CRW: A Story - Manuscript Table 5

Last modified on 14 July 2000.

Table 5. A-motif: AA sites in 16 S and 23 S rRNA ^a

Position ^b Percent AA ^c Sequence ^d Predicted Structure Motifs ^e Loop ^f Position Percent AA Sequence Predicted Structure Motifs

Hairpin Loops Multi-Stem Loops

16 S rRNA 16 S rRNA

162 99 AAC A, U GNRA 120 99 AAC U

622 99 AAC U 5 510 99 AAC

696 100 AAU A, U 6* 959 100 AAU A, GA

1170 97 AAA 5* 1005 51 AAU

1519 97 AAG A GNRA

23 S rRNA

23 S rRNA 182 56 AAC A

127 100 AAC A GNRA 218 61 AAA

390 72 AAA 7 223 94 AAU A, GA, U

752 92 AAA U 8* 300 99 AAC EL

1085 100 AAA U 3 429 98 AAA

1367 66 AAG GNRA 483 58 AAC A, U

1635 55 AAU A 5* 735 99 AAC

2311 84 AAU 7 793 61 AAA A, GA

821 100 AAU U

Internal Loops 1275 99 AAA

16 S rRNA 1302 68 AAG

374 100 AAU A 1610 100 AAC

449 52 AAG E 1786 100 AAA

676 100 AAU A, GA 1978 100 AAC A

782 100 AAC A, EL 2199 100 AAC A, GA, U

909 100 AAC A, E 2287 65 AAA A, GA

1447 94 AAC 2426 98 AAC U

2433 100 AAA U

23 S rRNA 2734 50 AAG

257 60 AAG E

346 89 AAA Bulge Loops

515 100 AAC U 16 S rRNA

677 82 AAC 51 87 AAC

901 60 AAC 72 58 AGC

911 100 AAC 642 51 AAC

1143 100 AAA

1322 71 AAG 23 S rRNA

1655 99 AAC A 1900 89 AAA

2015 90 AAU

2741 100 AAC A, GA, U

Position ^b	Percent AA ^c	Sequence ^d	Predicted Structure Motifs ^e	Loop ^f		Position	Percent AA	Sequence	Predicted Structure Motifs
Hairpin Loops		Multi-Stem Loops
16 S rRNA		16 S rRNA
162	99	AAC	A, U	GNRA		120	99	AAC	U
622	99	AAC	U	5		510	99	AAC
696	100	AAU	A, U	6*		959	100	AAU	A, GA
1170	97	AAA		5*		1005	51	AAU
1519	97	AAG	A	GNRA
		23 S rRNA
23 S rRNA		182	56	AAC	A
127	100	AAC	A	GNRA		218	61	AAA
390	72	AAA		7		223	94	AAU	A, GA, U
752	92	AAA	U	8*		300	99	AAC	EL
1085	100	AAA	U	3		429	98	AAA
1367	66	AAG		GNRA		483	58	AAC	A, U
1635	55	AAU	A	5*		735	99	AAC
2311	84	AAU		7		793	61	AAA	A, GA
		821	100	AAU	U
Internal Loops		1275	99	AAA
16 S rRNA		1302	68	AAG
374	100	AAU	A			1610	100	AAC
449	52	AAG	E			1786	100	AAA
676	100	AAU	A, GA			1978	100	AAC	A
782	100	AAC	A, EL			2199	100	AAC	A, GA, U
909	100	AAC	A, E			2287	65	AAA	A, GA
1447	94	AAC				2426	98	AAC	U
		2433	100	AAA	U
23 S rRNA		2734	50	AAG
257	60	AAG	E
346	89	AAA				Bulge Loops
515	100	AAC	U			16 S rRNA
677	82	AAC				51	87	AAC
901	60	AAC				72	58	AGC
911	100	AAC				642	51	AAC
1143	100	AAA
1322	71	AAG				23 S rRNA
1655	99	AAC	A			1900	89	AAA
2015	90	AAU
2741	100	AAC	A, GA, U

^a rRNA positions have an AA motif in more than 50% of the bacterial sequences and are indicated in orange on Figure 5. ^b The position number is the nucleotide at the 3’ loop end, at the loop-helix junction. ^c More detailed information is available at http://www.rna.icmb.utexas.edu/ANALYSIS/A-STORY/. ^d Most prevalent loop-helix sequence. ^e A, AA.AG@helix.ends; E, E loop; EL, E-like loop; GA, tandem G:A; U, U-turn (see discussion). ^f Hairpin loop size and special characteristics: GNRA, tetraloops (Woese et al. 1990) occur in more than 70% of the bacterial rRNA sequences; *, unusually stable G:A or U:U first mismatch.

CRW: A Story - Manuscript Table 5

Table 5. A-motif: AA sites in 16 S and 23 S rRNA a

Table 5. A-motif: AA sites in 16 S and 23 S rRNA ^a