999999999999999999999


Q ss_pred             ccceee
Q psy9740          77 QVGTLL   82 (189)
Q Consensus        77 ~p~~~~   82 (189)
                      +|..+.
T Consensus       231 ~p~~i~  236 (238)
T d1wrba1         231 NYIFMT  236 (238)
T ss_dssp             SCEEEE
T ss_pred             CCEEEE
Confidence            975443

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=98.83  E-value=1e-10  Score=92.28  Aligned_cols=69  Identities=17%  Similarity=0.226  Sum_probs=48.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHh-------------hCCCCCcEEEEeecCCchH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFG-------------AVPKQKQTLLFSATMTDTL   67 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~-------------~l~~~~Q~il~SATl~~~v   67 (189)
                      ||+||++|.+..     ..+++++++|+||||.|++.+..  +.+++.             ..+...|++++|||++..+
T Consensus       146 lv~Tp~~l~~~~-----~~~~~~~~vVvDE~d~~l~~~~~--~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~SAT~~~~~  218 (237)
T d1gkub1         146 VITTTQFLSKHY-----RELGHFDFIFVDDVDAILKASKN--VDKLLHLLGFHYDLKTKSWVGEARGCLMVSTATAKKGK  218 (237)
T ss_dssp             EEEEHHHHHHCS-----TTSCCCSEEEESCHHHHHTSTHH--HHHHHHHTTEEEETTTTEEEECCSSEEEECCCCSCCCT
T ss_pred             eccChHHHHHhh-----hhcCCCCEEEEEChhhhhhcccc--hhHHHHhcCChHHHHHHHhhCCCCCeEEEEeCCCCccc
Confidence            589999987644     34788999999999999976532  222222             2245789999999998876


Q ss_pred             HH-HHHhhcc
Q psy9740          68 EQ-VKSITKK   76 (189)
Q Consensus        68 ~~-l~~~~l~   76 (189)
                      .. +.+.++.
T Consensus       219 ~~~l~r~ll~  228 (237)
T d1gkub1         219 KAELFRQLLN  228 (237)
T ss_dssp             THHHHHHHHC
T ss_pred             HHHHHHHHhC
Confidence            44 4455554

>d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: RecQ helicase domain
species: Escherichia coli [TaxId: 562]

Probab=98.76  E-value=9e-10  Score=84.71  Aligned_cols=77  Identities=17%  Similarity=0.105  Sum_probs=56.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccc--cHHH---HHHHHhhCCCCCcEEEEeecCCchHHH-HHHhh
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGI--FDEQ---MRTIFGAVPKQKQTLLFSATMTDTLEQ-VKSIT   74 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~--f~~~---i~~Il~~l~~~~Q~il~SATl~~~v~~-l~~~~   74 (189)
                      +++||.++...... ......+++++|+||||.+.+.+  +..+   +..+...+ ++.|++++|||+|+++++ +.+.+
T Consensus       119 ~~~t~~~~~~~~~~-~~~~~~~v~~lviDEaH~~~~~~~~~~~~~~~~~~l~~~~-~~~~ii~lSATl~~~v~~di~~~L  196 (206)
T d1oywa2         119 LYIAPERLMLDNFL-EHLAHWNPVLLAVDEAHCISQWGHDFRPEYAALGQLRQRF-PTLPFMALTATADDTTRQDIVRLL  196 (206)
T ss_dssp             EEECHHHHTSTTHH-HHHTTSCEEEEEESSGGGGCTTSSCCCHHHHGGGGHHHHC-TTSCEEEEESCCCHHHHHHHHHHH
T ss_pred             EEEechhhhchhhc-ccchhheeeeeeeeeeeeeeccccchHHHHHHHHHHHHhC-CCCceEEEEeCCCHHHHHHHHHHc
Confidence            46788887665544 55678899999999999998876  3333   23344445 468999999999999865 55553


Q ss_pred             -ccccc
Q psy9740          75 -KKQVG   79 (189)
Q Consensus        75 -l~~p~   79 (189)
                       +.+|.
T Consensus       197 ~l~~p~  202 (206)
T d1oywa2         197 GLNDPL  202 (206)
T ss_dssp             TCCSCE
T ss_pred             CCCCCc
Confidence             77773

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=98.73  E-value=1e-08  Score=78.60  Aligned_cols=75  Identities=15%  Similarity=0.194  Sum_probs=59.6

