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NC_006883.2__YP_214553.1__PSSM2_321__00322

Bact-Vir

NC_006883.2__YP_214553.1__PSSM2_321__00322

Identity

Accession:
NC_006883 ↗
Kingdom:
phage

Quality

89.3 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 3-43
PDB
Domain cluster: representative
CATH (57)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.91 77.0 6.77e-01 100.0% 64.4%
3anwA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.91 82.0 5.81e-01 100.0% 37.2%
1z0jB00 4.10.860.20 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › Rabenosyn, Rab binding domain 0.89 80.0 7.45e-01 100.0% 82.4%
4abmD00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.88 79.0 6.32e-01 100.0% 89.6%
3k1hA00 3.30.1120.180 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Flagellar FLiS export co-chaperone, HP1076 0.88 78.0 5.50e-01 97.6% 95.7%
2zt5A02 3.30.40.230 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › 0.88 72.0 5.60e-01 95.1% 44.0%
3p42A02 6.10.250.2280 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.87 70.0 5.82e-01 97.6% 51.4%
3ilxA02 1.10.287.2170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.87 72.0 7.04e-01 90.2% 84.1%
3onjA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.87 71.0 5.38e-01 100.0% 39.2%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.86 76.0 6.23e-01 100.0% 80.8%
1urfA00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.86 74.0 5.94e-01 100.0% 54.3%
2b5dX01 3.20.110.10 Alpha Beta › Alpha-Beta Barrel › 7-stranded beta/alpha barrel › Glycoside hydrolase 38, N terminal domain 0.85 73.0 4.18e-01 100.0% 10.1%
3ehfB01 6.10.250.2870 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.85 75.0 5.53e-01 100.0% 39.4%
3ehfD01 1.20.5.1930 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.84 74.0 6.41e-01 100.0% 65.1%
2hh7A00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.84 75.0 5.84e-01 100.0% 49.4%
4asvA00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.84 71.0 5.74e-01 100.0% 50.6%
5lbmA00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.84 72.0 5.74e-01 100.0% 51.8%
3zdmB00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.83 71.0 6.70e-01 100.0% 80.0%
1qsdA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.83 69.0 5.19e-01 100.0% 38.2%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.83 67.0 5.11e-01 100.0% 38.4%
3dytA02 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.82 69.0 4.47e-01 100.0% 24.7%
4nv0A02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.82 69.0 5.55e-01 100.0% 48.8%
1x04A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.81 68.0 4.36e-01 100.0% 29.5%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.81 67.0 4.87e-01 100.0% 33.9%
4cqiA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.80 68.0 5.09e-01 100.0% 51.4%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.80 66.0 5.55e-01 97.6% 55.4%
4l8jA04 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.79 70.0 6.20e-01 100.0% 74.6%
3h3mA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.79 66.0 5.24e-01 100.0% 47.2%
2bduA02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.78 66.0 5.49e-01 100.0% 54.1%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.78 66.0 5.94e-01 100.0% 73.3%
1b48A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.77 62.0 4.66e-01 100.0% 35.8%
1xzzA00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.77 63.0 3.93e-01 100.0% 17.1%
2ptfB02 1.20.58.290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. 0.76 62.0 5.71e-01 97.6% 71.9%
2gsqA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.75 59.0 4.46e-01 100.0% 35.2%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.75 63.0 4.48e-01 100.0% 65.4%
4gouA01 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.72 59.0 4.12e-01 100.0% 56.8%
6tkvA01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.72 57.0 5.08e-01 100.0% 67.6%
2acxA01 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.71 58.0 3.75e-01 97.6% 19.5%
1p49A02 1.10.287.550 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.70 57.0 5.21e-01 100.0% 69.5%
3l1nA01 6.10.140.790 Special › Helix non-globular › Helix Hairpins › 0.70 59.0 5.58e-01 100.0% 88.2%
2js5A00 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.70 57.0 4.95e-01 100.0% 57.7%
2etnB01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.68 53.0 4.62e-01 100.0% 67.1%
1vcsA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.67 54.0 4.23e-01 100.0% 40.2%
2nr4A02 1.20.58.290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hypothetical membrane protein ta0354_69_121. 0.67 53.0 4.98e-01 100.0% 72.4%
6e6oA00 1.20.50.10 Mainly Alpha › Up-down Bundle › Pheromone ER-1 › Pheromone ER-1 0.67 49.0 4.99e-01 82.9% 82.5%
2kw6A00 6.10.140.1300 Special › Helix non-globular › Helix Hairpins › 0.66 51.0 4.66e-01 100.0% 61.5%
