6XEZ,5RL6,6JYT,6ZSL,5WWP,5WWP


Conserved Protein Domain Family
DEXSMc_CoV_Nsp13
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cd22649: DEXSMc_CoV_Nsp13 
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DEXSM-box helicase domain of coronavirus Nsp13 helicase
Helicases catalyze the NTP-dependent unwinding of nucleic acid duplexes into single strands and are classified into six superfamilies based on the arrangement of conserved motifs. This family contains coronavirus (CoV) non-structural protein 13 (Nsp13) helicase, including those from highly pathogenic human betaCoVs such as Severe Acute Respiratory Syndrome coronavirus (SARS) and SARS-CoV-2 (also known as 2019 novel CoV (2019-nCoV) or COVID-19 virus). Nsp13 helicase is a component of the viral RNA synthesis replication and transcription complex (RTC). SARS-Nsp13 is strongly inhibited by natural flavonoids, myricetin and scutellarein, and is emerging as a target for development of anti-SARS medications. It contains an N-terminal Cys/His rich zinc-binding domain (CH/ZBD), a stalk domain, a 1B regulatory domain, and an SF1 helicase core that carries a DEAD-box helicase domain. Nsp13 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.
Links
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Statistics
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PSSM-Id: 438713
Aligned: 41 rows
Threshold Bit Score: 358.249
Created: 20-Oct-2020
Updated: 17-Oct-2022
Structure
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Program:
Drawing:
Aligned Rows:
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ATP bindingDEAD boxoligomer
Conserved site includes 8 residues -Click on image for an interactive view with Cn3D
Feature 1:ATP binding site [chemical binding site]
Evidence:
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Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 

Feature 1                                                  ###### #                            
6XEZ_E     246 PQEHYVRITGLY.[1].TLNISDEFSSNVANYQ.[6].YSTLQGPPGTGKSHFAIGLALYYP.[3].IVYTACSH.[1]. 316  Severe acute respirat...
Q98VG9    5195 NQEKYNTISKLY.[1].VFNIAEAYNTLVPYYQ.[6].FTTIQGPPGSGKSHCVIGLGLYYP.[3].IVYTACSH.[1]. 5265 Feline infectious per...
P0C6Y4    5270 NQERYSTIHKLH.[1].AFNIPEAYSSLVPYYQ.[6].ITTIQGPPGSGKSHCVIGLGLYYP.[3].IVFTACSH.[1]. 5340 Porcine epidemic diar...
P0C6X5    5213 NQEKYSSIYKLH.[1].AFNVSDAYANLVPYYQ.[6].ITTIQGPPGSGKSHCSIGLGLYYP.[3].IVFVACAH.[1]. 5283 Human coronavirus NL63
P0C6X1    5238 NQEKYSTIYKLH.[1].SFNVSDAYANLVPYYQ.[6].ITTIQGPPGSGKSHCSIGIGVYYP.[3].IVFTACSH.[1]. 5308 Human coronavirus 229E
P0C6W0    5281 NQERYSTLHKLR.[1].AFNIHEDYSNLIPYYQ.[6].LTTIQGPPGSGKSHCVIGLGLYFP.[3].IVFTACSH.[1]. 5351 Scotophilus bat coron...
P0C6Y2    5110 PQQTFSRFVNLR.[1].NVMVPECFVNNIPLYH.[6].RTTVQGPPGSGKSHFAIGLAVYFS.[3].VVFTACSH.[1]. 5180 Avian infectious bron...
P0C6Y1    5110 PQQTFSRFVNLR.[1].NVMVPECFVNNIPLYH.[6].RTTVQGPPGSGKSHFAIGLAVYFS.[3].VVFTACSH.[1]. 5180 Avian infectious bron...
ATP66783  4878 NQTKYNTIYKLI.[1].SLIVSKDFTNLVPYFQ.[6].ITTVQGPPGSGKSHLAIGIAKYYP.[3].ILYTACSH.[1]. 4948 Shrew coronavirus
AWR88314     9 TRTNYVKDTLNC.[1].HLLNHFESYNNIIKRR     ITTVLGPPGTGKSTFAIGLAMYYP.[3].VCYTASSH.[1]. 73   Deltacoronavirus sp.


