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YP_010805990.1

Arc-Vir

NC_077212__YP_010805990.1__QKV93-gp54__00054

Identity

Accession:: NC_077212 ↗
Protein ID:: YP_010805990.1 ↗
Kingdom:: archaea

Quality

85.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Yangshan_Harbor_Nitrososphaeria_virus

TaxID: 2969597

Cluster

View cluster (2 members)

3D Structure

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Domains

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

D1 medium residues 1-103_787-857

PDB

Domain cluster: representative

CATH (11)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3cddA01	2.30.300.10	Mainly Beta › Roll › Phage tail proteins - horseshoe like beta roll fold › Baseplate protein-like domain - beta roll fold	0.71	67.0	6.60e-01	99.4%	97.8%
3d37B01	2.30.300.10	Mainly Beta › Roll › Phage tail proteins - horseshoe like beta roll fold › Baseplate protein-like domain - beta roll fold	0.68	65.0	6.50e-01	99.4%	99.4%
2p5zX01	2.30.110.50	Mainly Beta › Roll › Pnp Oxidase; Chain A ›	0.67	61.0	6.26e-01	96.6%	100.0%
4uhvA01	2.30.110.50	Mainly Beta › Roll › Pnp Oxidase; Chain A ›	0.64	59.0	5.66e-01	99.4%	99.5%
4p02A03	2.40.10.220	Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains	0.63	39.0	4.61e-01	93.7%	88.5%
1vf7F01	2.40.30.170	Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Efflux pump adaptor protein, beta barrel domain	0.61	35.0	4.38e-01	78.7%	94.1%
2gysA03	2.60.40.10	Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins	0.60	29.0	4.03e-01	74.7%	91.9%
5c94A00	2.40.10.250	Mainly Beta › Beta Barrel › Thrombin, subunit H › Replicase NSP9	0.59	32.0	3.80e-01	84.5%	76.7%
2ptfA01	2.30.110.10	Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A	0.56	40.0	4.37e-01	91.4%	87.1%
3g2fA01	3.30.200.20	Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1	0.54	26.0	3.45e-01	82.8%	86.2%
3q0bX00	2.30.280.10	Mainly Beta › Roll › PUA domain-like › SRA-YDG	0.52	39.0	4.16e-01	83.3%	89.9%

ECOD (22)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4319057	1.1.5.25 ↗	beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ	0.72	43.0	5.18e-01	94.8%	88.7%
4094235	1.1.5.25 ↗	beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ	0.69	42.0	4.90e-01	94.8%	84.0%
1914511	1.1.5.25 ↗	beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ	0.69	42.0	4.81e-01	94.3%	81.9%
4217523	1.1.5.25 ↗	beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ	0.69	42.0	4.92e-01	94.8%	84.8%
4402697	1.1.5.25 ↗	beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ	0.68	41.0	4.92e-01	94.8%	86.7%
5056723	1.1.7.0 ↗	beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C	0.67	35.0	4.68e-01	80.5%	92.6%
4036849	1.1.5.25 ↗	beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ	0.67	42.0	4.81e-01	94.8%	83.5%
4551243	1.1.5.25 ↗	beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ	0.67	41.0	4.80e-01	94.3%	85.6%
4995815	1.1.13.0 ↗	beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins	0.66	46.0	5.46e-01	99.4%	100.0%
4562905	1.1.5.25 ↗	beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ	0.66	41.0	4.82e-01	94.8%	87.2%
3968097	1.1.5.25 ↗	beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ	0.64	38.0	4.57e-01	95.4%	90.9%
4538400	1.1.5.25 ↗	beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ	0.63	41.0	4.69e-01	94.8%	86.9%
4943623	11.1.1.0 ↗	beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like	0.58	33.0	4.19e-01	75.9%	96.0%
3702149	1.1.7.0 ↗	beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C	0.56	39.0	4.06e-01	84.5%	76.9%
4083039	11.1.1.0 ↗	beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like	0.53	35.0	4.20e-01	85.6%	100.0%
2595159	1.1.13.6 ↗	beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tail_2	0.53	44.0	4.56e-01	90.8%	91.6%
4888726	1.1.13.6 ↗	beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_tail_2	0.53	44.0	4.61e-01	90.8%	93.3%
4029231	319.1.1.3 ↗	beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › CS	0.51	31.0	3.84e-01	94.3%	97.1%
185448	3341.1.1.0 ↗		0.51	28.0	3.62e-01	93.1%	96.7%
4983082	11.1.1.531 ↗	beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF11	0.51	26.0	3.45e-01	87.4%	88.0%
3261290	11.1.1.843 ↗	beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF7034	0.50	35.0	3.95e-01	85.1%	96.8%
3239923	319.1.1.3 ↗	beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › CS	0.50	28.0	3.64e-01	82.2%	97.9%

