nonstructural protein NS3-4A, partial [Hepacivirus hominis]
polyprotein( domain architecture ID 13683654)
partial polyprotein such as hepatitis C virus polyprotein, containing NS3 protease, helicase, and NS4
List of domain hits
Name | Accession | Description | Interval | E-value | |||
Peptidase_S29 | pfam02907 | Hepatitis C virus NS3 protease; Hepatitis C virus NS3 protein is a serine protease which has a ... |
30-178 | 1.23e-83 | |||
Hepatitis C virus NS3 protease; Hepatitis C virus NS3 protein is a serine protease which has a trypsin-like fold. The non-structural (NS) protein NS3 is one of the NS proteins involved in replication of the HCV genome. NS2-3 proteinase, a zinc-dependent enzyme, performs a single proteolytic cut to release the N-terminus of NS3. The action of NS3 proteinase (NS3P), which resides in the N-terminal one-third of the NS3 protein, then yields all remaining non-structural proteins. The C-terminal two-thirds of the NS3 protein contain a helicase. The functional relationship between the proteinase and helicase domains is unknown. NS3 has a structural zinc-binding site and requires cofactor NS4A. : Pssm-ID: 427049 Cd Length: 149 Bit Score: 260.44 E-value: 1.23e-83
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DEAD-like_helicase_N super family | cl28899 | N-terminal helicase domain of the DEAD-box helicase superfamily; The DEAD-like helicase ... |
197-340 | 2.60e-51 | |||
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 cd17931: Pssm-ID: 475120 [Multi-domain] Cd Length: 151 Bit Score: 174.66 E-value: 2.60e-51
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P-loop_NTPase super family | cl38936 | P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain ... |
336-457 | 5.85e-48 | |||
P-loop containing Nucleoside Triphosphate Hydrolases; Members of the P-loop NTPase domain superfamily are characterized by a conserved nucleotide phosphate-binding motif, also referred to as the Walker A motif (GxxxxGK[S/T], where x is any residue), and the Walker B motif (hhhh[D/E], where h is a hydrophobic residue). The Walker A and B motifs bind the beta-gamma phosphate moiety of the bound nucleotide (typically ATP or GTP) and the Mg2+ cation, respectively. The P-loop NTPases are involved in diverse cellular functions, and they can be divided into two major structural classes: the KG (kinase-GTPase) class which includes Ras-like GTPases and its circularly permutated YlqF-like; and the ASCE (additional strand catalytic E) class which includes ATPase Binding Cassette (ABC), DExD/H-like helicases, 4Fe-4S iron sulfur cluster binding proteins of NifH family, RecA-like F1-ATPases, and ATPases Associated with a wide variety of Activities (AAA). Also included are a diverse set of nucleotide/nucleoside kinase families. The actual alignment was detected with superfamily member cd18806: Pssm-ID: 476819 [Multi-domain] Cd Length: 145 Bit Score: 165.51 E-value: 5.85e-48
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HCV_NS4a | pfam01006 | Hepatitis C virus non-structural protein NS4a; NS4a forms an integral part of the NS3 serine ... |
632-685 | 1.36e-21 | |||
Hepatitis C virus non-structural protein NS4a; NS4a forms an integral part of the NS3 serine protease, as it is required in a number of cases as a cofactor of cleavage. It has also been reported that NS4a interacts with NS4b and NS3 to form a multi-subunit replicase complex. : Pssm-ID: 366414 Cd Length: 55 Bit Score: 88.29 E-value: 1.36e-21
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Name | Accession | Description | Interval | E-value | |||
Peptidase_S29 | pfam02907 | Hepatitis C virus NS3 protease; Hepatitis C virus NS3 protein is a serine protease which has a ... |
30-178 | 1.23e-83 | |||
Hepatitis C virus NS3 protease; Hepatitis C virus NS3 protein is a serine protease which has a trypsin-like fold. The non-structural (NS) protein NS3 is one of the NS proteins involved in replication of the HCV genome. NS2-3 proteinase, a zinc-dependent enzyme, performs a single proteolytic cut to release the N-terminus of NS3. The action of NS3 proteinase (NS3P), which resides in the N-terminal one-third of the NS3 protein, then yields all remaining non-structural proteins. The C-terminal two-thirds of the NS3 protein contain a helicase. The functional relationship between the proteinase and helicase domains is unknown. NS3 has a structural zinc-binding site and requires cofactor NS4A. Pssm-ID: 427049 Cd Length: 149 Bit Score: 260.44 E-value: 1.23e-83
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DEXHc_viral_Ns3 | cd17931 | DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional ... |
197-340 | 2.60e-51 | |||
DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional protein found in pestiviruses that contains an N-terminal protease and a C-terminal helicase. The N-terminal domain is a chymotrypsin-like serine protease, which is responsible for most of the maturation cleavages of the polyprotein precursor in the cytosolic side of the endoplasmic reticulum membrane. The C-terminal domain, about two-thirds of NS3, is a helicase belonging to superfamily 2 (SF2) thought to be important for unwinding highly structured regions of the RNA genome during replication. NS3 plays an essential role in viral polyprotein processing and genome replication. NS3 is a member 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: 350689 [Multi-domain] Cd Length: 151 Bit Score: 174.66 E-value: 2.60e-51
