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Conserved domains on  [gi|1622946385|ref|XP_028705495|]
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3'-5' RNA helicase YTHDC2 isoform X3 [Macaca mulatta]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
 297-452 4.75e-73

C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family members are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


:

Pssm-ID: 350178 [Multi-domain]  Cd Length: 171  Bit Score: 239.74  E-value: 4.75e-73
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  297 HSFDDEKVDLDLIMHLLYNICHSCDAGAVLIFLPGYDEIVGLRDRILfdDKRFADSTHRYQVFMLHSNMQTSDQKKVLKN 376
Cdd:cd18791     18 SSEKEDPDYVDAAVRLILQIHRTEEPGDILVFLPGQEEIERLCELLR--EELLSPDLGKLLVLPLHSSLPPEEQQRVFEP 95

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1622946385  377 PPAGVRKIILSTNIAETSITVNDVVFVIDSGKVKEKSFDALNFVTMLKMVWISKASAIQRKGRAGRCRPGICFRLF 452
Cdd:cd18791     96 PPPGVRKVVLATNIAETSITIPGVVYVIDSGLVKEKVYDPRTGLSSLVTVWISKASAEQRAGRAGRTRPGKCYRLY 171
YTH cd21134
YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; ...
 989-1118 2.74e-64

YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; Individual members of the YTH family have been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. In general, eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or in other forms of silencing. The YTH domain is a novel RNA-binding domain that has been shown to bind to short, degenerate, single-stranded RNA motifs that loosely follow a consensus sequence. It belongs to the larger PUA superfamily.


:

Pssm-ID: 410979  Cd Length: 133  Bit Score: 213.58  E-value: 2.74e-64
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  989 RYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWESSMVYLVFSVQGSGHFQGFSRMSSEIGREKS---QDWGSAGL 1065
Cdd:cd21134      1 RFFIIKSNNEENIHLSIKYGVWATQPHNEKKLNQAFRESGNVYLIFSVNGSGHFQGYARMTSPPDPNRSpswPWWSQDKL 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1622946385 1066 GGVFKVEWIRKESLPFQFAHHLLNPWNDNKKVQISRDGQELEPQVGEQLLQLW 1118
Cdd:cd21134     81 GGPFKVEWLRVKDLPFSKLRHLKNPLNENKPVTISRDGQEIEPEVGEQLLKLF 133
HrpA super family cl34328
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
323-648 3.31e-52

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


The actual alignment was detected with superfamily member COG1643:

Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 198.38  E-value: 3.31e-52
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  323 GAVLIFLPGYDEIVGLRDRIlfdDKRFADSThryQVFMLHSNMQTSDQKKVLKNPPAGVRKIILSTNIAETSITVNDVVF 402
Cdd:COG1643    221 GDILVFLPGEREIRRTAEAL---RGRLPPDT---EILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRY 294

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  403 VIDSGKVKEKSFDALNFVTMLKMVWISKASAIQRKGRAGRCRPGICFRLFSRLRFQNMLEFQTPELLRMPLQELCLHTKL 482
Cdd:COG1643    295 VIDSGLARIPRYDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFARRPAFTDPEILRADLASLILELAA 374

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  483 LapvNCP-IADFLMkaPEPPPALIVRNAVQMLKTIDAMDTWEDLTELGYHLADLPVEPHLGKMVLCAVVLKCLDPILTIA 561
Cdd:COG1643    375 W---GLGdPEDLPF--LDPPPARAIADARALLQELGALDADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILA 449

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  562 CTLAYRDPFvlptqasqkraamlcrkRFTAGafSDHMALLRAFQAWQKARsdgwerafceKNFLSQATMEIIIGMRTQLL 641
Cdd:COG1643    450 ALLSERDPR-----------------RGAAG--SDLLARLNLWRRLREQQ----------REFLSYLRLREWRDLARQLR 500


                   ....*..
gi 1622946385  642 GQLRASG 648
Cdd:COG1643    501 RLLGEGA 507
DEAD-like_helicase_N super family cl28899
N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ...
 1-68 2.99e-39

N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase superfamily is a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. The N-terminal domain contains the ATP-binding region.


The actual alignment was detected with superfamily member cd17987:

Pssm-ID: 475120 [Multi-domain]  Cd Length: 176  Bit Score: 143.82  E-value: 2.99e-39
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17987    109 MAGDSALSTVTHVIVDEVHERDRFSDFLLTKLRDILQKHPNLKLILSSAALDVNLFIRYFGSCPVIYI 176
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 671-766 2.94e-12

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


:

Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 63.43  E-value: 2.94e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  671 VKAALVAGMYPNLVHVDRENLVLTGPKEK-KVRFHPASVLSQPqyKKIPPAngqaaaikalptdWLIYDEMTRAHRIAnI 749
Cdd:pfam07717    1 LRAALAAGLYPNVARRDPKGKGYTTLSDNqRVFIHPSSVLFNE--KTFPPE-------------WVVYQELVETTKVY-I 64

                           90
                   ....*....|....*..
gi 1622946385  750 RCCSAVTPVTILVFCGP 766
Cdd:pfam07717   65 RTVTAISPEWLLLFAPH 81
ANKYR super family cl34000
Ankyrin repeat [Signal transduction mechanisms];
209-264 4.70e-09

Ankyrin repeat [Signal transduction mechanisms];


The actual alignment was detected with superfamily member COG0666:

Pssm-ID: 440430 [Multi-domain]  Cd Length: 289  Bit Score: 58.81  E-value: 4.70e-09
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1622946385  209 TALMVAAGRGFASQVEQLISMGANVHSKASNGWMALDWAKHFGQTEIVDLLESYSA 264
Cdd:COG0666    155 TPLHLAAANGNLEIVKLLLEAGADVNARDNDGETPLHLAAENGHLEIVKLLLEAGA 210
 
Name Accession Description Interval E-value
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
 297-452 4.75e-73

C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family members are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350178 [Multi-domain]  Cd Length: 171  Bit Score: 239.74  E-value: 4.75e-73
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  297 HSFDDEKVDLDLIMHLLYNICHSCDAGAVLIFLPGYDEIVGLRDRILfdDKRFADSTHRYQVFMLHSNMQTSDQKKVLKN 376
Cdd:cd18791     18 SSEKEDPDYVDAAVRLILQIHRTEEPGDILVFLPGQEEIERLCELLR--EELLSPDLGKLLVLPLHSSLPPEEQQRVFEP 95

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1622946385  377 PPAGVRKIILSTNIAETSITVNDVVFVIDSGKVKEKSFDALNFVTMLKMVWISKASAIQRKGRAGRCRPGICFRLF 452
Cdd:cd18791     96 PPPGVRKVVLATNIAETSITIPGVVYVIDSGLVKEKVYDPRTGLSSLVTVWISKASAEQRAGRAGRTRPGKCYRLY 171
YTH cd21134
YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; ...
 989-1118 2.74e-64

YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; Individual members of the YTH family have been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. In general, eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or in other forms of silencing. The YTH domain is a novel RNA-binding domain that has been shown to bind to short, degenerate, single-stranded RNA motifs that loosely follow a consensus sequence. It belongs to the larger PUA superfamily.