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHh---hCCCCCcEEEEeecCCchHHHHHHhhccc
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFG---AVPKQKQTLLFSATMTDTLEQVKSITKKQ   77 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~---~l~~~~Q~il~SATl~~~v~~l~~~~l~~   77 (189)
                      +++||..+..++.. ....+.+++++|+||+|.+.+.++...++.++.   ..+++.|++++|||+|. .+++++++..+
T Consensus       118 i~~~~~~~~~~~~~-~~~~~~~~~~ii~DE~h~~~~~~r~~~~~~~l~~i~~~~~~~~~l~lSATl~n-~~~~~~~l~~~  195 (202)
T d2p6ra3         118 IVTTSEKADSLIRN-RASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSATAPN-VTEIAEWLDAD  195 (202)
T ss_dssp             EEEEHHHHHHHHHT-TCSGGGGCCEEEETTGGGGGCTTTHHHHHHHHHHHHHHCTTCEEEEEECCCTT-HHHHHHHTTCE
T ss_pred             eeeccHHHHHHHhc-cchhhhhhhhccccHHHHhcccccchHHHHHHHHHHhcCCCCcEEEEcCCCCc-HHHHHHHcCCC
Confidence            47899999998887 777899999999999999998876666555543   44678999999999965 67777666443

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=98.55  E-value=7.2e-08  Score=72.98  Aligned_cols=71  Identities=21%  Similarity=0.305  Sum_probs=55.8

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHH
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKS   72 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~   72 (189)
                      +|+||+++..++.. ..+.+++++++|+||||.+........+...+....++++++++|||.+.....+.+
T Consensus       105 ~i~t~~~~~~~~~~-~~~~~~~~~~vIiDE~H~~~~~~~~~~~~~~~~~~~~~~~~l~~SATp~~~~~~~~~  175 (200)
T d1wp9a1         105 IVATPQTIENDLLA-GRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIME  175 (200)
T ss_dssp             EEECHHHHHHHHHT-TSCCTTSCSEEEEETGGGCSTTCHHHHHHHHHHHHCSSCCEEEEESCSCSSHHHHHH
T ss_pred             cccccchhHHHHhh-hhhhccccceEEEEehhhhhcchhHHHHHHHHHhcCCCCcEEEEEecCCCcHHHHHH
Confidence            47999999999887 788899999999999999987665555555555556678999999997665555443

>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=98.38  E-value=7.1e-08  Score=77.13  Aligned_cols=62  Identities=11%  Similarity=0.121  Sum_probs=45.0

Q ss_pred             CeeehHhhHHHHhcCCCcccCceeeEEeccchhhhcccc--HHHHHHHHhhCCCCCcEEEEeecCCch
Q psy9740           1 VIATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIF--DEQMRTIFGAVPKQKQTLLFSATMTDT   66 (189)
Q Consensus         1 lV~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f--~~~i~~Il~~l~~~~Q~il~SATl~~~   66 (189)
                      +++||+.|..+..  ....+.+++++|+||||.+.+.++  ...+..+..  ....|++++|||.|..
T Consensus        81 ~~~t~~~l~~~~~--~~~~~~~~~~vViDE~H~~~~~~~~~~~~l~~~~~--~~~~~~v~~SAT~~~~  144 (305)
T d2bmfa2          81 DLMCHATFTMRLL--SPIRVPNYNLIIMDEAHFTDPASIAARGYISTRVE--MGEAAGIFMTATPPGS  144 (305)
T ss_dssp             EEEEHHHHHHHHT--SSSCCCCCSEEEEESTTCCSHHHHHHHHHHHHHHH--HTSCEEEEECSSCTTC
T ss_pred             ccCCcHHHHHHHh--cCccccceeEEEeeeeeecchhhHHHHHHHHHhhc--cccceEEEeecCCCcc
Confidence            4789999887765  456688999999999999976653  222222221  2578999999998764

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=97.90  E-value=6.6e-06  Score=57.43  Aligned_cols=58  Identities=16%  Similarity=0.120  Sum_probs=39.2

Q ss_pred             eehHhhHHHHhcCCCcccCceeeEEeccchhhhcccc--HHHHHHHHhhCCCCCcEEEEeecCC
Q psy9740           3 ATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIF--DEQMRTIFGAVPKQKQTLLFSATMT   64 (189)
Q Consensus         3 ~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f--~~~i~~Il~~l~~~~Q~il~SATl~   64 (189)
                      .|.+.+.....  ....+.+++++|+||||.+-..++  +..+..+..  .++.+++++|||.|
T Consensus        81 ~~~~~l~~~~~--~~~~~~~~~lvIiDEaH~~~~~~~~~~~~~~~~~~--~~~~~~l~lTATPp  140 (140)
T d1yksa1          81 MCHATLTYRML--EPTRVVNWEVIIMDEAHFLDPASIAARGWAAHRAR--ANESATILMTATPP  140 (140)
T ss_dssp             EEHHHHHHHHT--SSSCCCCCSEEEETTTTCCSHHHHHHHHHHHHHHH--TTSCEEEEECSSCT
T ss_pred             hhHHHHHHHHh--ccccccceeEEEEccccccChhhHHHHHHHHHHhh--CCCCCEEEEEcCCC
Confidence            45555555433  567788999999999998744432  233333332  36899999999987

