Annotating tertiary motifs in RNA structures

1HR2 - P4-P6 mutant RNA ribozyme domain

Statistics of tertiary motifs

Annotated diagram (PDF, EPS)

Structure information of tertiary motifs

• Coaxial helix

ID	Strand 1		Strand 2
	Seq num	Chain	Seq num	Chain
1	102-105,107-114,116-121	A	200-217,220-223,227-235	A
2	126-134,136-149	A	154-164,178-180,189-196	A
3	165-166,254-255	A,B	169-170,174-175	A
4	165-167,254-255	B,A	169-170,173-175	B
5	102-114,116-121	B	200-215,220-223,227-235	B
6	126-129,132-134,136-149	B	154-164,180-182,189-191,193-196	B



• A-minor

ID	Residue 1			Residue 2			Residue 3
	Seq	Seq num	Chain	Seq	Seq num	Chain	Seq	Seq num	Chain
1	A	153	A	G	250	A	C	223	A
2	A	153	B	G	250	B	C	223	B
3	A	184	A	G	212	A	C	109	A
4	A	184	B	G	212	B	C	109	B
5	A	186	A	G	181	A	C	137	A
6	A	186	B	G	181	B	C	137	B
7	A	196	A	G	201	A	U	120	A
8	A	196	B	G	201	B	U	120	B



• Ribose zipper

ID	Strand 1			Strand 2
	Seq	Seq num	Chain	Seq	Seq num	Chain
1	5′-CG-3′	109,110	A	5′-AA-3′	183,184	A
2	5′-AA-3′	152,153	A	5′-CU-3′	223,224	A
3	5′-CG-3′	109,110	B	5′-AA-3′	183,184	B
4	5′-AA-3′	152,153	B	5′-CU-3′	223,224	B



• Pseudoknot

ID	Seq num	Chain
1	165-166,169-170,174-175,254-255	A,A,A,B
2	165-167,169-170,173-175,254-255	B,B,B,A



• Loop-loop receptor

ID	Loop		Receptor
	Seq num	Chain	Seq num	Chain
1	150-153	A	223-226,248-250	A
2	150-153	B	223-226,248-250	B