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AP008983.1__BAE47702.1__CST004__00004
Bact-VirAP008983.1__BAE47702.1__CST004__00004
Identity
- Accession:
- AP008983 ↗
- Kingdom:
- phage
Quality
94.7
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 2-62
Domain cluster:
representative
CATH (10)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2qsfA02 | 2.20.20.110 | Mainly Beta › Single Sheet › Anthopleurin-A › Rad4, beta-hairpin domain BHD1 | 0.74 | 59.0 | 6.02e-01 | 100.0% | 93.1% |
| 2ek0A00 | 3.30.110.20 | Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain | 0.54 | 39.0 | 3.45e-01 | 77.0% | 93.3% |
| 1kqrA00 | 2.60.120.200 | Mainly Beta › Sandwich › Jelly Rolls › | 0.54 | 38.0 | 2.76e-01 | 88.5% | 28.1% |
| 6wy9B02 | 2.40.110.10 | Mainly Beta › Beta Barrel › Butyryl-CoA Dehydrogenase, subunit A; domain 2 › Butyryl-CoA Dehydrogenase, subunit A, domain 2 | 0.53 | 42.0 | 3.77e-01 | 93.4% | 92.6% |
| 4ldgA00 | 2.170.270.10 | Mainly Beta › Beta Complex › Beta-clip-like › SET domain | 0.52 | 43.0 | 3.06e-01 | 96.7% | 62.0% |
| 2w5yA01 | 2.170.270.10 | Mainly Beta › Beta Complex › Beta-clip-like › SET domain | 0.52 | 41.0 | 3.25e-01 | 96.7% | 81.3% |
| 2hfzA01 | 3.30.70.2840 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Flavivirus RNA-directed RNA polymerase, thumb domain | 0.51 | 37.0 | 3.29e-01 | 95.1% | 52.8% |
| 3o6qA02 | 3.30.70.2720 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.51 | 40.0 | 3.42e-01 | 91.8% | 72.8% |
| 5cm2Z00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.51 | 37.0 | 2.79e-01 | 82.0% | 94.0% |
| 6gdxA00 | 3.30.70.120 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.50 | 34.0 | 2.92e-01 | 72.1% | 48.6% |
ECOD (35)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3943422 | 3609.1.1.4 ↗ | alpha arrays › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › ArdcN | 0.84 | 58.0 | 6.58e-01 | 72.1% | 100.0% |
| 3591467 | 3609.1.1.0 ↗ | alpha arrays › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain | 0.79 | 50.0 | 5.86e-01 | 75.4% | 100.0% |
| 4961902 | 3609.1.1.4 ↗ | alpha arrays › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › ArdcN | 0.76 | 62.0 | 4.99e-01 | 88.5% | 60.0% |
| 3612863 | 3609.1.1.3 ↗ | alpha arrays › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › Tc-38 | 0.73 | 57.0 | 3.86e-01 | 83.6% | 34.3% |
| 5029778 | 101.1.2.43 ↗ | alpha arrays › HTH › HTH › winged helix domain › Pox_D5 | 0.70 | 47.0 | 4.15e-01 | 70.5% | 72.2% |
| 4536357 | 2498.1.1.0 ↗ | mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" | 0.67 | 54.0 | 3.60e-01 | 100.0% | 23.6% |
| 4033119 | 101.1.9.63 ↗ | alpha arrays › HTH › HTH › Putative DNA-binding domain › Bro-N | 0.65 | 51.0 | 4.43e-01 | 88.5% | 64.0% |
| 3598618 | 3609.1.1.0 ↗ | alpha arrays › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain | 0.64 | 57.0 | 5.39e-01 | 100.0% | 81.1% |
| 3262137 | 101.1.2.167 ↗ | alpha arrays › HTH › HTH › winged helix domain › XRN1_D2_D3 | 0.64 | 46.0 | 3.51e-01 | 77.0% | 53.3% |
| 3603693 | 101.1.2.145 ↗ | alpha arrays › HTH › HTH › winged helix domain › HHH_4 | 0.63 | 45.0 | 3.30e-01 | 77.0% | 40.6% |
| 5068716 | 2484.1.1.34 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 | 0.60 | 41.0 | 2.60e-01 | 77.0% | 13.8% |
| 5075191 | 222.1.1.1 ↗ | a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase › MaoC_dehydratas | 0.59 | 43.0 | 3.17e-01 | 78.7% | 85.9% |
| 3518030 | 101.1.9.0 ↗ | alpha arrays › HTH › HTH › Putative DNA-binding domain | 0.58 | 43.0 | 4.20e-01 | 82.0% | 100.0% |
| 3812263 | 4.1.1.158 ↗ | beta barrels › SH3 › SH3 › SH3 › DUF3444 | 0.58 | 48.0 | 3.87e-01 | 93.4% | 60.8% |
