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VP1_protein

Euk-Vir

Corriparta_virus

VP1_protein__YP_009507680__Corriparta_virus__40053

Identity

Accession:: YP_009507680 ↗
Protein ID:: VP1_protein
Kingdom:: euk

Quality

87.9 mean pLDDT

Cluster

View cluster (29 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 205-366

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009158901__Chobar_Gorge_virus__1679172__D209-255_289-364

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF05788.19 best	Orbi_VP1	199.2	1.20e-58	100.0%	12.4%

D2 high residues 646-703

PDB

Domain cluster: representative

D3 medium residues 13-78_868-899

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009047258__Umatilla_virus__40060__D15-69_880-904

D4 medium residues 367-388_480-544_587-598_618-641_704-721

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009047258__Umatilla_virus__40060__D376-413_644-723

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF05788.19 best	Orbi_VP1	106.0	1.60e-30	51.1%	4.9%

D5 medium residues 389-479_599-617_722-744_764-788

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF05788.19 best	Orbi_VP1	115.7	1.90e-33	58.2%	7.1%

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1k8kA04	3.90.640.10	Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4	0.68	18.0	2.43e-01	77.2%	41.3%

ECOD (2)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1411401	304.48.1.7 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Flu_PB1	0.58	53.0	3.78e-01	100.0%	83.6%
4899007	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	0.51	18.0	2.68e-01	95.6%	69.4%

D6 medium residues 545-586_745-763_789-816

PDB

Domain cluster: representative

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF05788.19 best	Orbi_VP1	69.2	2.00e-19	49.4%	3.2%
PF05788.19	Orbi_VP1	38.6	3.60e-10	34.8%	2.2%

CATH (5)

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	0.68	56.0	5.17e-01	87.6%	100.0%
2r7rA04	3.30.70.2480	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits ›	0.66	56.0	4.67e-01	94.4%	80.3%
4hkqA01	3.30.70.270	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain	0.61	52.0	4.46e-01	93.3%	83.3%
5cqgA04	3.30.70.2630	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits ›	0.60	54.0	5.14e-01	98.9%	99.1%
4ol8A01	3.30.70.270	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain	0.59	48.0	4.22e-01	89.9%	80.7%

ECOD (10)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3933633	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.62	52.0	3.77e-01	93.3%	56.2%
3785231	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.62	53.0	3.67e-01	94.4%	48.3%
3935796	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.61	52.0	4.22e-01	93.3%	83.5%
3937813	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.61	51.0	3.66e-01	93.3%	54.1%
1893002	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.61	51.0	3.70e-01	92.1%	60.2%
4096485	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.60	51.0	3.69e-01	94.4%	55.8%
3932482	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.59	50.0	3.67e-01	94.4%	59.6%
3926167	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.58	49.0	3.55e-01	93.3%	55.4%
4933881	304.6.1.1 ↗	a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C	0.57	41.0	3.06e-01	77.5%	72.8%
4018550	304.9.1.1 ↗	a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1	0.56	38.0	3.35e-01	70.8%	74.1%

D7 medium residues 900-952

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF05788.19 best	Orbi_VP1	39.0	2.70e-10	100.0%	3.6%

CATH (2)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1ed1A00	1.10.150.90	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Immunodeficiency lentiviruses, gag gene matrix protein p17	0.57	43.0	3.49e-01	84.9%	70.2%
3ig5A03	1.10.150.710	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Glutamate cysteine ligase subdomain	0.55	43.0	3.79e-01	88.7%	60.7%

ECOD (1)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3241842	386.1.1.0 ↗	few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers	0.51	38.0	3.21e-01	86.8%	47.6%

D8 medium residues 972-1048_1100-1181_1194-1207

PDB

Domain cluster: representative

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF05788.19 best	Orbi_VP1	114.4	4.70e-33	58.4%	6.5%
PF05788.19	Orbi_VP1	90.5	7.90e-26	45.1%	5.8%

CATH (2)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2es9A00	1.20.1290.30	Mainly Alpha › Up-down Bundle › AhpD-like ›	0.54	27.0	3.41e-01	78.6%	80.0%
2iw5B00	1.20.58.1880	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.52	23.0	2.64e-01	79.2%	50.4%

ECOD (3)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4404513	101.1.1.1 ↗	alpha arrays › HTH › HTH › Three-helical HTH › Homeodomain	0.64	26.0	3.88e-01	87.9%	86.7%
3963104	4973.1.1.1 ↗	alpha bundles › helical domain in DNA primase DnaG catalytic core › helical domain in DNA primase DnaG catalytic core › helical domain in DNA primase DnaG catalytic core › DnaB_bind	0.58	27.0	3.48e-01	76.9%	77.8%
160865	101.1.1.1 ↗	alpha arrays › HTH › HTH › Three-helical HTH › Homeodomain	0.58	26.0	3.49e-01	90.2%	82.5%