Browse Rfam families with structures

Rfam includes 143 families with three-dimensional structures. The table may be sorted by clicking on the column titles, or restored to the original order here. Please note that sorting large tables can be slow. Go back to the browse index.

0 - 9 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z
Original order ID Accession Type Seed Full Number of structures Description
0 5S_rRNA RF00001 Gene; rRNA; 712 139,932 1775 5S ribosomal RNA
1 5_8S_rRNA RF00002 Gene; rRNA; 61 4,879 1186 5.8S ribosomal RNA
2 6S RF00013 Gene; 150 3,636 1 6S / SsrS RNA
3 7SK RF00100 Gene; 45 15,232 13 7SK RNA
4 ACEA_U3 RF01848 Gene; snRNA; snoRNA; CD-box; 28 123 11 ACEA small nucleolar RNA U3
5 AdoCbl-variant RF01689 Cis-reg; riboswitch; 146 278 4 AdoCbl variant RNA
6 Archaea_SRP RF01857 Gene; 53 291 1 Archaeal signal recognition particle RNA
7 Bacteria_large_SRP RF01854 Gene; 92 1,051 5 Bacterial large signal recognition particle RNA
8 Bacteria_small_SRP RF00169 Gene; 261 4,458 21 Bacterial small signal recognition particle RNA
9 c-di-GMP-I RF01051 Cis-reg; 155 4,058 17 Cyclic di-GMP-I riboswitch
10 c-di-GMP-I-GGC RF03167 Cis-reg; 38 805 6 c-di-GMP-I-GGC riboswitch
11 c-di-GMP-II RF01786 Cis-reg; riboswitch; 54 532 2 Cyclic di-GMP-II riboswitch
12 Cobalamin RF00174 Cis-reg; riboswitch; 433 13,589 14 Cobalamin riboswitch
13 Corona_FSE RF00507 Cis-reg; frameshift_element; 50 156 6 Coronavirus frameshifting stimulation element
14 CPEB3_ribozyme RF00622 Gene; ribozyme; 12 98 3 Mammalian CPEB3 ribozyme
15 CRISPR-DR16 RF01330 Gene; CRISPR; 6 589 2 CRISPR RNA direct repeat element
16 CRISPR-DR34 RF01344 Gene; CRISPR; 5 377 14 CRISPR RNA direct repeat element
17 CRISPR-DR4 RF01317 Gene; CRISPR; 33 10,236 1 CRISPR RNA direct repeat element
18 DENV_SLA RF02340 Cis-reg; 11 83 5 Dengue virus SLA
19 DnaX RF00382 Cis-reg; frameshift_element; 5 76 2 DnaX ribosomal frameshifting element
20 Entero_5_CRE RF00386 Cis-reg; 160 2 3 Enterovirus 5' cloverleaf cis-acting replication element
21 Flavivirus_DB RF00525 Cis-reg; 111 5 2 Flavivirus DB element
22 Flavivirus_SLIV RF01415 Cis-reg; 20 97 1 Flavivirus 3'UTR stem loop IV
23 Flavi_CRE RF00185 Cis-reg; 84 4 2 Flavivirus 3' UTR cis-acting replication element (CRE)
24 Fluoride RF01734 Cis-reg; riboswitch; 289 2,093 6 Fluoride riboswitch (crcB)
25 FMN RF00050 Cis-reg; riboswitch; 146 4,077 8 FMN riboswitch (RFN element)
26 folE RF02977 Cis-reg; 45 39 5 folE RNA
27 Fungi_U3 RF01846 Gene; snRNA; snoRNA; CD-box; 66 577 32 Fungal small nucleolar RNA U3
28 Gammaretro_CES RF00374 Cis-reg; 22 143 4 Gammaretrovirus core encapsidation signal
29 GIR1 RF01807 Gene; ribozyme; 12 0 1 GIR1 branching ribozyme
30 glmS RF00234 Cis-reg; riboswitch; 18 925 39 glmS glucosamine-6-phosphate activated ribozyme
