NIb

Euk-Vir

Cardamom_mosaic_virus

NIb__YP_009509115__Cardamom_mosaic_virus__104637

Identity

89.0 mean pLDDT

Orthornavirae› Pisuviricota› Stelpaviricetes› Patatavirales› Potyviridae› Macluravirus› Cardamom_mosaic_virus

TaxID: 104637

View cluster (450 members)

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

D1 medium residues 42-67_211-231_308-346

PDB

Domain cluster: rep: NIb__YP_009252418__Tobacco_mosqueado_virus__1792583__D13-29_64-80_248-311

D2 medium residues 68-110_257-287_427-534

PDB

Domain cluster: rep: RdRp__YP_009342464__Wuhan_house_centipede_virus_5__1923709__D21-63_232-262_353-368_387-474

CATH (6)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2gmyD00	1.20.1290.10	Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like	0.61	26.0	2.95e-01	89.6%	50.3%
3p5pA02	1.50.10.160	Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase ›	0.56	36.0	3.53e-01	81.9%	56.9%
2ijqA00	1.10.3450.10	Mainly Alpha › Orthogonal Bundle › Hyaluronidase domain-like › TTHA0068-like	0.55	30.0	3.30e-01	73.6%	64.8%
1oyzA00	1.25.10.10	Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant	0.53	30.0	2.62e-01	82.4%	35.5%
7qx4A01	1.20.190.10	Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › Pesticidal crystal protein, N-terminal domain	0.52	38.0	3.48e-01	73.6%	82.1%
4py6C00	1.20.920.10	Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like	0.50	34.0	3.98e-01	90.7%	99.2%

ECOD (5)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3686313	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.53	44.0	3.91e-01	89.0%	90.6%
5057633	3651.1.1.0 ↗	alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain	0.52	26.0	3.22e-01	84.1%	74.8%
3489849	5.1.4.74 ↗	beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Vps16_N	0.52	43.0	3.21e-01	89.6%	99.8%
3696931	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.52	44.0	4.00e-01	92.3%	88.0%
3580680	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.50	36.0	3.05e-01	73.6%	48.7%

D3 medium residues 111-145_288-307_347-426

PDB

Domain cluster: rep: RNA_dependent_RNA_polymerase__YP_529897__Newbury_agent_1__331642__D58-79_192-241_281-399

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00680.26 best	RdRP_1	56.9	2.30e-15	68.9%	19.3%

CATH (4)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3h5xA03	3.30.70.270	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain	0.83	50.0	5.38e-01	74.1%	69.8%
1h99A01	1.10.1790.10	Mainly Alpha › Orthogonal Bundle › PTS-regulatory domain, PRD › PRD domain	0.55	34.0	3.80e-01	93.3%	78.8%
1wc1C00	3.30.70.1230	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain	0.52	38.0	3.35e-01	74.1%	68.2%
1irxA05	1.10.10.350	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A ›	0.52	29.0	3.31e-01	97.8%	75.3%

ECOD (3)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5366	304.48.1.15 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_3	0.83	79.0	5.45e-01	100.0%	79.1%
4622610	101.1.1.431 ↗	alpha arrays › HTH › HTH › Three-helical HTH › CFEM	0.55	24.0	3.22e-01	89.6%	75.7%
3590118	162.1.1.1 ↗	alpha bundles › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PRD	0.54	32.0	3.37e-01	94.1%	64.0%

D4 medium residues 146-210_232-256

PDB

Domain cluster: rep: NIa__YP_003620390__Freesia_mosaic_virus__421012__D109-224