clean model card

README.md

@@ -1,79 +0,0 @@
----
-license: mit
-language:
-- en
-tags:
-- biology
-- protein structure
-- token classification
-widget:
-- text: "N-terminal acetylation (Nt-acetylation), carried out by N-terminal acetyltransferases (NATs), is a conserved and primary modification of nascent peptide chains. Naa60 (also named NatF) is a recently identified NAT found only in multicellular eukaryotes. This protein was shown to locate on the Golgi apparatus and mainly catalyze the Nt-acetylation of transmembrane proteins, and it also harbors lysine Nε-acetyltransferase (KAT) activity to catalyze the acetylation of lysine ε-amine. Here, we report the crystal structures of human Naa60 (hNaa60) in complex with Acetyl-Coenzyme A (Ac-CoA) or Coenzyme A (CoA). The hNaa60 protein contains an amphipathic helix following its GNAT domain that may contribute to Golgi localization of hNaa60, and the β7-β8 hairpin adopted different conformations in the hNaa60(1-242) and hNaa60(1-199) crystal structures. Remarkably, we found that the side-chain of Phe 34 can influence the position of the coenzyme, indicating a new regulatory mechanism involving enzyme, co-factor and substrates interactions. Moreover, structural comparison and biochemical studies indicated that Tyr 97 and His 138 are key residues for catalytic reaction and that a non-conserved β3-β4 long loop participates in the regulation of hNaa60 activity."
-model-index:
-- name: Bioformer8L-ProteinStructure-NER-v0.1
-  results:
-  - task:
-      name: NER
-      type: token-classification
-    metrics:
-    - name: NER Precision
-      type: precision
-      value: 0.88
-    - name: NER Recall
-      type: recall
-      value: 0.92
-    - name: NER F Score
-      type: f_score
-      value: 0.90
----
-
-
-| Feature | Description |
-| --- | --- |
-| **Name** | `Bioformer8L-ProteinStructure-NER-v0.1` |
-| **Default Pipeline** | `transformer`, `ner` |
-| **Components** | `transformer`, `ner` |
-| **Vectors** | 0 keys, 0 unique vectors (0 dimensions) |
-| **Sources** | n/a |
-| **License** | n/a |
-| **Author** | [Melanie Vollmar]() |
-
-### Label Scheme
-
-<details>
-
-<summary>View label scheme (20 labels for 1 components)</summary>
-
-| Component | Labels |
-| --- | --- |
-| **`ner`** | "bond_interaction", "chemical", "complex_assembly", "evidence", "experimental_method", "gene", "mutant", "oligomeric_state", "protein", "protein_state", "protein_type", "ptm", "residue_name", "residue_name_number", "residue_number", "residue_range", "site", "species", "structure_element", "taxonomy_domain" |
-
-</details>
-
-### Scores for entity types
-| entity type | precision | recall | F1 | sample number|
-| --- | --- | --- | --- | --- |
-| "bond_interaction" | 0.93 | 0.88 | 0.88 | 47 |
-| "chemical" | 0.87 | 0.91 | 0.89 | 839 |
-| "complex_assembly" | 0.88 | 0.91 | 0.90 | 340 |
-| "evidence" | 0.81 | 0.90 | 0.85 | 421 |
-| "experimental_method" | 0.81 | 0.82 | 0.81 | 406 |
-| "gene" | 0.71 | 0.87 | 0.78 | 54 |
-| "mutant" | 0.92 | 0.95 | 0.93 | 512 |
-| "oligomeric_state" | 0.93 | 0.99 | 0.96 | 143 |
-| "protein" | 0.94 | 0.97 | 0.96 | 1750 |
-| "protein_state" | 0.80 | 0.86 | 0.82 | 556 |
-| "protein_type" | 0.82 | 0.86 | 0.84 | 453 |
-| "ptm" | 0.71 | 0.69 | 0.70 | 54 |
-| "residue_name" | 0.87 | 0.92| 0.89| 92 |
-| "residue_name_number" | 0.93 | 0.99| 0.96 | 600 |
-| "residue_number" | 0.77 | 0.91 | 0.83 | 33 |
-| "residue_range" | 0.79 | 0.75 | 0.77 | 44 |
-| "site" | 0.86 | 0.88 | 0.87 | 282 |
-| "species" | 0.97 | 0.96 | 0.96 | 90 |
-| "structure_element" | 0.90 | 0.92 | 0.91 | 1032 |
-| "taxonomy_domain" | 0.98 | 0.95 | 0.96 | 84 |
-
-
-### Data and annotations
-
-The dataset can be found here: https://huggingface.co/datasets/mevol/protein_structure_NER_model_v2.1