2ZJ2,2P6R,2P6U,2VA8,4BGD,4F92,4XGT,5AGA,5M59,5OOQ


Conserved Protein Domain Family
SF2_C_Ski2

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cd18795: SF2_C_Ski2 
Click on image for an interactive view with Cn3D
C-terminal helicase domain of the Ski2 family helicases
Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. This family includes spliceosomal Brr2 RNA helicase, ASCC3 (involved in the repair of N-alkylated nucleotides), Mtr4 (involved in processing of structured RNAs), DDX60 (involved in viral RNA degradation), and other proteins. Ski2-like RNA helicases 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.
Statistics
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PSSM-Id: 350182
Aligned: 86 rows
Threshold Bit Score: 132.292
Created: 31-Jan-2018
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
ATP bindingDNA binding
Conserved site includes 2 residues -Click on image for an interactive view with Cn3D
Feature 1:ATP binding site [chemical binding site]
Evidence:
  • Structure:5AGA; Homo sapiens DNA polymerase theta binds AMP-PNP contacts at 4A

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                      
2ZJ2_A     199 RPVKLRRGVFyqgfvtwedgsidrf-----------ssweelvydairkkkGALIFVNMRRk--aERVALELSkkvksll 265  Pyrococcus furiosus
2VA8_A     205 RPVPLIEGVIyperkkkeynvifkdnttkk--vhgddaiiaytldslskngQVLVFRNSRKm--aESTALKIAnymnfvs 280  Sulfolobus solfa...
5AGA_A     224 RPVPLLESVKvgnsiydssmklvrefepmlqvkgdedhvvslcyeticdnhSVLLFCPSKKw--cEKLADIIArefynlh 301  human
O26901     190 RPVPLHREVLdtemfgvrekndv---------------vlkvlersledgsQTLAFVSTRRf--tESLASHLAdkisgki 252  Methanothermobac...
Q58524     626 ENIPLRHEEKrrkleeiikn---------------------keigqipsefVALRFTPIAKiwcdCGFSVDLTmfkprtk 684  Methanocaldococc...
Q9HJX7     199 RPVPLKTGILyrdqlyldgkrrsgv------------sinqiiretvedngQVLMFVSSRKk--aEDTARDLAqifgsda 264  Thermoplasma aci...
Q9HMV6     211 RPIELRTGVHygqslhyddgtqaelsvg------sgsqtaavvadtladdgSTLVFVNSRRn--aEASARRLAdvtgnal 282  Halobacterium sp...
Q8TL39     201 RPTDLMEGVFfdgtffckdkeklieqp-------tkdeainlvldtlreggQCLVFESSRKn--cMGFAKKATsavkktl 271  Methanosarcina a...
Q9YFQ8     203 RPVPLREYVFkeyklysptgglrevprv------yglydldlaaeaiedggQALVFTYSRRr--aVTLAKRAAkrlgrrl 274  Aeropyrum pernix K1
A8MB76     203 RPVSLREGVYhkgvvtyvndgekrisg-------qgdslinltvdtlndggQVLVFSSSRQg--aVRIARKLAeyicssp 273  Caldivirga maqui...
Feature 1                                                                                      
2ZJ2_A     266 tkpeiralnela------------------------------------------------------------dsleenpt 285  Pyrococcus furiosus
2VA8_A     281 ldenalseilkql---------------------------------------------------------ddieeggsde 303  Sulfolobus solfa...
5AGA_A     302 hqaeglvkpsecppvileqk--------------------------------------------ellevmdqlrrlpsgl 337  human
O26901     253 pddmvesfrevagkvl---------------------------------------------------evpksrgspptst 281  Methanothermobac...
Q58524     685 rqrelnkkrvkllfelldgkklitnykeyyskrknpyfdfivrekingnnyyslnekgrvlmsllnkhikdkenleemyn 764  Methanocaldococc...
