Citrus Sinensis ID: 015595

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400----

MAAATAMRRRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMNVADLI

cHHHHHHHHccccccccccccccccccccccccccccccccHHHHHHHHHcccccccHHHHHHHHHHHccccEEEEcccccHHHHHHHHHHHHccccccccEEEEEEcccHHHHHHHHHHHHHHHcccccEEEEEEccccHHHHHHHHcccccEEEcccHHHHHHcccccccccccEEEcccccccccccHHHHHHHHHHcccccEEEEEEccccHHHHHHHHHHccccEEEEEEccccccccEEEEEEEEcccccHHHHHHHHHHHccccEEEEEEcccccHHHHHHHHHHcccEEEEEccccccHHHHHHHHHHHcccccEEEEHHHHccccccccccEEEEccccccccccEEccccccccccccEEEEcccHHHHHHHHHHHHHHccccccccccccccc

ccccccccccccccccccccEEEEccccccccccHHHccccHHHHHHHHHcccccccccHHHHHHHHHccccEEEEccccHHHHHHHHHHHHHHcccccccccEEEEcccHHHHHHHHHHHHHHcccccccEEEEcccccHHHHHHHHHHccEEEEEcccHHHHHHHcccccccEEEEEccHHHHHccccHHHHHHHHHccccccEEEEEEccccHHHHHHHHHHccccEEEEcccccccccccEEEEEEEccHHHHHHHHHHHHHcccccEEEEEEcccHHHHHHHHHHHHccccEEEHcccccHHHHHHHHHHHHccccEEEEEEEHHHccccccccEEEEEEcccccHHHHEEEEcccccccccEEEEEEEcHHHHHHHHHHHHHHHHHHHcccccHHHHc

MAAATAMRrrgggggmdddkMVFETTEGVeaitsfdamgiKDDLLRGIYQygfekpsaiqqravmpiikgrDVIAqaqsgtgktSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFiniqahacvggksvgedIRKLehgvhvvsgtpgrvcdmIKRKTLRTRAIKLLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTkfmtdpvkILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTekmrgynftvssmhgdmpqkerDAIMgefrsgttrVLITTDVwargldvqQVSLVINydlpnnrelyIHRIgrsgrfgrkgvainfvknddiKILRDIEQYYSTqidempmnvadli

maaatamrrrgggggmdddkMVFETTEGVEaitsfdamgiKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAqsgtgktsmIALTVCQTVDTSSREVQALIlsptrelatQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEhgvhvvsgtpgrvcdmikrkTLRTRAIklldesdemlsRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMttkfmtdpVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNftvssmhgdmpQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVinydlpnnrELYIHRigrsgrfgrkgvainfvknddikilRDIEQYystqidempmnvadli

maaatamrrrgggggmdddKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMNVADLI

***********************ETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVS*************IMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQI***********

**************************EGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMNV**LI

*************GGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMNVADLI

******************DKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIALTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMNV****

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		404	2.2.26 [Sep-21-2011]
Q5VNM3		404	DEAD-box ATP-dependent RN	yes	no	0.995	0.995	0.881	0.0
Q10I26		404	DEAD-box ATP-dependent RN	yes	no	0.995	0.995	0.876	0.0
Q94A52		408	DEAD-box ATP-dependent RN	yes	no	0.965	0.955	0.897	0.0
P41380		391	Eukaryotic initiation fac	N/A	no	0.962	0.994	0.905	0.0
Q3B8Q2		411	Eukaryotic initiation fac	yes	no	1.0	0.982	0.768	0.0
A6M931		411	Eukaryotic initiation fac	yes	no	1.0	0.982	0.768	0.0
Q2NL22		411	Eukaryotic initiation fac	yes	no	1.0	0.982	0.768	0.0
P38919		411	Eukaryotic initiation fac	yes	no	0.960	0.944	0.797	0.0
Q91VC3		411	Eukaryotic initiation fac	yes	no	0.960	0.944	0.797	0.0
Q7ZVA6		406	Eukaryotic initiation fac	yes	no	1.0	0.995	0.775	0.0

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

 Score =  746 bits (1926), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 358/406 (88%), Positives = 381/406 (93%), Gaps = 4/406 (0%)

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

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

Query: 121 ILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLL- 179
           +LAIGDFINIQ HAC+GGKS+GEDIRKLEHGVHVVSGTPGRVCDMIKR+TLRTRAIKLL 
Sbjct: 119 MLAIGDFINIQVHACIGGKSIGEDIRKLEHGVHVVSGTPGRVCDMIKRRTLRTRAIKLLI 178

Query: 180 -DESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDE 238
            DE+DEML RGFKDQIYDVYRYLPP+LQV LISATLPHEILEMT+KFMTDPV+ILVKRDE
Sbjct: 179 LDEADEMLGRGFKDQIYDVYRYLPPELQVCLISATLPHEILEMTSKFMTDPVRILVKRDE 238

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

Query: 299 SMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRI 358
           +MHGDMPQKERDAIMGEFRSG TRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRI
Sbjct: 299 AMHGDMPQKERDAIMGEFRSGATRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRI 358

Query: 359 GRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMNVADLI 404
           GRSGRFGRKGVAINFVK +DI+ILRDIEQYYSTQIDEMPMNVADLI
Sbjct: 359 GRSGRFGRKGVAINFVKKEDIRILRDIEQYYSTQIDEMPMNVADLI 404

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

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

>sp\|Q94A52\|RH2_ARATH DEAD-box ATP-dependent RNA helicase 2 OS=Arabidopsis thaliana GN=RH2 PE=2 SV=2	Back alignment and function description

>sp\|P41380\|IF4A3_NICPL Eukaryotic initiation factor 4A-3 OS=Nicotiana plumbaginifolia PE=2 SV=1	Back alignment and function description

>sp\|Q3B8Q2\|IF4A3_RAT Eukaryotic initiation factor 4A-III OS=Rattus norvegicus GN=Eif4a3 PE=1 SV=1	Back alignment and function description

>sp\|A6M931\|IF4A3_PIG Eukaryotic initiation factor 4A-III OS=Sus scrofa GN=EIF4A3 PE=2 SV=1	Back alignment and function description

>sp\|Q2NL22\|IF4A3_BOVIN Eukaryotic initiation factor 4A-III OS=Bos taurus GN=EIF4A3 PE=2 SV=3	Back alignment and function description

>sp\|P38919\|IF4A3_HUMAN Eukaryotic initiation factor 4A-III OS=Homo sapiens GN=EIF4A3 PE=1 SV=4	Back alignment and function description

>sp\|Q91VC3\|IF4A3_MOUSE Eukaryotic initiation factor 4A-III OS=Mus musculus GN=Eif4a3 PE=2 SV=3	Back alignment and function description

>sp\|Q7ZVA6\|IF4A3_DANRE Eukaryotic initiation factor 4A-III OS=Danio rerio GN=eif4a3 PE=2 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		404
225464928		412	PREDICTED: eukaryotic initiation factor	0.997	0.978	0.909	0.0
255559772		407	dead box ATP-dependent RNA helicase, put	0.960	0.953	0.933	0.0
356530272		407	PREDICTED: DEAD-box ATP-dependent RNA he	0.992	0.985	0.911	0.0
356556161		406	PREDICTED: DEAD-box ATP-dependent RNA he	0.990	0.985	0.908	0.0
317159567		395	DEAD box RNA helicase RH2b [Hevea brasil	0.960	0.982	0.928	0.0
115438787		404	Os01g0639100 [Oryza sativa Japonica Grou	0.995	0.995	0.881	0.0
118574850		406	DH [Medicago sativa]	0.992	0.987	0.899	0.0
449461689		410	PREDICTED: eukaryotic initiation factor	0.957	0.943	0.930	0.0
388500968		406	unknown [Medicago truncatula]	0.992	0.987	0.899	0.0
115453811		404	Os03g0566800 [Oryza sativa Japonica Grou	0.995	0.995	0.876	0.0

>gi\|225464928\|ref\|XP_002275011.1\| PREDICTED: eukaryotic initiation factor 4A-3-like [Vitis vinifera]	Back alignment and taxonomy information

 Score =  761 bits (1964), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 373/410 (90%), Positives = 388/410 (94%), Gaps = 7/410 (1%)

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

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

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

Query: 177 KLL--DESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILV 234
           KLL  DESDEMLSRGFKDQIYDVYRYLPP+LQVVLISATLP+EILE+T KFMTDPV+ILV
Sbjct: 183 KLLVLDESDEMLSRGFKDQIYDVYRYLPPELQVVLISATLPNEILEITNKFMTDPVRILV 242

Query: 235 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYN 294
           KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMR  N
Sbjct: 243 KRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRSNN 302

Query: 295 FTVSSMHGDMPQKERDAIMGEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELY 354
           FTVSSMHGDMPQKERDAIM EFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELY
Sbjct: 303 FTVSSMHGDMPQKERDAIMAEFRSGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELY 362

Query: 355 IHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMNVADLI 404
           IHRIGRSGRFGRKGVAINFVK DDIKILRDIEQYYSTQIDEMPMNVADLI
Sbjct: 363 IHRIGRSGRFGRKGVAINFVKTDDIKILRDIEQYYSTQIDEMPMNVADLI 412

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

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

>gi\|356530272\|ref\|XP_003533706.1\| PREDICTED: DEAD-box ATP-dependent RNA helicase 2-like [Glycine max]	Back alignment and taxonomy information

>gi\|356556161\|ref\|XP_003546395.1\| PREDICTED: DEAD-box ATP-dependent RNA helicase 2-like [Glycine max]	Back alignment and taxonomy information

>gi\|317159567\|gb\|ADV04058.1\| DEAD box RNA helicase RH2b [Hevea brasiliensis]	Back alignment and taxonomy information

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

Back alignment and taxonomy information

>gi\|118574850\|gb\|ABL07003.1\| DH [Medicago sativa]	Back alignment and taxonomy information

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

>gi\|388500968\|gb\|AFK38550.1\| unknown [Medicago truncatula]	Back alignment and taxonomy information

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

Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		404
TAIR\|locus:2091191		408	EIF4A-III "eukaryotic initiati	0.952	0.943	0.899	2.2e-185
FB\|FBgn0037573		399	eIF4AIII "eIF4AIII" [Drosophil	0.945	0.957	0.809	5.8e-169
UNIPROTKB\|Q5ZM36		412	EIF4A3 "Eukaryotic initiation	0.952	0.934	0.801	8.5e-168
UNIPROTKB\|Q2NL22		411	EIF4A3 "Eukaryotic initiation	0.952	0.936	0.801	8.5e-168
UNIPROTKB\|E2RDZ4		411	EIF4A3 "Uncharacterized protei	0.952	0.936	0.801	8.5e-168
UNIPROTKB\|P38919		411	EIF4A3 "Eukaryotic initiation	0.952	0.936	0.801	8.5e-168
UNIPROTKB\|A6M931		411	EIF4A3 "Eukaryotic initiation	0.952	0.936	0.801	8.5e-168
RGD\|1591139		411	Eif4a3 "eukaryotic translation	0.952	0.936	0.801	8.5e-168
ZFIN\|ZDB-GENE-040426-915		406	eif4a3 "eukaryotic translation	0.952	0.948	0.801	1.1e-167
WB\|WBGene00018007		399	F33D11.10 [Caenorhabditis eleg	0.945	0.957	0.783	7.9e-165

TAIR\|locus:2091191 EIF4A-III "eukaryotic initiation factor 4A-III" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1798 (638.0 bits), Expect = 2.2e-185, P = 2.2e-185
 Identities = 348/387 (89%), Positives = 372/387 (96%)

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

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

Query:   140 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRKTLRTRAIKLL--DESDEMLSRGFKDQIYDV 197
             SVGEDIRKLEHGVHVVSGTPGRVCDMIKR++LRTRAIKLL  DESDEMLSRGFKDQIYDV
Sbjct:   142 SVGEDIRKLEHGVHVVSGTPGRVCDMIKRRSLRTRAIKLLILDESDEMLSRGFKDQIYDV 201

Query:   198 YRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWK 257
             YRYLPPDLQV L+SATLPHEILEMT+KFMT+PVKILVKRDELTLEGIKQFFVAVE+EEWK
Sbjct:   202 YRYLPPDLQVCLVSATLPHEILEMTSKFMTEPVKILVKRDELTLEGIKQFFVAVEKEEWK 261

Query:   258 FDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFR 317
             FDTLCDLYDTLTITQAVIFCNTKRKVD+L+EKMR +NFTVSSMHGDMPQKERDAIM EFR
Sbjct:   262 FDTLCDLYDTLTITQAVIFCNTKRKVDYLSEKMRSHNFTVSSMHGDMPQKERDAIMNEFR 321

Query:   318 SGTTRVLITTDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKND 377
             SG +RVLITTDVWARG+DVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVK+D
Sbjct:   322 SGDSRVLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKSD 381

