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NC_014467.1__YP_003858421.1__RB16p121__00121

Bact-Vir

NC_014467.1__YP_003858421.1__RB16p121__00121

Identity

Accession:
NC_014467 ↗
Kingdom:
phage

Quality

71.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Pseudotevenvirus› Escherichia_phage_RB16

TaxID: 2681599

Cluster

Singleton — not in a non-trivial cluster

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 13-75
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3og5A01 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.73 63.0 5.76e-01 96.8% 81.2%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.73 61.0 4.06e-01 92.1% 38.5%
1pwkA00 3.30.740.10 Alpha Beta › 2-Layer Sandwich › Protein Inhibitor Of Neuronal Nitric Oxide Synthase › Protein Inhibitor Of Neuronal Nitric Oxide Synthase; 0.73 65.0 5.73e-01 100.0% 83.5%
2bjoA02 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.71 50.0 4.42e-01 74.6% 96.8%
6j09A04 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.70 58.0 5.52e-01 95.2% 88.3%
3v9oA00 3.30.1130.10 Alpha Beta › 2-Layer Sandwich › GTP Cyclohydrolase I, domain 2 › GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain 0.68 62.0 4.91e-01 100.0% 87.6%
3jamD02 3.30.1140.32 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Ribosomal protein S3, C-terminal domain 0.66 54.0 4.33e-01 93.7% 70.7%
3ddhA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.65 46.0 4.33e-01 76.2% 77.8%
4p52A01 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.65 54.0 3.91e-01 93.7% 44.4%
2r5rA00 3.10.270.10 Alpha Beta › Roll › Urate Oxidase › Urate Oxidase; 0.65 58.0 3.85e-01 100.0% 49.2%
3l3sA02 1.10.287.2460 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 36.0 4.11e-01 100.0% 91.7%
8hbfB01 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.63 53.0 3.92e-01 98.4% 50.8%
1o9gA02 1.10.287.540 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.63 32.0 3.77e-01 96.8% 69.8%
1hlvA02 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.63 51.0 5.21e-01 88.9% 95.0%
1pieA01 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.62 52.0 3.62e-01 93.7% 39.8%
3u3iA02 1.20.58.1110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 36.0 3.04e-01 100.0% 33.3%
8jx6A02 2.30.30.780 Mainly Beta › Roll › SH3 type barrels. › 0.61 39.0 3.32e-01 100.0% 39.8%
1vzyA01 3.55.30.10 Alpha Beta › 3-Layer(bab) Sandwich › Hsp33 domain › Hsp33 domain 0.61 55.0 3.70e-01 100.0% 73.9%
1guxB00 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.60 53.0 4.05e-01 96.8% 95.7%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.59 37.0 3.81e-01 100.0% 67.8%
5kolD00 3.90.950.20 Alpha Beta › Alpha-Beta Complex › Maf protein › CinA-like 0.59 51.0 3.78e-01 100.0% 68.0%
1ex2A00 3.90.950.10 Alpha Beta › Alpha-Beta Complex › Maf protein › 0.58 50.0 3.64e-01 100.0% 85.9%
3ci6B00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.56 46.0 3.45e-01 92.1% 75.8%
1bd3A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 38.0 2.58e-01 71.4% 87.5%
7dkaA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 43.0 3.08e-01 85.7% 37.4%
2ek0A00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.55 45.0 4.04e-01 92.1% 75.6%
1a59A02 1.10.230.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450-Terp; domain 2 › Cytochrome P450-Terp, domain 2 0.55 47.0 4.01e-01 100.0% 84.3%
4gniA04 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.55 43.0 3.95e-01 88.9% 66.3%
2wzpR02 3.55.50.50 Alpha Beta › 3-Layer(bab) Sandwich › Phage tail protein beta-alpha-beta fold › Phage tail base-plate attachment protein, domain D4 0.55 47.0 4.10e-01 98.4% 82.8%
1k8kA04 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.54 42.0 3.73e-01 85.7% 68.5%
7c5wA01 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 42.0 3.30e-01 90.5% 54.1%
7w3rB01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.53 44.0 2.86e-01 95.2% 84.0%
3aawC01 3.40.1160.10 Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like 0.51 42.0 2.97e-01 95.2% 63.4%
4kigA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 43.0 3.22e-01 100.0% 98.9%
3g7pA00 1.10.3100.20 Mainly Alpha › Orthogonal Bundle › Putative cytoplasmic protein › Protein of unknown function DUF269 0.50 43.0 3.36e-01 100.0% 88.3%
