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●BioLiP ●E. coli ●GLASS ●GPCR-HGmod ●GPCR-RD ●GPCR-EXP ●Tara-3D ●TM-fold ●DECOYS ●POTENTIAL ●RW/RWplus ●EvoEF ●HPSF ●THE-DB ●ADDRESS ●Alpaca-Antibody ●CASP7 ●CASP8 ●CASP9 ●CASP10 ●CASP11 ●CASP12 ●CASP13 ●CASP14

BioLiP
>rna
gcgggguggagcagccugguagcucgucgggcucauaacccgaagaucgucgguucaaauccggcccccgcaacca

The query sequence (length=76) is searched through a non-redundant set of database sequences rna_nr.fasta.gz clustered at 100% identity cutoff to identify representative hits. Homologs that belong to the same sequence cluster of the representative hit are listed in the last column of the table.

# Hit Hit
length 		Aligned
length 		Identity
(normalized by query) 		Identity
(normalized by hit) 		Identity (normalized
by aligned length) 		E-value Homologs
to hit
1 7lh5:AV 76 76 1.0000 1.0000 1.0000 4.45e-35 8phj:7, 3v11:D
2 8a3l:V 77 76 1.0000 0.9870 1.0000 4.45e-35 5afi:v, 5e7k:2K, 5e7k:2L, 2fmt:C, 2fmt:D, 8ifb:6, 8ifc:6, 3j9y:v, 3j9z:S6, 3ja1:S2, 3jcj:v, 3jcn:v, 5kps:32, 5kpv:32, 5kpw:32, 5kpx:32, 5l3p:x, 7lh5:CV, 5lza:v, 5lzb:v, 5lzc:v, 5lzd:v, 5lze:v, 5lzf:v, 5me0:X, 5me1:X, 7nbu:V, 6o7k:v, 6o9k:y, 8phj:8, 7pjs:v, 7pjt:v, 7pju:v, 7pjv:v, 7pjx:v, 7pjy:v, 7pjz:v, 3qsy:D, 4v4j:z, 4v6n:BD, 4v6o:AD, 4v6p:AD, 4v6q:AD, 4v6r:AD, 4v6s:BC, 4v6v:A3, 4v7m:AX, 5wdt:v, 5wdt:w, 5we4:v, 5we4:w, 5we6:v, 5we6:w, 5wf0:v, 5wf0:w, 5wfk:v, 5wfk:w, 5wfs:v, 5wfs:w, 7y7c:Z, 7y7d:Z, 7y7e:Z, 7y7f:Z, 7y7g:Z, 7y7h:Z, 5zeb:v, 5zep:w, 6ztj:AW, 6ztl:AW, 6ztm:AW, 6ztn:AW, 6zto:AW, 6ztp:AW, 6zu1:AW
3 7chd:I 75 74 0.9737 0.9867 1.0000 5.75e-34 7chd:J
4 7zag:4 77 76 0.9868 0.9740 0.9868 2.07e-33 7zah:4, 7zki:4
5 4v51:AV 77 76 0.9868 0.9740 0.9868 2.07e-33 4v51:CV, 4v5c:AV, 4v5c:CV
6 5mdv:5 76 76 0.9868 0.9868 0.9868 2.07e-33 5mdw:5, 5mdy:5, 5mdz:5, 7nwt:5
7 5jb3:4 76 76 0.9868 0.9868 0.9868 2.07e-33 5jbh:4, 6sw9:4, 6swc:4
8 5iqr:5 77 76 0.9868 0.9740 0.9868 2.07e-33