Query:   378 DIKILRDIEQYYSTQIDEMPMNVADLI 404
             DIKILRDIEQYYSTQIDEMPMNVADLI
Sbjct:   382 DIKILRDIEQYYSTQIDEMPMNVADLI 408

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0004386 "helicase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0005730 "nucleolus" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0001666 "response to hypoxia" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005654 "nucleoplasm" evidence=IDA

GO:0006397 "mRNA processing" evidence=IPI

GO:0016607 "nuclear speck" evidence=IDA

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

FB\|FBgn0037573 eIF4AIII "eIF4AIII" [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

UNIPROTKB\|Q5ZM36 EIF4A3 "Eukaryotic initiation factor 4A-III" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|Q2NL22 EIF4A3 "Eukaryotic initiation factor 4A-III" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|E2RDZ4 EIF4A3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|P38919 EIF4A3 "Eukaryotic initiation factor 4A-III" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|A6M931 EIF4A3 "Eukaryotic initiation factor 4A-III" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

RGD\|1591139 Eif4a3 "eukaryotic translation initiation factor 4A, isoform 3" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-040426-915 eif4a3 "eukaryotic translation initiation factor 4A, isoform 3" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

WB\|WBGene00018007 F33D11.10 [Caenorhabditis elegans (taxid:6239)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
A1C595	FAL1_ASPCL	3, ., 6, ., 4, ., 1, 3	0.7282	0.9603	0.9724	N/A	no
Q2HFP1	IF4A_CHAGB	3, ., 6, ., 4, ., 1, 3	0.6843	0.9282	0.9445	N/A	no
P0CQ73	FAL1_CRYNB	3, ., 6, ., 4, ., 1, 3	0.7588	0.9702	0.9898	N/A	no
P0CQ72	FAL1_CRYNJ	3, ., 6, ., 4, ., 1, 3	0.7588	0.9702	0.9898	yes	no
Q4IAA0	FAL1_GIBZE	3, ., 6, ., 4, ., 1, 3	0.7153	0.9702	0.9775	yes	no
Q4P331	IF4A_USTMA	3, ., 6, ., 4, ., 1, 3	0.688	0.9232	0.9075	N/A	no
Q2NL22	IF4A3_BOVIN	3, ., 6, ., 4, ., 1, 3	0.7688	1.0	0.9829	yes	no
A6QSQ0	FAL1_AJECN	3, ., 6, ., 4, ., 1, 3	0.7265	0.9455	0.8488	N/A	no
A5DWJ1	FAL1_LODEL	3, ., 6, ., 4, ., 1, 3	0.6342	0.9579	0.9699	N/A	no
Q4WEB4	FAL1_ASPFU	3, ., 6, ., 4, ., 1, 3	0.7208	0.9702	0.9849	yes	no
Q0CAS8	FAL1_ASPTN	3, ., 6, ., 4, ., 1, 3	0.7352	0.9579	0.9699	N/A	no
B5FZY7	IF4A3_TAEGU	3, ., 6, ., 4, ., 1, 3	0.7974	0.9603	0.9463	yes	no
Q55D61	IF4A_DICDI	3, ., 6, ., 4, ., 1, 3	0.7041	0.9405	0.9382	yes	no
O42226	I4A3B_XENLA	3, ., 6, ., 4, ., 1, 3	0.7968	0.9455	0.9227	N/A	no
A4QVP2	IF4A_MAGO7	3, ., 6, ., 4, ., 1, 3	0.6923	0.9282	0.9469	N/A	no
Q9P735	FAL1_NEUCR	3, ., 6, ., 4, ., 1, 3	0.7196	0.9678	0.9775	N/A	no
Q9C8J1	RH34_ARATH	3, ., 6, ., 4, ., 1, 3	0.7277	0.9603	0.9897	no	no
A3GFV3	FAL1_PICST	3, ., 6, ., 4, ., 1, 3	0.6496	0.9579	0.9699	yes	no
P41380	IF4A3_NICPL	3, ., 6, ., 4, ., 1, 3	0.9053	0.9628	0.9948	N/A	no
A6M931	IF4A3_PIG	3, ., 6, ., 4, ., 1, 3	0.7688	1.0	0.9829	yes	no
Q6BT27	FAL1_DEBHA	3, ., 6, ., 4, ., 1, 3	0.6317	0.9579	0.9699	yes	no
Q2UAK1	FAL1_ASPOR	3, ., 6, ., 4, ., 1, 3	0.7270	0.9653	0.9798	yes	no
B5DG42	IF4A3_SALSA	3, ., 6, ., 4, ., 1, 3	0.7758	1.0	0.9950	N/A	no
Q5A9Z6	FAL1_CANAL	3, ., 6, ., 4, ., 1, 3	0.6393	0.9579	0.9699	N/A	no
Q7RV88	IF4A_NEUCR	3, ., 6, ., 4, ., 1, 3	0.6896	0.9282	0.9445	N/A	no
A7EM88	FAL1_SCLS1	3, ., 6, ., 4, ., 1, 3	0.7275	0.9579	0.9699	N/A	no
Q91VC3	IF4A3_MOUSE	3, ., 6, ., 4, ., 1, 3	0.7974	0.9603	0.9440	yes	no
A5AAE5	FAL1_ASPNC	3, ., 6, ., 4, ., 1, 3	0.7326	0.9579	0.9699	yes	no
Q5U526	I4A3A_XENLA	3, ., 6, ., 4, ., 1, 3	0.7948	0.9603	0.9349	N/A	no
Q7ZVA6	IF4A3_DANRE	3, ., 6, ., 4, ., 1, 3	0.7758	1.0	0.9950	yes	no
A6S4N4	FAL1_BOTFB	3, ., 6, ., 4, ., 1, 3	0.7249	0.9579	0.9699	N/A	no
Q0UAT0	FAL1_PHANO	3, ., 6, ., 4, ., 1, 3	0.6838	0.8960	0.9679	N/A	no
Q2GWJ5	FAL1_CHAGB	3, ., 6, ., 4, ., 1, 3	0.7071	0.9257	0.9492	N/A	no
A4QU31	FAL1_MAGO7	3, ., 6, ., 4, ., 1, 3	0.7103	0.9702	0.9775	N/A	no
P38919	IF4A3_HUMAN	3, ., 6, ., 4, ., 1, 3	0.7974	0.9603	0.9440	yes	no
Q5ZM36	IF4A3_CHICK	3, ., 6, ., 4, ., 1, 3	0.7974	0.9603	0.9417	yes	no
A1D071	FAL1_NEOFI	3, ., 6, ., 4, ., 1, 3	0.7300	0.9579	0.9699	N/A	no
B7ZTW1	IF4A3_XENTR	3, ., 6, ., 4, ., 1, 3	0.7974	0.9603	0.9349	yes	no
Q4R3Q1	IF4A3_MACFA	3, ., 6, ., 4, ., 1, 3	0.7923	0.9603	0.9440	N/A	no
Q6C347	FAL1_YARLI	3, ., 6, ., 4, ., 1, 3	0.7095	0.9579	0.9748	yes	no
Q10I26	RH34_ORYSJ	3, ., 6, ., 4, ., 1, 3	0.8768	0.9950	0.9950	yes	no
Q94A52	RH2_ARATH	3, ., 6, ., 4, ., 1, 3	0.8979	0.9653	0.9558	yes	no
A1D7N3	IF4A_NEOFI	3, ., 6, ., 4, ., 1, 3	0.6683	0.9579	0.9723	N/A	no
Q4P184	FAL1_USTMA	3, ., 6, ., 4, ., 1, 3	0.7297	0.9752	0.9924	N/A	no
Q3B8Q2	IF4A3_RAT	3, ., 6, ., 4, ., 1, 3	0.7688	1.0	0.9829	yes	no
Q1DTB3	FAL1_COCIM	3, ., 6, ., 4, ., 1, 3	0.7352	0.9579	0.9699	N/A	no
Q5VNM3	RH2_ORYSJ	3, ., 6, ., 4, ., 1, 3	0.8817	0.9950	0.9950	yes	no
Q10055	FAL1_SCHPO	3, ., 6, ., 4, ., 1, 3	0.7251	0.9405	0.9644	yes	no
Q5AUL4	FAL1_EMENI	3, ., 6, ., 4, ., 1, 3	0.7352	0.9579	0.9699	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.6.4.13	0.994
3rd Layer	3.6.4	0.998

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00037338001	SubName- Full=Chromosome undetermined scaffold_87, whole genome shotgun sequence; (415 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00034829001	SubName- Full=Chromosome chr4 scaffold_73, whole genome shotgun sequence; (202 aa)	•	•	•	0.821

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		404
PTZ00424		401	PTZ00424, PTZ00424, helicase 45; Provisional	0.0
COG0513		513	COG0513, SrmB, Superfamily II DNA and RNA helicase	1e-133
PRK11776		460	PRK11776, PRK11776, ATP-dependent RNA helicase Dbp	1e-102
cd00268		203	cd00268, DEADc, DEAD-box helicases	1e-88
PRK10590		456	PRK10590, PRK10590, ATP-dependent RNA helicase Rhl	1e-76
PRK11634		629	PRK11634, PRK11634, ATP-dependent RNA helicase Dea	7e-75
PRK11192		434	PRK11192, PRK11192, ATP-dependent RNA helicase Srm	5e-67
PTZ00110		545	PTZ00110, PTZ00110, helicase; Provisional	8e-65
PRK01297		475	PRK01297, PRK01297, ATP-dependent RNA helicase Rhl	7e-63
PRK04837		423	PRK04837, PRK04837, ATP-dependent RNA helicase Rhl	3e-59
PRK04537		572	PRK04537, PRK04537, ATP-dependent RNA helicase Rhl	9e-59
PLN00206		518	PLN00206, PLN00206, DEAD-box ATP-dependent RNA hel	3e-57
pfam00270		169	pfam00270, DEAD, DEAD/DEAH box helicase	1e-46
smart00487		201	smart00487, DEXDc, DEAD-like helicases superfamily	2e-43
cd00079		131	cd00079, HELICc, Helicase superfamily c-terminal d	2e-42
pfam00271		78	pfam00271, Helicase_C, Helicase conserved C-termin	1e-29
cd00046		144	cd00046, DEXDc, DEAD-like helicases superfamily	2e-29
smart00490		82	smart00490, HELICc, helicase superfamily c-termina	2e-28
COG1205		851	COG1205, COG1205, Distinct helicase family with a	4e-13
COG0514		590	COG0514, RecQ, Superfamily II DNA helicase [DNA re	7e-12
TIGR01389		591	TIGR01389, recQ, ATP-dependent DNA helicase RecQ	1e-11
TIGR00614		470	TIGR00614, recQ_fam, ATP-dependent DNA helicase, R	1e-09
COG1061		442	COG1061, SSL2, DNA or RNA helicases of superfamily	2e-09
PRK11057		607	PRK11057, PRK11057, ATP-dependent DNA helicase Rec	9e-09
COG1111		542	COG1111, MPH1, ERCC4-like helicases [DNA replicati	3e-08
COG1201		814	COG1201, Lhr, Lhr-like helicases [General function	4e-07
TIGR01587		358	TIGR01587, cas3_core, CRISPR-associated helicase C	3e-06
TIGR00643		630	TIGR00643, recG, ATP-dependent DNA helicase RecG	3e-06
PRK13766		773	PRK13766, PRK13766, Hef nuclease; Provisional	3e-05
COG1200		677	COG1200, RecG, RecG-like helicase [DNA replication	4e-05
COG1202		830	COG1202, COG1202, Superfamily II helicase, archaea	4e-05
cd09639		353	cd09639, Cas3_I, CRISPR/Cas system-associated prot	1e-04
PRK10917		681	PRK10917, PRK10917, ATP-dependent DNA helicase Rec	2e-04
PLN03137		1195	PLN03137, PLN03137, ATP-dependent DNA helicase; Q4	3e-04
COG0553		866	COG0553, HepA, Superfamily II DNA/RNA helicases, S	5e-04
TIGR00595		505	TIGR00595, priA, primosomal protein N'	0.001
TIGR00631		655	TIGR00631, uvrb, excinuclease ABC, B subunit	0.004

>gnl\|CDD\|185609 PTZ00424, PTZ00424, helicase 45; Provisional	Back alignment and domain information

 Score =  593 bits (1531), Expect = 0.0
 Identities = 258/377 (68%), Positives = 313/377 (83%), Gaps = 2/377 (0%)

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

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

Query: 150 HGVHVVSGTPGRVCDMIKRKTLRTRAIKL--LDESDEMLSRGFKDQIYDVYRYLPPDLQV 207
            GVH+V GTPGRV DMI ++ LR   +KL  LDE+DEMLSRGFK QIYDV++ LPPD+QV
Sbjct: 145 AGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEMLSRGFKGQIYDVFKKLPPDVQV 204

Query: 208 VLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDT 267
            L SAT+P+EILE+TTKFM DP +ILVK+DELTLEGI+QF+VAVE+EEWKFDTLCDLY+T
Sbjct: 205 ALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVEKEEWKFDTLCDLYET 264

