0  structures 0  species 0  sequences

Motif: CRC_binding (RM00004)

Description: CRC binding motif

Summary

Wikipedia annotation Edit Wikipedia article

The Rfam group coordinates the annotation of Rfam data in Wikipedia. This motif is described by a Wikipedia entry entitled Sequence motif but we are unable to retrieve the article content at this time. More...

Alignments

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:
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Family matches

There are 115 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 RF00011 Bacterial RNase P class B 12 0.105 109.2 Match Image
3 RF00023 transfer-messenger RNA 59 0.124 630.6 Match Image
3 RF00024 Vertebrate telomerase RNA 5 0.135 48.2 Match Image
3 RF00028 Group I catalytic intron 3 0.250 28.1 Match Image
3 RF00053 mir-7 microRNA precursor 10 0.175 98.8 Match Image
3 RF00082 SraG RNA 2 0.286 25.4 Match Image
3 RF00114 Ribosomal S15 leader 7 0.090 54.2 Match Image
3 RF00125 IS128 RNA 5 1.000 46.3 Match Image
3 RF00150 Small nucleolar RNA SNORD42 3 0.429 24.1 Match Image
3 RF00151 Small nucleolar RNA SNORD58 2 0.061 23.8 Match Image
3 RF00168 Lysine riboswitch 4 0.085 39.2 Match Image
3 RF00199 SL2 RNA 8 0.267 68.8 Match Image
3 RF00225 Tobamovirus internal ribosome entry site (IRES) 4 0.571 52.0 Match Image
3 RF00230 T-box leader 6 0.125 60.3 Match Image
3 RF00234 glmS glucosamine-6-phosphate activated ribozyme 2 0.111 21.0 Match Image
3 RF00278 Small nucleolar RNA SNORD50 3 0.115 28.3 Match Image
3 RF00303 Small nucleolar RNA snoR86 2 0.182 19.9 Match Image
3 RF00368 sroB RNA 5 0.312 50.4 Match Image
3 RF00623 Pseudomonas sRNA P1 3 0.214 23.4 Match Image
3 RF00659 microRNA mir-365 4 0.444 36.4 Match Image
3 RF00677 microRNA MIR168 2 0.200 19.0 Match Image
3 RF00736 microRNA mir-320 7 0.127 65.0 Match Image
3 RF00749 microRNA mir-208 11 0.647 173.1 Match Image
3 RF00782 microRNA MIR480 8 0.116 79.4 Match Image
3 RF00859 microRNA mir-234 2 0.500 20.8 Match Image
3 RF00937 microRNA mir-653 5 0.417 49.0 Match Image
3 RF01036 microRNA mir-567 3 0.333 23.1 Match Image
3 RF01050 Saccharomyces telomerase 9 0.692 87.3 Match Image
3 RF01181 Small nucleolar RNA snR77 15 1.000 211.3 Match Image
3 RF01203 Small nucleolar RNA snR47 10 0.588 150.2 Match Image
3 RF01214 Small nucleolar RNA snR51 3 0.176 25.6 Match Image
3 RF01241 Small nucleolar RNA SNORA81 18 0.643 189.9 Match Image
3 RF01265 Small nucleolar RNA snR42 2 0.400 23.0 Match Image
3 RF01272 Small nucleolar RNA snR86 2 0.400 21.4 Match Image
3 RF01296 Small nucleolar RNA U85 10 0.476 100.4 Match Image
3 RF01387 isrC Hfq binding RNA 3 0.188 29.6 Match Image
3 RF01402 STnc150 Hfq binding RNA 9 1.000 207.3 Match Image
3 RF01408 sraL Hfq binding RNA 2 0.333 18.4 Match Image
3 RF01410 BsrC 2 0.069 27.0 Match Image
3 RF01412 BsrG 2 0.333 27.6 Match Image
3 RF01419 Antisense RNA which regulates isiA expression 31 0.101 318.4 Match Image
3 RF01459 Listeria sRNA rliE 3 0.750 26.8 Match Image
3 RF01461 Listeria sRNA rli22 6 1.000 58.5 Match Image