Pssm-ID: 410979  Cd Length: 133  Bit Score: 213.58  E-value: 2.74e-64
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  989 RYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWESSMVYLVFSVQGSGHFQGFSRMSSEIGREKS---QDWGSAGL 1065
Cdd:cd21134      1 RFFIIKSNNEENIHLSIKYGVWATQPHNEKKLNQAFRESGNVYLIFSVNGSGHFQGYARMTSPPDPNRSpswPWWSQDKL 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1622946385 1066 GGVFKVEWIRKESLPFQFAHHLLNPWNDNKKVQISRDGQELEPQVGEQLLQLW 1118
Cdd:cd21134     81 GGPFKVEWLRVKDLPFSKLRHLKNPLNENKPVTISRDGQEIEPEVGEQLLKLF 133
YTH pfam04146
YT521-B-like domain; A protein of the YTH family has been shown to selectively remove ...
 988-1119 4.25e-60

YT521-B-like domain; A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. It has been speculated that in higher eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or general silencing. The rat protein YT521-B is a tyrosine-phosphorylated nuclear protein, that interacts with the nuclear transcriptosomal component scaffold attachment factor B, and the 68-kDa Src substrate associated during mitosis, Sam68. In vivo splicing assays demonstrated that YT521-B modulates alternative splice site selection in a concentration-dependent manner. The YTH domain has been identified as part of the PUA superfamily.


Pssm-ID: 461195  Cd Length: 135  Bit Score: 201.57  E-value: 4.25e-60
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  988 VRYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWESSMVYLVFSVQGSGHFQGFSRMSSEIGREKSQ-DWGSAGL- 1065
Cdd:pfam04146    1 ARFFIIKSLNEENIHLSIKYGIWATQPHNNKRLNEAFKESKNVYLIFSVNKSGHFQGYARMTSPVDFDPSFiFWEADSDk 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1622946385 1066 -GGVFKVEWIRKESLPFQFAHHLLNPWNDNKKVQISRDGQELEPQVGEQLLQLWE 1119
Cdd:pfam04146   81 wGGPFKVEWLSVKDLPFSRLRHLRNPLNENKPVKISRDGQEIEPEVGRQLLKLFD 135
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
323-648 3.31e-52

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 198.38  E-value: 3.31e-52
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  323 GAVLIFLPGYDEIVGLRDRIlfdDKRFADSThryQVFMLHSNMQTSDQKKVLKNPPAGVRKIILSTNIAETSITVNDVVF 402
Cdd:COG1643    221 GDILVFLPGEREIRRTAEAL---RGRLPPDT---EILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRY 294

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  403 VIDSGKVKEKSFDALNFVTMLKMVWISKASAIQRKGRAGRCRPGICFRLFSRLRFQNMLEFQTPELLRMPLQELCLHTKL 482
Cdd:COG1643    295 VIDSGLARIPRYDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFARRPAFTDPEILRADLASLILELAA 374

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  483 LapvNCP-IADFLMkaPEPPPALIVRNAVQMLKTIDAMDTWEDLTELGYHLADLPVEPHLGKMVLCAVVLKCLDPILTIA 561
Cdd:COG1643    375 W---GLGdPEDLPF--LDPPPARAIADARALLQELGALDADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILA 449

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  562 CTLAYRDPFvlptqasqkraamlcrkRFTAGafSDHMALLRAFQAWQKARsdgwerafceKNFLSQATMEIIIGMRTQLL 641
Cdd:COG1643    450 ALLSERDPR-----------------RGAAG--SDLLARLNLWRRLREQQ----------REFLSYLRLREWRDLARQLR 500


                   ....*..
gi 1622946385  642 GQLRASG 648
Cdd:COG1643    501 RLLGEGA 507
DEXHc_YTHDC2 cd17987
DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) ...
 1-68 2.99e-39

DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) regulates mRNA translation and stability via binding to N6-methyladenosine, a modified RNA nucleotide enriched in the stop codons and 3' UTRs of eukaryotic messenger RNAs. YTHDC2 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350745 [Multi-domain]  Cd Length: 176  Bit Score: 143.82  E-value: 2.99e-39
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17987    109 MAGDSALSTVTHVIVDEVHERDRFSDFLLTKLRDILQKHPNLKLILSSAALDVNLFIRYFGSCPVIYI 176
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 323-718 1.45e-38

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 157.14  E-value: 1.45e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  323 GAVLIFLPGYDEIvglRDRILFDDKRFADSThryQVFMLHSNMQTSDQKKVLKnpPAGVRKIILSTNIAETSITVNDVVF 402
Cdd:PRK11131   287 GDILIFMSGEREI---RDTADALNKLNLRHT---EILPLYARLSNSEQNRVFQ--SHSGRRIVLATNVAETSLTVPGIKY 358

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  403 VIDSGKVKEKSFDALNFVTMLKMVWISKASAIQRKGRAGRCRPGICFRLFSRLRFQNMLEFQTPELLRMPLQELCLHTKL 482
Cdd:PRK11131   359 VIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEDDFLSRPEFTDPEILRTNLASVILQMTA 438

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  483 LAPVNcpIADFlmkaP--EPPPALIVRNAVQMLKTIDAMDTWED-----LTELGYHLADLPVEPHLGKMVLCAVVLKCLD 555
Cdd:PRK11131   439 LGLGD--IAAF----PfvEAPDKRNIQDGVRLLEELGAITTDEQasaykLTPLGRQLAQLPVDPRLARMVLEAQKHGCVR 512

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  556 PILTIACTLAYRDPFVLPT---QASQKRaamlcRKRFtAGAFSDHMALLRAF---QAWQKARSDGWERAFCEKNFLSQAT 629
Cdd:PRK11131   513 EVMIITSALSIQDPRERPMdkqQASDEK-----HRRF-ADKESDFLAFVNLWnylQEQQKALSSNQFRRLCRTDYLNYLR 586

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  630 MEIIIGMRTQLLGQLRASGFvrargggdirDVNTNSENWAVVKAALVAGMypnLVHV---DRENLVLTGPkeKKVRFH-- 704
Cdd:PRK11131   587 VREWQDIYTQLRQVVKELGI----------PVNSEPAEYREIHTALLTGL---LSHIgmkDAEKQEYTGA--RNARFSif 651

                          410
                   ....*....|....
gi 1622946385  705 PASVLsqpqYKKIP 718
Cdd:PRK11131   652 PGSGL----FKKPP 661
PRK11664 PRK11664
ATP-dependent RNA helicase HrpB; Provisional
 323-548 4.95e-33

ATP-dependent RNA helicase HrpB; Provisional


Pssm-ID: 236950 [Multi-domain]  Cd Length: 812  Bit Score: 138.13  E-value: 4.95e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  323 GAVLIFLPGYDEIVGLRDRIlfdDKRFADSThryQVFMLHSNMQTSDQKKVLKNPPAGVRKIILSTNIAETSITVNDVVF 402
Cdd:PRK11664   213 GSLLLFLPGVGEIQRVQEQL---ASRVASDV---LLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRL 286

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  403 VIDSGKVKEKSFDALNFVTMLKMVWISKASAIQRKGRAGRCRPGICFRLFSRLRFQNMLEFQTPELLRMPLQELCLHtkl 482
Cdd:PRK11664   287 VVDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRLEPGICLHLYSKEQAERAAAQSEPEILHSDLSGLLLE--- 363

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1622946385  483 LAPVNCPIADFLMKAPEPPPALIvRNAVQMLKTIDAMDTWEDLTELGYHLADLPVEPHLGKMVLCA 548
Cdd:PRK11664   364 LLQWGCHDPAQLSWLDQPPAAAL-AAAKRLLQQLGALDGQGRLTARGRKMAALGNDPRLAAMLVAA 428
HA2 pfam04408
Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in ...
 509-600 2.05e-27

Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.