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=96.98  E-value=0.00036  Score=48.84  Aligned_cols=56  Identities=16%  Similarity=0.172  Sum_probs=37.3

Q ss_pred             eeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCC--CCcEEEEeec
Q psy9740           2 IATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPK--QKQTLLFSAT   62 (189)
Q Consensus         2 V~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~--~~Q~il~SAT   62 (189)
                      ++|.+.+...    ....+++..++|+||+|.+ +......+..+++.+..  ...++++|||
T Consensus        78 ~~~~~~~~~~----~~~~~~~~~~vIiDE~H~~-~~~~~~~~~~~l~~~~~~~~~~~l~~TAT  135 (136)
T d1a1va1          78 YSTYGKFLAD----GGCSGGAYDIIICDECHST-DATSILGIGTVLDQAETAGARLVVLATAT  135 (136)
T ss_dssp             EEEHHHHHHT----TGGGGCCCSEEEEETTTCC-SHHHHHHHHHHHHHTTTTTCSEEEEEESS
T ss_pred             EEeeeeeccc----cchhhhcCCEEEEeccccc-CHHHHHHHHHHHHHHHHCCCCcEEEEeCC
Confidence            4566655432    3346789999999999975 33333445666766653  5577888998

>d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: DNA helicase UvsW
domain: DNA helicase UvsW
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.20  E-value=0.0014  Score=52.04  Aligned_cols=57  Identities=11%  Similarity=0.142  Sum_probs=39.8

Q ss_pred             eeehHhhHHHHhcCCCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCch
Q psy9740           2 IATPGRLADHLDTCNTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDT   66 (189)
Q Consensus         2 V~TPgrl~~ll~~~~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~   66 (189)
                      |+|+..+..+    ....+++..++|+||||.+-    .+....|+..+.+..-.+.+|||++..
T Consensus       209 i~t~qs~~~~----~~~~~~~f~~VIvDEaH~~~----a~~~~~il~~~~~~~~rlGlTaT~~~~  265 (282)
T d1rifa_         209 VGTWQTVVKQ----PKEWFSQFGMMMNDECHLAT----GKSISSIISGLNNCMFKFGLSGSLRDG  265 (282)
T ss_dssp             EECHHHHTTS----CGGGGGGEEEEEEETGGGCC----HHHHHHHTTTCTTCCEEEEECSSCCTT
T ss_pred             EEeeehhhhh----cccccCCCCEEEEECCCCCC----chhHHHHHHhccCCCeEEEEEeecCCC
Confidence            5676555432    33457789999999999864    345677877775555568999998653

>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=90.58  E-value=0.0091  Score=42.32  Aligned_cols=40  Identities=8%  Similarity=0.074  Sum_probs=23.1

Q ss_pred             hhhcceeEEEecCcchHHHHHHHHHHHHhcCCCCeEEEEecCCC
Q psy9740         146 VEELDQYYVLCPYDVKDGYLVETVRLYREKSPRGAIVIFTDTCR  189 (189)
Q Consensus       146 ~~~l~q~~~~~~~~~K~~~L~~lL~~~~~~~~~~~~iIF~ns~~  189 (189)
                      .++|.+.++..+.+.+.....-.|+...    .+++||||||++
T Consensus         7 ~p~I~~~~~~~~~~~~~~~~~i~l~~~~----~~k~IVFc~t~~   46 (138)
T d1jr6a_           7 HPNIEEVALSTTGEIPFYGKAIPLEVIK----GGRHLIFCHSKK   46 (138)
T ss_dssp             CTTEEEEECCBCSSEECSSCEECHHHHT----TSCEEEECSCHH
T ss_pred             CCCeEEEEeccCChhHHHHhhChHhhcC----CCCEEEEeCcHH
Confidence            3567777666554333222112234433    689999999974

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=89.70  E-value=0.27  Score=37.43  Aligned_cols=54  Identities=15%  Similarity=0.183  Sum_probs=36.3

