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RifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00125
Bact-VirRifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00125
Identity
- Kingdom:
- phage
Quality
60.8
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
medium
residues 66-177
D2
medium
residues 178-245
Domain cluster:
rep: RifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00125__D257-316
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2cs7A00 | 3.10.50.90 | Alpha Beta › Roll › Chitinase A; domain 3 › | 0.58 | 42.0 | 4.48e-01 | 100.0% | 94.5% |
| 6e94A02 | 3.30.160.60 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger | 0.55 | 26.0 | 2.87e-01 | 86.8% | 53.6% |
| 1tz9A00 | 3.20.20.150 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Divalent-metal-dependent TIM barrel enzymes | 0.54 | 45.0 | 2.93e-01 | 97.1% | 81.6% |
D3
medium
residues 257-316
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF14237.12 best | GYF_2 | 26.4 | 6.60e-06 | 83.3% | 92.0% |
CATH (18)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3fmaA00 | 3.30.1490.40 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain | 0.80 | 72.0 | 6.43e-01 | 98.3% | 82.7% |
| 4bwsF00 | 3.30.1490.40 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain | 0.78 | 67.0 | 6.43e-01 | 91.7% | 86.6% |
| 1wh2A01 | 3.30.1490.40 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain | 0.72 | 65.0 | 6.47e-01 | 100.0% | 98.4% |
| 6s2wA01 | 3.30.2260.10 | Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary | 0.63 | 54.0 | 4.93e-01 | 100.0% | 97.6% |
| 1rypA00 | 3.60.20.10 | Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain | 0.59 | 48.0 | 3.32e-01 | 98.3% | 83.1% |
| 2jwkA00 | 3.30.420.270 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › | 0.58 | 50.0 | 4.74e-01 | 98.3% | 79.7% |
| 1zc3B00 | 2.30.29.30 | Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) | 0.56 | 47.0 | 4.01e-01 | 100.0% | 92.7% |
| 1pg5B02 | 2.30.30.20 | Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain | 0.56 | 32.0 | 3.32e-01 | 95.0% | 56.1% |
| 3eyeA00 | 3.40.35.10 | Alpha Beta › 3-Layer(aba) Sandwich › Fructose Permease › Phosphotransferase system, sorbose subfamily IIB component | 0.55 | 42.0 | 3.15e-01 | 85.0% | 32.7% |
| 3nuhB02 | 3.30.300.370 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › | 0.55 | 41.0 | 3.45e-01 | 86.7% | 58.7% |
| 1v9wA00 | 3.40.30.10 | Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin | 0.55 | 37.0 | 3.00e-01 | 71.7% | 77.7% |
| 2hqrA02 | 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 | 0.55 | 38.0 | 3.29e-01 | 76.7% | 48.1% |
| 2z3gB00 | 3.40.140.10 | Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 | 0.55 | 43.0 | 3.55e-01 | 93.3% | 96.9% |
| 6iy8A01 | 3.30.1380.20 | Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › Trafficking protein particle complex subunit 3 | 0.54 | 42.0 | 3.03e-01 | 86.7% | 57.1% |
| 4jhcB00 | 3.90.950.10 | Alpha Beta › Alpha-Beta Complex › Maf protein › | 0.52 | 40.0 | 2.94e-01 | 86.7% | 51.6% |
| 2vugA02 | 3.30.1490.70 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › | 0.51 | 42.0 | 3.98e-01 | 91.7% | 75.0% |
| 1ujrA01 | 3.30.720.50 | Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › | 0.51 | 36.0 | 3.31e-01 | 76.7% | 61.4% |
| 1x4rA01 | 3.30.720.50 | Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › | 0.51 | 38.0 | 3.58e-01 | 96.7% | 64.6% |
ECOD (53)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4028559 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.97 | 71.0 | 8.16e-01 | 75.0% | 100.0% |
| 3295690 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.93 | 87.0 | 8.50e-01 | 100.0% | 93.8% |
| 3930342 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.93 | 77.0 | 8.01e-01 | 86.7% | 96.4% |
| 3323677 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.93 | 81.0 | 8.10e-01 | 91.7% | 93.3% |
| 3264069 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.93 | 74.0 | 7.41e-01 | 83.3% | 100.0% |
| 3353030 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.92 | 78.0 | 6.42e-01 | 90.0% | 55.0% |
| 3855045 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.92 | 79.0 | 7.97e-01 | 91.7% | 93.3% |
| 3700912 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.92 | 74.0 | 7.22e-01 | 85.0% | 78.5% |
| 3599388 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.90 | 73.0 | 7.60e-01 | 85.0% | 92.7% |
| 3613986 | 109.4.1.3310 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › GYF_2 | 0.90 | 82.0 | 4.84e-01 | 100.0% | 14.7% |
| 4958377 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.90 | 64.0 | 7.09e-01 | 75.0% | 93.8% |
| 4024040 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.89 | 68.0 | 6.66e-01 | 81.7% | 93.8% |