| 3845660 | 872.1.1.0 ↗ | a+b two layers › Dodecin subunit-like › Flavin-binding protein dodecin-like › Flavin-binding protein dodecin-like | 0.57 | 39.0 | 4.09e-01 | 72.1% | 92.7% |
| 4953653 | 304.114.1.0 ↗ | a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain | 0.56 | 39.0 | 3.68e-01 | 73.8% | 72.0% |
| 4025182 | 213.1.1.57 ↗ | a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › BCCIP | 0.56 | 38.0 | 2.55e-01 | 72.1% | 23.2% |
| 3406946 | 229.1.1.0 ↗ | a+b two layers › Cdc48 domain 2-like › Cdc48 domain 2-like › Cdc48 domain 2-like | 0.55 | 34.0 | 2.94e-01 | 93.4% | 37.0% |
| 3717201 | 3609.1.1.3 ↗ | alpha arrays › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › DNA repair protein RAD4 beta-hairpin domain › Tc-38 | 0.55 | 45.0 | 4.58e-01 | 100.0% | 95.0% |
| 4928518 | 304.51.1.1 ↗ | a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › Cas_Cas6_C | 0.55 | 46.0 | 3.27e-01 | 95.1% | 74.9% |
| 5004647 | 304.48.1.0 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like | 0.54 | 45.0 | 3.05e-01 | 93.4% | 26.0% |
| 4990752 | 304.114.1.0 ↗ | a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain | 0.54 | 38.0 | 3.63e-01 | 75.4% | 70.7% |
| 5054032 | 2484.1.1.34 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 | 0.54 | 39.0 | 2.42e-01 | 77.0% | 18.4% |
| 3788300 | 2006.1.1.4 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › NIF | 0.54 | 42.0 | 2.92e-01 | 85.2% | 82.4% |
| 4950098 | 2003.1.5.66 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 | 0.54 | 41.0 | 2.87e-01 | 83.6% | 91.5% |
| 3739985 | 101.1.2.98 ↗ | alpha arrays › HTH › HTH › winged helix domain › CDT1 | 0.53 | 40.0 | 3.12e-01 | 85.2% | 51.6% |
| 4884657 | 10.1.1.6 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › VP4_haemagglut | 0.53 | 37.0 | 2.71e-01 | 88.5% | 27.1% |
| 3770944 | 70.3.1.0 ↗ | beta barrels › beta-clip › SET domain-like › SET domain-like | 0.52 | 40.0 | 2.85e-01 | 96.7% | 54.5% |
| 3949263 | 304.124.1.9 ↗ | a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › Phage_tail_terminator_9 | 0.51 | 38.0 | 3.28e-01 | 82.0% | 87.6% |
| 3590542 | 235.1.1.10 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Glucosaminidase | 0.51 | 35.0 | 2.66e-01 | 73.8% | 33.8% |
| 3707489 | 2003.1.5.70 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_15 | 0.51 | 40.0 | 2.85e-01 | 91.8% | 81.4% |
| 3490085 | 70.3.1.1 ↗ | beta barrels › beta-clip › SET domain-like › SET domain-like › SET | 0.50 | 40.0 | 2.95e-01 | 95.1% | 62.0% |
| 3737804 | 220.1.1.121 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_SLA1 | 0.50 | 35.0 | 3.03e-01 | 75.4% | 72.4% |
| 4043299 | 306.7.1.1 ↗ | a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N | 0.50 | 38.0 | 3.25e-01 | 88.5% | 97.4% |
| 3995664 | 384.1.1.0 ↗ | few secondary structure elements › BPTI-like › BPTI-like › BPTI-like | 0.50 | 38.0 | 2.95e-01 | 82.0% | 39.6% |
D2
high
residues 76-209
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF14177.12 best | YkyB | 31.3 | 3.50e-07 | 78.4% | 86.2% |
CATH (16)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1bgfA00 | 1.10.532.10 | Mainly Alpha › Orthogonal Bundle › Transcription Factor, Stat-4 › STAT transcription factor, N-terminal domain | 0.74 | 35.0 | 3.70e-01 | 94.0% | 50.0% |
| 1cnt200 | 1.20.1250.10 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › | 0.69 | 44.0 | 4.54e-01 | 100.0% | 66.9% |
| 3r2kA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.65 | 52.0 | 4.91e-01 | 100.0% | 72.1% |
| 1nfvA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.62 | 51.0 | 4.65e-01 | 100.0% | 66.9% |