Query: 268 LTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLITT 327
           LTITQA+I+CNT+RKVD+LT+KM   +FTVS MHGDM QK+RD IM EFRSG+TRVLITT
Sbjct: 265 LTITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITT 324

Query: 328 DVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQ 387
           D+ ARG+DVQQVSLVINYDLP + E YIHRIGRSGRFGRKGVAINFV  DDI+ L++IE+
Sbjct: 325 DLLARGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDDIEQLKEIER 384

Query: 388 YYSTQIDEMPMNVADLI 404
           +Y+TQI+EMPM VAD +
Sbjct: 385 HYNTQIEEMPMEVADYL 401

Length = 401

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

>gnl\|CDD\|236977 PRK11776, PRK11776, ATP-dependent RNA helicase DbpA; Provisional	Back alignment and domain information

>gnl\|CDD\|238167 cd00268, DEADc, DEAD-box helicases	Back alignment and domain information

>gnl\|CDD\|236722 PRK10590, PRK10590, ATP-dependent RNA helicase RhlE; Provisional	Back alignment and domain information

>gnl\|CDD\|236941 PRK11634, PRK11634, ATP-dependent RNA helicase DeaD; Provisional	Back alignment and domain information

>gnl\|CDD\|236877 PRK11192, PRK11192, ATP-dependent RNA helicase SrmB; Provisional	Back alignment and domain information

>gnl\|CDD\|240273 PTZ00110, PTZ00110, helicase; Provisional	Back alignment and domain information

>gnl\|CDD\|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>gnl\|CDD\|235314 PRK04837, PRK04837, ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>gnl\|CDD\|235307 PRK04537, PRK04537, ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>gnl\|CDD\|215103 PLN00206, PLN00206, DEAD-box ATP-dependent RNA helicase; Provisional	Back alignment and domain information

>gnl\|CDD\|215832 pfam00270, DEAD, DEAD/DEAH box helicase	Back alignment and domain information

>gnl\|CDD\|214692 smart00487, DEXDc, DEAD-like helicases superfamily	Back alignment and domain information

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

Back alignment and domain information

>gnl\|CDD\|201125 pfam00271, Helicase_C, Helicase conserved C-terminal domain	Back alignment and domain information

>gnl\|CDD\|238005 cd00046, DEXDc, DEAD-like helicases superfamily	Back alignment and domain information

>gnl\|CDD\|197757 smart00490, HELICc, helicase superfamily c-terminal domain	Back alignment and domain information

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

>gnl\|CDD\|223588 COG0514, RecQ, Superfamily II DNA helicase [DNA replication, recombination, and repair]	Back alignment and domain information

>gnl\|CDD\|130456 TIGR01389, recQ, ATP-dependent DNA helicase RecQ	Back alignment and domain information

>gnl\|CDD\|129701 TIGR00614, recQ_fam, ATP-dependent DNA helicase, RecQ family	Back alignment and domain information

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

>gnl\|CDD\|182933 PRK11057, PRK11057, ATP-dependent DNA helicase RecQ; Provisional	Back alignment and domain information

>gnl\|CDD\|224036 COG1111, MPH1, ERCC4-like helicases [DNA replication, recombination, and repair]	Back alignment and domain information

>gnl\|CDD\|224122 COG1201, Lhr, Lhr-like helicases [General function prediction only]	Back alignment and domain information

>gnl\|CDD\|233483 TIGR01587, cas3_core, CRISPR-associated helicase Cas3	Back alignment and domain information

>gnl\|CDD\|233069 TIGR00643, recG, ATP-dependent DNA helicase RecG	Back alignment and domain information

>gnl\|CDD\|237496 PRK13766, PRK13766, Hef nuclease; Provisional	Back alignment and domain information

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

>gnl\|CDD\|224123 COG1202, COG1202, Superfamily II helicase, archaea-specific [General function prediction only]	Back alignment and domain information

>gnl\|CDD\|187770 cd09639, Cas3_I, CRISPR/Cas system-associated protein Cas3	Back alignment and domain information

>gnl\|CDD\|236794 PRK10917, PRK10917, ATP-dependent DNA helicase RecG; Provisional	Back alignment and domain information

>gnl\|CDD\|215597 PLN03137, PLN03137, ATP-dependent DNA helicase; Q4-like; Provisional	Back alignment and domain information

>gnl\|CDD\|223627 COG0553, HepA, Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]	Back alignment and domain information

>gnl\|CDD\|233040 TIGR00595, priA, primosomal protein N'	Back alignment and domain information

