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NC_002014.1__NP_040576.1__Ike_07__00007

Bact-Vir

NC_002014.1__NP_040576.1__Ike_07__00007

Identity

Accession:
NC_002014 ↗
Kingdom:
phage

Quality

64.2 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 22-124
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF21443.3 best G3P_pilus-bind 217.6 2.90e-65 100.0% 98.1%
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4eo0A00 3.30.110.160 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › 0.96 93.0 9.21e-01 100.0% 97.2%
1pzdA01 2.60.40.1480 Mainly Beta › Sandwich › Immunoglobulin-like › Coatomer, gamma subunit, appendage domain 0.71 42.0 3.63e-01 97.1% 38.5%
1ylxA00 3.30.70.1480 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GK1464-like 0.68 33.0 3.44e-01 91.3% 47.5%
1w8oA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.65 38.0 3.86e-01 98.1% 56.9%
2x3gA00 3.30.70.1910 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 38.0 3.68e-01 100.0% 52.6%
5mmjj00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.63 43.0 4.45e-01 99.0% 73.7%
1zarA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.61 34.0 3.77e-01 99.0% 67.9%
4hvzA02 3.30.70.2970 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Protein of unknown function (DUF541), domain 2 0.61 45.0 4.46e-01 99.0% 72.3%
2xzmJ00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.60 42.0 4.22e-01 99.0% 71.4%
4fprB00 3.30.70.2910 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 54.0 5.05e-01 100.0% 96.1%
1nvmB02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.58 40.0 3.53e-01 100.0% 48.1%
4ewtA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 41.0 3.97e-01 100.0% 69.6%
3njaA02 2.10.70.100 Mainly Beta › Ribbon › Complement Module; domain 1 › 0.55 25.0 3.56e-01 75.7% 95.7%
4pxeA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 40.0 3.86e-01 100.0% 67.5%
5jxzA00 3.60.120.10 Alpha Beta › 4-Layer Sandwich › Anthranilate synthase › Anthranilate synthase 0.54 40.0 2.73e-01 99.0% 21.2%
3iabB01 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.54 32.0 3.33e-01 100.0% 60.6%
3os6C00 3.60.120.10 Alpha Beta › 4-Layer Sandwich › Anthranilate synthase › Anthranilate synthase 0.53 38.0 2.67e-01 100.0% 20.8%
1ok8A03 3.30.387.10 Alpha Beta › 2-Layer Sandwich › Viral Envelope Glycoprotein; domain 3 › Viral Envelope Glycoprotein, domain 3 0.53 32.0 3.47e-01 100.0% 74.1%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
185712 872.6.1.1 a+b two layers › Dodecin subunit-like › Pilus binding domain in attachment protein G3P › Pilus binding domain in attachment protein G3P › G3P_pilus-bind 0.96 93.0 9.21e-01 100.0% 97.2%
3610546 872.3.1.0 a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like 0.72 57.0 5.76e-01 100.0% 83.8%
4954550 310.3.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related 0.68 49.0 4.80e-01 98.1% 68.7%
5069053 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.67 39.0 3.92e-01 98.1% 56.2%
5058778 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.66 39.0 4.03e-01 96.1% 62.1%
5029562 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.66 39.0 3.87e-01 98.1% 56.2%
4350122 11.1.1.138 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › NPCBM_assoc 0.65 38.0 3.81e-01 98.1% 55.2%
4941817 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.64 41.0 4.07e-01 100.0% 60.6%
2093009 304.12.1.1 a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.64 40.0 4.19e-01 100.0% 67.7%
4968303 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 34.0 3.50e-01 100.0% 53.0%
4230774 101.1.9.117 alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_assoc 0.62 29.0 3.00e-01 96.1% 44.2%
2755644 304.44.1.1 a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.61 42.0 3.82e-01 100.0% 52.1%