31 GlmY_tke1 RF00128 Gene; sRNA; 17 113 2 Glm Y RNA activator of glmS mRNA
32 GlmZ_SraJ RF00083 Gene; sRNA; 21 100 2 GlmZ RNA activator of glmS mRNA
33 Glutamine-II RF01704 Cis-reg; riboswitch; 628 419 2 Glutamine-II riboswitch (downstream peptide RNA)
34 Glycine RF00504 Cis-reg; riboswitch; 44 4,556 23 Glycine riboswitch
35 GP_knot1 RF01073 Cis-reg; 8 757 1 Gag/pol translational readthrough site
36 group-II-D1D4-1 RF01998 Intron; 237 2,034 31 Group II catalytic intron D1-D4-1
37 group-II-D1D4-3 RF02001 Intron; 406 3,139 35 Group II catalytic intron D1-D4-3
38 group-II-D1D4-7 RF02012 Intron; 244 804 6 Group II catalytic intron D1-D4-7
39 Hairpin-meta1 RF04190 Gene; ribozyme; 84 2 8 Hairpin ribozyme 1 from viruses-like metatranscriptomes
40 Hammerhead_3 RF00008 Gene; ribozyme; 85 240 2 Hammerhead ribozyme (type III)
41 Hatchet RF02678 Gene; ribozyme; 155 2 3 Hatchet ribozyme
42 HBV_epsilon RF01047 Cis-reg; 33 3 1 HBV RNA encapsidation signal epsilon
43 HCV_ARF_SL RF00620 Cis-reg; 57 2 3 Hepatitis C alternative reading frame stem-loop
44 Histone3 RF00032 Cis-reg; 46 30,457 12 Histone 3' UTR stem-loop
45 HIV-1_DIS RF00175 Cis-reg; 70 17 10 Human immunodeficiency virus type 1 dimerisation initiation site
46 HIV-1_SD RF01380 Cis-reg; 22 19 3 Human immunodeficiency virus type 1 major splice donor
47 HIV-1_SL3 RF01381 Cis-reg; 19 14 1 HIV-1 stem-loop 3 Psi packaging signal
48 HIV_FE RF00480 Cis-reg; frameshift_element; 145 16 5 HIV Ribosomal frameshift signal
49 HIV_PBS RF00375 Cis-reg; 130 11 6 HIV primer binding site (PBS)
50 Intron_gpI RF00028 Intron; 12 2,599 40 Group I catalytic intron
51 Intron_gpII RF00029 Intron; 92 15,637 19 Group II catalytic intron
52 IRES_Cripavirus RF00458 Cis-reg; IRES; 7 10 15 Cripavirus internal ribosome entry site (IRES)
53 IRES_HCV RF00061 Cis-reg; IRES; 51 4 25 Hepatitis C virus internal ribosome entry site
54 IRES_HepA RF00228 Cis-reg; IRES; 23 1 2 Hepatitis A virus internal ribosome entry site (IRES)
55 IRES_Pesti RF00209 Cis-reg; IRES; 25 1 1 Pestivirus internal ribosome entry site (IRES)
56 IRES_Picorna_2 RF00210 Cis-reg; IRES; 92 10 3 Aphthovirus internal ribosome entry site (IRES)
57 IRE_I RF00037 Cis-reg; 62 1,847 2 Iron response element I
58 IRE_II RF02253 Cis-reg; 30 914 1 Iron response element II
59 K10_TLS RF00207 Cis-reg; 10 7 5 K10 transport/localisation element (TLS)
60 let-7 RF00027 Gene; miRNA; 64 1,415 2 let-7 microRNA precursor
61 LSU_rRNA_archaea RF02540 Gene; rRNA; 91 1,370 2054 Archaeal large subunit ribosomal RNA
62 LSU_rRNA_bacteria RF02541 Gene; rRNA; 102 25,344 2170 Bacterial large subunit ribosomal RNA
63 LSU_rRNA_eukarya RF02543 Gene; rRNA; 88 33,233 1976 Eukaryotic large subunit ribosomal RNA
64 LSU_trypano_mito RF02546 Gene; rRNA; 6 13 12 Trypanosomatid mitochondrial large subunit ribosomal RNA
65 Lysine RF00168 Cis-reg; riboswitch; 47 2,214 16 Lysine riboswitch