ECOD (89)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3217704 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.86 79.0 6.67e-01 96.8% 78.9%
3217701 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.85 78.0 6.95e-01 96.8% 96.4%
3939986 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.83 75.0 6.57e-01 96.8% 87.8%
3997010 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.83 72.0 6.53e-01 92.1% 96.2%
3579286 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.82 77.0 7.20e-01 100.0% 97.3%
3212591 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.82 77.0 6.68e-01 100.0% 98.9%
3236077 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.82 77.0 6.68e-01 100.0% 97.8%
3917458 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.82 75.0 6.57e-01 100.0% 94.4%
3239403 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.81 76.0 6.51e-01 100.0% 94.7%
3991441 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.81 76.0 6.60e-01 100.0% 100.0%
3580774 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.81 75.0 6.87e-01 100.0% 95.0%
3794765 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.81 73.0 6.88e-01 96.8% 94.7%
3595156 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.80 74.0 6.49e-01 100.0% 85.6%
3503257 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.80 74.0 6.26e-01 100.0% 77.6%
1145979 3121.1.1.4 ↗ a+b duplicates or obligate multimers › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › POTRA_TamA_1 0.80 69.0 6.38e-01 96.8% 86.4%
3217700 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.80 71.0 5.79e-01 96.8% 72.7%
3923243 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.80 74.0 6.43e-01 100.0% 97.8%
3938300 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.79 72.0 6.51e-01 100.0% 89.4%
3574196 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.79 69.0 7.04e-01 95.2% 100.0%
3238871 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.79 71.0 6.53e-01 98.4% 100.0%
3924030 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.79 71.0 6.52e-01 96.8% 88.7%
3701567 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.79 71.0 5.77e-01 100.0% 86.1%
3235434 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.78 69.0 6.11e-01 96.8% 92.2%
3800983 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.78 71.0 6.40e-01 100.0% 91.8%
3623103 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.78 69.0 6.73e-01 93.7% 98.5%
3622118 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.78 70.0 6.74e-01 95.2% 97.1%
3220501 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.78 72.0 6.42e-01 100.0% 90.6%
3470183 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.78 70.0 6.19e-01 100.0% 87.8%
3470588 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.78 70.0 6.10e-01 100.0% 80.0%
3793596 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.77 70.0 6.57e-01 96.8% 90.7%
3592682 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.77 71.0 6.35e-01 100.0% 87.1%
3617903 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.77 70.0 6.20e-01 100.0% 86.7%
3471144 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.77 70.0 6.27e-01 100.0% 89.4%
3618395 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.77 68.0 6.47e-01 96.8% 93.2%
3484480 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.76 68.0 6.32e-01 98.4% 97.4%
3235073 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.76 64.0 6.35e-01 88.9% 100.0%
3616932 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.76 70.0 6.32e-01 100.0% 90.5%
148947 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.76 69.0 6.20e-01 100.0% 86.0%
3517087 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.76 69.0 5.77e-01 100.0% 72.4%
3597342 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.76 69.0 6.22e-01 100.0% 89.4%
3488996 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.76 67.0 6.04e-01 96.8% 89.4%
3226067 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.76 67.0 6.04e-01 96.8% 92.9%
3620174 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.76 69.0 6.07e-01 100.0% 85.6%
4452388 101.35.1.4 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.76 57.0 6.23e-01 96.8% 100.0%
3856351 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.76 68.0 5.74e-01 100.0% 72.4%
3592617 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.76 68.0 6.15e-01 100.0% 89.4%