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SF2_C_viral | cd18806 | C-terminal helicase domain of viral helicase; Viral helicases in this family here are ... |
336-457 | 5.85e-48 | |||
C-terminal helicase domain of viral helicase; Viral helicases in this family here 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: 350193 [Multi-domain] Cd Length: 145 Bit Score: 165.51 E-value: 5.85e-48
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HCV_NS4a | pfam01006 | Hepatitis C virus non-structural protein NS4a; NS4a forms an integral part of the NS3 serine ... |
632-685 | 1.36e-21 | |||
Hepatitis C virus non-structural protein NS4a; NS4a forms an integral part of the NS3 serine protease, as it is required in a number of cases as a cofactor of cleavage. It has also been reported that NS4a interacts with NS4b and NS3 to form a multi-subunit replicase complex. Pssm-ID: 366414 Cd Length: 55 Bit Score: 88.29 E-value: 1.36e-21
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DEXDc | smart00487 | DEAD-like helicases superfamily; |
202-329 | 1.34e-13 | |||
DEAD-like helicases superfamily; Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 70.21 E-value: 1.34e-13
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SSL2 | COG1061 | Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair]; |
202-325 | 1.46e-05 | |||
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair]; Pssm-ID: 440681 [Multi-domain] Cd Length: 566 Bit Score: 48.10 E-value: 1.46e-05
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Flavi_DEAD | pfam07652 | Flavivirus DEAD domain; |
207-335 | 2.63e-05 | |||
Flavivirus DEAD domain; Pssm-ID: 400138 [Multi-domain] Cd Length: 146 Bit Score: 44.63 E-value: 2.63e-05
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RecQ | COG0514 | Superfamily II DNA helicase RecQ [Replication, recombination and repair]; |
365-414 | 9.81e-04 | |||
Superfamily II DNA helicase RecQ [Replication, recombination and repair]; Pssm-ID: 440280 [Multi-domain] Cd Length: 489 Bit Score: 42.05 E-value: 9.81e-04
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PRK11057 | PRK11057 | ATP-dependent DNA helicase RecQ; Provisional |
360-396 | 9.74e-03 | |||
ATP-dependent DNA helicase RecQ; Provisional Pssm-ID: 182933 [Multi-domain] Cd Length: 607 Bit Score: 39.31 E-value: 9.74e-03
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Name | Accession | Description | Interval | E-value | ||||
Peptidase_S29 | pfam02907 | Hepatitis C virus NS3 protease; Hepatitis C virus NS3 protein is a serine protease which has a ... |
30-178 | 1.23e-83 | ||||
Hepatitis C virus NS3 protease; Hepatitis C virus NS3 protein is a serine protease which has a trypsin-like fold. The non-structural (NS) protein NS3 is one of the NS proteins involved in replication of the HCV genome. NS2-3 proteinase, a zinc-dependent enzyme, performs a single proteolytic cut to release the N-terminus of NS3. The action of NS3 proteinase (NS3P), which resides in the N-terminal one-third of the NS3 protein, then yields all remaining non-structural proteins. The C-terminal two-thirds of the NS3 protein contain a helicase. The functional relationship between the proteinase and helicase domains is unknown. NS3 has a structural zinc-binding site and requires cofactor NS4A. Pssm-ID: 427049 Cd Length: 149 Bit Score: 260.44 E-value: 1.23e-83
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DEXHc_viral_Ns3 | cd17931 | DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional ... |
197-340 | 2.60e-51 | ||||
DEXH-box helicase domain of NS3 protease-helicase; NS3 is a nonstructural multifunctional protein found in pestiviruses that contains an N-terminal protease and a C-terminal helicase. The N-terminal domain is a chymotrypsin-like serine protease, which is responsible for most of the maturation cleavages of the polyprotein precursor in the cytosolic side of the endoplasmic reticulum membrane. The C-terminal domain, about two-thirds of NS3, is a helicase belonging to superfamily 2 (SF2) thought to be important for unwinding highly structured regions of the RNA genome during replication. NS3 plays an essential role in viral polyprotein processing and genome replication. NS3 is a member 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: 350689 [Multi-domain] Cd Length: 151 Bit Score: 174.66 E-value: 2.60e-51
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SF2_C_viral | cd18806 | C-terminal helicase domain of viral helicase; Viral helicases in this family here are ... |
336-457 | 5.85e-48 | ||||
C-terminal helicase domain of viral helicase; Viral helicases in this family here 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: 350193 [Multi-domain] Cd Length: 145 Bit Score: 165.51 E-value: 5.85e-48
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HCV_NS4a | pfam01006 | Hepatitis C virus non-structural protein NS4a; NS4a forms an integral part of the NS3 serine ... |