3700802 304.20.1.0 a+b two layers › Alpha-beta plaits › PAP/Archaeal CCA-adding enzyme, C-terminal domain › PAP/Archaeal CCA-adding enzyme, C-terminal domain 0.61 45.0 4.04e-01 100.0% 55.2%
3902829 11.1.1.360 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › HYDIN_VesB_CFA65-like_Ig 0.60 34.0 3.53e-01 100.0% 56.0%
5009967 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.60 34.0 3.56e-01 97.1% 60.0%
4951176 304.133.1.1 a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL 0.60 44.0 4.11e-01 99.0% 61.5%
5062573 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.60 36.0 3.67e-01 98.1% 59.0%
3417210 304.126.1.1 a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.59 36.0 3.87e-01 100.0% 68.9%
3595511 304.20.1.0 a+b two layers › Alpha-beta plaits › PAP/Archaeal CCA-adding enzyme, C-terminal domain › PAP/Archaeal CCA-adding enzyme, C-terminal domain 0.59 45.0 4.00e-01 100.0% 54.8%
4024633 11.2.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.59 37.0 3.19e-01 99.0% 37.1%
5068876 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 38.0 3.73e-01 99.0% 59.1%
5018724 872.3.1.0 a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like 0.59 50.0 5.18e-01 95.1% 100.0%
5070842 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 36.0 3.61e-01 99.0% 59.0%
3711515 11.1.1.880 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF26187 0.57 35.0 3.46e-01 98.1% 56.4%
3705145 310.3.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related 0.56 49.0 4.07e-01 95.1% 90.0%
5020745 302.4.1.0 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.56 47.0 4.90e-01 95.1% 100.0%
3597235 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.55 45.0 3.78e-01 91.3% 59.2%
4998750 512.1.1.2 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.53 34.0 3.35e-01 92.2% 58.3%
3947893 4967.1.1.0 alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases 0.53 39.0 3.65e-01 81.6% 61.5%
3694783 327.16.1.0 a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system 0.53 39.0 3.36e-01 100.0% 47.6%
3506206 328.1.1.3 a+b two layers › IF3-like › AlbA-like › AlbA-like › Rpp20 0.53 35.0 3.38e-01 99.0% 56.8%
4026519 3871.1.1.1 alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN 0.52 41.0 3.85e-01 87.4% 91.9%
3421877 206.1.1.14 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › ABC1 0.52 39.0 2.58e-01 79.6% 55.3%
3834297 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.52 40.0 2.63e-01 82.5% 67.9%
3740450 328.1.1.3 a+b two layers › IF3-like › AlbA-like › AlbA-like › Rpp20 0.52 32.0 3.41e-01 98.1% 68.9%
3593420 304.25.1.0 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain 0.52 38.0 3.75e-01 98.1% 71.3%
4486025 206.1.1.14 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › ABC1 0.52 39.0 2.53e-01 79.6% 50.1%
4972329 512.1.1.2 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_2nd 0.52 34.0 3.25e-01 91.3% 55.2%
3820369 206.1.1.97 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › ABC1, WaaY 0.52 39.0 2.52e-01 80.6% 55.1%
D2 high residues 135-205
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF05357.19 best Phage_Coat_A 36.3 5.30e-09 62.0% 63.5%
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2x9aA00 2.30.27.10 Mainly Beta › Roll › Phage FD Coat Protein, Membrane penetration domain › Phage FD Coat Protein,Membrane penetration domain 0.94 76.0 8.15e-01 88.7% 98.4%
1g3pA01 2.30.27.10 Mainly Beta › Roll › Phage FD Coat Protein, Membrane penetration domain › Phage FD Coat Protein,Membrane penetration domain 0.86 82.0 7.48e-01 100.0% 97.7%
1tolA01 2.30.27.10 Mainly Beta › Roll › Phage FD Coat Protein, Membrane penetration domain › Phage FD Coat Protein,Membrane penetration domain 0.85 79.0 7.43e-01 100.0% 84.1%
1g3pA02 3.90.450.1 Alpha Beta › Alpha-Beta Complex › Minor Coat Protein; domain 2 › Minor Coat Protein; Domain 2 0.61 55.0 4.81e-01 98.6% 76.0%
1uwvA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.61 39.0 3.95e-01 76.1% 64.4%