Q ss_pred             CCcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHhh
Q psy9740          16 NTFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSIT   74 (189)
Q Consensus        16 ~~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~~   74 (189)
                      ..+.++++.++|+||-|+.   |+... + .+.....+..+++.|||=.++...++...
T Consensus       171 ~~~~f~~LgLiIiDEeH~f---g~kQ~-~-~l~~~~~~~~~l~~SATPiprtl~~~~~g  224 (233)
T d2eyqa3         171 SDVKFKDLGLLIVDEEHRF---GVRHK-E-RIKAMRANVDILTLTATPIPRTLNMAMSG  224 (233)
T ss_dssp             SCCCCSSEEEEEEESGGGS---CHHHH-H-HHHHHHTTSEEEEEESSCCCHHHHHHHTT
T ss_pred             cCCccccccceeeechhhh---hhHHH-H-HHHhhCCCCCEEEEecchhHHHHHHHHHh
Confidence            3456899999999999974   44332 2 23333457789999999766655555443

>d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Rad54-like, Rad54L
species: Zebra fish (Danio rerio) [TaxId: 7955]

Probab=84.83  E-value=0.52  Score=36.29  Aligned_cols=39  Identities=21%  Similarity=0.348  Sum_probs=24.6

Q ss_pred             ceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecC
Q psy9740          22 RIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATM   63 (189)
Q Consensus        22 ~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl   63 (189)
                      +-.++|+||||.+-..+  ......+..+ +..-.+++|||-
T Consensus       192 ~~~~vI~DEaH~ikn~~--s~~~~a~~~l-~~~~rllLTGTP  230 (298)
T d1z3ix2         192 KVGLVICDEGHRLKNSD--NQTYLALNSM-NAQRRVLISGTP  230 (298)
T ss_dssp             CCCEEEETTGGGCCTTC--HHHHHHHHHH-CCSEEEEECSSC
T ss_pred             ceeeeeccccccccccc--chhhhhhhcc-ccceeeeecchH
Confidence            45689999999996543  2222223333 344568899995

>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=84.76  E-value=0.2  Score=38.92  Aligned_cols=50  Identities=18%  Similarity=0.232  Sum_probs=30.6

Q ss_pred             CcccCceeeEEeccchhhhccccHHHHHHHHhhCCCCCcEEEEeecCCchHHHHH
Q psy9740          17 TFSLNRIKFLVLDEADRLLSGIFDEQMRTIFGAVPKQKQTLLFSATMTDTLEQVK   71 (189)
Q Consensus        17 ~~~l~~l~~lVlDEaD~ll~~~f~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~   71 (189)
                      .+.++++.++|+||-|+.-   +...  .-+..-.++..++++|||=-++...++
T Consensus       200 ~~~f~~LglviiDEqH~fg---v~Qr--~~l~~~~~~~~~l~~SATPiprtl~~~  249 (264)
T d1gm5a3         200 DVHFKNLGLVIIDEQHRFG---VKQR--EALMNKGKMVDTLVMSATPIPRSMALA  249 (264)
T ss_dssp             CCCCSCCCEEEEESCCCC----------CCCCSSSSCCCEEEEESSCCCHHHHHH
T ss_pred             CCCccccceeeeccccccc---hhhH--HHHHHhCcCCCEEEEECCCCHHHHHHH
Confidence            3557899999999999863   2221  111222346789999999555544444

>d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: ATP:corrinoid adenosyltransferase CobA
species: Salmonella typhimurium [TaxId: 90371]

Probab=80.04  E-value=1.1  Score=31.78  Aligned_cols=54  Identities=13%  Similarity=0.195  Sum_probs=45.8

Q ss_pred             cCceeeEEeccchhhhcccc--HHHHHHHHhhCCCCCcEEEEeecCCchHHHHHHh
Q psy9740          20 LNRIKFLVLDEADRLLSGIF--DEQMRTIFGAVPKQKQTLLFSATMTDTLEQVKSI   73 (189)
Q Consensus        20 l~~l~~lVlDEaD~ll~~~f--~~~i~~Il~~l~~~~Q~il~SATl~~~v~~l~~~   73 (189)
                      -.....||+||.--.++.|+  .+++-.+++.-|...-++++.-..|+++.++|+.
T Consensus        92 ~~~~dllILDEi~~Ai~~gli~~~~v~~ll~~rp~~~evVlTGr~~p~~L~e~ADl  147 (157)
T d1g5ta_          92 DPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGCHRDILDLADT  147 (157)
T ss_dssp             CTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSCCHHHHHHCSE
T ss_pred             cCccCEEeHHHHHHHHHcCCCCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhcce
Confidence            35578999999999999984  5668888888899999999999999999888754