>gnl\|CDD\|233063 TIGR00631, uvrb, excinuclease ABC, B subunit	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		404
KOG0328		400	consensus Predicted ATP-dependent RNA helicase FAL	100.0
KOG0330		476	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0331		519	consensus ATP-dependent RNA helicase [RNA processi	100.0
PRK04837		423	ATP-dependent RNA helicase RhlB; Provisional	100.0
PTZ00110		545	helicase; Provisional	100.0
PRK10590		456	ATP-dependent RNA helicase RhlE; Provisional	100.0
PRK11776		460	ATP-dependent RNA helicase DbpA; Provisional	100.0
PLN00206		518	DEAD-box ATP-dependent RNA helicase; Provisional	100.0
COG0513		513	SrmB Superfamily II DNA and RNA helicases [DNA rep	100.0
PRK11634		629	ATP-dependent RNA helicase DeaD; Provisional	100.0
PRK04537		572	ATP-dependent RNA helicase RhlB; Provisional	100.0
PRK11192		434	ATP-dependent RNA helicase SrmB; Provisional	100.0
PTZ00424		401	helicase 45; Provisional	100.0
PRK01297		475	ATP-dependent RNA helicase RhlB; Provisional	100.0
KOG0326		459	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0333		673	consensus U5 snRNP-like RNA helicase subunit [RNA	100.0
KOG0342		543	consensus ATP-dependent RNA helicase pitchoune [RN	100.0
KOG0343		758	consensus RNA Helicase [RNA processing and modific	100.0
KOG0340		442	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0345		567	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0338		691	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0336		629	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0335		482	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0339		731	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0346		569	consensus RNA helicase [RNA processing and modific	100.0
KOG0327		397	consensus Translation initiation factor 4F, helica	100.0
KOG0332		477	consensus ATP-dependent RNA helicase [RNA processi	100.0
KOG0348		708	consensus ATP-dependent RNA helicase [RNA processi	100.0
TIGR03817		742	DECH_helic helicase/secretion neighborhood putativ	100.0
KOG0341		610	consensus DEAD-box protein abstrakt [RNA processin	100.0
KOG0347		731	consensus RNA helicase [RNA processing and modific	100.0
KOG0334		997	consensus RNA helicase [RNA processing and modific	100.0
PLN03137		1195	ATP-dependent DNA helicase; Q4-like; Provisional	100.0
TIGR00614		470	recQ_fam ATP-dependent DNA helicase, RecQ family.	100.0
KOG4284		980	consensus DEAD box protein [Transcription]	100.0
PRK11057		607	ATP-dependent DNA helicase RecQ; Provisional	100.0
PRK02362		737	ski2-like helicase; Provisional	100.0
KOG0337		529	consensus ATP-dependent RNA helicase [RNA processi	100.0
TIGR01389		591	recQ ATP-dependent DNA helicase RecQ. The ATP-depe	100.0
KOG0350		620	consensus DEAD-box ATP-dependent RNA helicase [RNA	100.0
PRK13767		876	ATP-dependent helicase; Provisional	100.0
PRK00254		720	ski2-like helicase; Provisional	100.0
KOG0344		593	consensus ATP-dependent RNA helicase [RNA processi	100.0
COG1201		814	Lhr Lhr-like helicases [General function predictio	100.0
TIGR00580		926	mfd transcription-repair coupling factor (mfd). Al	100.0
PRK01172		674	ski2-like helicase; Provisional	100.0
PRK10917		681	ATP-dependent DNA helicase RecG; Provisional	100.0
PRK10689		1147	transcription-repair coupling factor; Provisional	100.0
COG0514		590	RecQ Superfamily II DNA helicase [DNA replication,	100.0
TIGR00643		630	recG ATP-dependent DNA helicase RecG.	100.0
TIGR02621		844	cas3_GSU0051 CRISPR-associated helicase Cas3, Anae	100.0
COG1111		542	MPH1 ERCC4-like helicases [DNA replication, recomb	100.0
PRK09751		1490	putative ATP-dependent helicase Lhr; Provisional	100.0
PHA02558		501	uvsW UvsW helicase; Provisional	100.0
COG1202		830	Superfamily II helicase, archaea-specific [General	100.0
KOG0329		387	consensus ATP-dependent RNA helicase [RNA processi	100.0
PRK09401		1176	reverse gyrase; Reviewed	100.0
PHA02653		675	RNA helicase NPH-II; Provisional	100.0
COG1204		766	Superfamily II helicase [General function predicti	100.0
TIGR01970		819	DEAH_box_HrpB ATP-dependent helicase HrpB. This mo	100.0
TIGR01587		358	cas3_core CRISPR-associated helicase Cas3. This mo	100.0
PRK11664		812	ATP-dependent RNA helicase HrpB; Provisional	100.0
COG1205		851	Distinct helicase family with a unique C-terminal	100.0
PRK13766		773	Hef nuclease; Provisional	100.0
PRK14701		1638	reverse gyrase; Provisional	100.0
TIGR00603		732	rad25 DNA repair helicase rad25. All proteins in t	100.0
KOG0354		746	consensus DEAD-box like helicase [General function	100.0
PRK12898		656	secA preprotein translocase subunit SecA; Reviewed	100.0
TIGR01054		1171	rgy reverse gyrase. Generally, these gyrases are e	100.0
TIGR03158		357	cas3_cyano CRISPR-associated helicase, Cyano-type.	100.0
PRK09200		790	preprotein translocase subunit SecA; Reviewed	100.0
TIGR03714		762	secA2 accessory Sec system translocase SecA2. Memb	100.0
TIGR00963		745	secA preprotein translocase, SecA subunit. The pro	100.0
KOG0351		941	consensus ATP-dependent DNA helicase [Replication,	100.0
KOG0952		1230	consensus DNA/RNA helicase MER3/SLH1, DEAD-box sup	100.0
KOG0353		695	consensus ATP-dependent DNA helicase [General func	100.0
COG1200		677	RecG RecG-like helicase [DNA replication, recombin	100.0
COG1061		442	SSL2 DNA or RNA helicases of superfamily II [Trans	100.0
KOG0352		641	consensus ATP-dependent DNA helicase [Replication,	100.0
PRK04914		956	ATP-dependent helicase HepA; Validated	100.0
PRK11131		1294	ATP-dependent RNA helicase HrpA; Provisional	100.0
KOG0947		1248	consensus Cytoplasmic exosomal RNA helicase SKI2,	100.0
KOG0349		725	consensus Putative DEAD-box RNA helicase DDX1 [RNA	100.0
PRK05580		679	primosome assembly protein PriA; Validated	100.0
COG1197		1139	Mfd Transcription-repair coupling factor (superfam	100.0
PRK09694		878	helicase Cas3; Provisional	100.0
KOG0951		1674	consensus RNA helicase BRR2, DEAD-box superfamily	99.98
cd00268		203	DEADc DEAD-box helicases. A diverse family of prot	99.98
KOG0948		1041	consensus Nuclear exosomal RNA helicase MTR4, DEAD	99.97
COG4098		441	comFA Superfamily II DNA/RNA helicase required for	99.97
TIGR00595		505	priA primosomal protein N'. All proteins in this f	99.97
TIGR01967		1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	99.97
PRK11448		1123	hsdR type I restriction enzyme EcoKI subunit R; Pr	99.97
COG4581		1041	Superfamily II RNA helicase [DNA replication, reco	99.97
PRK12904		830	preprotein translocase subunit SecA; Reviewed	99.97
PRK13104		896	secA preprotein translocase subunit SecA; Reviewed	99.96
PRK12906		796	secA preprotein translocase subunit SecA; Reviewed	99.96
PLN03142		1033	Probable chromatin-remodeling complex ATPase chain	99.96
PRK12899		970	secA preprotein translocase subunit SecA; Reviewed	99.95
KOG0950		1008	consensus DNA polymerase theta/eta, DEAD-box super	99.95
COG1203		733	CRISPR-associated helicase Cas3 [Defense mechanism	99.95
COG1643		845	HrpA HrpA-like helicases [DNA replication, recombi	99.95
PRK13107		908	preprotein translocase subunit SecA; Reviewed	99.94
PF00270		169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	99.94
COG1110		1187	Reverse gyrase [DNA replication, recombination, an	99.94
KOG0922		674	consensus DEAH-box RNA helicase [RNA processing an	99.94
COG4096		875	HsdR Type I site-specific restriction-modification	99.93
TIGR00348		667	hsdR type I site-specific deoxyribonuclease, HsdR	99.93
KOG0387		923	consensus Transcription-coupled repair protein CSB	99.93
KOG0385		971	consensus Chromatin remodeling complex WSTF-ISWI,	99.92
COG1198		730	PriA Primosomal protein N' (replication factor Y)	99.91
KOG0390		776	consensus DNA repair protein, SNF2 family [Replica	99.91
TIGR01407		850	dinG_rel DnaQ family exonuclease/DinG family helic	99.91
KOG0920		924	consensus ATP-dependent RNA helicase A [RNA proces	99.9
KOG0923		902	consensus mRNA splicing factor ATP-dependent RNA h	99.9
PRK12900		1025	secA preprotein translocase subunit SecA; Reviewed	99.9
TIGR00631		655	uvrb excinuclease ABC, B subunit. This family is b	99.9
KOG1123		776	consensus RNA polymerase II transcription initiati	99.9
PRK12326		764	preprotein translocase subunit SecA; Reviewed	99.89
KOG0925		699	consensus mRNA splicing factor ATP-dependent RNA h	99.89
KOG0924		1042	consensus mRNA splicing factor ATP-dependent RNA h	99.89
KOG0926		1172	consensus DEAH-box RNA helicase [RNA processing an	99.88
KOG0949		1330	consensus Predicted helicase, DEAD-box superfamily	99.87
COG0556		663	UvrB Helicase subunit of the DNA excision repair c	99.87
PRK05298		652	excinuclease ABC subunit B; Provisional	99.87
PRK13103		913	secA preprotein translocase subunit SecA; Reviewed	99.87
smart00487		201	DEXDc DEAD-like helicases superfamily.	99.86
KOG1000		689	consensus Chromatin remodeling protein HARP/SMARCA	99.86
KOG0384		1373	consensus Chromodomain-helicase DNA-binding protei	99.86
PRK07246		820	bifunctional ATP-dependent DNA helicase/DNA polyme	99.86
KOG0392		1549	consensus SNF2 family DNA-dependent ATPase domain-	99.85
COG4889		1518	Predicted helicase [General function prediction on	99.85
KOG0389		941	consensus SNF2 family DNA-dependent ATPase [Chroma	99.85
PRK12903		925	secA preprotein translocase subunit SecA; Reviewed	99.84
PRK08074		928	bifunctional ATP-dependent DNA helicase/DNA polyme	99.82
CHL00122		870	secA preprotein translocase subunit SecA; Validate	99.82
TIGR03117		636	cas_csf4 CRISPR-associated DEAD/DEAH-box helicase	99.81
cd00079		131	HELICc Helicase superfamily c-terminal domain; ass	99.8
KOG4150		1034	consensus Predicted ATP-dependent RNA helicase [RN	99.78
PRK12902		939	secA preprotein translocase subunit SecA; Reviewed	99.77
TIGR02562		1110	cas3_yersinia CRISPR-associated helicase Cas3. The	99.77
PF04851		184	ResIII: Type III restriction enzyme, res subunit;	99.77
KOG0953		700	consensus Mitochondrial RNA helicase SUV3, DEAD-bo	99.76
cd00046		144	DEXDc DEAD-like helicases superfamily. A diverse f	99.76
PF00271		78	Helicase_C: Helicase conserved C-terminal domain;	99.75
PRK11747		697	dinG ATP-dependent DNA helicase DinG; Provisional	99.72
COG1199		654	DinG Rad3-related DNA helicases [Transcription / D	99.72
KOG0386		1157	consensus Chromatin remodeling complex SWI/SNF, co	99.69
KOG0951		1674	consensus RNA helicase BRR2, DEAD-box superfamily	99.66
KOG4439		901	consensus RNA polymerase II transcription terminat	99.66
TIGR00604		705	rad3 DNA repair helicase (rad3). All proteins in t	99.66
KOG0388		1185	consensus SNF2 family DNA-dependent ATPase [Replic	99.65
PRK12901		1112	secA preprotein translocase subunit SecA; Reviewed	99.65
PRK14873		665	primosome assembly protein PriA; Provisional	99.64
PF02399		824	Herpes_ori_bp: Origin of replication binding prote	99.63
smart00490		82	HELICc helicase superfamily c-terminal domain.	99.63
KOG1002		791	consensus Nucleotide excision repair protein RAD16	99.62
KOG0391		1958	consensus SNF2 family DNA-dependent ATPase [Genera	99.62
KOG1015		1567	consensus Transcription regulator XNP/ATRX, DEAD-b	99.54
COG0610		962	Type I site-specific restriction-modification syst	99.52
COG0553		866	HepA Superfamily II DNA/RNA helicases, SNF2 family	99.5
PF06862		442	DUF1253: Protein of unknown function (DUF1253); In	99.48
PF00176		299	SNF2_N: SNF2 family N-terminal domain; InterPro: I	99.45
PF07652		148	Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR	99.44
COG0653		822	SecA Preprotein translocase subunit SecA (ATPase,	99.36
smart00489		289	DEXDc3 DEAD-like helicases superfamily.	99.21
smart00488		289	DEXDc2 DEAD-like helicases superfamily.	99.21
PRK15483		986	type III restriction-modification system StyLTI en	99.21
KOG2340		698	consensus Uncharacterized conserved protein [Funct	99.11
PF07517		266	SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011	99.02
KOG1016		1387	consensus Predicted DNA helicase, DEAD-box superfa	98.9
KOG1133		821	consensus Helicase of the DEAD superfamily [Replic	98.88
PF13872		303	AAA_34: P-loop containing NTP hydrolase pore-1	98.86
COG3587		985	Restriction endonuclease [Defense mechanisms]	98.83
PF13086		236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	98.78
PF13307		167	Helicase_C_2: Helicase C-terminal domain; PDB: 4A1	98.78
PF02562		205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	98.74
PF12340		229	DUF3638: Protein of unknown function (DUF3638); In	98.67
KOG0921		1282	consensus Dosage compensation complex, subunit MLE	98.63
KOG1802		935	consensus RNA helicase nonsense mRNA reducing fact	98.59
KOG1001		674	consensus Helicase-like transcription factor HLTF/	98.59
PF13604		196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	98.58
TIGR00596		814	rad1 DNA repair protein (rad1). This family is bas	98.51
KOG0952		1230	consensus DNA/RNA helicase MER3/SLH1, DEAD-box sup	98.51
PRK10536		262	hypothetical protein; Provisional	98.47
KOG1131		755	consensus RNA polymerase II transcription initiati	98.45
PF13245		76	AAA_19: Part of AAA domain	98.32
TIGR01447		586	recD exodeoxyribonuclease V, alpha subunit. This f	98.26
PF09848		352	DUF2075: Uncharacterized conserved protein (DUF207	98.23
PRK10875		615	recD exonuclease V subunit alpha; Provisional	98.19
TIGR01448		720	recD_rel helicase, putative, RecD/TraA family. Thi	98.17
KOG1803		649	consensus DNA helicase [Replication, recombination	98.11
COG3421		812	Uncharacterized protein conserved in bacteria [Fun	98.1
KOG1132		945	consensus Helicase of the DEAD superfamily [Replic	98.04
PF00580		315	UvrD-helicase: UvrD/REP helicase N-terminal domain	97.95
smart00492		141	HELICc3 helicase superfamily c-terminal domain.	97.94
smart00491		142	HELICc2 helicase superfamily c-terminal domain.	97.94
KOG0989		346	consensus Replication factor C, subunit RFC4 [Repl	97.87
COG1875		436	NYN ribonuclease and ATPase of PhoH family domains	97.86
KOG1805		1100	consensus DNA replication helicase [Replication, r	97.86
PF13401		131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.84
KOG1513		1300	consensus Nuclear helicase MOP-3/SNO (DEAD-box sup	97.82
PF00448		196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.82
PRK12723		388	flagellar biosynthesis regulator FlhF; Provisional	97.72
COG1419		407	FlhF Flagellar GTP-binding protein [Cell motility	97.69
PRK04296		190	thymidine kinase; Provisional	97.67
PRK14974		336	cell division protein FtsY; Provisional	97.67
TIGR02768		744	TraA_Ti Ti-type conjugative transfer relaxase TraA	97.67
PRK06526		254	transposase; Provisional	97.66
TIGR00376		637	DNA helicase, putative. The gene product may repre	97.63
PRK08181		269	transposase; Validated	97.6
cd00009		151	AAA The AAA+ (ATPases Associated with a wide varie	97.58
PRK13889		988	conjugal transfer relaxase TraA; Provisional	97.57
smart00382		148	AAA ATPases associated with a variety of cellular	97.56
PF13871		278	Helicase_C_4: Helicase_C-like	97.5
PRK14722		374	flhF flagellar biosynthesis regulator FlhF; Provis	97.41
PRK13826		1102	Dtr system oriT relaxase; Provisional	97.38
PRK11889		436	flhF flagellar biosynthesis regulator FlhF; Provis	97.34
PRK14956		484	DNA polymerase III subunits gamma and tau; Provisi	97.31
PRK05707		328	DNA polymerase III subunit delta'; Validated	97.25
TIGR01074		664	rep ATP-dependent DNA helicase Rep. Designed to id	97.23
PRK11054		684	helD DNA helicase IV; Provisional	97.22
cd01124		187	KaiC KaiC is a circadian clock protein primarily f	97.2
PRK05703		424	flhF flagellar biosynthesis regulator FlhF; Valida	97.18
PRK10919		672	ATP-dependent DNA helicase Rep; Provisional	97.17
PRK05642		234	DNA replication initiation factor; Validated	97.15
PF00308		219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.11
KOG0383		696	consensus Predicted helicase [General function pre	97.09
PRK08727		233	hypothetical protein; Validated	97.08
PRK07764		824	DNA polymerase III subunits gamma and tau; Validat	97.08
PRK06921		266	hypothetical protein; Provisional	97.04
PRK07003		830	DNA polymerase III subunits gamma and tau; Validat	97.04
PRK09183		259	transposase/IS protein; Provisional	97.04
PF05127		177	Helicase_RecD: Helicase; InterPro: IPR007807 This	97.04
cd01120		165	RecA-like_NTPases RecA-like NTPases. This family i	97.02
KOG0298		1394	consensus DEAD box-containing helicase-like transc	97.02
PRK00149		450	dnaA chromosomal replication initiation protein; R	97.01
PRK08533		230	flagellar accessory protein FlaH; Reviewed	96.98
KOG0739		439	consensus AAA+-type ATPase [Posttranslational modi	96.98
PRK06893		229	DNA replication initiation factor; Validated	96.98
TIGR02760		1960	TraI_TIGR conjugative transfer relaxase protein Tr	96.96
PRK07952		244	DNA replication protein DnaC; Validated	96.96
TIGR01075		715	uvrD DNA helicase II. Designed to identify uvrD me	96.96
PRK14087		450	dnaA chromosomal replication initiation protein; P	96.95
PRK14949		944	DNA polymerase III subunits gamma and tau; Provisi	96.94
PRK11773		721	uvrD DNA-dependent helicase II; Provisional	96.91
PF05970		364	PIF1: PIF1-like helicase; InterPro: IPR010285 This	96.9
PRK12323		700	DNA polymerase III subunits gamma and tau; Provisi	96.9
PF13177		162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.9
PRK12377		248	putative replication protein; Provisional	96.89
PF00004		132	AAA: ATPase family associated with various cellula	96.89
