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RifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00608
Bact-VirRifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00608
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 1-58
D2
medium
residues 59-125
Domain cluster:
rep: MK448710.1__QBX16110.1__Javan233_0030__00030__D34-99
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF09643.16 best | YopX | 52.8 | 5.70e-14 | 95.5% | 54.7% |
CATH (38)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2p84A02 | 2.30.30.290 | Mainly Beta › Roll › SH3 type barrels. › YopX-like domains | 0.91 | 83.0 | 8.09e-01 | 97.0% | 93.2% |
| 4p5nA00 | 2.30.30.1060 | Mainly Beta › Roll › SH3 type barrels. › | 0.75 | 60.0 | 5.79e-01 | 85.1% | 98.6% |
| 2akkA00 | 2.30.30.40 | Mainly Beta › Roll › SH3 type barrels. › SH3 Domains | 0.73 | 59.0 | 5.75e-01 | 86.6% | 98.6% |
| 4iupA02 | 2.30.30.140 | Mainly Beta › Roll › SH3 type barrels. › | 0.68 | 50.0 | 4.94e-01 | 77.6% | 98.6% |
| 4ld6A00 | 2.30.30.140 | Mainly Beta › Roll › SH3 type barrels. › | 0.68 | 59.0 | 4.91e-01 | 97.0% | 93.2% |
| 2dmoA00 | 2.30.30.40 | Mainly Beta › Roll › SH3 type barrels. › SH3 Domains | 0.66 | 46.0 | 4.60e-01 | 71.6% | 91.2% |
| 3isxA02 | 2.40.30.40 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 | 0.65 | 48.0 | 4.35e-01 | 77.6% | 100.0% |
| 6heiA01 | 3.90.70.10 | Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases | 0.64 | 48.0 | 3.10e-01 | 82.1% | 39.6% |
| 2gfoA00 | 3.90.70.10 | Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases | 0.61 | 45.0 | 2.90e-01 | 79.1% | 23.6% |
| 4msxA02 | 3.90.70.10 | Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases | 0.61 | 46.0 | 3.02e-01 | 82.1% | 37.4% |
| 1f39A00 | 2.10.109.10 | Mainly Beta › Ribbon › Umud Fragment, subunit A › Umud Fragment, subunit A | 0.61 | 48.0 | 4.25e-01 | 88.1% | 60.4% |
| 3ef2A02 | 3.30.460.70 | Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › | 0.61 | 47.0 | 3.83e-01 | 88.1% | 94.2% |
| 1qmyA00 | 3.90.70.10 | Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases | 0.60 | 47.0 | 3.65e-01 | 86.6% | 94.9% |
| 3vpbE00 | 2.20.28.160 | Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › | 0.60 | 41.0 | 4.49e-01 | 98.5% | 85.7% |
| 4r3dA03 | 2.60.120.1680 | Mainly Beta › Sandwich › Jelly Rolls › | 0.59 | 44.0 | 3.56e-01 | 82.1% | 41.6% |
| 2eayB02 | 2.30.30.100 | Mainly Beta › Roll › SH3 type barrels. › | 0.59 | 39.0 | 4.35e-01 | 70.1% | 100.0% |
| 4jpdA00 | 3.30.920.10 | Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY | 0.58 | 42.0 | 3.64e-01 | 77.6% | 82.6% |
| 1fx0B01 | 2.40.10.170 | Mainly Beta › Beta Barrel › Thrombin, subunit H › | 0.58 | 44.0 | 4.20e-01 | 80.6% | 100.0% |
| 2jiiA01 | 3.30.200.20 | Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 | 0.57 | 43.0 | 3.67e-01 | 80.6% | 83.6% |
| 1nqnA00 | 2.40.128.30 | Mainly Beta › Beta Barrel › Lipocalin › Avidin-like | 0.57 | 43.0 | 3.56e-01 | 80.6% | 99.2% |
| 6oqrA01 | 2.40.30.20 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › | 0.57 | 44.0 | 3.97e-01 | 82.1% | 76.7% |
| 4xtvB02 | 2.30.30.100 | Mainly Beta › Roll › SH3 type barrels. › | 0.57 | 38.0 | 4.27e-01 | 73.1% | 100.0% |
| 7asgA02 | 2.30.180.10 | Mainly Beta › Roll › FAS1 domain › FAS1 domain | 0.56 | 39.0 | 3.21e-01 | 70.1% | 68.1% |