Pssm-ID: 461295 [Multi-domain]  Cd Length: 104  Bit Score: 107.32  E-value: 2.05e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  509 AVQMLKTIDAMDTWEDLTELGYHLADLPVEPHLGKMVLCAVVLKCLDPILTIACTLAYRDPFVLPTQASQKRAAMLCRKR 588
Cdd:pfam04408    1 ALELLYYLGALDEDGELTPLGRKMAELPLDPRLAKMLLAAAELGCLDEVLTIVAALSVRDPFVQPNFLDPRSAAKAARRR 80

                           90       100
                   ....*....|....*....|....
gi 1622946385  589 FTA------------GAFSDHMAL 600
Cdd:pfam04408   81 RRAadekarakfarlDLEGDHLTL 104
HA2 smart00847
Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino ...
 516-601 6.83e-18

Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.


Pssm-ID: 214852 [Multi-domain]  Cd Length: 82  Bit Score: 79.23  E-value: 6.83e-18
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385   516 IDAMDTWEDLTELGYHLADLPVEPHLGKMVLCAVVLKCLDPILTIACTLAYRDPFvlptQASQKRAAMLCRKRFtAGAFS 595
Cdd:smart00847    2 LGALDDDGRLTPLGRKMAELPLDPRLAKMLLAAAEFGCLDEILTIVAMLSVGDPR----PKEKREDADAARRRF-ADPES 76


                    ....*.
gi 1622946385   596 DHMALL 601
Cdd:smart00847   77 DHLTLL 82
HELICc smart00490
helicase superfamily c-terminal domain;
354-442 1.45e-14

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 69.93  E-value: 1.45e-14
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385   354 HRYQVFMLHSNMQTSDQKKVLKNPPAGVRKIILSTNIAETSITVNDVVFVIDSGkvkeksfdalnfvtmlkmVWISKASA 433
Cdd:smart00490   10 LGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYD------------------LPWSPASY 71


                    ....*....
gi 1622946385   434 IQRKGRAGR 442
Cdd:smart00490   72 IQRIGRAGR 80
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 310-442 1.60e-14

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


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 70.70  E-value: 1.60e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  310 MHLLYNICHSCDAGAVLIFLPGYDEIvglrdrilfdDKRFADSTHRYQVFMLHSNMQTSDQKKVLKNPPAGVRKIILSTN 389
Cdd:pfam00271    3 LEALLELLKKERGGKVLIFSQTKKTL----------EAELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATD 72

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1622946385  390 IAETSITVNDVVFVIDsgkvkeksFDAlnfvtmlkmvWISKASAIQRKGRAGR 442
Cdd:pfam00271   73 VAERGLDLPDVDLVIN--------YDL----------PWNPASYIQRIGRAGR 107
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 671-766 2.94e-12

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 63.43  E-value: 2.94e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  671 VKAALVAGMYPNLVHVDRENLVLTGPKEK-KVRFHPASVLSQPqyKKIPPAngqaaaikalptdWLIYDEMTRAHRIAnI 749
Cdd:pfam07717    1 LRAALAAGLYPNVARRDPKGKGYTTLSDNqRVFIHPSSVLFNE--KTFPPE-------------WVVYQELVETTKVY-I 64

                           90
                   ....*....|....*..
gi 1622946385  750 RCCSAVTPVTILVFCGP 766
Cdd:pfam07717   65 RTVTAISPEWLLLFAPH 81
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
13-75 7.52e-11

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 66.64  E-value: 7.52e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1622946385   13 VIVDEVHERDRFSDFLLTKLRDLLQKH-PTLKLILSSAALDVNLFLRYFGSCPVIYIQGRPFEV 75
Cdd:COG1643    127 VIFDEFHERSLNADLLLALLLDLQPALrPDLKLLVMSATLDAERFARLLGDAPVIESSGRTYPV 190
ANKYR COG0666
Ankyrin repeat [Signal transduction mechanisms];
209-264 4.70e-09

Ankyrin repeat [Signal transduction mechanisms];


Pssm-ID: 440430 [Multi-domain]  Cd Length: 289  Bit Score: 58.81  E-value: 4.70e-09
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1622946385  209 TALMVAAGRGFASQVEQLISMGANVHSKASNGWMALDWAKHFGQTEIVDLLESYSA 264
Cdd:COG0666    155 TPLHLAAANGNLEIVKLLLEAGADVNARDNDGETPLHLAAENGHLEIVKLLLEAGA 210
Ank_2 pfam12796
Ankyrin repeats (3 copies);
211-279 2.24e-06

Ankyrin repeats (3 copies);


Pssm-ID: 463710 [Multi-domain]  Cd Length: 91  Bit Score: 47.03  E-value: 2.24e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1622946385  211 LMVAAGRGFASQVEQLISMGANVHSKASNGWMALDWAKHFGQTEIVDLLesysasLEFGNLDESSLVQT 279
Cdd:pfam12796    1 LHLAAKNGNLELVKLLLENGADANLQDKNGRTALHLAAKNGHLEIVKLL------LEHADVNLKDNGRT 63
PHA02653 PHA02653
RNA helicase NPH-II; Provisional
 6-79 1.48e-03

RNA helicase NPH-II; Provisional


Pssm-ID: 177443 [Multi-domain]  Cd Length: 675  Bit Score: 42.66  E-value: 1.48e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385    6 TLSTVTH---VIVDEVHERDRFSDFLLTKLRdllqKHPTL--KLILSSAAL--DVNLFLRYFGSCPVIYIQGRP-FEVKE 77
Cdd:PHA02653   285 TLNKLFDygtVIIDEVHEHDQIGDIIIAVAR----KHIDKirSLFLMTATLedDRDRIKEFFPNPAFVHIPGGTlFPISE 360


                   ..
gi 1622946385   78 MF 79
Cdd:PHA02653   361 VY 362
DEXDc smart00487
DEAD-like helicases superfamily;
7-72 7.91e-03

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 39.01  E-value: 7.91e-03
                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385     7 LSTVTHVIVDEVHERDR--FSDFLLTKLRDLlqkHPTLKLILSSAALDVNL--FLRYFGSCPVIYIQGRP 72
Cdd:smart00487  127 LSNVDLVILDEAHRLLDggFGDQLEKLLKLL---PKNVQLLLLSATPPEEIenLLELFLNDPVFIDVGFT 193
 
Name Accession Description Interval E-value
SF2_C_RHA cd18791
C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A ...
 297-452 4.75e-73