Q9HJX7     265 nikissde--------------------------------------------------------------------tnvy 276  Thermoplasma aci...
Q9HMV6     283 ssaererladiaa---------------------------------------------------------eirgvsdtet 305  Halobacterium sp...
Q8TL39     272 saedkeklagiad---------------------------------------------------------eilensetdt 294  Methanosarcina a...
Q9YFQ8     275 ssrearvysaeas----------------------------------------------------------raegaprsv 296  Aeropyrum pernix K1
A8MB76     274 vryidpgeagklae-------------------------------------------------------evretsssril 298  Caldivirga maqui...
Feature 1                                                                                    # 
2ZJ2_A     286 neklakairgGVAFHHAGLGRDERvlveenf--------------------------rkgiikAVVATPTLSa---GINT 336  Pyrococcus furiosus
2VA8_A     304 kellksliskGVAYHHAGLSKALRdlieegf--------------------------rqrkikVIVATPTLAa---GVNL 354  Sulfolobus solfa...
5AGA_A     338 dsvlqktvpwGVAFHHAGLTFEERdiiegaf--------------------------rqglirVLAATSTLSs---GVNL 388  human
O26901     282 clklaecleaGIAFHHAGLFNRQReiiedef--------------------------rdgnilMITATPSLMy---GVNL 332  Methanothermobac...
Q58524     765 flvnlekcpiCGKPIHKEMRYSWKkecydgdiywdrikeikkikvndkyaydielpddgsnshYIVANGFIVhnsaGLNL 844  Methanocaldococc...
Q9HJX7     277 ddmlneilprGVAFHHAGLSNDQRafieref--------------------------rarrikVIVATPTLAa---GVNL 327  Thermoplasma aci...
Q9HMV6     306 sdeladavasGAAFHHAGLAREHRelveeaf--------------------------rdrlvkAVSATPTLAa---GVNT 356  Halobacterium sp...
Q8TL39     295 asvlascvraGTAFHHAGLTSPLRelvetgf--------------------------regyvkLISSTPTLAa---GLNL 345  Methanosarcina a...
Q9YFQ8     297 aeelasliaaGIAYHHAGLPPSLRktveeaf--------------------------ragavkVVYSTPTLAa---GVNL 347  Aeropyrum pernix K1
A8MB76     299 aeeltglikcGVSFHHAGLELEVRrvieegf--------------------------rrgvlrVLASTTTLAa---GVNL 349  Caldivirga maqui...
Feature 1                                            #             
2ZJ2_A     337 PAFRVIIRDiwrysdf---gmeripIIEVHQMLGRAGRPkydevGEGIIVST 385  Pyrococcus furiosus
2VA8_A     355 PARTVIIGDiyrfnkkiagyydeipIMEYKQMSGRAGRPgfdqiGESIVVVR 406  Sulfolobus solfataricus
5AGA_A     389 PARRVIIRTpifgg-------rpldILTYKQMVGRAGRKgvdtvGESILICK 433  human
O26901     333 PSRTVVIRDytrwtsq---gprripVFDYEQMSGRAGRPqyddaGYSYLIAR 381  Methanothermobacter thermautotrophicus str. ...
Q58524     845 PCRRAIVKDltrftnk---gmryipIMEIQQCIGRAGRPgldpyGEGIIVAK 893  Methanocaldococcus jannaschii
Q9HJX7     328 PARLVIVRDitrwgsd---gisyltNMEIKQMIGRAGRPgydqyGIGLIYVS 376  Thermoplasma acidophilum DSM 1728
Q9HMV6     357 PARRVVVRDwqrydgta-ggmqpldVLEVHQMFGRAGRPgldpyGEAVLLAN 407  Halobacterium sp. NRC-1
Q8TL39     346 PARRVIIRSyrryssd--sgmqpipVLEYKQMAGRAGRPrldpyGEAVLLAK 395  Methanosarcina acetivorans C2A
Q9YFQ8     348 PARRVVIDSyyryeag---frepirVAEYKQMAGRAGRPgldefGEAIIVAE 396  Aeropyrum pernix K1
A8MB76     350 PARRVIVNEyrryepg--ygfieipVMEYKQMAGRAGRPgldpyGEAIIIVS 399  Caldivirga maquilingensis IC-167

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