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H2c1_full_idba_ud_scaffold_88_prodigal-single.1__X__X__00059
Bact-VirH2c1_full_idba_ud_scaffold_88_prodigal-single.1__X__X__00059
Identity
- Kingdom:
- phage
Quality
81.0
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 6-56
Domain cluster:
representative
CATH (24)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3tufA00 | 1.10.287.4300 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Stage III sporulation protein AH-like | 0.80 | 55.0 | 4.20e-01 | 72.5% | 50.4% |
| 4hteA03 | 1.10.167.30 | Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › | 0.77 | 54.0 | 4.58e-01 | 72.5% | 60.0% |
| 2zt5A02 | 3.30.40.230 | Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › | 0.74 | 58.0 | 4.97e-01 | 88.2% | 54.8% |
| 3llkA01 | 1.20.120.1960 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › QSOX sulfhydryl oxidase domain | 0.71 | 54.0 | 4.36e-01 | 82.4% | 52.0% |
| 1tfkB00 | 1.20.120.650 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Colicin D | 0.70 | 50.0 | 4.24e-01 | 76.5% | 61.6% |
| 3zheA02 | 1.25.40.760 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.69 | 48.0 | 3.25e-01 | 76.5% | 20.8% |
| 2qsbA00 | 1.20.1440.50 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Ta0600-like | 0.67 | 55.0 | 4.70e-01 | 94.1% | 77.6% |
| 1f2eA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.67 | 46.0 | 3.65e-01 | 72.5% | 40.6% |
| 3fbzA01 | 1.20.58.800 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.65 | 50.0 | 3.96e-01 | 82.4% | 75.5% |
| 2lrmA00 | 1.10.890.30 | Mainly Alpha › Orthogonal Bundle › 10k-s Protein, Hypothetical Protein A; Chain A › YmgD protein | 0.62 | 46.0 | 3.96e-01 | 80.4% | 78.6% |
| 4c0eA01 | 1.25.40.790 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.62 | 45.0 | 2.85e-01 | 78.4% | 38.2% |
| 3layF00 | 1.20.120.1490 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.62 | 46.0 | 4.05e-01 | 78.4% | 66.7% |
| 5c8aA01 | 1.10.1240.10 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain | 0.61 | 44.0 | 3.90e-01 | 76.5% | 52.6% |
| 4nv0A02 | 1.10.150.340 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain | 0.61 | 47.0 | 4.27e-01 | 96.1% | 76.8% |
| 2q0oC00 | 1.10.287.160 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat | 0.61 | 43.0 | 3.73e-01 | 78.4% | 51.2% |
| 2r7hB00 | 3.40.630.30 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) | 0.61 | 52.0 | 3.75e-01 | 100.0% | 56.0% |
| 7p2yC03 | 1.20.150.20 | Mainly Alpha › Up-down Bundle › Lysin › ATP synthase alpha/beta chain, C-terminal domain | 0.60 | 52.0 | 3.94e-01 | 100.0% | 50.4% |
| 1lfkA00 | 1.10.630.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 | 0.59 | 50.0 | 3.05e-01 | 98.0% | 30.7% |
| 3qxyA02 | 3.90.1420.10 | Alpha Beta › Alpha-Beta Complex › set domain protein methyltransferase, domain 2 › Rubisco LSMT, substrate-binding domain | 0.58 | 48.0 | 3.50e-01 | 98.0% | 58.7% |
| 2pmsC00 | 6.10.140.920 | Special › Helix non-globular › Helix Hairpins › | 0.57 | 44.0 | 3.66e-01 | 92.2% | 91.7% |
| 1lp1A00 | 1.20.5.420 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C | 0.57 | 44.0 | 4.33e-01 | 100.0% | 83.6% |
| 3f4sA02 | 1.10.40.80 | Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › | 0.56 | 47.0 | 4.44e-01 | 98.0% | 92.2% |
| 6kd0A01 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.54 | 46.0 | 2.88e-01 | 100.0% | 74.0% |
| 2aaaA01 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.50 | 44.0 | 2.68e-01 | 100.0% | 85.3% |
ECOD (15)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4319295 | 4006.1.1.1 ↗ | alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF | 0.84 | 57.0 | 4.34e-01 | 70.6% | 83.8% |
| 4129436 | 4006.1.1.1 ↗ | alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › PCRF | 0.82 | 55.0 | 4.24e-01 | 70.6% | 85.7% |
| 3398320 | 632.7.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain | 0.81 | 68.0 | 6.06e-01 | 90.2% | 72.9% |
| 3738995 | 632.7.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain | 0.80 | 71.0 | 6.54e-01 | 100.0% | 80.0% |
