The wikipedia text that you see displayed on our web site is a download from Wikipedia. This means that the information we display is a copy of the information from the Wikipedia database. The button above ("Edit wikipedia entry") takes you to the edit page for the article directly within wikipedia. You should be aware you are not editing our local copy of this information. Any changes that you make to the Wikipedia article will not be displayed by our site until we next download the article from Wikipedia. We currently download new content on a nightly basis.

Before you edit for the first time

Wikipedia is a free, online encyclopedia. Although anyone can edit or contribute to an article, Wikipedia has some strong editing guidelines and policies, which promote the Wikipedia standard of style and etiquette. Your edits and contributions are more likely to be accepted (and remain) if they are in accordance with this policy.

You should take a few minutes to view the following pages:

• Five pillars
• Policies and quidelines
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• Editing help

Things you should know

How your contribution will be recorded

Anyone can edit a Wikipedia entry. You can do this either as a new user or you can register with Wikipedia and log on. When you click on the "Edit Wikipedia entry" button, your browser will direct you to the edit page for this entry in Wikipedia. If you are a registered user and currently logged in, your changes will be recorded under your Wikipedia user name. However, if you are not a registered user or are not logged on, your changes will be logged under your computer’s IP address. This has two main implications. Firstly, as a registered Wikipedia user your edits are more likely seen as valuable contribution (although all edits are open to community scrutiny regardless). Secondly, if you edit under an IP address you may be sharing this IP address with other users. If your IP address has previously been blocked (due to being flagged as a source of 'vandalism') your edits will also be blocked. You can find more information on this and creating a user account at Wikipedia.

If you have problems editing a particular page, contact us at rfam-help@ebi.ac.uk and we will try to help.

Information we would like to see added

We would value contributions that are referenced directly to the primary literature. Information on structure and function will be especially valuable.

Adding references is made much easier by this tool.

For a good example of what is possible in wikipedia, look at the Hammerhead Ribozyme entry.

Does Rfam agree with the content of the Wikipedia entry ?

Rfam has chosen to create Wikipedia entries for all of our RNA families and to open them up to community annotation. While the original Wikipedia article that we import was (in most cases) generated from Rfam annotations, the Wikipedia article you see now may bear little resemblance to that original text. The Wikipedia community does monitor edits to try to ensure that (a) the quality of article annotation increases, and (b) vandalism is very quickly dealt with. However, we would like to emphasise that Rfam does not curate the Wikipedia entries and we cannot guarantee the accuracy of the information on the Wikipedia page.

Contact us

The community annotation is a new facility of the Rfam web site. If you have problems editing or experience problems with these pages please contact us.

If you are interested in contributing to a wide range of articles relating to RNA, see the Wikiproject RNA page.

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You can either download the motif alignment or view it directly in your browser window. More...

Formatting options

You can view or download motif alignments in several formats. Check either the "download" button, to save the formatted alignment, or "view", to see it in your browser window, and click "Generate".

Alignment format:	Stockholm Pfam FASTA (gapped) FASTA (UNgapped)
Download/view:	Download View

There are 10 PDB entires which have been used to build the motif model.

The table of results below may be sorted by clicking on the column titles, or restored to the original order here.

Original order	PDB ID	PDB chain ID	PDB Residues
2	3BBO	A	74 - 108
2	1s72	0	70 - 104
2	2j01	A	74 - 108
2	1t0k	C	-
2	2gis	A	11 - 43
2	1rlg	C	1 - 25
2	2hvy	E	16 - 42
2	1u6b	B	-
2	3cc2	0	71 - 105
2	2wh1	A	230 - 289

There are 124 Rfam families which match this motif.

This section shows the families which have been annotated with this motif. Users should be aware that the motifs are structural constructs and do not necessarily conform to taxonomic boundaries in the way that Rfam families do. More...