PRK14964		491	DNA polymerase III subunits gamma and tau; Provisi	96.88
COG2256		436	MGS1 ATPase related to the helicase subunit of the	96.88
TIGR03420		226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	96.87
TIGR00362		405	DnaA chromosomal replication initiator protein Dna	96.86
PRK14958		509	DNA polymerase III subunits gamma and tau; Provisi	96.86
PRK14960		702	DNA polymerase III subunits gamma and tau; Provisi	96.86
PRK00771		437	signal recognition particle protein Srp54; Provisi	96.84
KOG0738		491	consensus AAA+-type ATPase [Posttranslational modi	96.84
PRK08769		319	DNA polymerase III subunit delta'; Validated	96.83
COG1222		406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.81
PRK08903		227	DnaA regulatory inactivator Hda; Validated	96.8
TIGR02881		261	spore_V_K stage V sporulation protein K. Members o	96.8
PRK08084		235	DNA replication initiation factor; Provisional	96.79
PRK14961		363	DNA polymerase III subunits gamma and tau; Provisi	96.77
PLN03025		319	replication factor C subunit; Provisional	96.76
PRK14952		584	DNA polymerase III subunits gamma and tau; Provisi	96.75
PRK06731		270	flhF flagellar biosynthesis regulator FlhF; Valida	96.74
PRK07994		647	DNA polymerase III subunits gamma and tau; Validat	96.73
PRK08116		268	hypothetical protein; Validated	96.73
PRK14712		1623	conjugal transfer nickase/helicase TraI; Provision	96.72
PRK14088		440	dnaA chromosomal replication initiation protein; P	96.72
COG1435		201	Tdk Thymidine kinase [Nucleotide transport and met	96.71
TIGR01547		396	phage_term_2 phage terminase, large subunit, PBSX	96.7
TIGR01425		429	SRP54_euk signal recognition particle protein SRP5	96.67
PRK06835		329	DNA replication protein DnaC; Validated	96.65
CHL00181		287	cbbX CbbX; Provisional	96.62
PF03354		477	Terminase_1: Phage Terminase ; InterPro: IPR005021	96.62
TIGR02880		284	cbbX_cfxQ probable Rubsico expression protein CbbX	96.6
PF13173		128	AAA_14: AAA domain	96.58
PRK14962		472	DNA polymerase III subunits gamma and tau; Provisi	96.58
PRK14957		546	DNA polymerase III subunits gamma and tau; Provisi	96.57
PRK08691		709	DNA polymerase III subunits gamma and tau; Validat	96.56
PTZ00293		211	thymidine kinase; Provisional	96.56
PHA02533		534	17 large terminase protein; Provisional	96.55
PRK14951		618	DNA polymerase III subunits gamma and tau; Provisi	96.53
TIGR00678		188	holB DNA polymerase III, delta' subunit. At positi	96.51
PRK12727		559	flagellar biosynthesis regulator FlhF; Provisional	96.51
PRK13709		1747	conjugal transfer nickase/helicase TraI; Provision	96.49
PRK06871		325	DNA polymerase III subunit delta'; Validated	96.49
PHA02544		316	44 clamp loader, small subunit; Provisional	96.49
PRK08451		535	DNA polymerase III subunits gamma and tau; Validat	96.48
PRK12402		337	replication factor C small subunit 2; Reviewed	96.47
PRK12726		407	flagellar biosynthesis regulator FlhF; Provisional	96.45
PRK12422		445	chromosomal replication initiation protein; Provis	96.43
PRK14721		420	flhF flagellar biosynthesis regulator FlhF; Provis	96.41
cd01122		271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.4
PRK08699		325	DNA polymerase III subunit delta'; Validated	96.4
PRK14969		527	DNA polymerase III subunits gamma and tau; Provisi	96.39
PRK06964		342	DNA polymerase III subunit delta'; Validated	96.38
TIGR02785		1232	addA_Gpos recombination helicase AddA, Firmicutes	96.38
PRK14086		617	dnaA chromosomal replication initiation protein; P	96.37
PRK06645		507	DNA polymerase III subunits gamma and tau; Validat	96.36
PRK12724		432	flagellar biosynthesis regulator FlhF; Provisional	96.35
PRK14963		504	DNA polymerase III subunits gamma and tau; Provisi	96.34
TIGR01073		726	pcrA ATP-dependent DNA helicase PcrA. Designed to	96.34
PRK06995		484	flhF flagellar biosynthesis regulator FlhF; Valida	96.33
PRK14955		397	DNA polymerase III subunits gamma and tau; Provisi	96.3
PRK07993		334	DNA polymerase III subunit delta'; Validated	96.29
cd00561		159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.28
COG2909		894	MalT ATP-dependent transcriptional regulator [Tran	96.27
PRK14723		767	flhF flagellar biosynthesis regulator FlhF; Provis	96.26
KOG0733		802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.25
PRK06090		319	DNA polymerase III subunit delta'; Validated	96.24
TIGR00064		272	ftsY signal recognition particle-docking protein F	96.23
COG4626		546	Phage terminase-like protein, large subunit [Gener	96.19
PRK05896		605	DNA polymerase III subunits gamma and tau; Validat	96.19
KOG0991		333	consensus Replication factor C, subunit RFC2 [Repl	96.18
PRK05973		237	replicative DNA helicase; Provisional	96.16
PRK05563		559	DNA polymerase III subunits gamma and tau; Validat	96.16
PRK14965		576	DNA polymerase III subunits gamma and tau; Provisi	96.15
PRK09111		598	DNA polymerase III subunits gamma and tau; Validat	96.15
PF06745		226	KaiC: KaiC; InterPro: IPR014774 This entry represe	96.15
PRK11823		446	DNA repair protein RadA; Provisional	96.15
KOG2028		554	consensus ATPase related to the helicase subunit o	96.14
PRK06647		563	DNA polymerase III subunits gamma and tau; Validat	96.13
PRK13833		323	conjugal transfer protein TrbB; Provisional	96.11
PRK10867		433	signal recognition particle protein; Provisional	96.08
PRK14954		620	DNA polymerase III subunits gamma and tau; Provisi	96.07
TIGR01241		495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.05
cd03115		173	SRP The signal recognition particle (SRP) mediates	96.04
TIGR03015		269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.02
PHA03368		738	DNA packaging terminase subunit 1; Provisional	96.02
COG3973		747	Superfamily I DNA and RNA helicases [General funct	96.02
TIGR03689		512	pup_AAA proteasome ATPase. In the Actinobacteria,	96.01
PF05876		557	Terminase_GpA: Phage terminase large subunit (GpA)	96.01
cd01121		372	Sms Sms (bacterial radA) DNA repair protein. This	96.0
TIGR00959		428	ffh signal recognition particle protein. This mode	95.98
PRK08939		306	primosomal protein DnaI; Reviewed	95.97
PTZ00454		398	26S protease regulatory subunit 6B-like protein; P	95.93
PF05729		166	NACHT: NACHT domain	95.93
TIGR02760		1960	TraI_TIGR conjugative transfer relaxase protein Tr	95.91
KOG0734		752	consensus AAA+-type ATPase containing the peptidas	95.91
PRK14950		585	DNA polymerase III subunits gamma and tau; Provisi	95.9
PRK00411		394	cdc6 cell division control protein 6; Reviewed	95.9
PRK13894		319	conjugal transfer ATPase TrbB; Provisional	95.89
PF14617		252	CMS1: U3-containing 90S pre-ribosomal complex subu	95.88
TIGR02782		299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	95.88
PRK14959		624	DNA polymerase III subunits gamma and tau; Provisi	95.85
COG2805		353	PilT Tfp pilus assembly protein, pilus retraction	95.83
PTZ00112		1164	origin recognition complex 1 protein; Provisional	95.82
PRK04195		482	replication factor C large subunit; Provisional	95.81
COG0552		340	FtsY Signal recognition particle GTPase [Intracell	95.81
PF05707		193	Zot: Zonular occludens toxin (Zot); InterPro: IPR0	95.79
PF05496		233	RuvB_N: Holliday junction DNA helicase ruvB N-term	95.78
COG1444		758	Predicted P-loop ATPase fused to an acetyltransfer	95.77
KOG0732		1080	consensus AAA+-type ATPase containing the bromodom	95.77
TIGR03499		282	FlhF flagellar biosynthetic protein FlhF.	95.75
TIGR03881		229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	95.75
PRK10917		681	ATP-dependent DNA helicase RecG; Provisional	95.73
TIGR02397		355	dnaX_nterm DNA polymerase III, subunit gamma and t	95.7
PF05621		302	TniB: Bacterial TniB protein; InterPro: IPR008868	95.65
PRK14948		620	DNA polymerase III subunits gamma and tau; Provisi	95.64
TIGR02639		731	ClpA ATP-dependent Clp protease ATP-binding subuni	95.64
PRK13342		413	recombination factor protein RarA; Reviewed	95.6
PRK05986		191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	95.59
PRK11331		459	5-methylcytosine-specific restriction enzyme subun	95.58
PRK13341		725	recombination factor protein RarA/unknown domain f	95.58
COG0470		325	HolB ATPase involved in DNA replication [DNA repli	95.57
PRK09112		351	DNA polymerase III subunit delta'; Validated	95.56
TIGR00708		173	cobA cob(I)alamin adenosyltransferase. Alternate n	95.54
PRK00440		319	rfc replication factor C small subunit; Reviewed	95.53
COG1474		366	CDC6 Cdc6-related protein, AAA superfamily ATPase	95.49
COG1223		368	Predicted ATPase (AAA+ superfamily) [General funct	95.48
PRK07471		365	DNA polymerase III subunit delta'; Validated	95.47
PRK06067		234	flagellar accessory protein FlaH; Validated	95.47
PRK05580		679	primosome assembly protein PriA; Validated	95.46
PF03969		362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	95.45
KOG0058		716	consensus Peptide exporter, ABC superfamily [Intra	95.39
PF03237		384	Terminase_6: Terminase-like family; InterPro: IPR0	95.38
KOG2036		1011	consensus Predicted P-loop ATPase fused to an acet	95.37
TIGR00595		505	priA primosomal protein N'. All proteins in this f	95.35
PRK14873		665	primosome assembly protein PriA; Provisional	95.35
PRK03992		389	proteasome-activating nucleotidase; Provisional	95.34
KOG0729		435	consensus 26S proteasome regulatory complex, ATPas	95.32
PRK06620		214	hypothetical protein; Validated	95.31
cd00984		242	DnaB_C DnaB helicase C terminal domain. The hexame	95.3
PF01695		178	IstB_IS21: IstB-like ATP binding protein; InterPro	95.22
PRK07940		394	DNA polymerase III subunit delta'; Validated	95.22
COG2804		500	PulE Type II secretory pathway, ATPase PulE/Tfp pi	95.2
TIGR02655		484	circ_KaiC circadian clock protein KaiC. Members of	95.19
COG0593		408	DnaA ATPase involved in DNA replication initiation	95.18
TIGR01243		733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.16
TIGR02928		365	orc1/cdc6 family replication initiation protein. M	95.12
PRK07133		725	DNA polymerase III subunits gamma and tau; Validat	95.11
PRK14953		486	DNA polymerase III subunits gamma and tau; Provisi	95.1
TIGR02688		449	conserved hypothetical protein TIGR02688. Members	95.08
KOG0733		802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.07
TIGR00643		630	recG ATP-dependent DNA helicase RecG.	95.06
PRK11034		758	clpA ATP-dependent Clp protease ATP-binding subuni	95.04
TIGR03877		237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.01
COG4962		355	CpaF Flp pilus assembly protein, ATPase CpaF [Intr	95.01
TIGR02525		372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	95.0
PRK10416		318	signal recognition particle-docking protein FtsY;	94.99
PF01443		234	Viral_helicase1: Viral (Superfamily 1) RNA helicas	94.97
COG0541		451	Ffh Signal recognition particle GTPase [Intracellu	94.94
PHA00012		361	I assembly protein	94.93
cd00544		169	CobU Adenosylcobinamide kinase / adenosylcobinamid	94.92
PRK04841		903	transcriptional regulator MalT; Provisional	94.91
TIGR00767		415	rho transcription termination factor Rho. Members	94.88
COG3972		660	Superfamily I DNA and RNA helicases [General funct	94.87
TIGR00416		454	sms DNA repair protein RadA. The gene protuct code	94.87
PRK06305		451	DNA polymerase III subunits gamma and tau; Validat	94.86
PRK08058		329	DNA polymerase III subunit delta'; Validated	94.85
TIGR01243		733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	94.85
COG1132		567	MdlB ABC-type multidrug transport system, ATPase a	94.83
CHL00176		638	ftsH cell division protein; Validated	94.81
COG1484		254	DnaC DNA replication protein [DNA replication, rec	94.8
KOG0737		386	consensus AAA+-type ATPase [Posttranslational modi	94.78
PF02572		172	CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase	94.76
PRK09376		416	rho transcription termination factor Rho; Provisio	94.74
TIGR03346		852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	94.72
PRK14971		614	DNA polymerase III subunits gamma and tau; Provisi	94.7
PHA03333		752	putative ATPase subunit of terminase; Provisional	94.68
TIGR02524		358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	94.67
TIGR01242		364	26Sp45 26S proteasome subunit P45 family. Many pro	94.64
PRK13851		344	type IV secretion system protein VirB11; Provision	94.59
TIGR02868		529	CydC thiol reductant ABC exporter, CydC subunit. T	94.59
COG1110		1187	Reverse gyrase [DNA replication, recombination, an	94.58
KOG0726		440	consensus 26S proteasome regulatory complex, ATPas	94.46
TIGR00580		926	mfd transcription-repair coupling factor (mfd). Al	94.4
TIGR03345		852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	94.37
cd01130		186	VirB11-like_ATPase Type IV secretory pathway compo	94.22
PRK10865		857	protein disaggregation chaperone; Provisional	94.18
COG2109		198	BtuR ATP:corrinoid adenosyltransferase [Coenzyme m	94.17
COG1198		730	PriA Primosomal protein N' (replication factor Y)	94.17
KOG0731		774	consensus AAA+-type ATPase containing the peptidas	94.11
PF01637		234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	94.1
KOG0741		744	consensus AAA+-type ATPase [Posttranslational modi	94.07
PRK13531		498	regulatory ATPase RavA; Provisional	94.01
cd01125		239	repA Hexameric Replicative Helicase RepA. RepA is	94.0
COG0210		655	UvrD Superfamily I DNA and RNA helicases [DNA repl	93.99
PRK07399		314	DNA polymerase III subunit delta'; Validated	93.98
PF10593		239	Z1: Z1 domain; InterPro: IPR018310 This entry repr	93.89
KOG0730		693	consensus AAA+-type ATPase [Posttranslational modi	93.86
PRK04328		249	hypothetical protein; Provisional	93.85
COG1618		179	Predicted nucleotide kinase [Nucleotide transport	93.81
PRK13900		332	type IV secretion system ATPase VirB11; Provisiona	93.79
KOG2170		344	consensus ATPase of the AAA+ superfamily [General	93.76
PRK14970		367	DNA polymerase III subunits gamma and tau; Provisi	93.75
KOG0701		1606	consensus dsRNA-specific nuclease Dicer and relate	93.7
PHA00350		399	putative assembly protein	93.68
PRK09087		226	hypothetical protein; Validated	93.68
COG0467		260	RAD55 RecA-superfamily ATPases implicated in signa	93.68
KOG0298		1394	consensus DEAD box-containing helicase-like transc	93.67
COG1219		408	ClpX ATP-dependent protease Clp, ATPase subunit [P	93.65
cd01129		264	PulE-GspE PulE/GspE The type II secretory pathway	93.62
KOG0740		428	consensus AAA+-type ATPase [Posttranslational modi	93.6
KOG0744		423	consensus AAA+-type ATPase [Posttranslational modi	93.58
PRK10689		1147	transcription-repair coupling factor; Provisional	93.54
cd01128		249	rho_factor Transcription termination factor rho is	93.46
CHL00095		821	clpC Clp protease ATP binding subunit	93.45
KOG1513		1300	consensus Nuclear helicase MOP-3/SNO (DEAD-box sup	93.41
COG5008		375	PilU Tfp pilus assembly protein, ATPase PilU [Cell	93.35
COG1485		367	Predicted ATPase [General function prediction only	93.34
PF12846		304	AAA_10: AAA-like domain	93.2
TIGR03600		421	phage_DnaB phage replicative helicase, DnaB family	93.14
COG1074		1139	RecB ATP-dependent exoDNAse (exonuclease V) beta s	93.09
PRK10436		462	hypothetical protein; Provisional	93.06
TIGR03878		259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	93.06
COG0464		494	SpoVK ATPases of the AAA+ class [Posttranslational	93.04
PF03796		259	DnaB_C: DnaB-like helicase C terminal domain; Inte	93.04
PF14532		138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	93.0
KOG2228		408	consensus Origin recognition complex, subunit 4 [R	92.96
TIGR02533		486	type_II_gspE general secretory pathway protein E.	92.91
PRK06904		472	replicative DNA helicase; Validated	92.85
PRK07414		178	cob(I)yrinic acid a,c-diamide adenosyltransferase;	92.82
PLN03187		344	meiotic recombination protein DMC1 homolog; Provis	92.81
COG1066		456	Sms Predicted ATP-dependent serine protease [Postt	92.77
PRK05564		313	DNA polymerase III subunit delta'; Validated	92.77
COG2874		235	FlaH Predicted ATPases involved in biogenesis of a	92.74
KOG0736		953	consensus Peroxisome assembly factor 2 containing	92.65
PHA03372		668	DNA packaging terminase subunit 1; Provisional	92.59
TIGR03819		340	heli_sec_ATPase helicase/secretion neighborhood AT	92.54
TIGR02784		1141	addA_alphas double-strand break repair helicase Ad	92.43
PF00931		287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	92.41
PF00437		270	T2SE: Type II/IV secretion system protein; InterPr	92.41
PRK05917		290	DNA polymerase III subunit delta'; Validated	92.4
KOG1807		1025	consensus Helicases [Replication, recombination an	92.33
PRK08506		472	replicative DNA helicase; Provisional	92.28
PRK12608		380	transcription termination factor Rho; Provisional	92.25
TIGR03880		224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	92.19
KOG0344		593	consensus ATP-dependent RNA helicase [RNA processi	92.15
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309		127	Torsin: Torsin; InterPro: IPR010448 This family co	91.95
PF03266		168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	91.95
PF13481		193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	91.93
PRK11174		588	cysteine/glutathione ABC transporter membrane/ATP-	91.87
TIGR02655		484	circ_KaiC circadian clock protein KaiC. Members of	91.85
COG4555		245	NatA ABC-type Na+ transport system, ATPase compone	91.79
COG0465		596	HflB ATP-dependent Zn proteases [Posttranslational	91.79