| 3ntkA02 | 2.30.30.140 | Mainly Beta › Roll › SH3 type barrels. › | 0.56 | 46.0 | 4.37e-01 | 91.0% | 77.5% |
| 6uzjA00 | 2.30.30.40 | Mainly Beta › Roll › SH3 type barrels. › SH3 Domains | 0.55 | 46.0 | 4.80e-01 | 92.5% | 98.4% |
| 6eufA01 | 2.115.10.20 | Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 | 0.54 | 38.0 | 2.53e-01 | 74.6% | 54.9% |
| 2ktyA01 | 3.30.200.20 | Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 | 0.54 | 39.0 | 3.16e-01 | 77.6% | 79.1% |
| 2qtlA02 | 2.40.30.10 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors | 0.54 | 40.0 | 3.43e-01 | 79.1% | 74.8% |
| 2psbA00 | 3.50.90.10 | Alpha Beta › 3-Layer(bba) Sandwich › YerB-like fold › YerB-like | 0.53 | 39.0 | 2.64e-01 | 80.6% | 82.8% |
| 2v3mA00 | 2.40.10.230 | Mainly Beta › Beta Barrel › Thrombin, subunit H › Probable tRNA pseudouridine synthase domain | 0.53 | 38.0 | 3.47e-01 | 77.6% | 83.0% |
| 3agrA02 | 3.30.420.540 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › | 0.53 | 40.0 | 2.56e-01 | 83.6% | 53.6% |
| 3p42A03 | 3.10.560.10 | Alpha Beta › Roll › Outer membrane lipoprotein wza fold like › Outer membrane lipoprotein wza domain like | 0.53 | 38.0 | 3.75e-01 | 77.6% | 97.3% |
| 2j5uA02 | 2.40.10.340 | Mainly Beta › Beta Barrel › Thrombin, subunit H › Rod shape-determining protein MreC, domain 1 | 0.52 | 41.0 | 3.82e-01 | 86.6% | 67.9% |
| 4a7kA03 | 2.80.10.50 | Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › | 0.52 | 43.0 | 3.37e-01 | 95.5% | 96.2% |
| 1b7tA02 | 2.30.30.360 | Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal | 0.52 | 36.0 | 3.89e-01 | 74.6% | 94.2% |
| 1at0A00 | 2.170.16.10 | Mainly Beta › Beta Complex › Endonuclease - Pi-scei; Chain A, domain 1 › Hedgehog/Intein (Hint) domain | 0.52 | 40.0 | 3.26e-01 | 89.6% | 61.4% |
| 4hs5A00 | 3.30.920.10 | Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY | 0.52 | 37.0 | 3.34e-01 | 79.1% | 80.0% |
| 3l48A01 | 2.60.40.2070 | Mainly Beta › Sandwich › Immunoglobulin-like › PapC, C-terminal domain | 0.50 | 36.0 | 3.47e-01 | 89.6% | 65.8% |
ECOD (63)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3590122 | 4999.1.1.1 ↗ | beta barrels › YopX, C-terminal domain-like › YopX, C-terminal domain-like › YopX, C-terminal domain-like › YopX | 0.93 | 72.0 | 7.32e-01 | 80.6% | 98.5% |
| 4012945 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.75 | 53.0 | 5.14e-01 | 74.6% | 100.0% |
| 4665407 | 4.1.1.175 ↗ | beta barrels › SH3 › SH3 › SH3 › MSSS | 0.72 | 51.0 | 5.86e-01 | 79.1% | 100.0% |
| 4680376 | 4.1.1.175 ↗ | beta barrels › SH3 › SH3 › SH3 › MSSS | 0.72 | 56.0 | 6.08e-01 | 85.1% | 100.0% |
| 3750163 | 4.1.1.1 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_1 | 0.72 | 51.0 | 5.09e-01 | 74.6% | 90.0% |
| 4611708 | 4.1.1.297 ↗ | beta barrels › SH3 › SH3 › SH3 › YajC | 0.72 | 51.0 | 5.38e-01 | 74.6% | 88.3% |
| 4516378 | 4.1.1.175 ↗ | beta barrels › SH3 › SH3 › SH3 › MSSS | 0.69 | 53.0 | 5.22e-01 | 80.6% | 82.9% |
| 4165723 | 4.1.1.297 ↗ | beta barrels › SH3 › SH3 › SH3 › YajC | 0.69 | 57.0 | 5.83e-01 | 89.6% | 95.4% |
| 3284595 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.69 | 50.0 | 5.30e-01 | 76.1% | 100.0% |
