From dbc1bb2e63b4694d0b4c9897cf8512dbd3a40e31 Mon Sep 17 00:00:00 2001
From: Stefan Bienert <stefan.bienert@unibas.ch>
Date: Mon, 11 Dec 2023 13:11:52 +0100
Subject: [PATCH] Add PDB70 for AlphaFold DBs
---
projects/novelfams/translate2modelcif.py | 8 +++++++-
1 file changed, 7 insertions(+), 1 deletion(-)
diff --git a/projects/novelfams/translate2modelcif.py b/projects/novelfams/translate2modelcif.py
index 8cfbf83..15650d4 100644
--- a/projects/novelfams/translate2modelcif.py
+++ b/projects/novelfams/translate2modelcif.py
@@ -526,6 +526,12 @@ def _get_sequence_dbs_alphafold(seq_dbs):
version="2018_08",
release_date=None,
),
+ "PDB70": modelcif.ReferenceDatabase(
+ "PDB70",
+ "http://wwwuser.gwdg.de/~compbiol/data/hhsuite/databases/"
+ + "hhsuite_dbs/old-releases/pdb70_from_mmcif_200401.tar.gz",
+ release_date=datetime.datetime(2020, 4, 1),
+ ),
}
return [db_dict[seq_db] for seq_db in seq_dbs]
@@ -546,7 +552,7 @@ def _get_modelcif_protocol_data(data_labels, target_entities, model, msa):
elif label == "alphafold_reference_dbs":
data.extend(
_get_sequence_dbs_alphafold(
- ["MGnify", "UniRef90", "BFD", "Uniclust30"]
+ ["MGnify", "UniRef90", "BFD", "Uniclust30", "PDB70"]
)
)
elif label == "msas":
--
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