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

Probab=100.00  E-value=1.4e-69  Score=438.78  Aligned_cols=396  Identities=79%  Similarity=1.206  Sum_probs=381.3

Q ss_pred             HcCCCCCCCCCcceeeccCCcccccccccCCCCHHHHHHHHHCCCCCCcHHHHHhhhhhhcCCcEEEEcCCCCchhhHhH
Q 015595            9 RRGGGGGMDDDKMVFETTEGVEAITSFDAMGIKDDLLRGIYQYGFEKPSAIQQRAVMPIIKGRDVIAQAQSGTGKTSMIA   88 (404)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~Q~~~~~~~~~~~~~iv~a~tGsGKT~~~~   88 (404)
                      ++......+.+..+.+++...+..++|+++++.+++.+.+.+.||..|...|+++++++++|++++.++..|+|||.++.
T Consensus         3 ~r~~~~~~~~~~~~feTs~~~~v~~~F~~Mgl~edlLrgiY~yGfekPS~IQqrAi~~IlkGrdViaQaqSGTGKTa~~s   82 (400)
T KOG0328|consen    3 ARELFTMEDMDTVEFETSEKVKVIPTFDDMGLKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIAQAQSGTGKTATFS   82 (400)
T ss_pred             hhhhcccccccceeEeeccCcccccchhhcCchHHHHHHHHHhccCCchHHHhhhhhhhhcccceEEEecCCCCceEEEE
Confidence            34456668889999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhcCCCceeEEEEcccHHHHHHHHHHHHHHccccCeeEEEEEcCcchHHHHHHHhcCCCeEEeChHHHHHHHHc
Q 015595           89 LTVCQTVDTSSREVQALILSPTRELATQTEKVILAIGDFINIQAHACVGGKSVGEDIRKLEHGVHVVSGTPGRVCDMIKR  168 (404)
Q Consensus        89 ~~~~~~~~~~~~~~~~lil~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~l~~  168 (404)
                      ..++..+.-+.+...+++++||++|+.|..+.+..++...++.+..+.||.+..+.++.+..+.+++.+||+++++++++
T Consensus        83 i~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mnvq~hacigg~n~gedikkld~G~hvVsGtPGrv~dmikr  162 (400)
T KOG0328|consen   83 ISVLQSLDISVRETQALILSPTRELAVQIQKVILALGDYMNVQCHACIGGKNLGEDIKKLDYGQHVVSGTPGRVLDMIKR  162 (400)
T ss_pred             eeeeeecccccceeeEEEecChHHHHHHHHHHHHHhcccccceEEEEecCCccchhhhhhcccceEeeCCCchHHHHHHh
Confidence            99998888888888999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             cCCC--cccceEEeccccccccCcHHHHHHHHhhCCCCceEEEEeeecchHHHHHHHhccCCCeEEEecCCccccCCceE
Q 015595          169 KTLR--TRAIKLLDESDEMLSRGFKDQIYDVYRYLPPDLQVVLISATLPHEILEMTTKFMTDPVKILVKRDELTLEGIKQ  246 (404)
Q Consensus       169 ~~~~--~~~~vIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (404)
                      ..+.  .+.++|+||++.+++.++..++..+++++|+..|++++|||+|.++.++...+..+|+.+.....+....++.+
T Consensus       163 ~~L~tr~vkmlVLDEaDemL~kgfk~Qiydiyr~lp~~~Qvv~~SATlp~eilemt~kfmtdpvrilvkrdeltlEgIKq  242 (400)
T KOG0328|consen  163 RSLRTRAVKMLVLDEADEMLNKGFKEQIYDIYRYLPPGAQVVLVSATLPHEILEMTEKFMTDPVRILVKRDELTLEGIKQ  242 (400)
T ss_pred             ccccccceeEEEeccHHHHHHhhHHHHHHHHHHhCCCCceEEEEeccCcHHHHHHHHHhcCCceeEEEecCCCchhhhhh
Confidence            7654  56888999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEecCchhHHHHHHhhhhcCCCCeEEEEecchhhHHHHHHHHhhCCCeEEEecCCCCHHHHHHHHHHHhcCCCcEEEE
Q 015595          247 FFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMRGYNFTVSSMHGDMPQKERDAIMGEFRSGTTRVLIT  326 (404)
Q Consensus       247 ~~~~~~~~~~~~~~l~~~l~~~~~~k~lIf~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vlv~  326 (404)
                      ++...+.+++|.+.|+.+.....-..++||||++..++++.+.+++.++.+..+||+|..++|+.+.+.|+.|+.+||++
T Consensus       243 f~v~ve~EewKfdtLcdLYd~LtItQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~SrvLit  322 (400)
T KOG0328|consen  243 FFVAVEKEEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLIT  322 (400)
T ss_pred             heeeechhhhhHhHHHHHhhhhehheEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCceEEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCccccCCCCCCCCEEEEccCCCChhhhhhhccccCCCCCceeEEEEeccCcHHHHHHHHHHHccccccCCccccccC
Q 015595          327 TDVWARGLDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKNDDIKILRDIEQYYSTQIDEMPMNVADLI  404 (404)
Q Consensus       327 t~~~~~Gid~p~~~~vi~~~~p~s~~~~~Q~~GR~~R~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  404 (404)
                      |++.++|+|+|.++.||+||+|.+...|+||+||.||.|+.|.++.|+..+|...+..+++++....+++|+++.|++
T Consensus       323 TDVwaRGiDv~qVslviNYDLP~nre~YIHRIGRSGRFGRkGvainFVk~~d~~~lrdieq~yst~i~emp~nvad~i  400 (400)
T KOG0328|consen  323 TDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKGVAINFVKSDDLRILRDIEQYYSTQIDEMPMNVADLI  400 (400)
T ss_pred             echhhccCCcceeEEEEecCCCccHHHHhhhhccccccCCcceEEEEecHHHHHHHHHHHHHHhhhcccccchhhhcC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999875

>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK04837 ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>PTZ00110 helicase; Provisional	Back alignment and domain information

>PRK10590 ATP-dependent RNA helicase RhlE; Provisional	Back alignment and domain information

>PRK11776 ATP-dependent RNA helicase DbpA; Provisional	Back alignment and domain information

>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional	Back alignment and domain information

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

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional	Back alignment and domain information

>PRK04537 ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>PRK11192 ATP-dependent RNA helicase SrmB; Provisional	Back alignment and domain information

>PTZ00424 helicase 45; Provisional	Back alignment and domain information

>PRK01297 ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]	Back alignment and domain information

>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]	Back alignment and domain information

>KOG0343 consensus RNA Helicase [RNA processing and modification]	Back alignment and domain information

>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0346 consensus RNA helicase [RNA processing and modification]	Back alignment and domain information

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

>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase	Back alignment and domain information

>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]	Back alignment and domain information

>KOG0347 consensus RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0334 consensus RNA helicase [RNA processing and modification]	Back alignment and domain information

>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional	Back alignment and domain information

>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family	Back alignment and domain information

>KOG4284 consensus DEAD box protein [Transcription]	Back alignment and domain information

>PRK11057 ATP-dependent DNA helicase RecQ; Provisional	Back alignment and domain information

>PRK02362 ski2-like helicase; Provisional	Back alignment and domain information

>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>TIGR01389 recQ ATP-dependent DNA helicase RecQ	Back alignment and domain information

>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK13767 ATP-dependent helicase; Provisional	Back alignment and domain information

>PRK00254 ski2-like helicase; Provisional	Back alignment and domain information

>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>COG1201 Lhr Lhr-like helicases [General function prediction only]	Back alignment and domain information

>TIGR00580 mfd transcription-repair coupling factor (mfd)	Back alignment and domain information

>PRK01172 ski2-like helicase; Provisional	Back alignment and domain information

>PRK10917 ATP-dependent DNA helicase RecG; Provisional	Back alignment and domain information

>PRK10689 transcription-repair coupling factor; Provisional	Back alignment and domain information

>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]	Back alignment and domain information

>TIGR00643 recG ATP-dependent DNA helicase RecG	Back alignment and domain information

>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype	Back alignment and domain information

>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK09751 putative ATP-dependent helicase Lhr; Provisional	Back alignment and domain information

>PHA02558 uvsW UvsW helicase; Provisional	Back alignment and domain information

>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]	Back alignment and domain information

>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK09401 reverse gyrase; Reviewed	Back alignment and domain information

>PHA02653 RNA helicase NPH-II; Provisional	Back alignment and domain information

>COG1204 Superfamily II helicase [General function prediction only]	Back alignment and domain information

>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB	Back alignment and domain information

>TIGR01587 cas3_core CRISPR-associated helicase Cas3	Back alignment and domain information