C-terminal helicase domain of the RNA helicase A (RHA) family helicases; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family members are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350178 [Multi-domain]  Cd Length: 171  Bit Score: 239.74  E-value: 4.75e-73
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  297 HSFDDEKVDLDLIMHLLYNICHSCDAGAVLIFLPGYDEIVGLRDRILfdDKRFADSTHRYQVFMLHSNMQTSDQKKVLKN 376
Cdd:cd18791     18 SSEKEDPDYVDAAVRLILQIHRTEEPGDILVFLPGQEEIERLCELLR--EELLSPDLGKLLVLPLHSSLPPEEQQRVFEP 95

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1622946385  377 PPAGVRKIILSTNIAETSITVNDVVFVIDSGKVKEKSFDALNFVTMLKMVWISKASAIQRKGRAGRCRPGICFRLF 452
Cdd:cd18791     96 PPPGVRKVVLATNIAETSITIPGVVYVIDSGLVKEKVYDPRTGLSSLVTVWISKASAEQRAGRAGRTRPGKCYRLY 171
YTH cd21134
YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; ...
 989-1118 2.74e-64

YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; Individual members of the YTH family have been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. In general, eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or in other forms of silencing. The YTH domain is a novel RNA-binding domain that has been shown to bind to short, degenerate, single-stranded RNA motifs that loosely follow a consensus sequence. It belongs to the larger PUA superfamily.


Pssm-ID: 410979  Cd Length: 133  Bit Score: 213.58  E-value: 2.74e-64
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  989 RYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWESSMVYLVFSVQGSGHFQGFSRMSSEIGREKS---QDWGSAGL 1065
Cdd:cd21134      1 RFFIIKSNNEENIHLSIKYGVWATQPHNEKKLNQAFRESGNVYLIFSVNGSGHFQGYARMTSPPDPNRSpswPWWSQDKL 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1622946385 1066 GGVFKVEWIRKESLPFQFAHHLLNPWNDNKKVQISRDGQELEPQVGEQLLQLW 1118
Cdd:cd21134     81 GGPFKVEWLRVKDLPFSKLRHLKNPLNENKPVTISRDGQEIEPEVGEQLLKLF 133
YTH pfam04146
YT521-B-like domain; A protein of the YTH family has been shown to selectively remove ...
 988-1119 4.25e-60

YT521-B-like domain; A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. It has been speculated that in higher eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or general silencing. The rat protein YT521-B is a tyrosine-phosphorylated nuclear protein, that interacts with the nuclear transcriptosomal component scaffold attachment factor B, and the 68-kDa Src substrate associated during mitosis, Sam68. In vivo splicing assays demonstrated that YT521-B modulates alternative splice site selection in a concentration-dependent manner. The YTH domain has been identified as part of the PUA superfamily.


Pssm-ID: 461195  Cd Length: 135  Bit Score: 201.57  E-value: 4.25e-60
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  988 VRYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWESSMVYLVFSVQGSGHFQGFSRMSSEIGREKSQ-DWGSAGL- 1065
Cdd:pfam04146    1 ARFFIIKSLNEENIHLSIKYGIWATQPHNNKRLNEAFKESKNVYLIFSVNKSGHFQGYARMTSPVDFDPSFiFWEADSDk 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1622946385 1066 -GGVFKVEWIRKESLPFQFAHHLLNPWNDNKKVQISRDGQELEPQVGEQLLQLWE 1119
Cdd:pfam04146   81 wGGPFKVEWLSVKDLPFSRLRHLRNPLNENKPVKISRDGQEIEPEVGRQLLKLFD 135
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
323-648 3.31e-52

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 198.38  E-value: 3.31e-52
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  323 GAVLIFLPGYDEIVGLRDRIlfdDKRFADSThryQVFMLHSNMQTSDQKKVLKNPPAGVRKIILSTNIAETSITVNDVVF 402
Cdd:COG1643    221 GDILVFLPGEREIRRTAEAL---RGRLPPDT---EILPLYGRLSAAEQDRAFAPAPHGRRRIVLATNIAETSLTVPGIRY 294

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  403 VIDSGKVKEKSFDALNFVTMLKMVWISKASAIQRKGRAGRCRPGICFRLFSRLRFQNMLEFQTPELLRMPLQELCLHTKL 482
Cdd:COG1643    295 VIDSGLARIPRYDPRSGVTRLPTERISQASANQRAGRAGRLAPGICYRLWSEEDFARRPAFTDPEILRADLASLILELAA 374

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  483 LapvNCP-IADFLMkaPEPPPALIVRNAVQMLKTIDAMDTWEDLTELGYHLADLPVEPHLGKMVLCAVVLKCLDPILTIA 561
Cdd:COG1643    375 W---GLGdPEDLPF--LDPPPARAIADARALLQELGALDADGRLTPLGRALARLPLDPRLARMLLAAAELGCLREAAILA 449

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  562 CTLAYRDPFvlptqasqkraamlcrkRFTAGafSDHMALLRAFQAWQKARsdgwerafceKNFLSQATMEIIIGMRTQLL 641
Cdd:COG1643    450 ALLSERDPR-----------------RGAAG--SDLLARLNLWRRLREQQ----------REFLSYLRLREWRDLARQLR 500


                   ....*..
gi 1622946385  642 GQLRASG 648
Cdd:COG1643    501 RLLGEGA 507
DEXHc_YTHDC2 cd17987
DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) ...
 1-68 2.99e-39

DEXH-box helicase domain of YTH domain containing 2; YTH domain containing 2 (YTHDC2) regulates mRNA translation and stability via binding to N6-methyladenosine, a modified RNA nucleotide enriched in the stop codons and 3' UTRs of eukaryotic messenger RNAs. YTHDC2 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350745 [Multi-domain]  Cd Length: 176  Bit Score: 143.82  E-value: 2.99e-39
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17987    109 MAGDSALSTVTHVIVDEVHERDRFSDFLLTKLRDILQKHPNLKLILSSAALDVNLFIRYFGSCPVIYI 176
PRK11131 PRK11131
ATP-dependent RNA helicase HrpA; Provisional
 323-718 1.45e-38

ATP-dependent RNA helicase HrpA; Provisional


Pssm-ID: 182986 [Multi-domain]  Cd Length: 1294  Bit Score: 157.14  E-value: 1.45e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  323 GAVLIFLPGYDEIvglRDRILFDDKRFADSThryQVFMLHSNMQTSDQKKVLKnpPAGVRKIILSTNIAETSITVNDVVF 402
Cdd:PRK11131   287 GDILIFMSGEREI---RDTADALNKLNLRHT---EILPLYARLSNSEQNRVFQ--SHSGRRIVLATNVAETSLTVPGIKY 358

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  403 VIDSGKVKEKSFDALNFVTMLKMVWISKASAIQRKGRAGRCRPGICFRLFSRLRFQNMLEFQTPELLRMPLQELCLHTKL 482
Cdd:PRK11131   359 VIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVSEGICIRLYSEDDFLSRPEFTDPEILRTNLASVILQMTA 438

