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RNA-dependent_RNA_polymerase_NS5

Euk-Vir

Japanese_encephalitis_virus

RNA-dependent_RNA_polymerase_NS5__NP_775674__Japanese_encephalitis_virus__11072

Identity

Accession:: NP_775674 ↗
Protein ID:: RNA-dependent_RNA_polymerase_NS5
Kingdom:: euk

Quality

86.0 mean pLDDT

Taxonomy

Orthornavirae› Kitrinoviricota› Flasuviricetes› Amarillovirales› Flaviviridae› Orthoflavivirus› Japanese_encephalitis_virus

TaxID: 11072

Cluster

View cluster (51 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 327-345_714-891

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase_NS5__YP_009268628__Hanko_virus__1125677__D698-878

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF20483.4 best	Flavi_NS5_thumb	241.1	8.20e-72	83.2%	97.6%

D2 medium residues 54-171

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase__NP_740729__Louping_ill_virus__11086__D71-170

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF01728.26 best	FtsJ	56.5	4.90e-15	100.0%	66.3%

D3 medium residues 172-269

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase_NS5__YP_009329957__Saint_Louis_encephalitis_virus__11080__D147-245

D4 medium residues 270-326_346-362_390-424_440-484_561-601

PDB

Domain cluster: rep: NS5-like_protein__YP_009179403__Wuhan_flea_virus__1746071__D315-356_368-395_444-456_471-503_597-617

Pfam (3)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00972.26 best	Flavi_NS5	123.9	9.90e-36	42.0%	21.1%
PF00972.26	Flavi_NS5	68.2	7.70e-19	29.2%	11.8%
PF00972.26	Flavi_NS5	50.1	2.40e-13	21.5%	8.9%

D5 medium residues 363-389_425-439_485-506_542-560_602-664

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase_NS5__YP_009333115__Cacipacore_virus__64305__D369-395_486-508_600-654

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00972.26 best	Flavi_NS5	66.8	2.00e-18	45.9%	13.8%
PF00972.26	Flavi_NS5	35.6	6.20e-09	29.4%	8.2%

D6 medium residues 507-541_665-710

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase_NS5__YP_009259365__Quang_Binh_virus__643132__D492-530_608-683

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00972.26 best	Flavi_NS5	73.0	2.70e-20	51.8%	9.1%
PF00972.26	Flavi_NS5	49.0	5.20e-13	45.7%	8.0%

CATH (8)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1s48A04	3.30.70.270	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain	0.80	74.0	6.58e-01	100.0%	92.8%
1khvA03	3.30.70.270	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain	0.73	67.0	5.65e-01	100.0%	96.9%
5cqgA04	3.30.70.2630	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits ›	0.60	51.0	4.76e-01	100.0%	94.3%
5d1oA02	3.30.1490.70	Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 ›	0.59	36.0	3.75e-01	72.8%	65.8%
1kbaA00	2.10.60.10	Mainly Beta › Ribbon › CD59 › CD59	0.58	42.0	4.56e-01	100.0%	93.9%
2lxxA00	3.40.20.10	Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin	0.54	46.0	3.84e-01	100.0%	62.5%
3ethA03	3.30.1490.20	Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain	0.54	30.0	3.34e-01	100.0%	69.4%
3jr1A02	3.90.1200.10	Alpha Beta › Alpha-Beta Complex › Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 › Aminoglycoside phosphotransferase (APH), C-terminal lobe	0.51	40.0	3.07e-01	87.7%	97.0%

ECOD (12)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1279063	304.48.1.13 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Flavi_NS5	1.00	91.0	5.45e-01	93.8%	45.5%
3403464	379.1.1.0 ↗	few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors	0.60	38.0	4.20e-01	72.8%	85.0%
3987298	5061.1.1.1 ↗	alpha complex topology › Preprotein translocase SecY subunit › Preprotein translocase SecY subunit › Preprotein translocase SecY subunit › SecY	0.59	45.0	2.86e-01	82.7%	32.8%
3742881	228.1.1.1 ↗	a+b three layers › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Sod_Fe_C	0.58	49.0	4.31e-01	96.3%	76.8%
4353266	228.1.1.1 ↗	a+b three layers › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Sod_Fe_C	0.58	41.0	4.32e-01	93.8%	83.8%
4015408	4121.1.1.0 ↗	a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like	0.57	47.0	3.11e-01	92.6%	56.3%
3396683	382.1.1.0 ↗	few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like	0.57	47.0	4.76e-01	100.0%	93.7%
3708602	228.1.1.1 ↗	a+b three layers › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Sod_Fe_C	0.55	47.0	3.93e-01	96.3%	60.7%
4425813	228.1.1.1 ↗	a+b three layers › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Sod_Fe_C	0.52	44.0	3.93e-01	96.3%	74.2%
4248855	4.1.1.97 ↗	beta barrels › SH3 › SH3 › SH3 › DUF150_C	0.51	35.0	3.64e-01	71.6%	77.0%
4938024	2492.1.1.9 ↗	a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › RadC	0.51	40.0	3.65e-01	91.4%	89.2%
4185540	228.1.1.1 ↗	a+b three layers › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Sod_Fe_C	0.51	42.0	3.72e-01	96.3%	65.6%