3 RF01471 Listeria sRNA rliB 2 0.500 28.2 Match Image
3 RF01473 Listeria sRNA rli41 6 1.000 65.5 Match Image
3 RF01477 Listeria sRNA rli43 8 2.000 72.7 Match Image
3 RF01496 A. fumigatus sRNA Afu_182 2 0.105 16.6 Match Image
3 RF01577 Plasmodium RNase_P 6 3.000 56.4 Match Image
3 RF01592 small nucleolar RNA snoR17 3 0.600 32.7 Match Image
3 RF01603 small nucleolar RNA snoR29 4 1.333 30.4 Match Image
3 RF01606 small nucleolar RNA snoR31 3 1.000 27.9 Match Image
3 RF01675 Pseudomonas sRNA CrcZ 19 1.000 1922.9 Match Image
3 RF01692 Bacteroidete tryptophan peptide leader RNA 13 0.371 163.3 Match Image
3 RF01699 Clostridiales-1 RNA 31 0.160 259.3 Match Image
3 RF01742 lactis-plasmid RNA 14 1.000 228.8 Match Image
3 RF01766 cspA thermoregulator 2 0.133 17.5 Match Image
3 RF01808 MicX Vibrio cholerae sRNA 6 0.600 97.2 Match Image
3 RF01824 RNA of unknown function 20 5 0.833 77.2 Match Image
3 RF01825 RNA of unknown function 21 5 1.000 74.6 Match Image
3 RF01830 Salmonella enterica Typhi npcRNA 44 4 0.118 38.8 Match Image
3 RF01859 Phenylalanine leader peptide 38 0.535 517.0 Match Image
3 RF01865 Manganese dependent ribozyme in Vg1 mRNA 2 0.500 19.7 Match Image
3 RF01871 Metastasis associated lung adenocarcinoma transcript 1 5 0.294 61.1 Match Image
3 RF01873 Polled intersex syndrome regulated transcript 1 12 0.667 99.6 Match Image
3 RF01888 Embryonic ventral forebrain RNA 1 conserved region 2 14 0.737 144.3 Match Image
3 RF01931 Bithoraxoid conserved region 3 4 1.000 49.8 Match Image
3 RF01960 Eukaryotic small subunit ribosomal RNA 37 0.407 468.6 Match Image
3 RF01997 microRNA mir-969 4 0.500 31.4 Match Image
3 RF02029 sraA 6 0.300 44.8 Match Image
3 RF02032 Giant, ornate, lake- and Lactobacillales-derived (GOLLD) RNA 4 0.114 36.6 Match Image
3 RF02036 IMES-3 RNA motif 31 0.969 266.2 Match Image
3 RF02039 SPRY4-IT1 conserved region 2 10 0.417 100.3 Match Image
3 RF02042 HOXA transcript at the distal tip, conserved region 3 15 0.652 140.9 Match Image
3 RF02045 CDKN2B antisense RNA 1 convserved region 3 4 0.222 38.1 Match Image
3 RF02057 Salmonella enterica sRNA STnc40 6 0.353 66.9 Match Image
3 RF02075 Enterobacterial sRNA STnc230 6 0.545 73.4 Match Image
3 RF02076 Gammaproteobacterial sRNA STnc100 3 0.125 27.9 Match Image
3 RF02080 Salmonella enterica sRNA STnc170 5 1.667 54.7 Match Image
3 RF02081 Enterobacterial sRNA STnc550 6 0.545 57.9 Match Image
3 RF02101 Highly up-regulated in liver cancer conserved region 7 0.368 82.3 Match Image
3 RF02103 Deleted in lymphocytic leukemia 1 conserved region 1 3 0.115 29.2 Match Image
3 RF02112 DLG2 antisense RNA 1 conserved region 1 5 0.238 47.8 Match Image
3 RF02132 HOXB13 antisense RNA 1 conserved region 1 7 0.583 73.2 Match Image
3 RF02142 HOXA11 antisense RNA 1 conserved region 6 21 1.000 312.5 Match Image
3 RF02154 Non-protein coding RNA, upstream of F2R/PAR1 conserved region 1 5 0.556 42.2 Match Image
3 RF02157 NPPA antisense RNA 1 conserved region 2 12 0.750 123.6 Match Image
3 RF02158 NPPA antisense RNA 1 conserved region 3 4 0.167 36.5 Match Image
