←Back to structures
CAKLQF020000002.1__CAH1073178.1__SAMEA5780031_00405__00042
Bact-VirCAKLQF020000002.1__CAH1073178.1__SAMEA5780031_00405__00042
Identity
- Kingdom:
- phage
Quality
84.2
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 91-116_153-250
Domain cluster:
rep: MH673673.1__AYJ73880.1__phiLo_28__00028__D8-130
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF06271.19 best | RDD | 64.5 | 1.80e-17 | 96.8% | 96.3% |
CATH (8)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3vm9A02 | 6.10.140.2110 | Special › Helix non-globular › Helix Hairpins › | 0.67 | 32.0 | 4.53e-01 | 96.8% | 98.2% |
| 4a64C03 | 1.20.1310.10 | Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats | 0.64 | 35.0 | 3.92e-01 | 75.0% | 66.0% |
| 2eh3A02 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.60 | 46.0 | 4.66e-01 | 96.8% | 81.1% |
| 3n2oA03 | 1.20.58.930 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.60 | 32.0 | 3.66e-01 | 71.0% | 66.7% |
| 3q5dA02 | 1.20.58.420 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP | 0.59 | 37.0 | 4.15e-01 | 76.6% | 80.4% |
| 3bniB00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.59 | 43.0 | 3.90e-01 | 100.0% | 55.6% |
| 3tp3A02 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.56 | 47.0 | 4.47e-01 | 99.2% | 77.0% |
| 4oydB00 | 1.10.132.20 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor | 0.53 | 38.0 | 3.89e-01 | 73.4% | 86.3% |
ECOD (20)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3956103 | 5056.1.1.4 ↗ | extended segments › Gated mechanosensitive channel › Gated mechanosensitive channel › Gated mechanosensitive channel › RDD | 0.83 | 78.0 | 7.62e-01 | 100.0% | 94.8% |
| 4959601 | 3826.1.1.99 ↗ | alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › RDD | 0.82 | 78.0 | 7.32e-01 | 100.0% | 95.9% |
| 3787607 | 7023.1.1.2 ↗ | alpha bundles › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › Pex2_Pex12 | 0.81 | 76.0 | 5.49e-01 | 100.0% | 63.1% |
| 3703271 | 192.18.1.4 ↗ | alpha bundles › Long alpha-hairpin › MxiH-like › MxiH-like › Pex2_Pex12 | 0.80 | 74.0 | 6.41e-01 | 100.0% | 98.4% |
| 5057042 | 605.1.1.355 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › RDD | 0.80 | 75.0 | 7.31e-01 | 100.0% | 96.3% |
| 3180613 | 3711.1.1.23 ↗ | alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › Pex2_Pex12 | 0.80 | 74.0 | 6.19e-01 | 100.0% | 91.1% |
| 5050818 | 148.1.1.102 ↗ | alpha arrays › Histone-like › Histone-related › Histone › RDD | 0.80 | 68.0 | 7.04e-01 | 100.0% | 96.5% |
| 3294447 | 3711.1.1.23 ↗ | alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › Pex2_Pex12 | 0.79 | 73.0 | 6.10e-01 | 100.0% | 85.4% |
| 3687521 | 7023.1.1.2 ↗ | alpha bundles › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › Pex2_Pex12 | 0.77 | 71.0 | 6.34e-01 | 99.2% | 98.2% |
| 3190956 | 192.18.1.4 ↗ | alpha bundles › Long alpha-hairpin › MxiH-like › MxiH-like › Pex2_Pex12 | 0.77 | 71.0 | 6.30e-01 | 100.0% | 96.6% |
| 3396759 | 632.3.1.26 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Phosphoprotein XD domain › Phosphoprotein XD domain › Pex2_Pex12 | 0.75 | 69.0 | 5.75e-01 | 100.0% | 78.1% |
| 3787087 | 7023.1.1.2 ↗ | alpha bundles › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › Pex2_Pex12 | 0.75 | 68.0 | 6.02e-01 | 98.4% | 97.7% |
| 3838976 | 5056.1.1.4 ↗ | extended segments › Gated mechanosensitive channel › Gated mechanosensitive channel › Gated mechanosensitive channel › RDD | 0.70 | 54.0 | 5.73e-01 | 80.6% | 98.2% |
| 3709843 | 7023.1.1.2 ↗ | alpha bundles › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › helical ridge domain of D-alanyl transfer protein › Pex2_Pex12 | 0.67 | 59.0 | 5.90e-01 | 100.0% | 93.6% |
| 5000432 | 101.1.17.1 ↗ | alpha arrays › HTH › HTH › FF domain › Ribosomal_S17e | 0.61 | 40.0 | 4.53e-01 | 85.5% | 91.1% |
| 3869130 | 604.12.1.72 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › OSTMP1 | 0.60 | 31.0 | 3.48e-01 | 89.5% | 63.2% |