4161600 101.35.1.4 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.76 55.0 6.09e-01 95.2% 98.0%
3240873 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.75 67.0 5.89e-01 96.8% 83.1%
3487926 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.75 68.0 6.14e-01 100.0% 89.4%
3939211 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.75 67.0 6.09e-01 96.8% 81.9%
3596959 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.75 68.0 6.15e-01 100.0% 89.4%
4000640 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.75 67.0 6.37e-01 96.8% 91.8%
3315566 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.74 67.0 5.72e-01 100.0% 82.0%
3482059 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.74 67.0 5.88e-01 100.0% 81.7%
3929562 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.74 66.0 6.05e-01 100.0% 89.3%
3482607 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.74 66.0 5.88e-01 100.0% 85.6%
3247447 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.74 69.0 6.27e-01 100.0% 85.0%
2779096 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.74 66.0 5.84e-01 100.0% 88.9%
3472850 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.74 66.0 5.83e-01 100.0% 86.7%
3470157 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.73 65.0 5.94e-01 100.0% 90.5%
3479914 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.73 65.0 5.90e-01 100.0% 88.2%
3234001 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.72 63.0 6.14e-01 95.2% 98.6%
3226757 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.72 65.0 5.85e-01 100.0% 89.4%
3839154 3121.1.1.1 ↗ a+b duplicates or obligate multimers › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › POTRA 0.72 63.0 5.74e-01 100.0% 81.2%
3169674 101.1.21.1 ↗ alpha arrays › HTH › HTH › HTH in T7 RNA polymerase › RPOL_N 0.71 61.0 3.96e-01 92.1% 58.1%
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 0.71 48.0 4.67e-01 71.4% 68.1%
3897425 864.1.1.1 ↗ a+b two layers › DLC › DLC › DLC › Dynein_light 0.71 64.0 5.77e-01 100.0% 89.4%
3224270 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.71 64.0 5.34e-01 100.0% 72.4%
4313724 140.1.1.14 ↗ alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › tRNA-synt_1e 0.69 57.0 3.90e-01 100.0% 25.9%
3990992 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.69 61.0 5.82e-01 100.0% 97.3%
4599915 101.35.1.4 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH3 0.68 57.0 5.69e-01 93.7% 89.2%
4551640 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.67 61.0 4.72e-01 100.0% 63.0%
3218182 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.67 57.0 5.59e-01 93.7% 100.0%
4431446 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.67 60.0 4.40e-01 100.0% 50.3%
3213410 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.66 56.0 5.26e-01 95.2% 87.3%
4387955 230.1.1.5 ↗ a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.66 59.0 4.31e-01 100.0% 94.1%
3926766 864.1.1.3 ↗ a+b two layers › DLC › DLC › DLC › Ground-like 0.64 55.0 5.20e-01 95.2% 93.3%
3646000 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.63 46.0 3.70e-01 95.2% 39.2%
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 0.61 52.0 3.68e-01 100.0% 54.3%
4465658 3121.1.1.5 ↗ a+b duplicates or obligate multimers › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › POTRA_3 0.59 49.0 4.83e-01 100.0% 87.1%
4221596 242.1.1.5 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N 0.56 40.0 3.45e-01 100.0% 43.5%
4012853 316.1.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.53 44.0 3.25e-01 100.0% 57.5%
3969531 7581.1.1.0 ↗ a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like 0.53 43.0 2.79e-01 100.0% 21.1%
3949652 242.1.1.5 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N 0.52 41.0 3.57e-01 92.1% 60.9%
2936564 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.51 43.0 2.85e-01 100.0% 63.6%
4128067 242.1.1.5 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N 0.51 40.0 3.48e-01 92.1% 60.0%
4413612 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.51 39.0 3.33e-01 90.5% 59.2%
4096306 242.1.1.5 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N 0.50 39.0 3.33e-01 90.5% 86.1%
4059572 242.1.1.5 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N 0.50 39.0 3.40e-01 92.1% 59.1%