fix antibody scaffolds

2026-06-04 11:54:23 +08:00 · 2025-11-20 14:23:03 -05:00
parent 527762d6c8
commit a941e4eb3d
14 changed files with 84 additions and 0 deletions
--- a/example/antibody_scaffolds/adalimumab.6cr1.yaml
+++ b/example/antibody_scaffolds/adalimumab.6cr1.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 24..34,50..56,89..97

 structure_groups:
+  - group:
+      id: B
+      visibility: 2
+  - group:
+      id: A
+      visibility: 2
  - group:
      id: B
      res_index: 26..32,52..57,99..110
--- a/example/antibody_scaffolds/belimumab.5y9k.yaml
+++ b/example/antibody_scaffolds/belimumab.5y9k.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 23..33,49..55,88..98

 structure_groups:
+  - group:
+      id: B
+      visibility: 2
+  - group:
+      id: A
+      visibility: 2
  - group:
      id: B
      res_index: 26..32,52..57,99..112
--- a/example/antibody_scaffolds/crenezumab.5vzy.yaml
+++ b/example/antibody_scaffolds/crenezumab.5vzy.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 24..39,55..61,94..102

 structure_groups:
+  - group:
+      id: A
+      visibility: 2
+  - group:
+      id: B
+      visibility: 2
  - group:
      id: A
      res_index: 26..32,52..57,99..101
--- a/example/antibody_scaffolds/dupilumab.6wgb.yaml
+++ b/example/antibody_scaffolds/dupilumab.6wgb.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 24..39,55..61,94..102

 structure_groups:
+  - group:
+      id: A
+      visibility: 2
+  - group:
+      id: B
+      visibility: 2
  - group:
      id: A
      res_index: 26..32,52..57,99..114
--- a/example/antibody_scaffolds/golimumab.5yoy.yaml
+++ b/example/antibody_scaffolds/golimumab.5yoy.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 27..37,53..59,92..101

 structure_groups:
+  - group:
+      id: H
+      visibility: 2
+  - group:
+      id: E
+      visibility: 2
  - group:
      id: H
      res_index: 29..35,55..60,102..118
--- a/example/antibody_scaffolds/guselkumab.4m6m.yaml
+++ b/example/antibody_scaffolds/guselkumab.4m6m.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 23..36,52..58,91..101

 structure_groups:
+  - group:
+      id: B
+      visibility: 2
+  - group:
+      id: A
+      visibility: 2
  - group:
      id: B
      res_index: 26..32,52..57,99..106
--- a/example/antibody_scaffolds/mab1.3h42.yaml
+++ b/example/antibody_scaffolds/mab1.3h42.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 23..36,52..58,91..101

 structure_groups:
+  - group:
+      id: D
+      visibility: 2
+  - group:
+      id: C
+      visibility: 2
  - group:
      id: D
      res_index: 26..32,52..57,99..112
--- a/example/antibody_scaffolds/necitumumab.6b3s.yaml
+++ b/example/antibody_scaffolds/necitumumab.6b3s.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 24..34,50..56,89..97

 structure_groups:
+  - group:
+      id: B
+      visibility: 2
+  - group:
+      id: C
+      visibility: 2
  - group:
      id: B
      res_index: 26..34,54..58,100..110
--- a/example/antibody_scaffolds/nirsevimab.5udc.yaml
+++ b/example/antibody_scaffolds/nirsevimab.5udc.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 24..34,50..56,89..97

 structure_groups:
+  - group:
+      id: A
+      visibility: 2
+  - group:
+      id: B
+      visibility: 2
  - group:
      id: A
      res_index: 26..32,52..57,99..115
--- a/example/antibody_scaffolds/sarilumab.8iow.yaml
+++ b/example/antibody_scaffolds/sarilumab.8iow.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 24..34,50..56,89..97

 structure_groups:
+  - group:
+      id: D
+      visibility: 2
+  - group:
+      id: C
+      visibility: 2
  - group:
      id: D
      res_index: 26..32,52..57,99..105
--- a/example/antibody_scaffolds/secukinumab.6wio.yaml
+++ b/example/antibody_scaffolds/secukinumab.6wio.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 24..35,51..57,90..98

 structure_groups:
+  - group:
+      id: A
+      visibility: 2
+  - group:
+      id: B
+      visibility: 2
  - group:
      id: A
      res_index: 26..32,52..57,99..116
--- a/example/antibody_scaffolds/tezepelumab.5j13.yaml
+++ b/example/antibody_scaffolds/tezepelumab.5j13.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 54..64,80..86,119..129

 structure_groups:
+  - group:
+      id: C
+      visibility: 2
+  - group:
+      id: B
+      visibility: 2
  - group:
      id: C
      res_index: 57..63,83..88,130..142
--- a/example/antibody_scaffolds/tralokinumab.5l6y.yaml
+++ b/example/antibody_scaffolds/tralokinumab.5l6y.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 23..33,49..55,88..98

 structure_groups:
+  - group:
+      id: B
+      visibility: 2
+  - group:
+      id: C
+      visibility: 2
  - group:
      id: B
      res_index: 26..32,52..57,99..111
--- a/example/antibody_scaffolds/ustekinumab.3hmw.yaml
+++ b/example/antibody_scaffolds/ustekinumab.3hmw.yaml
@@ -26,6 +26,12 @@ design:
      res_index: 24..34,50..56,89..97

 structure_groups:
+  - group:
+      id: B
+      visibility: 2
+  - group:
+      id: A
+      visibility: 2
  - group:
      id: B
      res_index: 26..32,52..57,99..108