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NC_021347.1__YP_008061254.1__M176_gp217__00216

Bact-Vir

Identity

Accession:: NC_021347 ↗
Kingdom:: phage

Quality

69.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhodococcus_phage_E3

TaxID: 1007869

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 484-598_617-628

PDB

Domain cluster: representative

ECOD (3)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5061540	2498.1.1.147 ↗	mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › DUF7897	0.55	48.0	3.60e-01	96.1%	50.6%
3297391	533.1.1.1 ↗	alpha bundles › Arp2/3 complex 21 kDa subunit ARPC3 › Arp2/3 complex 21 kDa subunit ARPC3 › Arp2/3 complex 21 kDa subunit ARPC3 › P21-Arc	0.53	39.0	3.52e-01	94.5%	55.7%
5010383	1075.1.1.0 ↗	alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain	0.51	38.0	3.19e-01	77.2%	99.1%

D2 medium residues 60-102_140-177_276-306

PDB

Domain cluster: representative

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5t3wA00	1.20.120.1160	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) ›	0.51	38.0	3.59e-01	79.5%	68.6%

D3 medium residues 178-275

PDB

Domain cluster: rep: MT457475.1__QKE60812.1__X__00007__D28-172

D4 medium residues 410-460_636-679

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF23802.2 best	DUF7178	37.8	2.80e-09	96.8%	42.5%

CATH (14)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3s2wG00	1.10.10.10	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	0.57	36.0	3.29e-01	92.6%	45.1%
5xs2B02	1.10.472.10	Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like	0.57	43.0	3.89e-01	80.0%	90.9%
4hjzA00	1.10.530.10	Mainly Alpha › Orthogonal Bundle › Lysozyme ›	0.56	47.0	3.85e-01	93.7%	96.2%
4aihF00	1.10.10.10	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	0.55	32.0	3.03e-01	88.4%	45.2%
4uobA02	1.10.340.30	Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2	0.55	41.0	3.72e-01	78.9%	63.5%
3bkhA02	1.10.530.10	Mainly Alpha › Orthogonal Bundle › Lysozyme ›	0.55	45.0	3.70e-01	91.6%	97.8%
4dciA00	6.10.140.1110	Special › Helix non-globular › Helix Hairpins ›	0.54	28.0	2.42e-01	83.2%	29.9%
6n8eA02	3.30.559.30	Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Nonribosomal peptide synthetase, condensation domain	0.54	46.0	3.38e-01	93.7%	62.7%
1k32A03	3.30.750.44	Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA ›	0.53	37.0	4.17e-01	72.6%	100.0%
7emyA03	3.30.559.30	Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Nonribosomal peptide synthetase, condensation domain	0.53	44.0	3.21e-01	92.6%	61.6%
3fm5A00	1.10.10.10	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	0.51	33.0	3.02e-01	89.5%	46.2%
2vsqA02	3.30.559.30	Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Nonribosomal peptide synthetase, condensation domain	0.51	42.0	3.22e-01	93.7%	58.6%
4ib4A01	1.20.1070.10	Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins	0.51	42.0	3.16e-01	97.9%	85.6%
4c5fA02	1.10.530.10	Mainly Alpha › Orthogonal Bundle › Lysozyme ›	0.50	42.0	3.61e-01	96.8%	58.9%

ECOD (10)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3411600	143.2.1.1 ↗	alpha arrays › PABP domain-like › Ribosomal protein L20 › Ribosomal protein L20 › Ribosomal_L20	0.59	40.0	3.66e-01	70.5%	57.7%
3030421	143.2.1.0 ↗	alpha arrays › PABP domain-like › Ribosomal protein L20 › Ribosomal protein L20	0.57	40.0	3.72e-01	73.7%	61.3%
4158719	143.2.1.1 ↗	alpha arrays › PABP domain-like › Ribosomal protein L20 › Ribosomal protein L20 › Ribosomal_L20	0.55	38.0	3.56e-01	73.7%	60.0%
5048929	605.6.1.0 ↗	alpha duplicates or obligate multimers › ROP-like › HP1531-like › HP1531-like	0.54	32.0	3.62e-01	88.4%	80.0%
3098385	143.2.1.0 ↗	alpha arrays › PABP domain-like › Ribosomal protein L20 › Ribosomal protein L20	0.52	39.0	3.47e-01	80.0%	63.6%
2755607	143.2.1.1 ↗	alpha arrays › PABP domain-like › Ribosomal protein L20 › Ribosomal protein L20 › Ribosomal_L20	0.52	39.0	3.50e-01	81.1%	64.3%
4031872	101.1.2.15 ↗	alpha arrays › HTH › HTH › winged helix domain › MarR	0.51	32.0	2.85e-01	89.5%	39.3%
5006393	7014.1.1.2 ↗	alpha bundles › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › TauE	0.51	36.0	3.54e-01	91.6%	67.6%
3596610	143.2.1.0 ↗	alpha arrays › PABP domain-like › Ribosomal protein L20 › Ribosomal protein L20	0.51	37.0	3.42e-01	81.1%	59.2%
5006318	7014.1.1.2 ↗	alpha bundles › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › Undecaprenyl pyrophosphate phosphatase (UppP) transmembrane domain › TauE	0.50	38.0	3.58e-01	95.8%	66.1%

D5 medium residues 680-798

PDB

Domain cluster: representative

CATH (2)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3fhgA01	1.10.1670.10	Mainly Alpha › Orthogonal Bundle › Endonuclease Iii, domain 2 › Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal)	0.66	45.0	5.00e-01	94.1%	88.3%
1pduA00	1.10.565.10	Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor	0.51	38.0	3.09e-01	78.2%	52.6%

ECOD (3)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3391839	102.1.2.0 ↗	alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase	0.59	52.0	4.23e-01	92.4%	95.7%
5055848	102.1.2.0 ↗	alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase	0.58	45.0	3.99e-01	80.7%	95.1%
3818045	4126.1.1.1 ↗	a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase › Pro_CA	0.51	36.0	2.89e-01	74.8%	54.5%

D6 medium residues 799-851

PDB