| 2979253 | 632.21.1.1 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Helical bundle domain in endo-beta-N-acetylglucosaminidase F2 › Helical bundle domain in endo-beta-N-acetylglucosaminidase F2 › EndoS_helical | 0.78 | 69.0 | 6.18e-01 | 98.0% | 82.9% |
| 3472977 | 605.1.1.0 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase | 0.74 | 65.0 | 5.07e-01 | 96.1% | 63.8% |
| 3928688 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.74 | 60.0 | 5.50e-01 | 88.2% | 78.5% |
| 3225544 | 4006.1.1.0 ↗ | alpha bundles › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain › Release factor (Pfam 00472) N-terminal alpha helical domain | 0.70 | 53.0 | 4.28e-01 | 82.4% | 88.0% |
| 5028850 | 633.12.1.1 ↗ | alpha bundles › Bromodomain-like › Ta0600-like › Ta0600-like › UPF0147 | 0.67 | 59.0 | 5.07e-01 | 100.0% | 75.9% |
| 3223989 | 385.1.1.0 ↗ | few secondary structure elements › Cystine-knot cytokines › Cystine-knot cytokines › Cystine-knot cytokines | 0.67 | 62.0 | 4.24e-01 | 100.0% | 50.3% |
| 5053481 | 633.12.1.1 ↗ | alpha bundles › Bromodomain-like › Ta0600-like › Ta0600-like › UPF0147 | 0.67 | 57.0 | 4.91e-01 | 100.0% | 74.1% |
| 3739924 | 6155.1.1.2 ↗ | alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop | 0.64 | 44.0 | 3.59e-01 | 74.5% | 36.2% |
| 4122775 | 632.3.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Phosphoprotein XD domain › Phosphoprotein XD domain | 0.60 | 45.0 | 4.73e-01 | 82.4% | 95.6% |
| 3257797 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.59 | 49.0 | 3.20e-01 | 94.1% | 43.8% |
| 3528955 | 103.4.1.6 ↗ | alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › EloA-BP1 | 0.51 | 38.0 | 3.69e-01 | 88.2% | 96.7% |
D2
high
residues 70-120
Domain cluster:
representative
CATH (19)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2ip4A02 | 3.30.1490.20 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain | 0.74 | 56.0 | 5.19e-01 | 82.4% | 97.0% |
| 3khyA01 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.69 | 57.0 | 3.97e-01 | 100.0% | 33.9% |
| 4h0pA01 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.66 | 54.0 | 3.76e-01 | 100.0% | 32.4% |
| 7fj9B01 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.65 | 53.0 | 3.92e-01 | 100.0% | 41.3% |
| 4h0oA01 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.64 | 53.0 | 3.78e-01 | 100.0% | 34.3% |
| 3hxlA01 | 3.30.1490.360 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › | 0.62 | 50.0 | 4.82e-01 | 100.0% | 85.9% |
| 5a0uA01 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.62 | 47.0 | 2.62e-01 | 86.3% | 50.8% |
| 3ciwA00 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.61 | 47.0 | 2.86e-01 | 86.3% | 17.3% |
| 2o1cA00 | 3.90.79.10 | Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase | 0.61 | 44.0 | 3.26e-01 | 80.4% | 89.1% |
| 1j5pA02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.59 | 48.0 | 4.01e-01 | 100.0% | 56.3% |
| 4g4sO01 | 3.40.50.12120 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › POC1 chaperone | 0.59 | 49.0 | 3.40e-01 | 100.0% | 27.5% |
| 1r9dA01 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.58 | 46.0 | 2.53e-01 | 86.3% | 31.6% |
| 3fzvA03 | 3.40.190.10 | Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II | 0.58 | 37.0 | 2.99e-01 | 100.0% | 31.1% |
| 5c00D00 | 3.40.30.10 | Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin | 0.57 | 42.0 | 2.92e-01 | 82.4% | 32.5% |
| 1z85A01 | 2.40.240.20 | Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 | 0.55 | 38.0 | 3.55e-01 | 100.0% | 56.7% |
| 2y8nA00 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.54 | 43.0 | 2.43e-01 | 98.0% | 15.0% |
| 4oaqA01 | 3.90.180.10 | Alpha Beta › Alpha-Beta Complex › Quinone Oxidoreductase; Chain A, domain 1 › Medium-chain alcohol dehydrogenases, catalytic domain | 0.53 | 41.0 | 2.78e-01 | 88.2% | 79.9% |
| 2rinA02 | 3.40.190.100 | Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Glycine betaine-binding periplasmic protein; domain 2 | 0.53 | 44.0 | 3.50e-01 | 96.1% | 89.1% |
| 1vraB02 | 3.10.20.340 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › ArgJ beta chain, C-terminal domain | 0.50 | 40.0 | 3.22e-01 | 100.0% | 80.5% |