66 M-box RF00380 Cis-reg; riboswitch; 159 913 3 M-box riboswitch (ykoK leader)
67 Metazoa_SRP RF00017 Gene; 91 42,386 19 Metazoan signal recognition particle RNA
68 mir-15 RF00455 Gene; miRNA; 164 296 3 mir-15 microRNA precursor family
69 mir-16 RF00254 Gene; miRNA; 12 446 3 mir-16 microRNA precursor family
70 mir-166 RF00075 Gene; miRNA; 31 887 1 mir-166 microRNA precursor
71 mir-2985 RF02095 Gene; miRNA; 7 337 1 mir-2985-2 microRNA precursor
72 mir-31 RF00661 Gene; miRNA; 28 170 1 mir-31 microRNA precursor family
73 mir-663 RF00957 Gene; miRNA; 6 42 3 mir-663 microRNA precursor family
74 mir-TAR RF00250 Gene; miRNA; 45 28 5 Trans-activation response element (TAR)
75 MS2 RF02359 Cis-reg; 5 1 1 Bacteriophage MS2 operator hairpin
76 nadA RF03013 Gene; sRNA; 182 13 16 nadA RNA
77 NiCo RF02683 Cis-reg; riboswitch; 83 397 1 NiCo riboswitch
78 Pab160 RF02796 Gene; snRNA; snoRNA; HACA-box; 5 9 6 Pab160 RNA
79 Phage_pRNA RF00044 Gene; 3 2 15 Bacteriophage pRNA
80 Pistol RF02679 Gene; ribozyme; 45 30 8 Pistol ribozyme
81 preQ1-II RF01054 Cis-reg; riboswitch; 15 57 1 preQ1-II (pre queuosine) riboswitch
82 PreQ1-III RF02680 Cis-reg; riboswitch; 31 85 3 PreQ1-III riboswitch
83 Protozoa_SRP RF01856 Gene; 18 68 17 Protozoan signal recognition particle RNA
84 PrrB_RsmZ RF00166 Gene; sRNA; 37 102 4 PrrB/RsmZ RNA family
85 Purine RF00167 Cis-reg; riboswitch; 133 2,528 58 Purine riboswitch
86 RNA-OUT RF00240 Gene; antisense; 16 76 1 RNA-OUT
87 RNaseP_arch RF00373 Gene; ribozyme; 70 303 4 Archaeal RNase P
88 RNaseP_bact_a RF00010 Gene; ribozyme; 458 6,023 8 Bacterial RNase P class A
89 RNaseP_bact_b RF00011 Gene; ribozyme; 114 676 4 Bacterial RNase P class B
90 RNaseP_nuc RF00009 Gene; ribozyme; 116 1,237 4 Nuclear RNase P
91 RNase_MRP RF00030 Gene; ribozyme; 66 1,062 5 RNase MRP
92 RydC RF00505 Gene; sRNA; 5 16 1 RydC RNA
93 S15 RF00114 Cis-reg; leader; 78 554 1 Ribosomal S15 leader
94 s2m RF00164 Cis-reg; 39 6 1 Coronavirus 3' stem-loop II-like motif (s2m)
95 SAM RF00162 Cis-reg; riboswitch; 457 5,704 29 SAM riboswitch (S box leader)
96 SAM-I-IV-variant RF01725 Cis-reg; riboswitch; 417 348 2 SAM-I/IV variant riboswitch
97 SAM-IV RF00634 Cis-reg; riboswitch; 40 1,204 4 S-adenosyl methionine (SAM) riboswitch,
98 SAM-SAH RF01727 Cis-reg; riboswitch; 54 245 1 SAM/SAH riboswitch
99 SAM_V RF01826 Cis-reg; riboswitch; 7 12 1 SAM-V riboswitch
100 Sarbecovirus-5UTR RF03120 Cis-reg; 19 84 2 Sarbecovirus 5'UTR
101 SECIS_1 RF00031 Cis-reg; 61 611 2 Selenocysteine insertion sequence 1
102 SSU_rRNA_archaea RF01959 Gene; rRNA; 86 546 1921 Archaeal small subunit ribosomal RNA
103 SSU_rRNA_bacteria RF00177 Gene; rRNA; 99 22,081 1928 Bacterial small subunit ribosomal RNA
104 SSU_rRNA_eukarya RF01960 Gene; rRNA; 90 21,572 1866 Eukaryotic small subunit ribosomal RNA
