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MK016493.1__AYQ99233.1__PBI_CANTARE_12__00012

Bact-Vir

MK016493.1__AYQ99233.1__PBI_CANTARE_12__00012

Identity

Accession:
MK016493 ↗
Kingdom:
phage

Quality

58.6 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 42-96
PDB
D2 high residues 201-248
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01476.27 best LysM 38.2 1.50e-09 93.8% 93.0%
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5c8qB02 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.92 81.0 8.25e-01 100.0% 97.8%
4b8vA01 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.91 79.0 6.94e-01 100.0% 67.2%
2mtzA01 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.82 67.0 6.66e-01 100.0% 88.0%
4b8vA02 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.81 70.0 6.13e-01 100.0% 64.4%
4b8vA03 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.80 66.0 6.65e-01 100.0% 91.8%
2djpA00 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.80 67.0 5.74e-01 100.0% 58.4%
4bopB00 3.90.70.80 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.76 58.0 4.07e-01 83.3% 46.0%
3tmpA01 3.90.70.80 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.75 57.0 3.98e-01 83.3% 46.0%
6dx5A00 3.90.70.80 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.68 58.0 3.92e-01 93.8% 65.7%
2gu1A01 3.10.450.350 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.67 59.0 4.85e-01 100.0% 55.7%
3pfyA02 6.10.20.180 Special › Helix non-globular › Arc Repressor Mutant, subunit A › 0.67 51.0 4.87e-01 83.3% 91.2%
3sluB01 3.10.450.350 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.63 54.0 4.44e-01 100.0% 53.8%
3kbgA01 3.10.290.10 Alpha Beta › Roll › Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A › RNA-binding S4 domain 0.61 45.0 4.05e-01 89.6% 65.4%
3edpA01 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 4.13e-01 93.8% 73.7%
4ijaA01 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 4.32e-01 93.8% 90.5%
4ha8A01 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 44.0 4.25e-01 93.8% 92.1%
1um8A02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.58 44.0 3.58e-01 85.4% 54.6%
2auwB02 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.57 44.0 4.02e-01 91.7% 77.1%
3a06B03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.53 39.0 3.30e-01 83.3% 62.5%
ECOD (82)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5004560 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.97 92.0 8.75e-01 100.0% 87.3%
3955076 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.95 83.0 8.60e-01 93.8% 100.0%
2047861 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.94 82.0 7.65e-01 100.0% 77.6%
3458171 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.93 82.0 7.27e-01 100.0% 69.2%
2124917 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.92 80.0 5.37e-01 100.0% 28.0%
3587382 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.92 85.0 8.07e-01 100.0% 87.3%
3337080 101.15.1.5 alpha arrays › HTH › LysM domain › LysM domain › LysM3_LYK4_5 0.92 80.0 7.36e-01 100.0% 75.0%
3324708 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.92 80.0 7.33e-01 100.0% 75.0%
4448562 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.92 77.0 7.31e-01 97.9% 78.2%
3426433 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.92 80.0 7.32e-01 100.0% 75.0%
3810505 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.91 80.0 5.30e-01 100.0% 27.3%
3903953 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.91 76.0 7.50e-01 100.0% 86.0%
4177991 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.91 82.0 7.78e-01 100.0% 85.5%
3655335 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.91 77.0 5.15e-01 100.0% 26.7%
3981327 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.91 79.0 7.61e-01 100.0% 83.3%
3974521 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.91 77.0 7.08e-01 100.0% 73.3%
4995817 101.15.1.4 alpha arrays › HTH › LysM domain › LysM domain › Phage_gp53 0.90 82.0 7.16e-01 100.0% 72.9%
3838194 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.90 76.0 7.85e-01 100.0% 97.8%
3165071 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.90 75.0 7.20e-01 100.0% 80.0%
3452845 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.89 75.0 7.19e-01 100.0% 80.0%
3985839 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.89 75.0 6.58e-01 100.0% 62.9%
3517460 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.89 78.0 7.39e-01 100.0% 81.8%
2809236 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.89 80.0 7.33e-01 100.0% 80.6%
