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MK448235.1__QBQ71532.1__X__00060

Bact-Vir

MK448235.1__QBQ71532.1__X__00060

Identity

Accession:
MK448235 ↗
Kingdom:
phage

Quality

84.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Klebsiella_phage_ST512-KPC3phi13.1

TaxID: 2555915

Cluster

View cluster (3 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 4-91
PDB
Domain cluster: rep: Bro25__YP_009702174__Heliothis_virescens_ascovirus_3g__1246651__D4-128
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02498.23 best Bro-N 39.1 1.30e-09 83.0% 74.0%
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6pxcA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.64 37.0 3.48e-01 100.0% 47.1%
2h1eA02 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.58 29.0 3.63e-01 76.1% 78.2%
3h04A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.53 41.0 2.97e-01 84.1% 96.7%
1pcfA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.53 33.0 3.77e-01 97.7% 84.8%
2kr7A02 2.40.10.330 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.53 24.0 2.92e-01 81.8% 63.2%
3r5lA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.52 42.0 3.94e-01 93.2% 92.2%
4g29A00 3.10.670.10 Alpha Beta › Roll › Secreted effector protein ssei fold › Secreted effector protein ssei. 0.51 41.0 3.38e-01 100.0% 47.0%
6euaA01 3.90.215.10 Alpha Beta › Alpha-Beta Complex › Gamma Fibrinogen; Chain A, domain 1 › Gamma Fibrinogen, chain A, domain 1 0.51 43.0 3.73e-01 93.2% 89.2%
2lioA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.51 37.0 3.30e-01 98.9% 51.5%
2e9hA01 3.30.30.170 Alpha Beta › 2-Layer Sandwich › Defensin A-like › 0.51 42.0 3.97e-01 96.6% 84.1%
1sseB00 1.10.238.100 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › YAP1 redox domain. Chain B 0.51 35.0 3.56e-01 75.0% 73.3%
1p49A03 3.30.1120.10 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.50 36.0 3.41e-01 76.1% 79.6%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4033119 101.1.9.63 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › Bro-N 0.83 64.0 6.15e-01 95.5% 71.0%
3163642 101.1.9.63 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › Bro-N 0.79 67.0 6.20e-01 100.0% 71.8%
3968916 101.1.9.63 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › Bro-N 0.78 66.0 6.19e-01 100.0% 75.2%
3399146 101.1.9.25 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › INI1_DNA-bd 0.73 62.0 6.39e-01 90.9% 100.0%
3616626 101.1.9.25 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › INI1_DNA-bd 0.73 56.0 6.00e-01 80.7% 100.0%
4797542 101.1.9.25 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › INI1_DNA-bd 0.71 58.0 5.92e-01 88.6% 97.7%
3480611 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.71 59.0 5.81e-01 90.9% 91.6%
3978692 101.1.9.143 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › Virulence_RhuM 0.67 60.0 5.02e-01 100.0% 63.3%
3468948 904.1.1.5 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › PLATZ 0.66 60.0 4.96e-01 100.0% 92.9%
4078914 101.1.9.30 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › Pescadillo_N 0.60 42.0 4.34e-01 75.0% 80.0%
3372390 904.1.1.5 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › PLATZ 0.56 51.0 4.42e-01 98.9% 88.9%
3320363 1.1.11.1 ↗ beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 0.55 37.0 3.76e-01 100.0% 68.9%
1140833 809.2.1.1 ↗ a+b two layers › BLIP-like › BT0923-like › BT0923-like › PepSY_like 0.55 31.0 3.40e-01 97.7% 67.1%
4505321 284.4.1.0 ↗ a+b two layers › FKBP-like › Archaeal FKBP insertion domain › Archaeal FKBP insertion domain 0.54 24.0 2.97e-01 79.5% 65.5%
3284585 1.1.5.15 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › F420H2_quin_red 0.53 43.0 3.86e-01 93.2% 84.5%
