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NC_021803.1__YP_008242150.1__Phi13-2_gp125__00125

Bact-Vir

Identity

Accession:: NC_021803 ↗
Kingdom:: phage

Quality

78.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pachyviridae› Baltivirus› Cellulophaga_phage_phi13:2

TaxID: 1328030

Cluster

Singleton — not in a non-trivial cluster

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 high residues 67-205

PDB

Domain cluster: representative

CATH (14)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
6k6iA00	1.20.1070.10	Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins	0.64	46.0	3.91e-01	73.4%	95.4%
1rp3A01	1.10.1740.10	Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif	0.62	30.0	3.78e-01	90.6%	75.3%
3m7gA02	1.10.8.1010	Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 ›	0.62	37.0	4.38e-01	74.8%	85.3%
3pt1A02	1.20.930.60	Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A ›	0.58	43.0	4.59e-01	75.5%	90.0%
6c1qB02	1.20.1070.10	Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins	0.57	41.0	3.33e-01	75.5%	91.8%
2xq9A02	1.20.58.390	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Neurotransmitter-gated ion-channel transmembrane domain	0.56	37.0	4.01e-01	95.7%	77.7%
2ip6A00	1.20.1440.140	Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) ›	0.56	34.0	4.35e-01	78.4%	100.0%
2v0oB00	1.20.1270.60	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain	0.55	41.0	3.26e-01	77.0%	75.3%
1c17M00	1.20.120.220	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ATP synthase, F0 complex, subunit A	0.54	39.0	3.90e-01	97.1%	72.5%
1sj8A02	1.20.120.230	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like	0.52	40.0	4.30e-01	80.6%	95.9%
4mt0A01	1.20.1600.10	Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP)	0.52	42.0	3.13e-01	87.8%	73.0%
2y44A00	1.20.1260.80	Mainly Alpha › Up-down Bundle › Ferritin ›	0.52	38.0	3.45e-01	75.5%	88.0%
1xg2B00	1.20.140.40	Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein	0.51	45.0	4.35e-01	92.8%	86.8%
3sfvB02	6.10.140.2010	Special › Helix non-globular › Helix Hairpins ›	0.51	45.0	3.94e-01	94.2%	95.0%

ECOD (32)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3224713	207.1.1.20 ↗	beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_4	0.70	45.0	2.91e-01	72.7%	15.0%
3931107	632.7.1.0 ↗	alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain	0.66	47.0	4.86e-01	73.4%	76.9%
5007621	632.11.1.0 ↗	alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like	0.66	37.0	4.46e-01	75.5%	81.1%
3770671	5001.1.1.1 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1	0.59	42.0	3.20e-01	74.8%	78.6%
3724653	3755.4.1.0 ↗	alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain	0.58	44.0	4.64e-01	95.7%	87.2%
3836689	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.55	45.0	4.40e-01	85.6%	87.3%
3442007	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.53	43.0	4.11e-01	86.3%	85.5%
3448274	3562.1.1.0 ↗	alpha bundles › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1	0.53	43.0	3.56e-01	86.3%	91.8%
3416038	174.1.1.0 ↗	few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain	0.53	40.0	4.19e-01	87.8%	83.1%
3411108	174.1.1.1 ↗	few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin	0.53	41.0	4.25e-01	87.8%	83.0%
3494774	192.29.1.0 ↗	alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding)	0.53	40.0	3.78e-01	79.1%	75.3%
3217897	150.1.1.0 ↗	alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin	0.53	33.0	3.56e-01	92.8%	72.5%
3319537	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.52	42.0	4.11e-01	84.9%	85.1%
3823576	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.52	46.0	4.49e-01	92.8%	89.9%
3410818	174.1.1.1 ↗	few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin	0.52	38.0	4.02e-01	91.4%	83.2%
3432279	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.52	45.0	4.38e-01	91.4%	84.7%
3423128	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.51	45.0	4.39e-01	92.1%	88.0%
3651030	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.51	41.0	3.80e-01	84.2%	78.9%
3713912	633.21.1.22 ↗	alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › COPI_assoc	0.51	41.0	4.45e-01	87.8%	97.5%
3824159	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.51	44.0	4.20e-01	92.8%	90.3%
3399701	174.1.1.1 ↗	few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin	0.51	41.0	4.13e-01	87.8%	82.1%
3357886	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.51	44.0	4.07e-01	93.5%	85.6%
3995124	632.8.1.0 ↗	alpha bundles › immunoglobulin/albumin-binding domain-like › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1	0.51	36.0	3.80e-01	95.0%	80.0%
3419359	633.4.1.0 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor	0.51	40.0	4.15e-01	93.5%	85.9%
4776699	3282.1.1.1 ↗	a+b complex topology › LidA › LidA › LidA › LidA_Long_CC	0.51	45.0	4.01e-01	94.2%	99.0%
3314513	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.51	44.0	4.17e-01	92.8%	82.8%
3682340	633.4.1.0 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor	0.50	43.0	4.18e-01	95.0%	82.0%
3420292	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.50	44.0	4.32e-01	92.8%	89.3%
3717847	604.1.1.0 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat	0.50	38.0	3.69e-01	80.6%	85.6%
3815161	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.50	41.0	3.96e-01	86.3%	80.6%
3661812	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.50	44.0	4.20e-01	92.8%	83.7%
3806463	633.4.1.1 ↗	alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI	0.50	43.0	4.21e-01	92.8%	83.2%

