# t_seeds.tsv.gz

Preliminary. For the CATH v4.5.0 prerelease.

## What this data represents

TED v6 domains for which Contrasted does not assign a superfamily and Foldseek assigns a topology (T). The Foldseek hit has a superfamily code. `topology` is the first three fields of that code. `veto_h` is the full code. It is not an H assignment.

Gzipped tab-separated text. Header on line 1. One domain per row.

## How the data was generated

Each TED v6 domain was scored with Contrasted 1-NN and with a Foldseek rank-1 3Di+AA hit.

Contrasted does not assign an H on these rows. The H gate is 1-cosine <= 0.25, min(Lq, Lt)/max(Lq, Lt) >= 0.60, and a superfamily label on the neighbour.

Foldseek hits in the input already pass E <= 0.05, min(qTM, tTM) >= 0.50, and min(qcov, tcov) >= 0.60. A T assignment is a hit with a superfamily label and E > 0.01. Hits with E <= 0.01 are H assignments and are not in this file.

## Columns

| Column | Meaning |
|---|---|
| query_id | TED v6 domain |
| veto_h | Superfamily code of the Foldseek hit. Not an H assignment |
| topology | First three CATH fields of `veto_h` |
| foldseek_neighbor | Foldseek rank-1 hit |
| evalue | Foldseek E-value |
| qtmscore | Foldseek query TM |
| ttmscore | Foldseek target TM |
| qcov | Foldseek query coverage |
| tcov | Foldseek target coverage |
| contrasted_neighbor | Contrasted rank-1 neighbour |
| distance | Contrasted 1-cosine |
| length_ratio | min(Lq, Lt) / max(Lq, Lt) |

## Shape

2,358,840 data rows.