3359799 101.15.1.10 alpha arrays › HTH › LysM domain › LysM domain › LysM2_NFP 0.88 81.0 5.73e-01 100.0% 36.1%
3670445 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.88 81.0 4.81e-01 100.0% 15.5%
3979943 101.15.1.3 alpha arrays › HTH › LysM domain › LysM domain › Phage_tail_X 0.88 78.0 7.76e-01 95.8% 94.0%
2124918 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.88 81.0 5.67e-01 100.0% 35.3%
3349612 101.15.1.5 alpha arrays › HTH › LysM domain › LysM domain › LysM3_LYK4_5 0.88 73.0 7.22e-01 100.0% 86.0%
3898121 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.88 74.0 7.04e-01 100.0% 80.0%
3417561 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.88 81.0 4.81e-01 100.0% 16.3%
3190144 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.88 75.0 7.49e-01 100.0% 91.8%
4157099 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.87 75.0 7.58e-01 100.0% 93.8%
2543722 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.87 79.0 6.62e-01 100.0% 60.8%
3636417 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.87 78.0 7.54e-01 100.0% 88.7%
3381619 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.87 80.0 4.77e-01 100.0% 16.4%
None 0.86 78.0 5.65e-01 100.0% 38.4%
3338947 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.86 75.0 6.73e-01 100.0% 70.8%
4662825 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.85 76.0 6.79e-01 100.0% 72.3%
4069716 101.15.1.14 alpha arrays › HTH › LysM domain › LysM domain › LysM, LysM2_CERK1_LYK3_4_5 0.85 73.0 5.36e-01 100.0% 38.3%
3166029 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.85 74.0 7.13e-01 100.0% 87.3%
3299119 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.84 76.0 5.50e-01 100.0% 40.8%
4023232 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.84 74.0 6.85e-01 100.0% 78.3%
3802645 101.15.1.6 alpha arrays › HTH › LysM domain › LysM domain › LysM2_CERK1_LYK3_4_5 0.83 73.0 6.61e-01 100.0% 72.3%
3656643 101.15.1.9 alpha arrays › HTH › LysM domain › LysM domain › LysM1_NFP_LYK, LysM2_CERK1_LYK3_4_5 0.83 74.0 5.29e-01 100.0% 36.3%
2895417 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.83 71.0 6.16e-01 100.0% 63.6%
3165082 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.83 71.0 7.05e-01 100.0% 92.0%
3636424 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.82 72.0 6.92e-01 100.0% 85.5%
3966498 101.15.1.3 alpha arrays › HTH › LysM domain › LysM domain › Phage_tail_X 0.82 73.0 6.58e-01 100.0% 78.5%
3195570 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.82 73.0 6.59e-01 100.0% 73.8%
3964920 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.82 66.0 6.24e-01 100.0% 74.1%
2644065 101.15.1.6 alpha arrays › HTH › LysM domain › LysM domain › LysM2_CERK1_LYK3_4_5 0.82 71.0 6.95e-01 100.0% 88.7%
3303205 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.81 72.0 6.66e-01 100.0% 78.3%
3340381 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.81 56.0 6.40e-01 72.9% 100.0%
3421939 101.15.1.9 alpha arrays › HTH › LysM domain › LysM domain › LysM1_NFP_LYK, LysM2_CERK1_LYK3_4_5 0.80 72.0 5.25e-01 100.0% 38.4%
4128043 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.80 67.0 6.84e-01 100.0% 100.0%
3355076 101.15.1.6 alpha arrays › HTH › LysM domain › LysM domain › LysM2_CERK1_LYK3_4_5 0.80 69.0 6.46e-01 100.0% 78.3%
2042916 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.80 66.0 6.44e-01 100.0% 83.3%
3367888 101.15.1.5 alpha arrays › HTH › LysM domain › LysM domain › LysM3_LYK4_5 0.80 71.0 6.24e-01 100.0% 71.4%
4019244 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.80 70.0 6.36e-01 100.0% 73.8%
3963519 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.79 70.0 6.38e-01 100.0% 76.9%
3671032 101.15.1.11 alpha arrays › HTH › LysM domain › LysM domain › LysM1_NFP_LYK, LysM2_NFP 0.79 71.0 4.82e-01 100.0% 29.1%
3305689 101.15.1.9 alpha arrays › HTH › LysM domain › LysM domain › LysM1_NFP_LYK, LysM2_CERK1_LYK3_4_5 0.79 69.0 4.88e-01 100.0% 33.6%
3375189 101.15.1.10 alpha arrays › HTH › LysM domain › LysM domain › LysM2_NFP 0.79 69.0 6.13e-01 100.0% 68.6%
3240624 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.78 65.0 6.25e-01 100.0% 81.8%
3666767 101.15.1.10 alpha arrays › HTH › LysM domain › LysM domain › LysM2_NFP 0.78 69.0 5.31e-01 100.0% 45.7%
3819870 101.15.1.6 alpha arrays › HTH › LysM domain › LysM domain › LysM2_CERK1_LYK3_4_5 0.78 70.0 4.98e-01 100.0% 35.6%
3191020 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.78 68.0 6.35e-01 100.0% 81.7%
3651054 101.15.1.10 alpha arrays › HTH › LysM domain › LysM domain › LysM2_NFP 0.77 68.0 4.74e-01 100.0% 31.0%
2968802 101.15.1.11 alpha arrays › HTH › LysM domain › LysM domain › LysM1_NFP_LYK, LysM2_NFP 0.76 66.0 4.76e-01 100.0% 34.8%