2gefA01 2.30.42.30 Mainly Beta › Roll › Pdz3 Domain › 0.55 39.0 3.42e-01 74.6% 90.2%
5o7oC01 3.30.310.280 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.54 42.0 3.57e-01 87.3% 65.6%
1v8wA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.53 40.0 3.23e-01 84.5% 59.7%
2eabB01 2.70.98.50 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › putative glycoside hydrolase family protein from bacillus halodurans 0.53 41.0 2.95e-01 90.1% 69.4%
2kz4A00 2.40.10.270 Mainly Beta › Beta Barrel › Thrombin, subunit H › Bacteriophage SPP1 head-tail adaptor protein 0.53 37.0 3.18e-01 73.2% 49.1%
2p04A00 3.30.450.260 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Haem NO binding associated domain 0.53 36.0 3.20e-01 71.8% 85.0%
1a8dA02 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.52 41.0 2.87e-01 83.1% 79.6%
1m6kA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.51 42.0 2.94e-01 93.0% 37.6%
3ottB02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 40.0 2.66e-01 87.3% 96.2%
3zpeA00 2.60.90.50 Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › 0.50 36.0 3.00e-01 76.1% 79.7%
5i4dA02 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.50 39.0 3.92e-01 88.7% 98.7%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
150402 392.1.1.1 beta meanders › N-terminal domains of the minor coat protein g3p › N-terminal domains of the minor coat protein g3p › N-terminal domains of the minor coat protein g3p › Phage_Coat_A 0.98 85.0 8.79e-01 93.0% 95.5%
406956 392.1.1.1 beta meanders › N-terminal domains of the minor coat protein g3p › N-terminal domains of the minor coat protein g3p › N-terminal domains of the minor coat protein g3p › Phage_Coat_A 0.94 76.0 8.09e-01 88.7% 96.8%
137231 392.1.1.1 beta meanders › N-terminal domains of the minor coat protein g3p › N-terminal domains of the minor coat protein g3p › N-terminal domains of the minor coat protein g3p › Phage_Coat_A 0.91 75.0 8.05e-01 93.0% 100.0%
4490822 2.1.1.18 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › TRAM 0.64 43.0 4.47e-01 78.9% 75.4%
4956338 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 42.0 4.42e-01 77.5% 88.3%
4242366 2.1.1.18 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › TRAM 0.59 41.0 4.02e-01 77.5% 65.0%
426018 5.1.4.27 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.56 42.0 2.70e-01 78.9% 33.9%
3762028 6.1.1.29 beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › CysR_MRC2_N 0.55 41.0 3.27e-01 78.9% 90.0%
5059626 2.1.1.18 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › TRAM 0.55 38.0 3.96e-01 74.6% 78.5%
4954563 1.1.13.0 beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.54 38.0 3.61e-01 73.2% 65.9%
4393615 2.1.1.115 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PabTrmU54_TRAM_dom 0.54 36.0 3.80e-01 73.2% 75.4%
4047703 71.1.1.2 beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolA 0.54 38.0 2.90e-01 74.6% 61.8%
4963695 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.53 38.0 3.28e-01 74.6% 82.7%
4385582 2.10.1.1 beta barrels › OB-fold › CheW › CheW › CheW 0.53 36.0 2.99e-01 70.4% 45.2%
4498332 71.1.1.2 beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolA 0.52 37.0 2.87e-01 76.1% 62.4%
5050577 223.1.1.13 a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_3 0.51 35.0 2.97e-01 74.6% 82.3%
3688114 5.1.4.100 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Med16_N 0.51 37.0 2.27e-01 78.9% 13.7%
3610045 220.1.1.43 beta barrels › PH domain-like › PH domain-like › PH domain-like › SIN1_PH 0.51 34.0 2.91e-01 70.4% 66.9%
3839082 4312.1.1.20 a+b two layers › RelE-like › RelE-like › RelE-like › DUF3519, PBECR1 0.51 40.0 3.34e-01 88.7% 57.0%
3402874 708.1.1.4 beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › FLYWCH 0.50 36.0 3.77e-01 78.9% 83.1%
D3 medium residues 382-434
PDB