D2 medium residues 104-223

PDB

Domain cluster: representative

CATH (5)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4uhvA02	3.55.50.10	Alpha Beta › 3-Layer(bab) Sandwich › Phage tail protein beta-alpha-beta fold › Baseplate protein-like domains	0.74	54.0	6.09e-01	99.2%	100.0%
2p5zX02	3.55.50.10	Alpha Beta › 3-Layer(bab) Sandwich › Phage tail protein beta-alpha-beta fold › Baseplate protein-like domains	0.73	56.0	6.14e-01	99.2%	100.0%
4k3bA05	3.10.20.310	Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac	0.58	37.0	4.37e-01	94.2%	96.2%
4kq9A02	3.40.50.2300	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator	0.52	37.0	3.21e-01	74.2%	96.5%
2bjnB00	3.30.1380.20	Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › Trafficking protein particle complex subunit 3	0.51	43.0	4.02e-01	95.8%	74.3%

ECOD (11)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3967438	3070.1.1.2 ↗	a+b complex topology › N0 domain in phage tail proteins and secretins-like › N0 domain in phage tail proteins and secretins › N0 domain in phage tail proteins and secretins › Phage_GPD	0.78	56.0	6.34e-01	100.0%	98.9%
3970829	3070.1.1.0 ↗	a+b complex topology › N0 domain in phage tail proteins and secretins-like › N0 domain in phage tail proteins and secretins › N0 domain in phage tail proteins and secretins	0.78	56.0	6.41e-01	100.0%	100.0%
3966573	3070.1.1.2 ↗	a+b complex topology › N0 domain in phage tail proteins and secretins-like › N0 domain in phage tail proteins and secretins › N0 domain in phage tail proteins and secretins › Phage_GPD	0.77	56.0	6.31e-01	97.5%	100.0%
3968711	3070.1.1.2 ↗	a+b complex topology › N0 domain in phage tail proteins and secretins-like › N0 domain in phage tail proteins and secretins › N0 domain in phage tail proteins and secretins › Phage_GPD	0.77	55.0	6.25e-01	97.5%	98.9%
3972306	3070.1.1.0 ↗	a+b complex topology › N0 domain in phage tail proteins and secretins-like › N0 domain in phage tail proteins and secretins › N0 domain in phage tail proteins and secretins	0.77	56.0	6.30e-01	97.5%	100.0%
3271686	388.1.1.0 ↗	few secondary structure elements › Huristasin-like › Huristasin-like › Huristasin-like	0.59	23.0	3.02e-01	70.0%	61.9%
3520104	3121.1.1.0 ↗	a+b duplicates or obligate multimers › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain	0.56	37.0	4.36e-01	95.8%	98.8%
3575511	3121.1.1.0 ↗	a+b duplicates or obligate multimers › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain	0.53	37.0	4.11e-01	95.8%	92.6%
4984150	4143.1.1.1 ↗	a+b two layers › THUMP domain-like › THUMP domain-like › THUMP domain-like › THUMP	0.52	29.0	3.29e-01	84.2%	72.9%
4059572	242.1.1.5 ↗	a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N	0.52	36.0	3.80e-01	95.0%	80.0%
4979991	242.1.1.0 ↗	a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases	0.52	35.0	3.82e-01	92.5%	85.0%

D3 medium residues 224-259_738-786

PDB

Domain cluster: representative

CATH (2)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3ds8A00	3.40.50.1820	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain	0.57	39.0	2.83e-01	70.6%	97.2%
3ig9B00	3.90.930.20	Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Small outer capsid protein Soc	0.51	35.0	3.66e-01	72.9%	79.2%

D4 medium residues 260-274_324-352_472-511

PDB

Domain cluster: representative

ECOD (1)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3940918	109.4.1.182 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Sec7-like_HUS,DCB	0.50	42.0	2.54e-01	100.0%	26.5%

D5 medium residues 512-612_703-737

PDB

Domain cluster: representative

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5mmjj00	3.30.70.600	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10	0.51	27.0	3.05e-01	82.4%	64.6%