3989756 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.76 64.0 6.48e-01 97.9% 97.9%
3647286 101.15.1.7 alpha arrays › HTH › LysM domain › LysM domain › LysM_RLK 0.75 63.0 5.59e-01 100.0% 65.3%
3716764 101.15.1.12 alpha arrays › HTH › LysM domain › LysM domain › PF30403 0.75 65.0 6.10e-01 100.0% 85.0%
3611431 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.75 65.0 6.07e-01 100.0% 85.0%
4180515 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.72 61.0 5.97e-01 100.0% 88.9%
3269916 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.70 58.0 5.50e-01 100.0% 80.0%
4008890 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.69 56.0 5.51e-01 100.0% 89.1%
3261423 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.68 56.0 5.61e-01 100.0% 98.0%
1649977 101.15.1.2 alpha arrays › HTH › LysM domain › LysM domain › OapA 0.67 59.0 4.82e-01 100.0% 54.4%
3838530 221.1.2.0 a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif 0.66 53.0 5.13e-01 100.0% 90.0%
4251581 101.1.9.8 alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.60 45.0 4.24e-01 89.6% 76.9%
3386481 3953.1.1.0 a+b two layers › Csd3 N-terminal domain › Csd3 N-terminal domain › Csd3 N-terminal domain 0.60 48.0 3.97e-01 100.0% 47.0%
4341483 101.1.9.8 alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.56 45.0 4.29e-01 93.8% 83.3%
D3 high residues 308-363
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5c8qB02 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.81 61.0 6.62e-01 87.5% 100.0%
4b8vA03 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.75 58.0 6.12e-01 92.9% 98.0%
4illB01 2.40.30.310 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.61 52.0 4.18e-01 100.0% 75.9%
2vqeM01 1.10.8.50 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.61 49.0 4.63e-01 96.4% 94.4%
1b9rA00 3.10.20.30 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Beta-grasp domain 0.59 46.0 3.87e-01 89.3% 84.8%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3964929 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.88 65.0 7.17e-01 85.7% 97.8%
4177991 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.86 72.0 7.27e-01 92.9% 92.7%
1759182 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.86 69.0 7.22e-01 92.9% 96.1%
3587382 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.86 73.0 7.39e-01 92.9% 94.5%
3166029 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.86 71.0 7.21e-01 91.1% 92.7%
3320955 101.15.1.5 alpha arrays › HTH › LysM domain › LysM domain › LysM3_LYK4_5 0.85 69.0 6.54e-01 92.9% 75.4%
1758716 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.85 68.0 7.08e-01 94.6% 94.2%
4157099 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.84 66.0 7.04e-01 91.1% 100.0%
5004560 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.83 70.0 7.11e-01 92.9% 94.5%
3355077 101.15.1.13 alpha arrays › HTH › LysM domain › LysM domain › LysM1_NFP_LYK 0.83 70.0 7.07e-01 94.6% 92.7%
3353525 101.15.1.6 alpha arrays › HTH › LysM domain › LysM domain › LysM2_CERK1_LYK3_4_5 0.82 75.0 5.66e-01 100.0% 93.6%
4277578 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.81 66.0 6.90e-01 94.6% 100.0%
3267280 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.80 64.0 6.71e-01 91.1% 98.0%
None 0.80 71.0 5.46e-01 100.0% 93.6%
4600619 221.1.2.5 a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif › S4 0.80 66.0 6.33e-01 92.9% 93.8%
3979943 101.15.1.3 alpha arrays › HTH › LysM domain › LysM domain › Phage_tail_X 0.79 64.0 6.66e-01 87.5% 100.0%
3305689 101.15.1.9 alpha arrays › HTH › LysM domain › LysM domain › LysM1_NFP_LYK, LysM2_CERK1_LYK3_4_5 0.79 72.0 5.26e-01 100.0% 80.7%
3611431 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.76 65.0 6.41e-01 94.6% 93.3%
3186012 101.15.1.0 alpha arrays › HTH › LysM domain › LysM domain 0.75 61.0 6.05e-01 91.1% 90.0%
3269916 101.15.1.1 alpha arrays › HTH › LysM domain › LysM domain › LysM 0.68 58.0 5.69e-01 98.2% 91.7%
3278866 221.1.2.17 a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif › DUF1062 0.67 52.0 5.19e-01 91.1% 100.0%
3942395 221.1.2.17 a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif › DUF1062 0.65 52.0 5.02e-01 92.9% 96.9%
3596947 327.19.1.0 a+b two layers › Alpha-lytic protease prodomain-like › DNA mismatch repair protein MutL regulatory subdomain › DNA mismatch repair protein MutL regulatory subdomain 0.57 42.0 3.83e-01 83.9% 93.8%
3606376 304.55.2.8 a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Transposase IS200-like › FAZ1_cons 0.52 43.0 3.63e-01 100.0% 69.5%
D4 high residues 368-435
PDB