| 4cmyA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.60 | 49.0 | 4.61e-01 | 100.0% | 71.2% |
| 1o5hA00 | 1.20.120.680 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Formiminotetrahydrofolate cyclodeaminase monomer, up-and-down helical bundle | 0.59 | 43.0 | 3.75e-01 | 75.4% | 69.0% |
| 1s3qG00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.58 | 49.0 | 4.56e-01 | 100.0% | 72.4% |
| 2itbB00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.58 | 49.0 | 4.26e-01 | 100.0% | 60.1% |
| 3rn5A02 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.57 | 33.0 | 3.83e-01 | 87.3% | 81.5% |
| 3vnxA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.56 | 50.0 | 4.30e-01 | 100.0% | 63.6% |
| 3t9jA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.56 | 49.0 | 4.80e-01 | 100.0% | 86.1% |
| 3kwoA00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.55 | 48.0 | 4.66e-01 | 100.0% | 83.2% |
| 3hhcC00 | 1.20.1250.60 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › Interferon lambda | 0.54 | 38.0 | 3.69e-01 | 99.3% | 64.2% |
| 7um4A01 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.53 | 44.0 | 3.51e-01 | 87.3% | 86.1% |
| 7sk7A01 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.52 | 43.0 | 3.47e-01 | 87.3% | 85.8% |
| 8f76A01 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.52 | 42.0 | 3.24e-01 | 85.8% | 83.7% |
ECOD (16)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3410968 | 192.17.1.0 ↗ | alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like | 0.89 | 43.0 | 6.06e-01 | 99.3% | 91.4% |
| 3666875 | 1025.1.1.4 ↗ | alpha bundles › Stonustoxin helical domain › Stonustoxin helical domain › Stonustoxin helical domain › DUF641 | 0.73 | 41.0 | 5.50e-01 | 93.3% | 100.0% |
| 3409452 | 632.22.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats | 0.72 | 41.0 | 5.12e-01 | 93.3% | 89.4% |
| 3681806 | 5027.1.1.9 ↗ | extended segments › Preprotein translocase SecE subunit › Preprotein translocase SecE subunit › Preprotein translocase SecE subunit › DUF641 | 0.72 | 41.0 | 4.31e-01 | 92.5% | 62.5% |
| 3753240 | 3291.1.1.54 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › CC2D1A-B_DM14 | 0.68 | 44.0 | 4.06e-01 | 100.0% | 51.8% |
| 5055566 | 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 | 0.67 | 45.0 | 4.87e-01 | 88.1% | 79.1% |
| 3966323 | 150.1.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin | 0.65 | 52.0 | 5.00e-01 | 100.0% | 74.5% |
| 4469629 | 3883.1.1.1 ↗ | alpha bundles › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain › CDP-alcohol phosphotransferase helical bundle domain › CDP-OH_P_transf | 0.64 | 44.0 | 4.14e-01 | 70.9% | 72.7% |
| 4323952 | 150.1.1.1 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin | 0.63 | 51.0 | 4.76e-01 | 100.0% | 68.9% |
| 5010044 | 632.22.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats | 0.62 | 37.0 | 4.30e-01 | 96.3% | 83.2% |
| 3096672 | 150.1.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin | 0.62 | 51.0 | 4.75e-01 | 100.0% | 71.0% |
| None | — | 0.54 | 39.0 | 2.84e-01 | 73.9% | 65.8% | |
| 3718362 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.54 | 46.0 | 3.79e-01 | 90.3% | 69.4% |
| 3901233 | 5001.1.1.1 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 | 0.52 | 43.0 | 3.36e-01 | 86.6% | 84.0% |
| 5002092 | 283.2.1.0 ↗ | a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like | 0.51 | 33.0 | 3.97e-01 | 85.8% | 98.9% |
| 3246581 | 207.1.1.81 ↗ | beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH | 0.51 | 37.0 | 2.86e-01 | 76.1% | 43.9% |