Original order	Family Accession	Family Description	Number of Hits	Fraction of Hits	Sum of Bits	Image
3	RF00009	Nuclear RNase P	23	0.198	242.4
3	RF00010	Bacterial RNase P class A	84	0.183	1029.0
3	RF00017	Metazoan signal recognition particle RNA	35	0.385	367.0
3	RF00023	transfer-messenger RNA	42	0.088	546.1
3	RF00024	Vertebrate telomerase RNA	27	0.730	350.4
3	RF00045	Small nucleolar RNA SNORA73 family	27	0.409	293.2
3	RF00058	HgcF RNA (Pab35)	4	1.000	54.5
3	RF00060	HgcE RNA (Pab105)	3	0.750	53.8
3	RF00064	HgcG RNA (Pab40)	5	1.000	196.3
3	RF00065	Small nucleolar RNA snoR9	5	1.000	74.8
3	RF00079	OmrA-B family	13	0.565	134.9
3	RF00095	Pyrococcus C/D box small nucleolar RNA	4	0.160	39.1
3	RF00100	7SK RNA	4	0.089	40.5
3	RF00162	SAM riboswitch aptamer (S box leader)	272	0.595	3383.0
3	RF00168	Lysine riboswitch aptamer	16	0.340	198.4
3	RF00174	Cobalamin riboswitch aptamer	54	0.124	581.2
3	RF00177	Bacterial small subunit ribosomal RNA	83	0.838	1976.8
3	RF00210	Aphthovirus internal ribosome entry site (IRES)	65	0.707	716.7
3	RF00222	Bag-1 internal ribosome entry site (IRES)	5	0.333	90.6
3	RF00224	FGF-2 internal ribosome entry site (IRES)	2	0.333	38.3
3	RF00260	Hepatitis C virus (HCV) cis-acting replication element (CRE)	14	0.250	145.2
3	RF00261	L-myc internal ribosome entry site (IRES)	8	0.727	123.3
3	RF00286	Small Cajal body specific RNA 8	5	0.227	48.3
3	RF00373	Archaeal RNase P	16	0.229	254.8
3	RF00374	Gammaretrovirus core encapsidation signal	8	0.320	83.7
3	RF00408	Small nucleolar RNA SNORA1	3	0.103	31.4
3	RF00449	HIF-1 alpha IRES	2	0.118	23.4
3	RF00461	Vascular endothelial growth factor (VEGF) IRES A	4	0.571	39.0
3	RF00504	Glycine riboswitch aptamer	5	0.114	47.6
3	RF00512	Leucine operon leader	5	0.833	52.0
3	RF00525	Flavivirus DB element	9	0.080	99.8
3	RF00547	TrkB IRES	7	0.438	72.3
3	RF00549	c-sis internal ribosome entry site (IRES)	10	1.000	165.4
3	RF00564	Small Cajal body specific RNA 11	3	0.125	42.9
3	RF00598	Small nucleolar RNA SNORA76	5	0.227	50.7
3	RF00602	Small Cajal body specific RNA 21	3	0.125	33.3
3	RF00603	Small nucleolar RNA SNORD23	5	0.333	66.0
3	RF00604	Small nucleolar RNA SNORD88	12	0.343	122.6
3	RF00613	Small nucleolar RNA SNORD94	6	0.286	58.3
3	RF00625	Pseudomonas sRNA P11	3	0.200	28.2
3	RF00629	Pseudomonas sRNA P24	4	0.286	37.6
3	RF00630	Pseudomonas sRNA P26	4	0.148	41.9
3	RF00634	SAM (S-adenosyl methionine) riboswitch aptamer	6	0.150	68.1
3	RF00674	microRNA mir-187	4	0.200	36.4
3	RF00783	microRNA mir-484	6	0.400	54.9
3	RF00784	microRNA mir-486	4	0.250	40.2
3	RF01010	microRNA mir-632	4	0.500	41.9
3	RF01052	Arthropod 7SK RNA	6	0.316	77.9
3	RF01069	purD RNA motif	2	0.095	18.3
3	RF01071	Ornate Large Extremophilic RNA	4	0.200	42.5
3	RF01073	Gag/pol translational readthrough site	4	0.500	40.2
3	RF01219	Small nucleolar RNA snoR100	2	0.222	18.8
3	RF01233	Small nucleolar RNA U109	6	0.231	65.5
3	RF01234	Small nucleolar RNA SNORA47	2	0.100	19.1
3	RF01246	Small nucleolar RNA snR81	2	0.667	26.5
3	RF01268	Small Cajal body-specific RNA 2	11	0.550	139.7
3	RF01292	Small nucleolar RNA snoR2/U65	6	0.545	93.1
3	RF01412	BsrG	2	0.333	21.2
3	RF01497	ALIL pseudoknot	2	0.077	18.9
3	RF01502	Fungal signal recognition particle RNA	9	0.180	98.9
3	RF01643	Caenorhabditis sRNA ceN56	3	0.750	31.3
3	RF01702	Cyano-2 RNA	7	0.123	69.6