ECOD (28)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5006670 | 2011.2.1.0 ↗ | a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like | 0.69 | 60.0 | 4.48e-01 | 100.0% | 43.8% |
| 5060661 | 2499.2.1.1 ↗ | a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1 | 0.69 | 58.0 | 3.78e-01 | 100.0% | 23.2% |
| 3164915 | 3019.1.1.11 ↗ | beta sandwiches › gp11/flagellar cap protein FliD insertion domain › gp11/flagellar cap protein FliD insertion domain › gp11/flagellar cap protein FliD insertion domain › Phage_sheath_1 | 0.67 | 57.0 | 3.80e-01 | 100.0% | 25.3% |
| 4944518 | 2011.2.1.4 ↗ | a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › HycI | 0.66 | 53.0 | 4.03e-01 | 100.0% | 38.6% |
| 5068385 | 2011.2.1.0 ↗ | a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like | 0.65 | 52.0 | 4.19e-01 | 100.0% | 46.7% |
| 4062505 | 71.1.1.0 ↗ | beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB | 0.64 | 52.0 | 3.37e-01 | 90.2% | 79.2% |
| 1180325 | 2499.2.1.2 ↗ | a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1,Gp18_domIII_N | 0.63 | 52.0 | 4.58e-01 | 100.0% | 62.8% |
| 5058071 | 2011.2.1.0 ↗ | a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like | 0.63 | 52.0 | 4.01e-01 | 100.0% | 43.8% |
| 3403535 | 2498.1.1.5 ↗ | mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M13,Peptidase_M13_N | 0.63 | 50.0 | 2.81e-01 | 90.2% | 30.1% |
| 3825543 | 2005.1.1.43 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CHX17_2nd | 0.62 | 52.0 | 3.66e-01 | 100.0% | 32.2% |
| 4944030 | 2011.2.1.0 ↗ | a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like | 0.60 | 48.0 | 3.54e-01 | 100.0% | 38.7% |
| 3774583 | 7516.1.1.88 ↗ | a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › TAGT | 0.59 | 46.0 | 2.80e-01 | 86.3% | 37.3% |
| 3589428 | 1.1.9.20 ↗ | beta barrels › cradle loop barrel › RIFT-related › PUA domain › PUA_4 | 0.59 | 44.0 | 3.98e-01 | 100.0% | 60.0% |
| 4013457 | 2007.1.3.0 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like | 0.58 | 48.0 | 3.40e-01 | 100.0% | 28.1% |
| 3338279 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.58 | 38.0 | 2.65e-01 | 100.0% | 17.5% |
| 3360084 | 2005.1.1.43 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CHX17_2nd | 0.56 | 46.0 | 3.32e-01 | 100.0% | 34.9% |
| 3810687 | 2005.1.1.43 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CHX17_2nd | 0.56 | 47.0 | 3.34e-01 | 100.0% | 34.1% |
| 3472697 | 2498.4.1.1 ↗ | mixed a+b and a/b › Zincin-like › HSP90 C-terminal domain (C-terminal part of Pfam 00183) › HSP90 C-terminal domain (C-terminal part of Pfam 00183) › HSP90 | 0.55 | 40.0 | 2.96e-01 | 82.4% | 77.4% |
| 3601558 | 2006.1.1.0 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like | 0.54 | 42.0 | 2.77e-01 | 86.3% | 50.2% |
| 3643262 | 2005.1.1.43 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CHX17_2nd | 0.54 | 42.0 | 3.11e-01 | 94.1% | 93.9% |
| 5034514 | 2484.1.1.94 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HypF_C_2 | 0.54 | 45.0 | 2.99e-01 | 100.0% | 27.9% |
| 3833696 | 2005.1.1.43 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CHX17_2nd | 0.53 | 43.0 | 3.09e-01 | 96.1% | 89.7% |
| 3953341 | 7579.1.1.17 ↗ | a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Peptidase_S15 | 0.53 | 46.0 | 2.75e-01 | 100.0% | 13.5% |
| 3829504 | 2005.1.1.43 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CHX17_2nd | 0.53 | 43.0 | 3.14e-01 | 96.1% | 93.8% |
| 3338121 | 2005.1.1.78 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CHX17_2nd, CHX17_C | 0.53 | 43.0 | 2.72e-01 | 96.1% | 46.8% |
| 5077110 | 304.131.1.0 ↗ | a+b two layers › Alpha-beta plaits › Phosphonoacetate hydrolase insertion domain › Phosphonoacetate hydrolase insertion domain | 0.52 | 41.0 | 3.49e-01 | 94.1% | 96.8% |
| 5022996 | 304.28.1.13 ↗ | a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › MMPL | 0.52 | 42.0 | 3.13e-01 | 88.2% | 68.0% |
| 388207 | 2006.1.1.44 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase, Hydrolase_like | 0.51 | 44.0 | 2.99e-01 | 100.0% | 44.2% |