| 3574017 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.88 | 81.0 | 7.69e-01 | 100.0% | 87.1% |
| 3561065 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.87 | 81.0 | 4.29e-01 | 100.0% | 4.9% |
| 3308182 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.86 | 78.0 | 6.77e-01 | 100.0% | 68.9% |
| 3924848 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.86 | 76.0 | 7.00e-01 | 95.0% | 80.0% |
| 3303628 | 822.1.1.3 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_ATXR3 | 0.85 | 66.0 | 7.13e-01 | 86.7% | 100.0% |
| 3628468 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.85 | 75.0 | 6.89e-01 | 95.0% | 80.0% |
| 3787008 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.84 | 76.0 | 7.45e-01 | 96.7% | 90.6% |
| 3458276 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.84 | 76.0 | 7.37e-01 | 98.3% | 89.2% |
| 3016553 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.83 | 62.0 | 6.23e-01 | 80.0% | 78.7% |
| 3695427 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.83 | 74.0 | 6.80e-01 | 96.7% | 77.3% |
| 3925701 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.81 | 74.0 | 6.29e-01 | 100.0% | 76.8% |
| 3444777 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.81 | 66.0 | 6.90e-01 | 88.3% | 96.4% |
| 4028910 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.81 | 73.0 | 7.07e-01 | 96.7% | 89.2% |
| 4024679 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.80 | 70.0 | 7.04e-01 | 95.0% | 96.7% |
| 3323055 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.80 | 66.0 | 6.47e-01 | 90.0% | 86.2% |
| 3328353 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.79 | 66.0 | 6.60e-01 | 90.0% | 90.0% |
| 3933682 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.79 | 70.0 | 5.65e-01 | 100.0% | 63.5% |
| 3827574 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.78 | 67.0 | 6.72e-01 | 93.3% | 93.3% |
| 3586250 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.78 | 65.0 | 6.57e-01 | 90.0% | 91.7% |
| 3217685 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.78 | 66.0 | 6.70e-01 | 91.7% | 94.8% |
| 379802 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.78 | 68.0 | 5.95e-01 | 95.0% | 87.2% |
| 3227231 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.76 | 68.0 | 6.69e-01 | 96.7% | 92.1% |
| 3229807 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.76 | 67.0 | 6.08e-01 | 96.7% | 82.5% |
| 3363346 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.76 | 64.0 | 6.50e-01 | 100.0% | 93.3% |
| 3804735 | 822.1.1.3 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_ATXR3 | 0.76 | 57.0 | 5.83e-01 | 96.7% | 83.1% |
| 3244285 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.75 | 66.0 | 6.11e-01 | 96.7% | 85.3% |
| 3662663 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.73 | 64.0 | 5.20e-01 | 96.7% | 53.6% |
| 4994 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.72 | 65.0 | 5.91e-01 | 100.0% | 76.9% |
| 5078165 | 298.4.1.1 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E | 0.59 | 44.0 | 3.40e-01 | 80.0% | 44.6% |
| 4927165 | 4187.1.1.1 ↗ | a+b two layers › NosL/MerB-like › NosL/MerB-like › NosL/MerB-like › MerB | 0.58 | 42.0 | 4.34e-01 | 80.0% | 100.0% |
| 5035596 | 298.4.1.1 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E | 0.58 | 42.0 | 3.01e-01 | 100.0% | 25.4% |
| 3408774 | 2485.1.1.21 ↗ | a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › TXD17-like_Trx | 0.57 | 38.0 | 3.09e-01 | 70.0% | 83.2% |
| 1734768 | 4187.1.1.1 ↗ | a+b two layers › NosL/MerB-like › NosL/MerB-like › NosL/MerB-like › MerB | 0.57 | 42.0 | 4.25e-01 | 83.3% | 98.3% |
| 4961283 | 101.1.2.935 ↗ | alpha arrays › HTH › HTH › winged helix domain › HVO_B0008_C | 0.55 | 44.0 | 3.72e-01 | 93.3% | 50.5% |
| 3593767 | 298.4.1.0 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E | 0.55 | 40.0 | 3.21e-01 | 100.0% | 36.2% |
| 4448962 | 298.4.1.1 ↗ | a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E | 0.54 | 41.0 | 2.95e-01 | 85.0% | 27.7% |
| 3964724 | 3675.1.1.1 ↗ | a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert | 0.53 | 40.0 | 3.14e-01 | 88.3% | 100.0% |
| 3789608 | 2006.1.3.0 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain | 0.53 | 43.0 | 2.91e-01 | 98.3% | 37.8% |
| 3269516 | 102.1.1.41 ↗ | alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › EME1-MUS81_C | 0.52 | 43.0 | 3.76e-01 | 95.0% | 94.7% |
| 3912708 | 4357.1.1.1 ↗ | beta barrels › WWE domain › WWE domain › WWE domain › WWE | 0.51 | 36.0 | 3.49e-01 | 76.7% | 74.3% |
| 3230369 | 2498.1.1.0 ↗ | mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" | 0.51 | 38.0 | 2.47e-01 | 88.3% | 22.3% |