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  483 LAPVNcpIADFlmkaP--EPPPALIVRNAVQMLKTIDAMDTWED-----LTELGYHLADLPVEPHLGKMVLCAVVLKCLD 555
Cdd:PRK11131   439 LGLGD--IAAF----PfvEAPDKRNIQDGVRLLEELGAITTDEQasaykLTPLGRQLAQLPVDPRLARMVLEAQKHGCVR 512

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  556 PILTIACTLAYRDPFVLPT---QASQKRaamlcRKRFtAGAFSDHMALLRAF---QAWQKARSDGWERAFCEKNFLSQAT 629
Cdd:PRK11131   513 EVMIITSALSIQDPRERPMdkqQASDEK-----HRRF-ADKESDFLAFVNLWnylQEQQKALSSNQFRRLCRTDYLNYLR 586

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  630 MEIIIGMRTQLLGQLRASGFvrargggdirDVNTNSENWAVVKAALVAGMypnLVHV---DRENLVLTGPkeKKVRFH-- 704
Cdd:PRK11131   587 VREWQDIYTQLRQVVKELGI----------PVNSEPAEYREIHTALLTGL---LSHIgmkDAEKQEYTGA--RNARFSif 651

                          410
                   ....*....|....
gi 1622946385  705 PASVLsqpqYKKIP 718
Cdd:PRK11131   652 PGSGL----FKKPP 661
PRK11664 PRK11664
ATP-dependent RNA helicase HrpB; Provisional
 323-548 4.95e-33

ATP-dependent RNA helicase HrpB; Provisional


Pssm-ID: 236950 [Multi-domain]  Cd Length: 812  Bit Score: 138.13  E-value: 4.95e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  323 GAVLIFLPGYDEIVGLRDRIlfdDKRFADSThryQVFMLHSNMQTSDQKKVLKNPPAGVRKIILSTNIAETSITVNDVVF 402
Cdd:PRK11664   213 GSLLLFLPGVGEIQRVQEQL---ASRVASDV---LLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRL 286

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  403 VIDSGKVKEKSFDALNFVTMLKMVWISKASAIQRKGRAGRCRPGICFRLFSRLRFQNMLEFQTPELLRMPLQELCLHtkl 482
Cdd:PRK11664   287 VVDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRLEPGICLHLYSKEQAERAAAQSEPEILHSDLSGLLLE--- 363

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1622946385  483 LAPVNCPIADFLMKAPEPPPALIvRNAVQMLKTIDAMDTWEDLTELGYHLADLPVEPHLGKMVLCA 548
Cdd:PRK11664   364 LLQWGCHDPAQLSWLDQPPAAAL-AAAKRLLQQLGALDGQGRLTARGRKMAALGNDPRLAAMLVAA 428
DEXHc_RHA-like cd17917
DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) ...
 1-68 9.64e-28

DEXH-box helicase domain of DEAD-like helicase RHA family proteins; The RNA helicase A (RHA) family includes RHA, also called DEAH-box helicase 9 (DHX9), DHX8, DHX15-16, DHX32-38, and many others. The RHA family belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438707 [Multi-domain]  Cd Length: 159  Bit Score: 110.24  E-value: 9.64e-28
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17917     92 LLSDPLLSGYSHVILDEAHERSLDTDFLLGLLKDLLRKRPDLKVILMSATLDAEKFSSYFGGAPVIHI 159
HA2 pfam04408
Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in ...
 509-600 2.05e-27

Helicase associated domain (HA2); This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.


Pssm-ID: 461295 [Multi-domain]  Cd Length: 104  Bit Score: 107.32  E-value: 2.05e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  509 AVQMLKTIDAMDTWEDLTELGYHLADLPVEPHLGKMVLCAVVLKCLDPILTIACTLAYRDPFVLPTQASQKRAAMLCRKR 588
Cdd:pfam04408    1 ALELLYYLGALDEDGELTPLGRKMAELPLDPRLAKMLLAAAELGCLDEVLTIVAALSVRDPFVQPNFLDPRSAAKAARRR 80

                           90       100
                   ....*....|....*....|....
gi 1622946385  589 FTA------------GAFSDHMAL 600
Cdd:pfam04408   81 RRAadekarakfarlDLEGDHLTL 104
DEXHc_DHX57 cd17985
DEXH-box helicase domain of DEAH-box helicase 57; DEAH-box helicase 57 (DHX57) belongs to the ...
 1-68 2.11e-21

DEXH-box helicase domain of DEAH-box helicase 57; DEAH-box helicase 57 (DHX57) belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350743 [Multi-domain]  Cd Length: 177  Bit Score: 92.60  E-value: 2.11e-21
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17985    110 LEGDPTLQGVTHVIVDEVHERTEESDFLLLVLKDLMVQRPDLKVILMSATLNAELFSDYFNSCPVIHI 177
HA2 smart00847
Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino ...
 516-601 6.83e-18

Helicase associated domain (HA2) Add an annotation; This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.


Pssm-ID: 214852 [Multi-domain]  Cd Length: 82  Bit Score: 79.23  E-value: 6.83e-18
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385   516 IDAMDTWEDLTELGYHLADLPVEPHLGKMVLCAVVLKCLDPILTIACTLAYRDPFvlptQASQKRAAMLCRKRFtAGAFS 595
Cdd:smart00847    2 LGALDDDGRLTPLGRKMAELPLDPRLAKMLLAAAEFGCLDEILTIVAMLSVGDPR----PKEKREDADAARRRF-ADPES 76


                    ....*.
gi 1622946385   596 DHMALL 601
Cdd:smart00847   77 DHLTLL 82
DEXHc_DHX9 cd17972
DEXH-box helicase domain of DEAH-box helicase 9; DEAH-box helicase 9 (DHX9, also known as ...
 4-66 8.32e-18

DEXH-box helicase domain of DEAH-box helicase 9; DEAH-box helicase 9 (DHX9, also known as ATP-dependent RNA helicase A or RHA and leukophysin or LKP) plays an important role in many cellular processes, including regulation of DNA replication, transcription, translation, microRNA biogenesis, RNA processing and transport, and maintenance of genomic stability. DHX9 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350730 [Multi-domain]  Cd Length: 234  Bit Score: 84.12  E-value: 8.32e-18
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1622946385    4 DSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVI 66
Cdd:cd17972    170 EAGIRGISHVIVDEIHERDINTDFLLVVLRDVVQAYPDLRVILMSATIDTSMFCEYFFNCPVI 232
DEXHc_DHX30 cd17976
DEXH-box helicase domain of DEAH-box helicase 30; DEAH-box helicase 30 (DHX30) plays an ...
 1-68 1.13e-17

DEXH-box helicase domain of DEAH-box helicase 30; DEAH-box helicase 30 (DHX30) plays an important role in the assembly of the mitochondrial large ribosomal subunit. DHX30 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350734 [Multi-domain]  Cd Length: 178  Bit Score: 81.76  E-value: 1.13e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17976    111 LQSNPRLEGVSHVIVDEVHERDVNTDFLLILLKGVLQLNPELRVVLMSATGDNQRLSRYFGGCPVVRV 178
DEXHc_DHX29 cd17975
DEXH-box helicase domain of DEAH-box helicase 29; DEAH-box helicase 29 (DHX29) is a part of ...
 4-68 1.90e-17