105 SSU_rRNA_microsporidia RF02542 Gene; rRNA; 46 353 1883 Microsporidia small subunit ribosomal RNA
106 SSU_trypano_mito RF02545 Gene; rRNA; 4 12 16 Trypanosomatid mitochondrial small subunit ribosomal RNA
107 TCV_H5 RF00500 Cis-reg; 5 1 1 Turnip crinkle virus (TCV) repressor of minus strand synthesis H5
108 Telomerase-cil RF00025 Gene; 21 3 6 Ciliate telomerase RNA
109 Telomerase-vert RF00024 Gene; 37 77 13 Vertebrate telomerase RNA
110 THF RF01831 Cis-reg; riboswitch; 101 595 12 THF riboswitch
111 TLS-PK3 RF01084 Cis-reg; 8 9 3 Pseudoknot of tRNA-like structure
112 tmRNA RF00023 Gene; 477 6,216 22 transfer-messenger RNA
113 ToxI RF02519 Gene; antitoxin; 5 2 1 ToxI antitoxin
114 TPP RF00059 Cis-reg; riboswitch; 115 10,091 36 TPP riboswitch (THI element)
115 tracrRNA RF02348 Gene; 35 45 4 Trans-activating crRNA
116 tRNA RF00005 Gene; tRNA; 954 1,429,129 2516 tRNA
117 tRNA-Sec RF01852 Gene; tRNA; 109 2,250 36 Selenocysteine transfer RNA
118 Twister-sister RF02681 Gene; ribozyme; 112 1 1 Twister_sister_ribozyme
119 Tymo_tRNA-like RF00233 Cis-reg; 28 23 3 Tymovirus/Pomovirus/Furovirus tRNA-like 3' UTR element
120 U1 RF00003 Gene; snRNA; splicing; 100 11,596 9 U1 spliceosomal RNA
121 U11 RF00548 Gene; snRNA; splicing; 72 682 1 U11 spliceosomal RNA
122 U12 RF00007 Gene; snRNA; splicing; 62 531 2 U12 minor spliceosomal RNA
123 U1_yeast RF00488 Gene; snRNA; splicing; 5 35 7 Yeast U1 spliceosomal RNA
124 U2 RF00004 Gene; snRNA; splicing; 208 16,562 65 U2 spliceosomal RNA
125 U3 RF00012 Gene; snRNA; snoRNA; CD-box; 87 3,924 13 Small nucleolar RNA U3
126 U4 RF00015 Gene; snRNA; splicing; 177 8,285 15 U4 spliceosomal RNA
127 U4atac RF00618 Gene; snRNA; splicing; 61 388 1 U4atac minor spliceosomal RNA
128 U5 RF00020 Gene; snRNA; splicing; 180 7,524 62 U5 spliceosomal RNA
129 U6 RF00026 Gene; snRNA; splicing; 188 47,401 66 U6 spliceosomal RNA
130 U6atac RF00619 Gene; snRNA; splicing; 62 2,521 2 U6atac minor spliceosomal RNA
131 U7 RF00066 Gene; snRNA; 49 2,931 1 U7 small nuclear RNA
132 UPSK RF00390 Cis-reg; 6 1 2 UPSK RNA
133 VA RF00102 Gene; 54 81 1 VA RNA
134 Virus_CITE_7 RF02521 Cis-reg; 2 1 1 Pea enation mosaic virus-2 cap-independent translation element
135 Xanthine RF03054 Cis-reg; 383 192 8 Xanthine riboswitch (NMT1 RNA)
136 ydaO-yuaA RF00379 Cis-reg; riboswitch; 106 3,811 16 ydaO/yuaA leader
137 yjdF RF01764 Cis-reg; 62 308 4 yjdF RNA
138 ykkC-III RF01763 Cis-reg; 41 662 13 Guanidine-III riboswitch
139 ykkC-yxkD RF00442 Cis-reg; riboswitch; 100 831 10 Guanidine-I riboswitch
140 YrlA RF02553 Gene; sRNA; 6 118 1 Y RNA-like
141 yybP-ykoY RF00080 Cis-reg; riboswitch; 29 803 4 yybP-ykoY manganese riboswitch
142 ZMP-ZTP RF01750 Cis-reg; riboswitch; 185 1,737 12 ZMP/ZTP riboswitch
0 - 9 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z
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