632-685 | 1.36e-21 | ||||
Hepatitis C virus non-structural protein NS4a; NS4a forms an integral part of the NS3 serine protease, as it is required in a number of cases as a cofactor of cleavage. It has also been reported that NS4a interacts with NS4b and NS3 to form a multi-subunit replicase complex. Pssm-ID: 366414 Cd Length: 55 Bit Score: 88.29 E-value: 1.36e-21
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DEXDc | smart00487 | DEAD-like helicases superfamily; |
202-329 | 1.34e-13 | ||||
DEAD-like helicases superfamily; Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 70.21 E-value: 1.34e-13
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SSL2 | COG1061 | Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair]; |
202-325 | 1.46e-05 | ||||
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair]; Pssm-ID: 440681 [Multi-domain] Cd Length: 566 Bit Score: 48.10 E-value: 1.46e-05
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Flavi_DEAD | pfam07652 | Flavivirus DEAD domain; |
207-335 | 2.63e-05 | ||||
Flavivirus DEAD domain; Pssm-ID: 400138 [Multi-domain] Cd Length: 146 Bit Score: 44.63 E-value: 2.63e-05
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SF2_C_RecQ | cd18794 | C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an ... |
360-413 | 3.07e-05 | ||||
C-terminal helicase domain of the RecQ family helicases; The RecQ helicase family is an evolutionarily conserved class of enzymes, dedicated to preserving genomic integrity by operating in telomere maintenance, DNA repair, and replication. They 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: 350181 [Multi-domain] Cd Length: 134 Bit Score: 44.12 E-value: 3.07e-05
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SF2_C_DEAD | cd18787 | C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ... |
356-396 | 1.79e-04 | ||||
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, 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: 350174 [Multi-domain] Cd Length: 131 Bit Score: 41.72 E-value: 1.79e-04
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SF2-N | cd00046 | N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ... |
204-324 | 2.05e-04 | ||||
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily 2 helicases comprise a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This N-terminal domain contains the ATP-binding region. Pssm-ID: 350668 [Multi-domain] Cd Length: 146 Bit Score: 42.01 E-value: 2.05e-04
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DEXHc_RE | cd17926 | DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family ... |
204-325 | 4.20e-04 | ||||
DEXH-box helicase domain of DEAD-like helicase restriction enzyme family proteins; This family is composed of helicase restriction enzymes and similar proteins such as TFIIH basal transcription factor complex helicase XPB subunit. These proteins are 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: 350684 [Multi-domain] Cd Length: 146 Bit Score: 41.14 E-value: 4.20e-04
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DEXHc_DHX16 | cd17974 | DEXH-box helicase domain of DEAH-box helicase 16; DEAH-box helicase 16 (DHX16) is probably ... |
182-324 | 8.21e-04 | ||||
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: 40.95 E-value: 8.21e-04
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RecQ | COG0514 | Superfamily II DNA helicase RecQ [Replication, recombination and repair]; |
365-414 | 9.81e-04 | ||||
Superfamily II DNA helicase RecQ [Replication, recombination and repair]; Pssm-ID: 440280 [Multi-domain] Cd Length: 489 Bit Score: 42.05 E-value: 9.81e-04
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DEXHc_HrpB | cd17990 | DEXH-box helicase domain of ATP-dependent helicase HrpB; HrpB is part of the HrpB-HrpA ... |
202-324 | 9.96e-04 | ||||
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: 40.39 E-value: 9.96e-04
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SrmB | COG0513 | Superfamily II DNA and RNA helicase [Replication, recombination and repair]; |
356-412 | 1.68e-03 | ||||
Superfamily II DNA and RNA helicase [Replication, recombination and repair]; Pssm-ID: 440279 [Multi-domain] Cd Length: 420 Bit Score: 41.29 E-value: 1.68e-03
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ResIII | pfam04851 | Type III restriction enzyme, res subunit; |
202-293 | 1.71e-03 | ||||
Type III restriction enzyme, res subunit; Pssm-ID: 398492 [Multi-domain] Cd Length: 162 Bit Score: 39.58 E-value: 1.71e-03
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AAA_30 | pfam13604 | AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
198-318 | 2.69e-03 | ||||
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B. Pssm-ID: 433343 [Multi-domain] Cd Length: 191 Bit Score: 39.47 E-value: 2.69e-03
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PRK11057 | PRK11057 | ATP-dependent DNA helicase RecQ; Provisional |
360-396 | 9.74e-03 | ||||
ATP-dependent DNA helicase RecQ; Provisional Pssm-ID: 182933 [Multi-domain] Cd Length: 607 Bit Score: 39.31 E-value: 9.74e-03
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Blast search parameters | ||||
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