DEXH-box helicase domain of DEAH-box helicase 29; DEAH-box helicase 29 (DHX29) is a part of the 43S pre-initiation complex involved in translation initiation of mRNAs with structured 5'-UTRs. DHX29 is part of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350733 [Multi-domain]  Cd Length: 183  Bit Score: 81.50  E-value: 1.90e-17
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1622946385    4 DSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17975    119 DGLLSSISHIIVDEVHERSVQSDFLLIILKEILHKRSDLHLILMSATVDCEKFSSYFTHCPILRI 183
DEXHc_DHX34 cd17979
DEXH-box helicase domain of DEAH-box helicase 34; DEAH-box helicase 34 (DHX34) plays a role in ...
 1-66 1.96e-15

DEXH-box helicase domain of DEAH-box helicase 34; DEAH-box helicase 34 (DHX34) plays a role in the nonsense-mediated decay (NMD), a surveillance mechanism that degrades aberrant mRNAs. DHX34 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350737 [Multi-domain]  Cd Length: 170  Bit Score: 75.17  E-value: 1.96e-15
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVI 66
Cdd:cd17979    103 IQRDASLPQYNVLILDEVHERHLHGDFLLGVLRCLLRLRPDLKLILMSATINIELFSGYFEGAPVV 168
DEXHc_DHX36 cd17981
DEXH-box helicase domain of DEAH-box helicase 36; DEAH-box helicase 36 (DHX36, also known as ...
 1-68 4.73e-15

DEXH-box helicase domain of DEAH-box helicase 36; DEAH-box helicase 36 (DHX36, also known as G4-resolvase 1 or G4R1, MLE-like protein 1 and RNA helicase associated with AU-rich element or RHAU) unwinds a G4-quadruplex in human telomerase RNA. DHX36 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350739 [Multi-domain]  Cd Length: 180  Bit Score: 74.49  E-value: 4.73e-15
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17981    113 LQSDPHLSNVSHLVLDEIHERNLQSDVLMGIVKDLLPFRSDLKVILMSATLNAEKFSDYFNNCPMIHI 180
HELICc smart00490
helicase superfamily c-terminal domain;
354-442 1.45e-14

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 69.93  E-value: 1.45e-14
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385   354 HRYQVFMLHSNMQTSDQKKVLKNPPAGVRKIILSTNIAETSITVNDVVFVIDSGkvkeksfdalnfvtmlkmVWISKASA 433
Cdd:smart00490   10 LGIKVARLHGGLSQEEREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYD------------------LPWSPASY 71


                    ....*....
gi 1622946385   434 IQRKGRAGR 442
Cdd:smart00490   72 IQRIGRAGR 80
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 310-442 1.60e-14

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


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 70.70  E-value: 1.60e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  310 MHLLYNICHSCDAGAVLIFLPGYDEIvglrdrilfdDKRFADSTHRYQVFMLHSNMQTSDQKKVLKNPPAGVRKIILSTN 389
Cdd:pfam00271    3 LEALLELLKKERGGKVLIFSQTKKTL----------EAELLLEKEGIKVARLHGDLSQEEREEILEDFRKGKIDVLVATD 72

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|...
gi 1622946385  390 IAETSITVNDVVFVIDsgkvkeksFDAlnfvtmlkmvWISKASAIQRKGRAGR 442
Cdd:pfam00271   73 VAERGLDLPDVDLVIN--------YDL----------PWNPASYIQRIGRAGR 107
OB_NTP_bind pfam07717
Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus ...
 671-766 2.94e-12

Oligonucleotide/oligosaccharide-binding (OB)-fold; This family is found towards the C-terminus of the DEAD-box helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. There do seem to be a couple of instances where it occurs by itself -. The structure PDB:3i4u adopts an OB-fold. helicases (pfam00270). In these helicases it is apparently always found in association with pfam04408. This C-terminal domain of the yeast helicase contains an oligonucleotide/oligosaccharide-binding (OB)-fold which seems to be placed at the entrance of the putative nucleic acid cavity. It also constitutes the binding site for the G-patch-containing domain of Pfa1p. When found on DEAH/RHA helicases, this domain is central to the regulation of the helicase activity through its binding of both RNA and G-patch domain proteins.


Pssm-ID: 400182 [Multi-domain]  Cd Length: 82  Bit Score: 63.43  E-value: 2.94e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  671 VKAALVAGMYPNLVHVDRENLVLTGPKEK-KVRFHPASVLSQPqyKKIPPAngqaaaikalptdWLIYDEMTRAHRIAnI 749
Cdd:pfam07717    1 LRAALAAGLYPNVARRDPKGKGYTTLSDNqRVFIHPSSVLFNE--KTFPPE-------------WVVYQELVETTKVY-I 64

                           90
                   ....*....|....*..
gi 1622946385  750 RCCSAVTPVTILVFCGP 766
Cdd:pfam07717   65 RTVTAISPEWLLLFAPH 81
DEXHc_HrpA cd17989
DEXH-box helicase domain of ATP-dependent RNA helicase HrpA; HrpA is part of the HrpB-HrpA ...
 4-66 1.55e-11

DEXH-box helicase domain of ATP-dependent RNA helicase HrpA; HrpA is part of the HrpB-HrpA two-partner secretion (TPS) system, a secretion pathway important to the secretion of large virulence-associated proteins. HrpA belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350747 [Multi-domain]  Cd Length: 173  Bit Score: 64.01  E-value: 1.55e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1622946385    4 DSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVI 66
Cdd:cd17989    109 DRYLRAYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKVIITSATIDAERFSRHFNNAPII 171
DEXHc_DHX33 cd17978
DEXH-box helicase domain of DEAH-box helicase 33; DEAH-box helicase 33 (DHX33) stimulates RNA ...
 1-68 3.06e-11

DEXH-box helicase domain of DEAH-box helicase 33; DEAH-box helicase 33 (DHX33) stimulates RNA polymerase I transcription of the 47S precursor rRNA. DHX33 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438710 [Multi-domain]  Cd Length: 178  Bit Score: 63.53  E-value: 3.06e-11
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLLTKLRD-----LLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17978    106 AIGDPLLSKYSVIILDEAHERTVHTDVLFGLVKSaqrrrKEQKLSPLKVIIMSATLDADLFSEYFNGAPVLYI 178
HrpA COG1643
HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];
13-75 7.52e-11

HrpA-like RNA helicase [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441249 [Multi-domain]  Cd Length: 836  Bit Score: 66.64  E-value: 7.52e-11
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1622946385   13 VIVDEVHERDRFSDFLLTKLRDLLQKH-PTLKLILSSAALDVNLFLRYFGSCPVIYIQGRPFEV 75
Cdd:COG1643    127 VIFDEFHERSLNADLLLALLLDLQPALrPDLKLLVMSATLDAERFARLLGDAPVIESSGRTYPV 190
DEXHc_DHX8 cd17971
DEXH-box helicase domain of DEAH-box helicase 8; DEAH-box helicase 8 (DHX8 ,also known as ...
 4-68 1.05e-10