Feature 1                                                                                      
6XEZ_E     317 AVDALCEKALKYLPIDKCSRIIPARARVECFD.[9].QYVFCTVNALPETTADIVVFDEISMATNYDLS.[4].RLRAKH 399  Severe acute respirat...
Q98VG9    5266 AVDALCEKAAKNFNVDRCSRIIPQRIRVDCYT.[9].QYLFCTVNALPEASCDIVVVDEVSMCTNYDLS.[4].RLSYKH 5348 Feline infectious per...
P0C6Y4    5341 AVDSLCVKASTAYSNDKCSRIIPQRARVECYD.[9].QYLFSTVNALPECNADIVVVDEVSMCTNYDLS.[4].RISYRH 5423 Porcine epidemic diar...
P0C6X5    5284 AVDSLCAKAMTVYSIDKCTRIIPARARVECYS.[9].QYIFSTVNALPECNADIVVVDEVSMCTNYDLS.[4].RLSYKH 5366 Human coronavirus NL63
P0C6X1    5309 AVDSLCAKAVTAYSVDKCTRIIPARARVECYS.[9].QYVFSTVNALPEVNADIVVVDEVSMCTNYDLS.[4].RISYKH 5391 Human coronavirus 229E
P0C6W0    5352 AVDSLCVKAATAYSSDRCSRIIPQKARIECYD.[9].QYLFSTVNALPEVNADICVVDEVSMCTNYDLS.[4].RVNYRH 5434 Scotophilus bat coron...
P0C6Y2    5181 AVDALCEKAFKFLKVDDCTRIVPQRTTVDCFS.[9].KYIFSTINALPEVSCDILLVDEVSMLTNYELS.[4].KINYQY 5263 Avian infectious bron...
P0C6Y1    5181 AVDALCEKAFKFLKVDDCTRIVPQRTTVDCFS.[9].KYIFSTINALPEVSCDILLVDEVSMLTNYELS.[4].KINYQY 5263 Avian infectious bron...
ATP66783  4949 ATDSLCCKAFRNLVITDCTRIVPTKSRVDVFD.[9].KYIFSTINALPDVNVDIVVVDEVSMCTNYDLS.[4].RVSYKH 5031 Shrew coronavirus
AWR88314    74 AIDALCDKAVKALPSDECTRIVPTRTTIDCFQ.[9].RYVFSTINALPDIKCDIVVVDEISMLTNYELS.[4].RLSYNH 156  Deltacoronavirus sp.


Feature 1                                                     #
6XEZ_E     400 YVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCR.[5].GPDMFLGTCRR 447  Severe acute respiratory syndrome coronavirus 2
Q98VG9    5349 IVYVGDPQQLPAPRTLINKGVLQPQDYNVVTQ.[5].GPDVFLHKCYR 5396 Feline infectious peritonitis virus (strain 79-1146)
P0C6Y4    5424 VVYVGDPQQLPAPRVMISRGTLEPKDYNVVTQ.[5].KPDVFLHKCYR 5471 Porcine epidemic diarrhea virus CV777
P0C6X5    5367 IVYVGDPQQLPAPRVMITKGVMEPVDYNVVTQ.[5].GPDVFLHKCYR 5414 Human coronavirus NL63
P0C6X1    5392 IVYVGDPQQLPAPRVLISKGVMEPIDYNVVTQ.[5].GPDVFLHKCYR 5439 Human coronavirus 229E
P0C6W0    5435 IVYVGDPQQLPAPRVMITRGVLVPEDYNVVTR.[5].KPDIFLHKCYR 5482 Scotophilus bat coronavirus 512
P0C6Y2    5264 VVYVGDPAQLPAPRTLLNGSLSPKDYNVVTNL.[4].KPDIFLAKCYR 5310 Avian infectious bronchitis virus (strain Beaudette CK)
P0C6Y1    5264 VVYVGDPAQLPAPRTLLNGSLSPKDYNVVTNL.[4].KPDIFLAKCYR 5310 Avian infectious bronchitis virus (strain Beaudette)
ATP66783  5032 IVYIGDPQQLPAPRVLVTRGVLKPEDYNCVTK.[5].GPDIFLSRCYR 5079 Shrew coronavirus
AWR88314   157 IVYVGDPYQLPAPRTLLTSGQLEPVDYNLVTN.[5].GADVMLTRCYR 204  Deltacoronavirus sp.

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