3289833 1.1.5.15 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › F420H2_quin_red 0.52 42.0 3.72e-01 93.2% 74.5%
3953207 1.1.5.15 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › F420H2_quin_red 0.52 42.0 4.04e-01 93.2% 99.1%
3526900 269.1.1.0 ↗ a+b complex topology › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like › Fibrinogen C-terminal domain-like 0.52 44.0 2.87e-01 93.2% 50.0%
3607082 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.51 42.0 4.18e-01 93.2% 86.7%
5064515 284.4.1.0 ↗ a+b two layers › FKBP-like › Archaeal FKBP insertion domain › Archaeal FKBP insertion domain 0.50 23.0 2.70e-01 83.0% 60.0%
D2 high residues 128-178
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3r0qA02 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.81 65.0 4.23e-01 100.0% 21.2%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.80 72.0 6.40e-01 100.0% 70.8%
3dd9D02 6.10.140.2060 Special › Helix non-globular › Helix Hairpins › 0.80 59.0 6.43e-01 80.4% 97.6%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.78 66.0 5.96e-01 100.0% 82.4%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.78 69.0 5.32e-01 98.0% 47.3%
3rx6A00 1.20.58.1090 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phage polarity suppression protein monomer 0.77 71.0 4.70e-01 100.0% 34.2%
1icrA00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.75 54.0 3.52e-01 80.4% 18.1%
2x2vA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.75 63.0 5.84e-01 100.0% 75.0%
3tixB03 3.40.50.11490 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.73 51.0 3.68e-01 76.5% 25.5%
4m70B00 1.10.246.200 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › WPP domain 0.73 57.0 4.77e-01 92.2% 48.4%
2rbdA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.72 61.0 4.34e-01 94.1% 70.7%
4e12A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.72 54.0 3.61e-01 86.3% 21.2%
1w53A00 1.10.1240.30 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › KaiA/RbsU domain 0.70 50.0 4.31e-01 78.4% 46.4%
1b3qA01 1.10.287.560 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Histidine kinase CheA-like, homodimeric domain 0.70 59.0 5.59e-01 100.0% 77.4%
2lquA01 1.20.1420.40 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Decorin-binding protein 0.70 57.0 4.19e-01 98.0% 44.8%
2wgmA01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.70 57.0 4.98e-01 98.0% 59.8%
3mggA02 6.10.140.1580 Special › Helix non-globular › Helix Hairpins › 0.69 53.0 4.57e-01 90.2% 53.9%
2i5uA00 1.10.10.630 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › DnaD domain-like 0.66 51.0 4.41e-01 82.4% 58.4%
2khmA01 1.10.10.1350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spidroin domain, C-terminal domain 0.65 50.0 3.94e-01 84.3% 62.0%
1h7cA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 59.0 4.57e-01 100.0% 98.1%
1fcqA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.63 55.0 3.37e-01 100.0% 20.4%
4i8oA03 1.10.8.1130 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Bacterial toxin RNase RnlA/LsoA, C-terminal Dmd-binding domain 0.60 42.0 3.91e-01 74.5% 56.7%
3k6hA01 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.59 46.0 3.33e-01 92.2% 40.7%
4fybA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 42.0 3.07e-01 80.4% 70.2%
3g36B00 1.20.890.10 Mainly Alpha › Up-down Bundle › cAMP-dependent Protein Kinase, Chain A › cAMP-dependent protein kinase regulatory subunit, dimerization-anchoring domain 0.58 47.0 4.71e-01 90.2% 100.0%
4usaA02 1.10.150.120 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › [2Fe-2S]-binding domain 0.58 40.0 3.17e-01 76.5% 31.9%
4cqbA02 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.58 49.0 3.11e-01 100.0% 70.4%