3	RF01722	Pyrobac-1 RNA	3	0.375	35.8
3	RF01746	mraW RNA	6	0.133	68.5
3	RF01752	psaA RNA	6	0.194	58.6
3	RF01848	ACEA small nucleolar RNA U3	6	0.214	56.6
3	RF01849	Alphaproteobacteria transfer-messenger RNA	10	0.090	105.6
3	RF01854	Bacterial large signal recognition particle RNA	16	0.174	168.1
3	RF01855	Plant signal recognition particle RNA	12	0.190	126.3
3	RF01856	Protozoan signal recognition particle RNA	6	0.333	73.5
3	RF01857	Archaeal signal recognition particle RNA	14	0.259	185.6
3	RF01867	caulobacter sRNA CC2171	5	0.385	53.0
3	RF01946	KCNQ1 overlapping transcript 1 conserved region 1	3	0.375	29.2
3	RF01959	Archaeal small subunit ribosomal RNA	66	0.767	1634.1
3	RF01960	Eukaryotic small subunit ribosomal RNA	37	0.411	698.8
3	RF02005	Group II catalytic intron D1-D4-6	30	0.172	321.6
3	RF02035	IMES-2 RNA motif	10	0.031	99.3
3	RF02042	HOXA transcript at the distal tip, conserved region 3	2	0.087	25.9
3	RF02118	FMR1 antisense RNA 1 conserved region 2	4	0.160	41.9
3	RF02122	FTX transcript, XIST regulator conserved region 5	2	0.143	22.2
3	RF02132	HOXB13 antisense RNA 1 conserved region 1	3	0.250	31.7
3	RF02141	HOXA11 antisense RNA 1 conserved region 5	2	0.071	21.5
3	RF02143	Hydatidiform mole associated and imprinted conserved region 1	2	0.125	21.0
3	RF02164	Pvt1 oncogene conserved region 1	5	0.294	54.2
3	RF02165	Pvt1 oncogene conserved region 2	2	0.118	21.2
3	RF02175	SMAD5 antisense RNA 1 conserved region 3	3	0.167	28.3
3	RF02196	TP53 target 1 conserved region 2	2	0.167	20.0
3	RF02198	TTC28 antisense RNA 1 conserved region 1	2	0.143	20.3
3	RF02205	WT1 antisense RNA conserved region 3	3	0.158	40.6
3	RF02336	Giardia snoRNA GlsR1	2	1.000	28.6
3	RF02347	Alphaproteobacterial sRNA ar45	11	0.306	102.5
3	RF02355	Bradyrhizobiaceae sRNA BjrC174	2	0.133	20.0
3	RF02357	RNaseP truncated form	7	0.778	73.2
3	RF02462	Ascomycota telomerase RNA	2	0.500	31.8
3	RF02471	Actinobacteria sRNA Ms_IGR-5	2	0.095	21.0
3	RF02540	Archaeal large subunit ribosomal RNA	91	1.000	6958.4
3	RF02541	Bacterial large subunit ribosomal RNA	99	0.971	3865.1
3	RF02542	Microsporidia small subunit ribosomal RNA	25	0.543	420.7
3	RF02543	Eukaryotic large subunit ribosomal RNA	46	0.523	914.8
3	RF02605	Streptomyces sRNA scr5239	2	0.333	23.1
3	RF02735	Saccharopolyspora sRNA 350	2	1.000	21.0
3	RF02743	Saccharopolyspora sRNA 389	2	1.000	23.4
3	RF02790	sodF sRNA	6	1.000	84.9
3	RF02795	Pab91 RNA	3	1.000	38.8
3	RF02796	Pab160 RNA	3	0.600	29.4
3	RF02840	Enterococcus sRNA 68 (Lacto-3 RNA)	11	0.141	122.0
3	RF02867	Burkholderia sRNA 11	2	0.500	20.3
3	RF02928	Actinomyces-1 RNA	119	0.504	1352.6
3	RF02930	aspS RNA	17	0.293	170.1
3	RF02935	che1 RNA	16	0.163	158.5
3	RF02981	FTHFS RNA	5	0.185	68.7
3	RF02984	DUF3800-X RNA	16	0.182	172.5
3	RF02992	hya RNA	3	0.111	32.0
3	RF03018	RT-15 RNA	9	0.141	87.1
3	RF03034	nrdJ RNA	8	0.110	85.9
3	RF03049	RAGATH-24 RNA	2	0.091	19.5
3	RF03059	raiA-hairpin RNA	9	0.113	92.5
3	RF03069	malK-I RNA	55	0.171	586.6
3	RF03079	MISL RNA	17	0.386	243.4
3	RF03082	dinG RNA	20	0.233	205.3
3	RF03089	cold-seep-1 RNA	5	0.333	55.1
3	RF03135	L4-Archaeoglobi ribosomal protein leades	51	0.135	565.3
3	RF03165	2dG-II purine riboswitch aptamer	5	0.167	60.4
3	RF03538	Tick-borne Flavivirus 3' UTR cis-acting replication element (CRE)	5	0.625	49.8