| 4009688 | 4.1.1.297 ↗ | beta barrels › SH3 › SH3 › SH3 › YajC | 0.69 | 54.0 | 5.55e-01 | 85.1% | 89.2% |
| 3899829 | 4.1.1.92 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_9 | 0.68 | 46.0 | 4.47e-01 | 70.1% | 81.3% |
| 3278801 | 4.1.1.297 ↗ | beta barrels › SH3 › SH3 › SH3 › YajC | 0.68 | 54.0 | 5.50e-01 | 85.1% | 87.7% |
| 5013892 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.68 | 53.0 | 5.77e-01 | 82.1% | 100.0% |
| 4024913 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.67 | 53.0 | 5.39e-01 | 95.5% | 87.7% |
| 3896701 | 4.1.1.1 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_1 | 0.67 | 49.0 | 4.45e-01 | 77.6% | 71.1% |
| 4627221 | 4.1.1.175 ↗ | beta barrels › SH3 › SH3 › SH3 › MSSS | 0.67 | 52.0 | 5.29e-01 | 82.1% | 86.2% |
| 4662947 | 4.1.1.297 ↗ | beta barrels › SH3 › SH3 › SH3 › YajC | 0.66 | 52.0 | 5.33e-01 | 85.1% | 89.2% |
| 3269758 | 4.1.1.92 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_9 | 0.66 | 46.0 | 4.37e-01 | 73.1% | 78.8% |
| 4133335 | 4.1.1.1 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_1 | 0.65 | 46.0 | 4.82e-01 | 73.1% | 98.3% |
| 3989139 | 4.1.1.297 ↗ | beta barrels › SH3 › SH3 › SH3 › YajC | 0.64 | 52.0 | 5.28e-01 | 88.1% | 89.2% |
| 4019925 | 4.1.1.1 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_1 | 0.64 | 49.0 | 4.83e-01 | 80.6% | 94.3% |
| 3634374 | 1.1.7.17 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N | 0.64 | 45.0 | 5.11e-01 | 73.1% | 100.0% |
| 3269589 | 4.1.1.92 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_9 | 0.64 | 44.0 | 4.42e-01 | 73.1% | 85.7% |
| 3263489 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.63 | 45.0 | 4.56e-01 | 73.1% | 95.4% |
| 3696092 | 4.1.1.1 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_1 | 0.63 | 49.0 | 4.84e-01 | 82.1% | 98.6% |
| 3569639 | 4.1.1.1 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_1 | 0.63 | 47.0 | 4.38e-01 | 77.6% | 81.2% |
| 162441 | 4.1.1.54 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_2 | 0.63 | 44.0 | 4.36e-01 | 73.1% | 84.5% |
| 3543889 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.63 | 44.0 | 2.65e-01 | 73.1% | 15.0% |
| 4275625 | 375.1.1.47 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › BshC | 0.61 | 42.0 | 4.41e-01 | 73.1% | 88.3% |
| 4336238 | 241.2.1.1 ↗ | a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay | 0.61 | 43.0 | 3.87e-01 | 77.6% | 90.0% |
| 3970136 | 241.2.1.0 ↗ | a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like | 0.60 | 43.0 | 3.83e-01 | 79.1% | 84.8% |
| 4269649 | 241.2.1.1 ↗ | a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay | 0.59 | 43.0 | 3.71e-01 | 77.6% | 80.9% |
| 4128405 | 1.1.7.17 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N | 0.59 | 48.0 | 4.77e-01 | 86.6% | 100.0% |
| 1186020 | 4.11.1.1 ↗ | beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S24 | 0.59 | 47.0 | 3.73e-01 | 88.1% | 79.6% |
| 4163711 | 1.1.7.17 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N | 0.59 | 43.0 | 4.02e-01 | 77.6% | 77.6% |
| 4854958 | 1.1.7.17 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N | 0.59 | 49.0 | 4.30e-01 | 89.6% | 75.0% |
| 3269927 | 9.4.1.0 ↗ | beta barrels › Lipocalins/Streptavidin › D-aminopeptidase, middle and C-terminal domains › D-aminopeptidase, middle and C-terminal domains | 0.58 | 42.0 | 3.66e-01 | 77.6% | 95.4% |
