Structural correspondence

BRPF3 and HDGFL3 core comparison

Model A · Blue · Moving

BRPF3 PWWP1

3PFS:A:UP:Q9ULD4:PWWP1 · 84 observed crop residues

Model B · Orange · Fixed

HDGFL3 PWWP1

6IIP:A:UP:Q9Y3E1:PWWP1 · 58 observed crop residues

Kabsch RMSD2.186999 ÅLeast-squares fit shown below

Aligned Cα atoms58Recorded residue correspondence

TM score · Model A0.57036Normalized by A's 84-residue crop

TM score · Model B0.78053Normalized by B's 58-residue crop

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Reading the local coordinate models and recorded Kabsch transformation…

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Blue: moving model A. Orange: fixed model B. Canonical UniProt numbering is retained.

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How to read this comparison

Download comparison JSON

Only annotation-core Cα atoms are shown. Thin guides connect consecutive canonical positions separated by at most 4.5 Å; they show the fold and are not all-atom covalent bonds. Sequence gaps remain visible.

The blue model uses the recorded Kabsch least-squares fit on US-align residue correspondence. The viewer does not use the separate TM-optimized US-align transformation.

Conservative display criterion (both TM scores ≥0.5 and both aligned fractions ≥0.8): 0. This criterion is a descriptive filter for short cores, not proof of equivalent pockets.

Fit statistics and normalization

US-align reported RMSD: 2.19 Å
Recomputed Kabsch RMSD: 2.186999 Å · transformation displayed above
RMSD under US-align TM transform: 2.206619 Å · separate, undisplayed transformation
Aligned fraction of Model A: 0.690476
Aligned fraction of Model B: 1.0
Aligned sequence identity: 0.241

The two TM scores each use the corresponding observed crop length as their denominator. The JSON download includes both coordinate models, the applied transformation and all residue correspondences.

Inspect the alignment

Residue correspondence

58 aligned pairs

Canonical UniProt positions in each native domain. The US-align marker describes alignment closeness, not chemical equivalence.

Show all 58 residue correspondences

BRPF3 position	Residue	HDGFL3 position	Residue	Alignment marker
1076	P	11	A	:
1077	L	12	G	:
1078	E	13	D	:
1079	L	14	L	:
1080	V	15	V	:
1081	W	16	F	:
1082	A	17	A	:
1083	K	18	K	:
1084	C	19	M	:
1085	R	20	K	:
1086	G	21	G	:
1087	Y	22	Y	:
1088	P	23	P	:
1089	S	24	H	:
1090	Y	25	W	:
1091	P	26	P	:
1092	A	27	A	:
1093	L	28	R	:
1094	I	29	I	:
1095	I	30	D	:
1096	D	31	E	:
1097	P	32	L	:
1099	M	33	P	:
1100	P	34	E	:
1101	R	35	G	.
1116	L	36	A	:
1119	L	37	V	:
1122	G	38	K	:
1123	E	39	P	:
1126	Q	40	P	:
1131	E	41	A	.
1132	K	42	N	:
1133	L	43	K	:
1134	F	44	Y	:
1135	L	45	P	:
1136	V	46	I	:
1137	L	47	F	:
1138	F	48	F	:
1139	F	49	F	:
1140	D	50	G	:
1142	K	51	T	:
1143	R	52	H	:
1144	T	53	E	:
1145	W	54	T	:
1146	Q	55	A	:
1147	W	56	F	:
1148	L	57	L	:
1149	P	58	G	:
1150	R	59	P	:
1151	D	60	K	:
1152	K	61	D	:
1153	V	62	L	:
1154	L	63	F	:
1155	P	64	P	:
1156	L	65	Y	:
1157	G	66	K	:
1158	V	67	E	:
1159	E	68	Y	.