1g4wR02 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.52 40.0 2.69e-01 88.2% 63.3%
3ddhA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.51 38.0 3.37e-01 82.4% 61.7%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3631018 109.4.1.560 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Mus7 0.87 77.0 4.28e-01 100.0% 7.8%
3278450 547.1.1.1 ↗ alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.87 76.0 6.47e-01 96.1% 61.3%
4327215 547.1.1.1 ↗ alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.85 76.0 5.80e-01 100.0% 47.8%
None — 0.85 75.0 4.70e-01 98.0% 21.2%
3208600 109.4.1.560 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Mus7 0.84 73.0 4.54e-01 100.0% 17.9%
4081214 605.1.1.290 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › Phage_Nu1 0.84 73.0 6.59e-01 98.0% 71.4%
4184996 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.84 73.0 4.45e-01 96.1% 17.5%
4417777 547.1.1.1 ↗ alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.82 72.0 5.31e-01 98.0% 38.5%
4333723 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.82 72.0 4.51e-01 98.0% 20.4%
3428082 509.1.1.0 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.80 59.0 5.19e-01 80.4% 54.7%
3598977 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.78 69.0 5.84e-01 100.0% 75.3%
3854050 604.12.1.43 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Tim17 0.77 68.0 5.00e-01 100.0% 37.8%
3569033 3538.1.1.8 ↗ extended segments › MerF › MerF › MerF › PF28754 0.77 60.0 5.88e-01 86.3% 87.3%
3549234 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.77 67.0 5.00e-01 100.0% 39.2%
2323907 212.1.1.24 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Morc6_S5 0.76 67.0 4.34e-01 100.0% 24.7%
3681259 5058.1.1.57 ↗ alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › V-SNARE 0.76 68.0 5.71e-01 100.0% 65.9%
4623986 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.76 67.0 4.24e-01 100.0% 24.8%
3359312 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.75 62.0 5.48e-01 94.1% 62.7%
3726085 101.1.2.127 ↗ alpha arrays › HTH › HTH › winged helix domain › Cullin_Nedd8 0.74 64.0 5.46e-01 100.0% 63.5%
4028115 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.73 62.0 5.15e-01 100.0% 53.7%
3443076 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.72 62.0 3.58e-01 96.1% 10.2%
3408346 633.24.1.2 ↗ alpha bundles › Bromodomain-like › RABEX-5 helical domain › RABEX-5 helical domain › DUF5601 0.72 57.0 5.05e-01 90.2% 60.0%
5063791 1075.3.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC importer transmembrane domain fold › Type I ABC importer transmembrane domain fold › BPD_transp_1 0.72 62.0 3.79e-01 100.0% 17.3%
3610118 2006.1.4.46 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › XPG_N, XPG_I, XPG_I_2 0.71 60.0 3.71e-01 96.1% 16.9%
3681397 5059.1.1.17 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › TMEM234 0.70 60.0 4.65e-01 100.0% 48.3%
4162727 5086.1.1.12 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › Uds1 0.69 60.0 4.38e-01 100.0% 38.6%
4436943 101.11.1.1 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.69 50.0 4.39e-01 90.2% 51.2%
3256686 568.1.1.0 ↗ few secondary structure elements › p8-MTCP1-related › p8-MTCP1-related › p8-MTCP1-related 0.66 56.0 5.50e-01 98.0% 87.3%
3619549 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.64 53.0 3.19e-01 100.0% 28.5%
4973086 103.5.1.0 ↗ alpha arrays › RuvA-C › post-HMGL domain-like › post-HMGL domain-like 0.61 40.0 4.00e-01 76.5% 65.5%
136888 304.103.1.1 ↗ a+b two layers › Alpha-beta plaits › FMN-dependent nitroreductase-like › FMN-dependent nitroreductase-like › Nitroreductase 0.59 46.0 3.22e-01 92.2% 35.6%
D3 high residues 195-258
PDB
Domain cluster: rep: KU695582.1__AMQ66906.1__PBI_MCFLY_72__00069__D5-82