DEXH-box helicase domain of DEAH-box helicase 8; DEAH-box helicase 8 (DHX8 ,also known as pre-mRNA-splicing factor ATP-dependent RNA helicase PRP22) acts late in the splicing of pre-mRNA and mediates the release of the spliced mRNA from spliceosomes. DHX8 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350729 [Multi-domain]  Cd Length: 179  Bit Score: 61.73  E-value: 1.05e-10
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1622946385    4 DSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17971    114 DPDLSQYSVIMLDEAHERTIHTDVLFGLLKKTVQKRPDLKLIVTSATLDAVKFSQYFYEAPIFTI 178
DEXHc_TDRD9 cd17988
DEXH-box helicase domain of tudor domain containing 9; Tudor domain containing 9 (TDRD9, also ...
 6-62 1.21e-09

DEXH-box helicase domain of tudor domain containing 9; Tudor domain containing 9 (TDRD9, also known as HIG-1or NET54 or C14orf75) is a part of the nuclear PIWI-interacting RNA (piRNA) pathway essential for transposon silencing and male fertility TDRD9 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350746 [Multi-domain]  Cd Length: 180  Bit Score: 58.67  E-value: 1.21e-09
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1622946385    6 TLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPT-LKLILSSAALDVNLFLRYFGS 62
Cdd:cd17988    113 TLTEYTHIILDEVHERDQELDFLLLVVRRLLRTNSRhVKIILMSATISCKEFADYFTT 170
PHA02653 PHA02653
RNA helicase NPH-II; Provisional
 384-453 1.36e-09

RNA helicase NPH-II; Provisional


Pssm-ID: 177443 [Multi-domain]  Cd Length: 675  Bit Score: 62.30  E-value: 1.36e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1622946385  384 IILSTNIAETSITVNDVVFVIDSGKVKEKS-FDAlnfvtmlKMVWISKASAIQRKGRAGRCRPGICFRLFS 453
Cdd:PHA02653   449 IIISTPYLESSVTIRNATHVYDTGRVYVPEpFGG-------KEMFISKSMRTQRKGRVGRVSPGTYVYFYD 512
ANKYR COG0666
Ankyrin repeat [Signal transduction mechanisms];
209-264 4.70e-09

Ankyrin repeat [Signal transduction mechanisms];


Pssm-ID: 440430 [Multi-domain]  Cd Length: 289  Bit Score: 58.81  E-value: 4.70e-09
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1622946385  209 TALMVAAGRGFASQVEQLISMGANVHSKASNGWMALDWAKHFGQTEIVDLLESYSA 264
Cdd:COG0666    155 TPLHLAAANGNLEIVKLLLEAGADVNARDNDGETPLHLAAENGHLEIVKLLLEAGA 210
DEXHc_DHX38 cd17983
DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as ...
 3-68 6.88e-09

DEXH-box helicase domain of DEAH-box helicase 38; DEAH-box helicase 38 (DHX38, also known as PRP16) is involved in pre-mRNA splicing. DHX38 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350741 [Multi-domain]  Cd Length: 173  Bit Score: 56.32  E-value: 6.88e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1622946385    3 GDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17983    108 RDPDLDKYSAIIMDEAHERSLNTDVLFGLLREVVARRRDLKLIVTSATMDADKFADFFGNVPIFTI 173
DEXHc_DHX15 cd17973
DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA ...
 4-68 9.93e-09

DEXH-box helicase domain of DEAH-box helicase 15; DEAH-box helicase 15 (DHX15) is a pre-mRNA processing factor involved in disassembly of spliceosomes after the release of mature mRNA. DHX15 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438709 [Multi-domain]  Cd Length: 187  Bit Score: 56.27  E-value: 9.93e-09
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1622946385    4 DSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17973    123 DPLLSRYSVIILDEAHERTLATDILMGLLKEVVRRRPDLKLIVMSATLDAGKFQKYFDNAPLLKV 187
DEXHc_DHX16 cd17974
DEXH-box helicase domain of DEAH-box helicase 16; DEAH-box helicase 16 (DHX16) is probably ...
 7-68 7.15e-08

DEXH-box helicase domain of DEAH-box helicase 16; DEAH-box helicase 16 (DHX16) is probably involved in pre-mRNA splicing. DHX16 belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350732 [Multi-domain]  Cd Length: 174  Bit Score: 53.28  E-value: 7.15e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1622946385    7 LSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17974    113 LASYSVMIIDEAHERTLHTDILFGLVKDIARFRPDLKLLISSATMDAEKFSAFFDDAPIFRI 174
DEXHc_DHX35 cd17980
DEXH-box helicase domain of DEAH-box helicase 35; DHX35 plays a role in colorectal cancers and ...
 1-60 1.25e-07

DEXH-box helicase domain of DEAH-box helicase 35; DHX35 plays a role in colorectal cancers and seems to be associated with risk to thyroid cancers. It also has been shown to positively regulate poxviruses, such as Myxoma virus. DEAH-box helicase 35 (DHX35) belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350738 [Multi-domain]  Cd Length: 185  Bit Score: 52.86  E-value: 1.25e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYF 60
Cdd:cd17980    108 MMLDPLLTKYSVIMLDEAHERTLYTDILIGLLKKIQKKRGDLRLIVASATLDAEKFRDFF 167
ANKYR COG0666
Ankyrin repeat [Signal transduction mechanisms];
186-347 2.00e-07

Ankyrin repeat [Signal transduction mechanisms];


Pssm-ID: 440430 [Multi-domain]  Cd Length: 289  Bit Score: 54.19  E-value: 2.00e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  186 AQVFHLILTENVSVDYRhSETSATALMVAAGRGFASQVEQLISMGANVHSKASNGWMALDWAKHFGQTEIVDLLESYSAS 265
Cdd:COG0666    100 LEIVKLLLEAGADVNAR-DKDGETPLHLAAYNGNLEIVKLLLEAGADVNAQDNDGNTPLHLAAANGNLEIVKLLLEAGAD 178

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  266 L---------------EFGNLDessLVQT---NGSDLSAEDRE----LLKAYHHSFDDEKVDLDLIMHLLYNICHSCDAG 323
Cdd:COG0666    179 VnardndgetplhlaaENGHLE---IVKLlleAGADVNAKDNDgktaLDLAAENGNLEIVKLLLEAGADLNAKDKDGLTA 255

                          170       180
                   ....*....|....*....|....
gi 1622946385  324 AVLIFLPGYDEIVGLRDRILFDDK 347
Cdd:COG0666    256 LLLAAAAGAALIVKLLLLALLLLA 279
DEXHc_HrpB cd17990
DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA ...
 4-66 2.93e-07

DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA two-partner secretion (TPS) system, a secretion pathway important to the secretion of large virulence-associated proteins. HrpB belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438711 [Multi-domain]  Cd Length: 174  Bit Score: 51.56  E-value: 2.93e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1622946385    4 DSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQ-KHPTLKLILSSAALDVNLFLRYFGSCPVI 66
Cdd:cd17990    109 DPELSGVGAVILDEFHERSLDADLALALLLEVQQlLRDDLRLLAMSATLDGDGLAALLPEAPVV 172
ANKYR COG0666
Ankyrin repeat [Signal transduction mechanisms];
209-310 3.23e-07

Ankyrin repeat [Signal transduction mechanisms];