D2 high residues 218-311

PDB

Domain cluster: representative

CATH (4)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1y8cA02	2.20.25.110	Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases	0.57	26.0	3.21e-01	95.7%	66.7%
7nn3B01	3.40.50.1820	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain	0.54	48.0	3.32e-01	100.0%	91.8%
3caxA02	3.30.450.20	Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain	0.52	27.0	2.43e-01	70.2%	31.2%
2o34A00	3.10.520.10	Alpha Beta › Roll › T-fold › ApbE-like domains	0.51	38.0	2.81e-01	78.7%	36.1%

ECOD (8)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3480052	375.1.1.0 ↗	few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related	0.77	29.0	5.00e-01	90.4%	100.0%
4340836	330.4.1.1 ↗	a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC	0.68	27.0	3.11e-01	88.3%	50.0%
4022543	225.1.1.0 ↗	a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	0.68	35.0	2.61e-01	95.7%	20.0%
5763	230.4.1.2 ↗	a+b two layers › T-fold › ApbE-like › ApbE-like › AbpE_bact	0.54	40.0	3.55e-01	77.7%	71.3%
3602537	873.1.1.0 ↗	a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain	0.53	37.0	3.06e-01	97.9%	39.4%
3244904	210.2.1.1 ↗	a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › PP2C	0.52	37.0	2.94e-01	75.5%	56.2%
4235437	306.3.1.1 ↗	a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like › SUI1	0.50	35.0	3.57e-01	100.0%	72.6%
3965844	589.1.1.2 ↗	alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › Porin chaperone SurA, peptide-binding domain › SurA_N_3	0.50	39.0	3.31e-01	84.0%	96.2%

D3 medium residues 354-403_451-509

PDB

Domain cluster: representative

CATH (4)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4hcsA00	2.40.50.40	Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) ›	0.60	35.0	4.34e-01	73.4%	95.5%
1zxtA01	2.40.50.40	Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) ›	0.57	33.0	4.13e-01	73.4%	100.0%
4ozuA01	2.130.10.10	Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase	0.53	35.0	2.45e-01	83.5%	20.7%
4i86A00	2.40.10.220	Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains	0.52	37.0	3.89e-01	73.4%	97.1%

ECOD (5)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3269549	220.1.1.0 ↗	beta barrels › PH domain-like › PH domain-like › PH domain-like	0.55	43.0	3.85e-01	84.4%	72.9%
5080743	2007.1.1.24 ↗	a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › DUF4350	0.53	37.0	2.96e-01	72.5%	64.3%
4890790	4167.1.1.1 ↗	beta complex topology › Flagellar hook protein flgE D1 domain › Flagellar hook protein flgE D1 domain › Flagellar hook protein flgE D1 domain › LlgE_F_G_D1	0.53	37.0	3.51e-01	71.6%	70.5%
3641570	3131.1.1.1 ↗	a+b two layers › FYR domain › FYR domain › FYR domain › FYRN,FYRC	0.51	38.0	3.49e-01	80.7%	84.7%
4483570	2003.1.2.208 ↗	a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_2, Trp_halogenase, FAD_oxidored, GGR_cat	0.51	37.0	2.66e-01	78.9%	81.3%