| 4139778 | 4.1.1.97 ↗ | beta barrels › SH3 › SH3 › SH3 › DUF150_C | 0.58 | 45.0 | 4.44e-01 | 86.6% | 91.8% |
| 4273414 | 1.1.7.17 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N | 0.58 | 45.0 | 4.43e-01 | 80.6% | 97.1% |
| 4218376 | 241.2.1.1 ↗ | a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay | 0.58 | 42.0 | 3.76e-01 | 79.1% | 86.0% |
| 4526316 | 1.1.7.17 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N | 0.58 | 47.0 | 4.18e-01 | 88.1% | 73.7% |
| 4111597 | 1.1.7.17 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N | 0.58 | 42.0 | 4.29e-01 | 82.1% | 78.5% |
| 3973553 | 1.1.7.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C | 0.57 | 44.0 | 4.41e-01 | 82.1% | 98.6% |
| 4087314 | 1.1.7.17 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N | 0.57 | 43.0 | 4.05e-01 | 79.1% | 83.7% |
| 4313104 | 241.2.1.1 ↗ | a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay | 0.57 | 41.0 | 3.66e-01 | 79.1% | 79.8% |
| 3906249 | 4.1.1.54 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_2 | 0.57 | 46.0 | 4.41e-01 | 86.6% | 86.7% |
| 3965099 | 241.2.1.1 ↗ | a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay | 0.57 | 41.0 | 3.64e-01 | 79.1% | 82.9% |
| 3204011 | 1.1.7.17 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N | 0.57 | 45.0 | 4.06e-01 | 85.1% | 81.1% |
| 3969204 | 1.1.7.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C | 0.56 | 42.0 | 4.07e-01 | 79.1% | 96.0% |
| 3164374 | 4.1.1.28 ↗ | beta barrels › SH3 › SH3 › SH3 › BPL_C | 0.56 | 39.0 | 4.30e-01 | 83.6% | 100.0% |
| 4952261 | 708.1.2.2 ↗ | beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › SelR | 0.56 | 42.0 | 3.66e-01 | 83.6% | 82.7% |
| 3505640 | 375.1.1.19 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › RNA_POL_M_15KD | 0.55 | 37.0 | 3.85e-01 | 79.1% | 76.7% |
| 3702861 | 375.1.1.19 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › RNA_POL_M_15KD | 0.55 | 37.0 | 4.01e-01 | 76.1% | 85.5% |
| 3596497 | 1.1.7.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C | 0.54 | 41.0 | 3.28e-01 | 80.6% | 81.5% |
| 3487686 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.53 | 46.0 | 4.21e-01 | 92.5% | 88.2% |
| 3593875 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.53 | 38.0 | 4.09e-01 | 79.1% | 90.9% |
| 3723092 | 220.1.1.36 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_12 | 0.53 | 41.0 | 3.46e-01 | 86.6% | 85.0% |
| 3913667 | 376.1.1.22 ↗ | few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-C3HC4_3 | 0.53 | 37.0 | 2.95e-01 | 73.1% | 37.7% |
| 4515677 | 241.2.1.1 ↗ | a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay | 0.52 | 38.0 | 3.31e-01 | 80.6% | 77.2% |
| 4503485 | 219.1.1.111 ↗ | a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Transglut_core, Rad4 | 0.52 | 37.0 | 2.46e-01 | 77.6% | 61.5% |
| 223484 | 241.2.1.1 ↗ | a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay | 0.52 | 37.0 | 3.34e-01 | 79.1% | 80.0% |
| 4383642 | 11.1.4.25 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › PapC_C | 0.51 | 36.0 | 3.54e-01 | 89.6% | 68.5% |
| 3979418 | 11.1.4.25 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › PapC_C | 0.51 | 35.0 | 3.27e-01 | 85.1% | 55.7% |