Annotating tertiary motifs in RNA structures

2NZ4 - GLMS ribozyme

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	2-11,12-17	F,Q	17-26,52-56	Q,Q
2	35-40,73-76,81-84	Q	60-69,138-141	Q
3	2-11,12-17	G,R	17-26,52-56	R,R
4	35-40,73-76,81-84	R	60-69,138-141	R
5	2-11,12-17	E,P	17-26,52-56	P,P
6	35-40,73-76,81-84	P	60-69,138-141	P
7	2-11,12-17	H,S	17-26,52-56	S,S
8	35-40,73-76,81-84	S	60-69,138-141	S



• A-minor

ID	Residue 1			Residue 2			Residue 3
	Seq	Seq num	Chain	Seq	Seq num	Chain	Seq	Seq num	Chain
1	A	112	Q	G	24	Q	C	10	F
2	A	112	P	G	24	P	C	10	E
3	A	112	R	G	24	R	C	10	G
4	A	112	S	G	24	S	C	10	H
5	A	87	R	G	68	R	C	82	R
6	A	87	Q	G	68	Q	C	82	Q
7	A	87	S	G	68	S	C	82	S
8	A	87	P	G	68	P	C	82	P
9	A	125	R	A	31	R	U	43	R
10	A	125	Q	A	31	Q	U	43	Q
11	A	125	S	A	31	S	U	43	S



• Ribose zipper

ID	Strand 1			Strand 2
	Seq	Seq num	Chain	Seq	Seq num	Chain
1	5′-CC-3′	82,83	S	5′-AA-3′	86,87	S
2	5′-CG-3′	29,30	S	5′-AA-3′	98,99	S
3	5′-CG-3′	44,45	S	5′-AA-3′	123,124	S
4	5′-AC-3′	81,82	S	5′-AG-3′	87,88	S
5	5′-CC-3′	82,83	R	5′-AA-3′	86,87	R
6	5′-CG-3′	29,30	R	5′-98,99-3′	AA	R
7	5′-CG-3′	44,45	R	5′-AA-3′	123,124	R
8	5′-AC-3′	81,82	R	5′-GA-3′	87,88	R
9	5′-CC-3′	82,83	Q	5′-AA-3′	86,87	Q
10	5′-CG-3′	29,30	Q	5′-AA-3′	98,99	Q
11	5′-CG-3′	44,45	Q	5′-AA-3′	123,124	Q
12	5′-AC-3′	81,82	Q	5′-AG-3′	87,88	Q
13	5′-CG-3′	29,30	P	5′-AA-3′	98,99	P
14	5′-CG-3′	44,45	P	5′-AA-3′	123,124	P
15	5′-AC-3′	81,82	P	5′-AG-3′	87,88	P
16	5′-AG-3′	111,112	Q	5′-CU-3′	10,11	F
17	5′-GA-3′	111,112	S	5′-CU-3′	10,11	H
18	5′-GA-3′	111,112	P	5′-CU-3′	10,11	E
19	5′-GA-3′	111,112	R	5′-CU-3′	10,11	G
20	5′-AA-3′	124,125	Q	5′-UC-3′	43,44	Q
21	5′-AA-3′	124,125	R	5′-UC-3′	43,44	R
22	5′-AA-3′	124,125	R	5′-UC-3′	43,44	R
23	5′-AA-3′	86,87	P	5′-CC-3′	82,83	P



• Pseudoknot

ID	Seq num	Chain
1	29-31,35-40,43-45,60-65	Q
2	66-69,73-76,81-84,138-141	Q
3	29-31,35-40,43-45,60-65	R
4	66-69,73-76,81-84,138-141	R
5	29-31,35-40,43-45,60-65	S
6	66-69,73-76,81-84,138-141	S
7	29-31,35-40,43-45,60-65	P
8	66-69,73-76,81-84,138-141	P