| 3732909 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.56 | 35.0 | 4.23e-01 | 73.4% | 96.2% |
| 3781725 | 3291.1.1.12 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › DUF1689 | 0.54 | 40.0 | 4.03e-01 | 95.2% | 76.8% |
| 3820045 | 603.1.1.118 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins › DUF7610 | 0.52 | 32.0 | 3.74e-01 | 73.4% | 89.4% |
| 4596871 | 5065.1.1.1 ↗ | alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › ABC-3 | 0.51 | 43.0 | 3.32e-01 | 96.0% | 86.6% |
D2
medium
residues 1-85
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF14237.12 best | GYF_2 | 54.7 | 9.50e-15 | 56.5% | 94.0% |
CATH (5)
| 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 | 0.85 | 59.0 | 6.07e-01 | 71.8% | 96.3% |
| 4bwsF00 | 3.30.1490.40 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain | 0.75 | 52.0 | 5.87e-01 | 74.1% | 91.0% |
| 5c17A00 | 3.30.450.410 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › | 0.56 | 44.0 | 3.39e-01 | 88.2% | 37.9% |
| 3nuhB02 | 3.30.300.370 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › | 0.56 | 38.0 | 3.49e-01 | 72.9% | 63.6% |
| 3v10A02 | 2.60.40.740 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.51 | 42.0 | 3.68e-01 | 96.5% | 95.9% |
ECOD (22)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3924848 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.86 | 59.0 | 6.25e-01 | 70.6% | 86.7% |
| 3695427 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.85 | 59.0 | 6.27e-01 | 71.8% | 89.3% |
| 3628468 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.82 | 58.0 | 6.19e-01 | 72.9% | 85.3% |
| 3925701 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.82 | 59.0 | 5.64e-01 | 74.1% | 70.5% |
| 3244285 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.81 | 57.0 | 6.02e-01 | 71.8% | 97.3% |
| 3217685 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.81 | 54.0 | 6.41e-01 | 74.1% | 100.0% |
| 3933682 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.80 | 58.0 | 5.14e-01 | 74.1% | 58.3% |
| 3229807 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.79 | 55.0 | 5.70e-01 | 71.8% | 93.8% |
| 4028910 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.79 | 54.0 | 6.09e-01 | 76.5% | 90.8% |
| 3613986 | 109.4.1.3310 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › GYF_2 | 0.79 | 57.0 | 3.55e-01 | 74.1% | 63.5% |
| 3561065 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.78 | 56.0 | 3.05e-01 | 74.1% | 21.0% |
| 3586250 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.77 | 52.0 | 6.14e-01 | 74.1% | 98.3% |
| 3501103 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.76 | 53.0 | 6.14e-01 | 74.1% | 96.8% |
| 3353030 | 822.1.1.2 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 | 0.76 | 55.0 | 5.15e-01 | 74.1% | 65.0% |
| 379802 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.75 | 53.0 | 5.33e-01 | 72.9% | 87.2% |
| 3323055 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.72 | 50.0 | 5.65e-01 | 71.8% | 93.8% |
| 3333626 | 822.1.1.0 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain | 0.71 | 48.0 | 5.58e-01 | 71.8% | 96.7% |
| 4994 | 822.1.1.1 ↗ | a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF | 0.67 | 47.0 | 4.90e-01 | 71.8% | 78.2% |
| 4561058 | 1185.1.1.2 ↗ | a+b two layers › A hypothetical protein from Neisseria gonorrhoeae › A hypothetical protein from Neisseria gonorrhoeae › A hypothetical protein from Neisseria gonorrhoeae › Imm1 | 0.59 | 40.0 | 3.69e-01 | 71.8% | 96.5% |
| 4963636 | 192.29.1.0 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) | 0.58 | 40.0 | 3.10e-01 | 72.9% | 65.4% |
| 3568772 | 386.1.1.0 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers | 0.55 | 34.0 | 3.89e-01 | 71.8% | 90.0% |
| 4100838 | 2006.1.3.1 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › DNA_gyraseB_C,Toprim | 0.51 | 35.0 | 2.67e-01 | 71.8% | 85.3% |