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RifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00779
Bact-VirRifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00779
Identity
- Kingdom:
- phage
Quality
76.0
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 2-68
Domain cluster:
representative
CATH (2)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1u3eM02 | 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 | 0.81 | 58.0 | 5.80e-01 | 77.6% | 73.5% |
| 4c0eA02 | 1.25.40.800 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.54 | 39.0 | 2.82e-01 | 79.1% | 61.3% |
ECOD (2)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2876 | 101.1.14.2 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › I-HmuI_NUMOD-like | 0.81 | 58.0 | 5.77e-01 | 77.6% | 72.5% |
| 3255072 | 2002.1.1.33 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_20 | 0.51 | 42.0 | 2.75e-01 | 100.0% | 82.1% |
D2
high
residues 218-291
Domain cluster:
representative
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1u3eM02 | 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 | 0.87 | 59.0 | 6.22e-01 | 79.7% | 76.5% |
| 5c8qB02 | 3.10.350.10 | Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain | 0.56 | 32.0 | 3.86e-01 | 82.4% | 91.3% |
| 4f92B10 | 1.10.3380.10 | Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › Sec63 N-terminal domain-like domain | 0.52 | 39.0 | 3.20e-01 | 81.1% | 99.3% |
ECOD (5)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2876 | 101.1.14.2 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › I-HmuI_NUMOD-like | 0.87 | 59.0 | 6.18e-01 | 79.7% | 75.4% |
| 4384880 | 101.1.14.3 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 | 0.80 | 53.0 | 5.11e-01 | 75.7% | 60.0% |
| 4414927 | 101.1.14.3 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 | 0.79 | 54.0 | 5.56e-01 | 81.1% | 75.4% |
| 3171408 | 101.1.14.3 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 | 0.79 | 52.0 | 6.07e-01 | 82.4% | 100.0% |
| 3296049 | 4121.1.1.2 ↗ | a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › MRS2-like | 0.53 | 45.0 | 3.32e-01 | 100.0% | 51.8% |
D3
high
residues 301-351
Domain cluster:
rep: IMGVR_UViG_3300021426_000003-3300021426-Ga0224482_10000072181__D164-213
D4
medium
residues 77-127
Domain cluster:
rep: IMGVR_UViG_3300021426_000003-3300021426-Ga0224482_10000072181__D164-213
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF07453.20 best | NUMOD1 | 23.3 | 8.40e-05 | 66.7% | 89.2% |
CATH (9)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1u3eM02 | 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 | 0.89 | 79.0 | 7.02e-01 | 100.0% | 70.6% |
| 4pjjA04 | 1.20.120.720 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain | 0.73 | 49.0 | 3.69e-01 | 70.6% | 73.6% |
| 2mkxA00 | 3.10.350.10 | Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain | 0.59 | 45.0 | 4.51e-01 | 82.4% | 96.1% |
| 2mtzA01 | 3.10.350.10 | Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain | 0.59 | 45.0 | 4.53e-01 | 82.4% | 96.0% |
| 4b8vA02 | 3.10.350.10 | Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain | 0.59 | 46.0 | 4.09e-01 | 86.3% | 68.5% |
| 3cz8A02 | 3.10.50.10 | Alpha Beta › Roll › Chitinase A; domain 3 › | 0.55 | 44.0 | 4.35e-01 | 98.0% | 100.0% |
| 3tqnA01 | 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 | 0.54 | 47.0 | 4.17e-01 | 96.1% | 78.1% |
| 1e0gA00 | 3.10.350.10 | Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain | 0.53 | 39.0 | 4.03e-01 | 82.4% | 100.0% |
| 1aipH03 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.50 | 36.0 | 3.67e-01 | 92.2% | 76.9% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2876 | 101.1.14.2 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › I-HmuI_NUMOD-like | 0.89 | 79.0 | 6.98e-01 | 100.0% | 69.6% |
| 4414927 | 101.1.14.3 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 | 0.82 | 71.0 | 6.39e-01 | 100.0% | 71.0% |
| 3171408 | 101.1.14.3 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 | 0.82 | 69.0 | 6.97e-01 | 98.0% | 96.0% |
| 4384880 | 101.1.14.3 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 | 0.81 | 70.0 | 5.95e-01 | 100.0% | 58.8% |
| 3587703 | 101.1.14.0 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases | 0.78 | 65.0 | 6.59e-01 | 100.0% | 94.0% |
| 4278221 | 101.1.9.8 ↗ | alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N | 0.65 | 45.0 | 4.10e-01 | 70.6% | 78.5% |
| 4468802 | 101.15.1.0 ↗ | alpha arrays › HTH › LysM domain › LysM domain | 0.56 | 46.0 | 3.98e-01 | 90.2% | 94.9% |