3 RF02159 Prostate androgen-regulated transcript 1 conserved region 1 6 0.273 62.7 Match Image
3 RF02160 Prostate androgen-regulated transcript 1 conserved region 2 8 0.276 88.6 Match Image
3 RF02170 Pvt1 oncogene conserved region 7 3 0.375 23.3 Match Image
3 RF02179 ST7 antisense RNA 1 conserved region 1 2 0.080 24.1 Match Image
3 RF02183 ST7 overlapping transcript 3 conserved region 1 3 0.107 25.7 Match Image
3 RF02187 ST7 overlapping transcript 4 conserved region 1 2 0.083 21.0 Match Image
3 RF02192 T-cell leukemia/lymphoma 6 conserved region 2 7 0.583 96.7 Match Image
3 RF02194 Bacterial antisense RNA HPnc0260 8 0.258 71.8 Match Image
3 RF02199 TTC28 antisense RNA 1 conserved region 2 3 0.375 25.0 Match Image
3 RF02212 ZFAT antisense RNA 1 conserved region 2 6 0.545 79.4 Match Image
3 RF02376 SR1 sRNA 2 0.333 26.2 Match Image
3 RF02415 Listeria sRNA rliG 3 0.600 38.6 Match Image
3 RF02422 Burkholderia sRNA Bp1_Cand738_SIPHT 9 0.429 75.6 Match Image
3 RF02446 Streptococcus sRNA SpR18 18 0.783 149.2 Match Image
3 RF02447 Streptococcus sRNA SpR19 2 0.087 21.0 Match Image
3 RF02449 Bacillus sRNA ncr1015 3 0.188 28.5 Match Image
3 RF02530 Ure2 internal ribosome entry site (IRES) 5 1.000 91.6 Match Image
3 RF02540 Archaeal large subunit ribosomal RNA 61 0.670 525.0 Match Image
3 RF02541 Bacterial large subunit ribosomal RNA 31 0.304 385.9 Match Image
3 RF02542 Microsporidia small subunit ribosomal RNA 8 0.174 86.0 Match Image
3 RF02543 Eukaryotic large subunit ribosomal RNA 25 0.284 401.9 Match Image
3 RF02544 Mitochondrion-encoded tmRNA 4 0.364 36.8 Match Image
3 RF02545 Trypanosomatid mitochondrial small subunit ribosomal RNA 4 1.000 79.9 Match Image
3 RF02575 Drosophila melanogaster stable intronic sequence RNA 1 3 1.000 28.8 Match Image
3 RF02737 Soft rot Enterobacteriaceae Rev 13 asRNA 3 1.000 53.5 Match Image
3 RF02738 Soft rot Enterobacteriaceae Rev 24 asRNA 2 0.500 22.7 Match Image
3 RF02742 Soft rot Enterobacteriaceae Rev 72 asRNA 3 1.000 34.7 Match Image
3 RF02745 Soft rot Enterobacteriaceae Rev 42 5'UTR 3 1.000 37.5 Match Image

References

This section shows the database cross-references that we have for this Rfam motif.

Literature references

  1. Sonnleitner E, Abdou L, Haas D Proc Natl Acad Sci U S A. 2009;106:21866-21871. Small RNA as global regulator of carbon catabolite repression in Pseudomonas aeruginosa. PUBMED:20080802

External database links

Curation and motif details

This section shows the detailed information about the Rfam motif. We're happy to receive updated or improved alignments for new or existing families. Submit your new alignment and we'll take a look.

Curation

Seed source Gardner PP
Structure source N/A
Type Specific Recognition Motif
Author Gardner PP
Alignment details
Alignment Number of
sequences
Average length Sequence
identity (%)
seed 85 14.79 73

Model information

Build commands
cmbuild -F CM SEED
cmcalibrate --mpi --seed 1 CM
Gathering cutoff 12.0
Covariance model Download the Infernal CM for the motif here