4errB00 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 54.0 4.46e-01 100.0% 50.6%
2yfqB01 1.10.8.1210 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.64 47.0 4.40e-01 80.5% 78.8%
3nynA03 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.64 49.0 4.18e-01 97.6% 56.8%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.64 50.0 4.20e-01 100.0% 52.9%
2wgmA01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.64 50.0 4.23e-01 100.0% 79.3%
4kjmA02 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.62 49.0 4.48e-01 95.1% 65.5%
1xdxA01 3.30.1140.40 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Tctex-1 0.62 48.0 3.67e-01 92.7% 36.0%
1irxA05 1.10.10.350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.60 46.0 3.66e-01 90.2% 83.9%
3d5lA03 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 0.59 46.0 4.36e-01 90.2% 90.4%
3e3vA03 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 0.59 45.0 4.12e-01 87.8% 87.5%
2ds2D01 1.10.110.10 Mainly Alpha › Orthogonal Bundle › Hydrophobic Seed Protein › Plant lipid-transfer and hydrophobic proteins 0.56 45.0 4.21e-01 100.0% 86.0%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3945531 605.1.1.4 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA_3 0.93 85.0 6.96e-01 100.0% 58.6%
3794795 603.1.1.3 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › V-SNARE 0.92 86.0 6.22e-01 100.0% 52.0%
5055314 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 0.92 84.0 6.33e-01 100.0% 45.6%
149872 3291.1.1.1 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Snf7 0.90 82.0 6.48e-01 100.0% 69.6%
3372432 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.90 82.0 6.44e-01 100.0% 51.2%
3346233 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 0.90 81.0 6.55e-01 100.0% 54.7%
1821875 4970.1.1.1 alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_B 0.90 75.0 6.61e-01 100.0% 64.4%
3614667 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.90 75.0 4.32e-01 100.0% 11.0%
4406905 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.89 81.0 6.65e-01 100.0% 58.6%
4942772 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 0.89 78.0 6.71e-01 100.0% 69.2%
3218207 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.89 81.0 5.39e-01 100.0% 43.4%
4032912 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.88 80.0 6.41e-01 100.0% 54.7%
3323862 611.9.1.4 alpha bundles › N-cbl like › Resistance protein (Rx) N-terminal domain › Resistance protein (Rx) N-terminal domain › Rx_N 0.88 80.0 6.27e-01 100.0% 51.2%
3595968 605.2.1.0 alpha duplicates or obligate multimers › ROP-like › Hypothetical protein D-63 › Hypothetical protein D-63 0.88 79.0 6.22e-01 100.0% 86.3%
4206858 4992.1.1.23 extended segments › RelB-like › RelB-like › RelB-like › Seryl_tRNA_N 0.87 77.0 5.50e-01 100.0% 35.7%
4619538 192.7.1.2 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N 0.87 77.0 5.48e-01 100.0% 35.7%
3630574 190.1.1.0 alpha arrays › HMG-box-like › HMG-box › HMG-box 0.87 76.0 5.77e-01 100.0% 43.2%
4000253 3922.1.1.0 alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.86 75.0 4.71e-01 100.0% 19.5%
4932313 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 0.86 76.0 6.49e-01 100.0% 63.1%
4680241 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.85 76.0 6.47e-01 100.0% 63.1%
5039854 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 0.85 75.0 6.13e-01 100.0% 54.7%
3377896 109.4.1.588 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › FPL 0.84 71.0 4.19e-01 100.0% 12.5%
3960219 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.83 71.0 5.88e-01 100.0% 54.7%
3237264 3755.4.1.82 alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Snf7 0.83 71.0 5.00e-01 100.0% 31.5%
4026159 4970.1.1.0 alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.83 70.0 6.56e-01 95.1% 100.0%
3645891 5076.2.1.10 alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 0.81 68.0 4.14e-01 100.0% 16.1%
4436335 3390.1.1.0 extended segments › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT › Photosystem II reaction center protein T, PsbT 0.80 64.0 6.29e-01 95.1% 95.6%
4447644 2004.1.1.514 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23, AAA_29, SbcC_Walker_B 0.77 65.0 3.70e-01 97.6% 10.4%
3585387 5.1.4.16 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › CPSF_A 0.73 56.0 3.46e-01 95.1% 13.9%
3715996 4970.1.1.0 alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I 0.73 57.0 5.57e-01 100.0% 88.0%
3617556 5.1.4.16 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › CPSF_A 0.72 55.0 3.21e-01 95.1% 9.0%
3956739 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.68 56.0 4.04e-01 100.0% 29.3%
4405928 5086.1.1.196 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › HH_YknX 0.59 48.0 4.25e-01 100.0% 58.6%