From 1c51f77369ff03151482597e9b8923f7e07daae1 Mon Sep 17 00:00:00 2001
From: Alexander Rose <alex.rose@rcsb.org>
Date: Fri, 1 Mar 2019 15:50:08 -0800
Subject: [PATCH] struct_conn tweaks
---
.../structure/mmcif/bonds/struct_conn.ts | 9 +++++----
1 file changed, 5 insertions(+), 4 deletions(-)
diff --git a/src/mol-model-formats/structure/mmcif/bonds/struct_conn.ts b/src/mol-model-formats/structure/mmcif/bonds/struct_conn.ts
index 21a5b9e57..91c819e5a 100644
--- a/src/mol-model-formats/structure/mmcif/bonds/struct_conn.ts
+++ b/src/mol-model-formats/structure/mmcif/bonds/struct_conn.ts
@@ -138,8 +138,6 @@ export namespace StructConn {
partners: { residueIndex: ResidueIndex, atomIndex: ElementIndex, symmetry: string }[]
}
- type StructConnType = typeof mmCIF_Schema.struct_conn.conn_type_id.T
-
export function attachFromMmCif(model: Model): boolean {
if (model.customProperties.has(Descriptor)) return true;
if (model.sourceData.kind !== 'mmCIF') return false;
@@ -213,7 +211,7 @@ export namespace StructConn {
const partners = _ps(i);
if (partners.length < 2) continue;
- const type = conn_type_id.value(i)! as StructConnType;
+ const type = conn_type_id.value(i) as typeof mmCIF_Schema.struct_conn_type.id.T; // TODO workaround for dictionary inconsistency
const orderType = (pdbx_value_order.value(i) || '').toLowerCase();
let flags = LinkType.Flag.None;
let order = 1;
@@ -234,7 +232,10 @@ export namespace StructConn {
flags = LinkType.Flag.Covalent;
break;
case 'disulf': flags = LinkType.Flag.Covalent | LinkType.Flag.Sulfide; break;
- case 'hydrog': flags = LinkType.Flag.Hydrogen; break;
+ case 'hydrog':
+ case 'mismat':
+ flags = LinkType.Flag.Hydrogen;
+ break;
case 'metalc': flags = LinkType.Flag.MetallicCoordination; break;
case 'saltbr': flags = LinkType.Flag.Ionic; break;
}
--
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