Pssm-ID: 440430 [Multi-domain]  Cd Length: 289  Bit Score: 53.42  E-value: 3.23e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  209 TALMVAAGRGFASQVEQLISMGANVHSKASNGWMALDWAKHFGQTEIVDLLESYSASLEFGNLDESSLVQTNGSDLSAED 288
Cdd:COG0666    188 TPLHLAAENGHLEIVKLLLEAGADVNAKDNDGKTALDLAAENGNLEIVKLLLEAGADLNAKDKDGLTALLLAAAAGAALI 267

                           90       100
                   ....*....|....*....|..
gi 1622946385  289 RELLKAYHHSFDDEKVDLDLIM 310
Cdd:COG0666    268 VKLLLLALLLLAAALLDLLTLL 289
ANKYR COG0666
Ankyrin repeat [Signal transduction mechanisms];
165-259 4.50e-07

Ankyrin repeat [Signal transduction mechanisms];


Pssm-ID: 440430 [Multi-domain]  Cd Length: 289  Bit Score: 53.03  E-value: 4.50e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385  165 LIKEMDACLSDIWLHKDIDAFAQVFHLILTENVSVDYRhSETSATALMVAAGRGFASQVEQLISMGANVHSKASNGWMAL 244
Cdd:COG0666     46 ALALADALGALLLLAAALAGDLLVALLLLAAGADINAK-DDGGNTLLHAAARNGDLEIVKLLLEAGADVNARDKDGETPL 124

                           90
                   ....*....|....*
gi 1622946385  245 DWAKHFGQTEIVDLL 259
Cdd:COG0666    125 HLAAYNGNLEIVKLL 139
DEXHc_DHX32 cd17977
DEXH-box helicase domain of DEAH-box helicase 32; DEAH-box helicase 32 (DHX32) belongs to the ...
 1-66 6.14e-07

DEXH-box helicase domain of DEAH-box helicase 32; DEAH-box helicase 32 (DHX32) belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350735 [Multi-domain]  Cd Length: 176  Bit Score: 50.59  E-value: 6.14e-07
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPTLKLILSSAALDVNLFLRYFGSCPVI 66
Cdd:cd17977    109 MMSDPLLESYGVIILDDAHERTVSTDVLLGLLKDVLLSRPELKLVIITCPHLSSKLLSYYGNVPLI 174
Ank_2 pfam12796
Ankyrin repeats (3 copies);
211-279 2.24e-06

Ankyrin repeats (3 copies);


Pssm-ID: 463710 [Multi-domain]  Cd Length: 91  Bit Score: 47.03  E-value: 2.24e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1622946385  211 LMVAAGRGFASQVEQLISMGANVHSKASNGWMALDWAKHFGQTEIVDLLesysasLEFGNLDESSLVQT 279
Cdd:pfam12796    1 LHLAAKNGNLELVKLLLENGADANLQDKNGRTALHLAAKNGHLEIVKLL------LEHADVNLKDNGRT 63
DEXHc_DHX40 cd17984
DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to the ...
 3-68 3.10e-06

DEXH-box helicase domain of DEAH-box helicase 40; DEAH-box helicase 40 (DHX40) belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350742 [Multi-domain]  Cd Length: 178  Bit Score: 48.70  E-value: 3.10e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1622946385    3 GDSTLSTVTHVIVDEVHERDRFSDFLLTKLRDLLQKHPT-----LKLILSSAALDVNLFLRYFGSCPVIYI 68
Cdd:cd17984    108 ADPNLTKYSVIILDEAHERSLTTDILFGLLKKLFQEKSPnrkehLKVVVMSATLELAKLSAFFGNCPVFDI 178
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 381-451 1.55e-04

C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases include DEAD-box helicases, UvrB, RecG, Ski2, Sucrose Non-Fermenting (SNF) family helicases, and dicer proteins, among others. Similar to SF1 helicases, they do not form toroidal structures like SF3-6 helicases. SF2 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350172 [Multi-domain]  Cd Length: 77  Bit Score: 41.15  E-value: 1.55e-04
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1622946385  381 VRKIILSTNIAETSITVNDVVFVIdSGKVKEKSFD--ALNFVTMLkMVWISKASAIQRKGRAGR--CRPGICFRL 451
Cdd:cd18785      4 VKIIVFTNSIEHAEEIASSLEILV-ATNVLGEGIDvpSLDTVIFF-DPPSSAASYIQRVGRAGRggKDEGEVILF 76
PHA02653 PHA02653
RNA helicase NPH-II; Provisional
 6-79 1.48e-03

RNA helicase NPH-II; Provisional


Pssm-ID: 177443 [Multi-domain]  Cd Length: 675  Bit Score: 42.66  E-value: 1.48e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385    6 TLSTVTH---VIVDEVHERDRFSDFLLTKLRdllqKHPTL--KLILSSAAL--DVNLFLRYFGSCPVIYIQGRP-FEVKE 77
Cdd:PHA02653   285 TLNKLFDygtVIIDEVHEHDQIGDIIIAVAR----KHIDKirSLFLMTATLedDRDRIKEFFPNPAFVHIPGGTlFPISE 360


                   ..
gi 1622946385   78 MF 79
Cdd:PHA02653   361 VY 362
Ank_2 pfam12796
Ankyrin repeats (3 copies);
188-259 3.68e-03

Ankyrin repeats (3 copies);


Pssm-ID: 463710 [Multi-domain]  Cd Length: 91  Bit Score: 37.79  E-value: 3.68e-03
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1622946385  188 VFHLILTENVSVDyRHSETSATALMVAAGRGFASQVEQLIS-MGANVhskASNGWMALDWAKHFGQTEIVDLL 259
Cdd:pfam12796   12 LVKLLLENGADAN-LQDKNGRTALHLAAKNGHLEIVKLLLEhADVNL---KDNGRTALHYAARSGHLEIVKLL 80
DEXHc_DHX37 cd17982
DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the ...
 1-57 7.09e-03

DEXH-box helicase domain of DEAH-box helicase 37; DHX37 plays a role in the development of the human nervous system and has been linked to schizophrenia. It also negatively regulates poxviruses such as Myxoma virus. DEAH-box helicase 37 (DHX37) belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350740 [Multi-domain]  Cd Length: 191  Bit Score: 38.87  E-value: 7.09e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1622946385    1 MAGDSTLSTVTHVIVDEVHERDRFSDFLL----------TKLRDLLQKHPTLKLILSSAALDVNLFL 57
Cdd:cd17982    110 IQTDFLLRKYSVIIIDEAHERSVNTDILIgmlsrivplrAKLYLQDQTVKPLKLVIMSATLRVEDFT 176
DEXDc smart00487
DEAD-like helicases superfamily;
7-72 7.91e-03

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 39.01  E-value: 7.91e-03
                            10        20        30        40        50        60        70
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622946385     7 LSTVTHVIVDEVHERDR--FSDFLLTKLRDLlqkHPTLKLILSSAALDVNL--FLRYFGSCPVIYIQGRP 72
Cdd:smart00487  127 LSNVDLVILDEAHRLLDggFGDQLEKLLKLL---PKNVQLLLLSATPPEEIenLLELFLNDPVFIDVGFT 193
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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