>PRK11664 ATP-dependent RNA helicase HrpB; Provisional	Back alignment and domain information

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

>PRK13766 Hef nuclease; Provisional	Back alignment and domain information

>PRK14701 reverse gyrase; Provisional	Back alignment and domain information

>TIGR00603 rad25 DNA repair helicase rad25	Back alignment and domain information

>KOG0354 consensus DEAD-box like helicase [General function prediction only]	Back alignment and domain information

>PRK12898 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>TIGR01054 rgy reverse gyrase	Back alignment and domain information

>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type	Back alignment and domain information

>PRK09200 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>TIGR03714 secA2 accessory Sec system translocase SecA2	Back alignment and domain information

>TIGR00963 secA preprotein translocase, SecA subunit	Back alignment and domain information

>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]	Back alignment and domain information

>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]	Back alignment and domain information

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

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

>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]	Back alignment and domain information

>PRK04914 ATP-dependent helicase HepA; Validated	Back alignment and domain information

>PRK11131 ATP-dependent RNA helicase HrpA; Provisional	Back alignment and domain information

>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]	Back alignment and domain information

>PRK05580 primosome assembly protein PriA; Validated	Back alignment and domain information

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

>PRK09694 helicase Cas3; Provisional	Back alignment and domain information

>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>cd00268 DEADc DEAD-box helicases	Back alignment and domain information

>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

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

>TIGR00595 priA primosomal protein N'	Back alignment and domain information

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA	Back alignment and domain information

>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional	Back alignment and domain information

>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK12904 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK13104 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK12906 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional	Back alignment and domain information

>PRK12899 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]	Back alignment and domain information

>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]	Back alignment and domain information

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK13107 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

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

>COG1110 Reverse gyrase [DNA replication, recombination, and repair]	Back alignment and domain information

>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]	Back alignment and domain information

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

>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family	Back alignment and domain information

>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]	Back alignment and domain information

>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]	Back alignment and domain information

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

>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]	Back alignment and domain information

>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative	Back alignment and domain information

>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]	Back alignment and domain information

>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK12900 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>TIGR00631 uvrb excinuclease ABC, B subunit	Back alignment and domain information

>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]	Back alignment and domain information

>PRK12326 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]	Back alignment and domain information

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

>PRK05298 excinuclease ABC subunit B; Provisional	Back alignment and domain information

>PRK13103 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>smart00487 DEXDc DEAD-like helicases superfamily	Back alignment and domain information

>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]	Back alignment and domain information

>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]	Back alignment and domain information

>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated	Back alignment and domain information

>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]	Back alignment and domain information

>COG4889 Predicted helicase [General function prediction only]	Back alignment and domain information

>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]	Back alignment and domain information

>PRK12903 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated	Back alignment and domain information

>CHL00122 secA preprotein translocase subunit SecA; Validated	Back alignment and domain information

>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4	Back alignment and domain information

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

Back alignment and domain information

>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK12902 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3	Back alignment and domain information

>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	Back alignment and domain information

>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>cd00046 DEXDc DEAD-like helicases superfamily	Back alignment and domain information

>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins	Back alignment and domain information

>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional	Back alignment and domain information

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

>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]	Back alignment and domain information

>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]	Back alignment and domain information

>TIGR00604 rad3 DNA repair helicase (rad3)	Back alignment and domain information

>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]	Back alignment and domain information

>PRK12901 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK14873 primosome assembly protein PriA; Provisional	Back alignment and domain information

>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein	Back alignment and domain information

>smart00490 HELICc helicase superfamily c-terminal domain	Back alignment and domain information

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]	Back alignment and domain information

>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]	Back alignment and domain information

>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]	Back alignment and domain information

>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]	Back alignment and domain information

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

>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 [, ]	Back alignment and domain information

>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	Back alignment and domain information

>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain	Back alignment and domain information

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

>smart00489 DEXDc3 DEAD-like helicases superfamily	Back alignment and domain information

>smart00488 DEXDc2 DEAD-like helicases superfamily	Back alignment and domain information

>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional	Back alignment and domain information

>KOG2340 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane	Back alignment and domain information

>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]	Back alignment and domain information

>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]	Back alignment and domain information

>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1	Back alignment and domain information

>COG3587 Restriction endonuclease [Defense mechanisms]	Back alignment and domain information

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A	Back alignment and domain information

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

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []	Back alignment and domain information

>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length	Back alignment and domain information

>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]	Back alignment and domain information

>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]	Back alignment and domain information

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]	Back alignment and domain information

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A	Back alignment and domain information

>TIGR00596 rad1 DNA repair protein (rad1)	Back alignment and domain information

>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>PRK10536 hypothetical protein; Provisional	Back alignment and domain information

>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]	Back alignment and domain information

>PF13245 AAA_19: Part of AAA domain	Back alignment and domain information

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit	Back alignment and domain information

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function	Back alignment and domain information

>PRK10875 recD exonuclease V subunit alpha; Provisional	Back alignment and domain information

>TIGR01448 recD_rel helicase, putative, RecD/TraA family	Back alignment and domain information

>KOG1803 consensus DNA helicase [Replication, recombination and repair]	Back alignment and domain information

>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]	Back alignment and domain information

>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]	Back alignment and domain information

>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA	Back alignment and domain information

>smart00492 HELICc3 helicase superfamily c-terminal domain	Back alignment and domain information

>smart00491 HELICc2 helicase superfamily c-terminal domain	Back alignment and domain information

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]	Back alignment and domain information

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]	Back alignment and domain information

>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]	Back alignment and domain information

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B	Back alignment and domain information

>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]	Back alignment and domain information

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]	Back alignment and domain information

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]	Back alignment and domain information

>PRK04296 thymidine kinase; Provisional	Back alignment and domain information

>PRK14974 cell division protein FtsY; Provisional	Back alignment and domain information

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA	Back alignment and domain information

>PRK06526 transposase; Provisional	Back alignment and domain information

>TIGR00376 DNA helicase, putative	Back alignment and domain information

>PRK08181 transposase; Validated	Back alignment and domain information

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold	Back alignment and domain information

>PRK13889 conjugal transfer relaxase TraA; Provisional	Back alignment and domain information

>smart00382 AAA ATPases associated with a variety of cellular activities	Back alignment and domain information

>PF13871 Helicase_C_4: Helicase_C-like	Back alignment and domain information

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>PRK13826 Dtr system oriT relaxase; Provisional	Back alignment and domain information

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK05707 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>TIGR01074 rep ATP-dependent DNA helicase Rep	Back alignment and domain information

>PRK11054 helD DNA helicase IV; Provisional	Back alignment and domain information

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs	Back alignment and domain information

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated	Back alignment and domain information

>PRK10919 ATP-dependent DNA helicase Rep; Provisional	Back alignment and domain information

>PRK05642 DNA replication initiation factor; Validated	Back alignment and domain information

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication	Back alignment and domain information

>KOG0383 consensus Predicted helicase [General function prediction only]	Back alignment and domain information

>PRK08727 hypothetical protein; Validated	Back alignment and domain information

>PRK07764 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK06921 hypothetical protein; Provisional	Back alignment and domain information

>PRK07003 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK09183 transposase/IS protein; Provisional	Back alignment and domain information

>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase	Back alignment and domain information

>cd01120 RecA-like_NTPases RecA-like NTPases	Back alignment and domain information

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]	Back alignment and domain information

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed	Back alignment and domain information

>PRK08533 flagellar accessory protein FlaH; Reviewed	Back alignment and domain information

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK06893 DNA replication initiation factor; Validated	Back alignment and domain information

>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI	Back alignment and domain information

>PRK07952 DNA replication protein DnaC; Validated	Back alignment and domain information

>TIGR01075 uvrD DNA helicase II	Back alignment and domain information

>PRK14087 dnaA chromosomal replication initiation protein; Provisional	Back alignment and domain information

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK11773 uvrD DNA-dependent helicase II; Provisional	Back alignment and domain information

>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins	Back alignment and domain information

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A	Back alignment and domain information

>PRK12377 putative replication protein; Provisional	Back alignment and domain information

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport	Back alignment and domain information

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

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

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda	Back alignment and domain information

>TIGR00362 DnaA chromosomal replication initiator protein DnaA	Back alignment and domain information

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK00771 signal recognition particle protein Srp54; Provisional	Back alignment and domain information

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK08769 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK08903 DnaA regulatory inactivator Hda; Validated	Back alignment and domain information

>TIGR02881 spore_V_K stage V sporulation protein K	Back alignment and domain information

>PRK08084 DNA replication initiation factor; Provisional	Back alignment and domain information

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PLN03025 replication factor C subunit; Provisional	Back alignment and domain information

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated	Back alignment and domain information

>PRK07994 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK08116 hypothetical protein; Validated	Back alignment and domain information

>PRK14712 conjugal transfer nickase/helicase TraI; Provisional	Back alignment and domain information

>PRK14088 dnaA chromosomal replication initiation protein; Provisional	Back alignment and domain information

>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]	Back alignment and domain information

>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family	Back alignment and domain information

>TIGR01425 SRP54_euk signal recognition particle protein SRP54	Back alignment and domain information

>PRK06835 DNA replication protein DnaC; Validated	Back alignment and domain information

>CHL00181 cbbX CbbX; Provisional	Back alignment and domain information

>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase)	Back alignment and domain information

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX	Back alignment and domain information

>PF13173 AAA_14: AAA domain	Back alignment and domain information

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK08691 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PTZ00293 thymidine kinase; Provisional	Back alignment and domain information

>PHA02533 17 large terminase protein; Provisional	Back alignment and domain information

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>TIGR00678 holB DNA polymerase III, delta' subunit	Back alignment and domain information

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>PRK13709 conjugal transfer nickase/helicase TraI; Provisional	Back alignment and domain information

>PRK06871 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PHA02544 44 clamp loader, small subunit; Provisional	Back alignment and domain information

>PRK08451 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK12402 replication factor C small subunit 2; Reviewed	Back alignment and domain information

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>PRK12422 chromosomal replication initiation protein; Provisional	Back alignment and domain information

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases	Back alignment and domain information

>PRK08699 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK06964 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type	Back alignment and domain information

>PRK14086 dnaA chromosomal replication initiation protein; Provisional	Back alignment and domain information

>PRK06645 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>TIGR01073 pcrA ATP-dependent DNA helicase PcrA	Back alignment and domain information

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated	Back alignment and domain information

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK07993 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP	Back alignment and domain information

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]	Back alignment and domain information

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK06090 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>TIGR00064 ftsY signal recognition particle-docking protein FtsY	Back alignment and domain information

>COG4626 Phage terminase-like protein, large subunit [General function prediction only]	Back alignment and domain information

>PRK05896 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]	Back alignment and domain information

>PRK05973 replicative DNA helicase; Provisional	Back alignment and domain information

>PRK05563 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK09111 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical	Back alignment and domain information

>PRK11823 DNA repair protein RadA; Provisional	Back alignment and domain information

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]	Back alignment and domain information

>PRK06647 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK13833 conjugal transfer protein TrbB; Provisional	Back alignment and domain information

>PRK10867 signal recognition particle protein; Provisional	Back alignment and domain information

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH	Back alignment and domain information

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes	Back alignment and domain information

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily	Back alignment and domain information

>PHA03368 DNA packaging terminase subunit 1; Provisional	Back alignment and domain information

>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]	Back alignment and domain information

>TIGR03689 pup_AAA proteasome ATPase	Back alignment and domain information

>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA	Back alignment and domain information

>cd01121 Sms Sms (bacterial radA) DNA repair protein	Back alignment and domain information

>TIGR00959 ffh signal recognition particle protein	Back alignment and domain information

>PRK08939 primosomal protein DnaI; Reviewed	Back alignment and domain information

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional	Back alignment and domain information

>PF05729 NACHT: NACHT domain	Back alignment and domain information

>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI	Back alignment and domain information

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK00411 cdc6 cell division control protein 6; Reviewed	Back alignment and domain information

>PRK13894 conjugal transfer ATPase TrbB; Provisional	Back alignment and domain information

>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit	Back alignment and domain information

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB	Back alignment and domain information

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]	Back alignment and domain information

>PTZ00112 origin recognition complex 1 protein; Provisional	Back alignment and domain information

>PRK04195 replication factor C large subunit; Provisional	Back alignment and domain information

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]	Back alignment and domain information

>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot)	Back alignment and domain information

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair	Back alignment and domain information

>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]	Back alignment and domain information

>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR03499 FlhF flagellar biosynthetic protein FlhF	Back alignment and domain information

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family	Back alignment and domain information

>PRK10917 ATP-dependent DNA helicase RecG; Provisional	Back alignment and domain information

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau	Back alignment and domain information

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins	Back alignment and domain information

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA	Back alignment and domain information

>PRK13342 recombination factor protein RarA; Reviewed	Back alignment and domain information

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated	Back alignment and domain information

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional	Back alignment and domain information

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed	Back alignment and domain information

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK09112 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>TIGR00708 cobA cob(I)alamin adenosyltransferase	Back alignment and domain information

>PRK00440 rfc replication factor C small subunit; Reviewed	Back alignment and domain information

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]	Back alignment and domain information

>PRK07471 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PRK06067 flagellar accessory protein FlaH; Validated	Back alignment and domain information

>PRK05580 primosome assembly protein PriA; Validated	Back alignment and domain information

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP	Back alignment and domain information

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]	Back alignment and domain information

>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []	Back alignment and domain information

>KOG2036 consensus Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]	Back alignment and domain information

>TIGR00595 priA primosomal protein N'	Back alignment and domain information

>PRK14873 primosome assembly protein PriA; Provisional	Back alignment and domain information

>PRK03992 proteasome-activating nucleotidase; Provisional	Back alignment and domain information

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK06620 hypothetical protein; Validated	Back alignment and domain information

>cd00984 DnaB_C DnaB helicase C terminal domain	Back alignment and domain information

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif	Back alignment and domain information

>PRK07940 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]	Back alignment and domain information

>TIGR02655 circ_KaiC circadian clock protein KaiC	Back alignment and domain information

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]	Back alignment and domain information

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily	Back alignment and domain information

>TIGR02928 orc1/cdc6 family replication initiation protein	Back alignment and domain information

>PRK07133 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>TIGR02688 conserved hypothetical protein TIGR02688	Back alignment and domain information

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR00643 recG ATP-dependent DNA helicase RecG	Back alignment and domain information

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional	Back alignment and domain information

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family	Back alignment and domain information

>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]	Back alignment and domain information

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ	Back alignment and domain information

>PRK10416 signal recognition particle-docking protein FtsY; Provisional	Back alignment and domain information

>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases	Back alignment and domain information

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]	Back alignment and domain information

>PHA00012 I assembly protein	Back alignment and domain information

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)	Back alignment and domain information

>PRK04841 transcriptional regulator MalT; Provisional	Back alignment and domain information

>TIGR00767 rho transcription termination factor Rho	Back alignment and domain information

>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]	Back alignment and domain information

>TIGR00416 sms DNA repair protein RadA	Back alignment and domain information

>PRK06305 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK08058 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily	Back alignment and domain information

>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]	Back alignment and domain information

>CHL00176 ftsH cell division protein; Validated	Back alignment and domain information

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]	Back alignment and domain information

>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2	Back alignment and domain information

>PRK09376 rho transcription termination factor Rho; Provisional	Back alignment and domain information

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB	Back alignment and domain information

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PHA03333 putative ATPase subunit of terminase; Provisional	Back alignment and domain information

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB	Back alignment and domain information

>TIGR01242 26Sp45 26S proteasome subunit P45 family	Back alignment and domain information

>PRK13851 type IV secretion system protein VirB11; Provisional	Back alignment and domain information

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit	Back alignment and domain information

>COG1110 Reverse gyrase [DNA replication, recombination, and repair]	Back alignment and domain information

>KOG0726 consensus 26S proteasome regulatory complex, ATPase RPT2 [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>TIGR00580 mfd transcription-repair coupling factor (mfd)	Back alignment and domain information

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family	Back alignment and domain information

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases	Back alignment and domain information

>PRK10865 protein disaggregation chaperone; Provisional	Back alignment and domain information

>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]	Back alignment and domain information

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

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP	Back alignment and domain information

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK13531 regulatory ATPase RavA; Provisional	Back alignment and domain information

>cd01125 repA Hexameric Replicative Helicase RepA	Back alignment and domain information

>COG0210 UvrD Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK07399 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PF10593 Z1: Z1 domain; InterPro: IPR018310 This entry represents the Z1 domain of unknown function that is found in a group of putative endonucleases	Back alignment and domain information

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK04328 hypothetical protein; Provisional	Back alignment and domain information

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]	Back alignment and domain information

>PRK13900 type IV secretion system ATPase VirB11; Provisional	Back alignment and domain information

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]	Back alignment and domain information

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]	Back alignment and domain information

>PHA00350 putative assembly protein	Back alignment and domain information

>PRK09087 hypothetical protein; Validated	Back alignment and domain information

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]	Back alignment and domain information

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]	Back alignment and domain information

>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)	Back alignment and domain information

>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK10689 transcription-repair coupling factor; Provisional	Back alignment and domain information

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase	Back alignment and domain information

>CHL00095 clpC Clp protease ATP binding subunit	Back alignment and domain information

>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]	Back alignment and domain information

>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]	Back alignment and domain information

>COG1485 Predicted ATPase [General function prediction only]	Back alignment and domain information

>PF12846 AAA_10: AAA-like domain	Back alignment and domain information

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily	Back alignment and domain information

>COG1074 RecB ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK10436 hypothetical protein; Provisional	Back alignment and domain information

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family	Back alignment and domain information

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork	Back alignment and domain information

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H	Back alignment and domain information

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]	Back alignment and domain information

>TIGR02533 type_II_gspE general secretory pathway protein E	Back alignment and domain information

>PRK06904 replicative DNA helicase; Validated	Back alignment and domain information

>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated	Back alignment and domain information

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional	Back alignment and domain information

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PRK05564 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]	Back alignment and domain information

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

>PHA03372 DNA packaging terminase subunit 1; Provisional	Back alignment and domain information

>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase	Back alignment and domain information

>TIGR02784 addA_alphas double-strand break repair helicase AddA, alphaproteobacterial type	Back alignment and domain information

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []	Back alignment and domain information

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]	Back alignment and domain information

>PRK05917 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>KOG1807 consensus Helicases [Replication, recombination and repair]	Back alignment and domain information

>PRK08506 replicative DNA helicase; Provisional	Back alignment and domain information

>PRK12608 transcription termination factor Rho; Provisional	Back alignment and domain information

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family	Back alignment and domain information

>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins	Back alignment and domain information

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []	Back alignment and domain information

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C	Back alignment and domain information

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed	Back alignment and domain information

>TIGR02655 circ_KaiC circadian clock protein KaiC	Back alignment and domain information

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]	Back alignment and domain information

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		404
2hyi_C		413	Structure Of The Human Exon Junction Complex With A		0.0
2xb2_A		411	Crystal Structure Of The Core Mago-Y14-Eif4aiii-Bar		0.0
2j0q_A		410	The Crystal Structure Of The Exon Junction Complex		0.0
2hxy_A		391	Crystal Structure Of Human Apo-Eif4aiii Length = 39		0.0
2j0u_B		374	The Crystal Structure Of Eif4aiii-Barentsz Complex		0.0
2j0u_A		374	The Crystal Structure Of Eif4aiii-Barentsz Complex		0.0
2zu6_A		388	Crystal Structure Of The Eif4a-Pdcd4 Complex Length		1e-142
3eiq_A		414	Crystal Structure Of Pdcd4-eif4a Length = 414		1e-142
2vso_A		395	Crystal Structure Of A Translation Initiation Compl		1e-130
1fuu_A		394	Yeast Initiation Factor 4a Length = 394		1e-125
1s2m_A		400	Crystal Structure Of The Dead Box Protein Dhh1p Len		1e-80
3pew_A		395	S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3		6e-74
3pey_A		395	S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3 Length		8e-74
3fmp_B		479	Crystal Structure Of The Nucleoporin Nup214 In Comp		2e-71
3fht_A		412	Crystal Structure Of Human Dbp5 In Complex With Amp		3e-71
3ews_A		445	Human Dead-Box Rna-Helicase Ddx19 In Complex With A		3e-71
3g0h_A		424	Human Dead-box Rna Helicase Ddx19, In Complex With		3e-71
3bor_A		237	Crystal Structure Of The Deadc Domain Of Human Tran		8e-69
1qde_A		224	Crystal Structure Of The Atpase Domain Of Translati		1e-67
3fho_B		508	Structure Of S. Pombe Dbp5 Length = 508		2e-65
1xtk_A		390	Structure Of Decd To Dead Mutation Of Human Uap56 L		2e-65
1xti_A		391	Structure Of Wildtype Human Uap56 Length = 391		4e-65
1xtj_A		386	Structure Of Human Uap56 In Complex With Adp Length		5e-65
1qva_A		223	Yeast Initiation Factor 4a N-Terminal Domain Length		3e-63
2g9n_A		221	Structure Of The Dead Domain Of Human Eukaryotic In		2e-61
1hv8_A		367	Crystal Structure Of A Dead Box Protein From The Hy		5e-61
1fuk_A		165	Crystal Structure Of The Carboxy Terminal Domain Of		2e-56
2i4i_A		417	Crystal Structure Of Human Dead-Box Rna Helicase Dd		4e-50
2db3_A		434	Structural Basis For Rna Unwinding By The Dead-Box		3e-46
2z0m_A		337	Crystal Structure Of Hypothetical Atp-Dependent Rna		1e-38
2rb4_A		175	Crystal Structure Of The Helicase Domain Of Human D		2e-36
2wax_A		193	Structure Of The Human Ddx6 C-Terminal Domain In Co		7e-35
2kbf_A		187	Solution Structure Of Carboxyl-Terminal Domain Of D		2e-34
3peu_A		188	S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To		1e-33
3gfp_A		189	Structure Of The C-Terminal Domain Of The Dead-Box		2e-33
2kbe_A		226	Solution Structure Of Amino-Terminal Domain Of Dbp5		3e-32
3sqx_A		512	Structure Of Mss116p (Nte And C-Tail Double Deletio		8e-32
3i5x_A		563	Structure Of Mss116p Bound To Ssrna And Amp-Pnp Len		1e-31
1vec_A		206	Crystal Structure Of The N-Terminal Domain Of RckP5		2e-31
3sqw_A		579	Structure Of Mss116p (Nte Deletion) Bound To Ssrna		2e-31
2hjv_A		163	Structure Of The Second Domain (Residues 207-368) O		9e-31
1t6n_A		220	Crystal Structure Of The N-Terminal Domain Of Human		3e-29
2oxc_A		230	Human Dead-Box Rna Helicase Ddx20, Dead Domain In C		4e-29
1t5i_A		172	Crystal Structure Of The C-Terminal Domain Of Uap56		2e-28
3fhc_B		235	Crystal Structure Of Human Dbp5 In Complex With Nup		2e-28
2gxq_A		207	Hera N-Terminal Domain In Complex With Amp, Crystal		5e-28
3fmo_B		300	Crystal Structure Of The Nucleoporin Nup214 In Comp		8e-28
3mwj_A		207	Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Ap		1e-27
3ber_A		249	Human Dead-Box Rna-Helicase Ddx47, Conserved Domain		4e-26
1q0u_A		219	Crystal Structure Of The Bstdead N-Terminal Domain		2e-25
1wrb_A		253	Crystal Structure Of The N-Terminal Reca-Like Domai		3e-24
2jgn_A		185	Ddx3 Helicase Domain Length = 185		5e-23
3fe2_A		242	Human Dead-Box Rna Helicase Ddx5 (P68), Conserved D		3e-22
4a4d_A		253	Crystal Structure Of The N-Terminal Domain Of The H		3e-22
3iuy_A		228	Crystal Structure Of Ddx53 Dead-Box Domain Length =		5e-21
3ly5_A		262	Ddx18 Dead-Domain Length = 262		2e-19
2yjt_D		170	Crystal Structure Of E. Coli Dead-Box Protein Srmb		8e-19
2pl3_A		236	Human Dead-Box Rna Helicase Ddx10, Dead Domain In C		4e-18
3i32_A		300	Dimeric Structure Of A Hera Helicase Fragment Inclu		4e-18
3eaq_A		212	Novel Dimerization Motif In The Dead Box Rna Helica		2e-17
2p6n_A		191	Human Dead-box Rna Helicase Ddx41, Helicase Domain		7e-17
3dkp_A		245	Human Dead-Box Rna-Helicase Ddx52, Conserved Domain		1e-14
4db4_A		256	Mss116p Dead-Box Helicase Domain 2 Bound To A Chima		8e-14
4db2_C		257	Mss116p Dead-Box Helicase Domain 2 Bound To An Rna		8e-14
4db2_A		257	Mss116p Dead-Box Helicase Domain 2 Bound To An Rna		9e-14
1oyy_A		523	Structure Of The Recq Catalytic Core Bound To Atp-G		3e-09
1oyw_A		523	Structure Of The Recq Catalytic Core Length = 523		9e-09
4gl2_A		699	Structural Basis For Dsrna Duplex Backbone Recognit		2e-05
1wp9_A		494	Crystal Structure Of Pyrococcus Furiosus Hef Helica		8e-05
1gm5_A		780	Structure Of Recg Bound To Three-Way Dna Junction L		4e-04
2v1x_A		591	Crystal Structure Of Human Recq-Like Dna Helicase L		4e-04

>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A Trapped Dead-Box Helicase Bound To Rna Length = 413