9 8am9:Y 76 76 0.9868 0.9868 0.9868 2.07e-33 8aye:Z, 9b00:1x, 9b00:2x, 8b7y:n, 6cae:1x, 6cae:2x, 6cfj:1x, 6cfj:2x, 8crx:C, 8cvm:C, 5doy:1x, 5doy:2x, 8ekb:1x, 8ekb:2x, 8ekc:x, 8emm:Y, 8emm:Z, 8ev6:1x, 8ev6:2x, 8ev7:1x, 8ev7:2x, 5f8k:1x, 5f8k:2x, 8fto:Z, 8g2b:1x, 8g2b:2x, 8g2d:1x, 8g2d:2x, 8g7p:x, 8g7q:x, 8g7r:x, 5hau:1w, 5hau:2w, 5hcp:1x, 5hcp:2x, 5hcq:1x, 5hcq:2x, 5hcr:1x, 5hcr:2x, 5hd1:1x, 5hd1:2x, 5j4b:1x, 5j4b:2x, 5j4c:1x, 5j4c:2x, 7jql:1x, 7jql:2x, 7jqm:1x, 7jqm:2x, 7k00:Z, 6n9e:1x, 6n9e:2x, 6n9f:1x, 6n9f:2x, 6nd5:1x, 6nd5:2x, 6nd6:1x, 6nd6:2x, 6o97:1x, 6o97:2x, 6of1:1x, 6of1:2x, 8p16:5, 8p17:5, 8p18:5, 8p2f:F, 8pva:Z, 8q4f:Z, 8qk7:5, 7rq8:1x, 7rq8:2x, 7rq9:1x, 7rq9:2x, 8syl:x, 8ud6:1x, 8ud6:2x, 8ud7:1x, 8ud7:2x, 8ud8:1x, 8ud8:2x, 7unr:v, 7unu:v, 7unv:v, 7unw:v, 6uo1:1x, 6uo1:2x, 8uvr:1x, 8uvr:2x, 8uvs:1x, 8uvs:2x, 4v9r:AX, 4v9r:CX, 4v9s:AX, 4v9s:CX, 5vp2:1x, 5vp2:2x, 1vy4:AX, 1vy4:CX, 1vy5:AX, 1vy5:CX, 1vy6:AX, 1vy6:CX, 1vy7:AX, 1vy7:CX, 4w2f:AX, 4w2f:CX, 4w2g:AX, 4w2g:CX, 4w2h:AX, 4w2h:CX, 4w2i:AX, 4w2i:CX, 5w4k:1x, 5w4k:2x, 5wis:1x, 5wis:2x, 5wit:1x, 5wit:2x, 4wpo:BX, 4wqy:BX, 4wqy:DX, 4wt8:D4, 6xhv:1x, 6xhv:2x, 6xhw:1x, 6xhw:2x, 6xhy:1x, 6xhy:2x, 6xqd:1x, 6xqd:2x, 6xqe:1x, 6xqe:2x, 6xz7:f, 6xza:f2, 6xzb:f2, 4y4p:1x, 4y4p:2x, 4z3s:1x, 4z3s:2x, 4z8c:1x, 4z8c:2x, 4zer:1x, 4zer:2x
10 8a3l:W 77 76 0.9868 0.9740 0.9868 2.07e-33 6b4v:D, 6b4v:IA, 6b4v:HB, 6b4v:MC, 9bdl:ETRN, 9bdl:PTRN, 9bdn:ETRN, 9bdn:PTRN, 9bdp:ETRN, 9bdp:PTRN, 8bf7:4, 8bge:4, 8bgh:4, 8bhj:4, 8bhl:4, 8bhn:4, 8bhp:4, 8bil:4, 8bim:4, 6boh:D, 6boh:IA, 6boh:IB, 6boh:NC, 6bok:D, 6bok:IA, 6bok:GB, 6bok:LC, 6bu8:X, 6bu8:W, 6buw:QV, 6buw:XV, 6bz6:QV, 6bz6:XV, 6bz7:QV, 6bz7:XV, 6bz8:QV, 6bz8:QW, 6bz8:XV, 6bz8:XW, 6c4i:x, 6c4i:y, 8cvj:1x, 8cvj:2x, 8cvk:1x, 8cvk:2x, 8cvl:1x, 8cvl:2x, 5czp:QV, 5czp:XV, 5d8b:XC, 5d8b:BD, 5d8b:ED, 5d8b:FD, 5dfe:QV, 5dfe:XV, 6dnc:D, 6dnc:LA, 5el4:2K, 8g29:1x, 8g29:2x, 8g2a:1x, 8g2a:2x, 8g2c:1x, 8g2c:2x, 6gsj:2K, 6gsj:2L, 6gsk:2K, 6gsk:2L, 6gwt:x, 6gxm:x, 6gxn:x, 6i7o:mb, 5imq:4, 5imr:4, 3j0p:W, 3j0q:W, 5j30:QV, 5j30:XV, 5j3c:QV, 5j3c:XV, 5j4d:D, 5j4d:IA, 5j4d:IB, 5j4d:NC, 3j5s:E, 3j77:PT, 3j78:ET, 5j8b:x, 3jce:8, 7jss:5, 7jsw:5, 7jsz:5, 7jt1:5, 7jt2:5, 7k50:5, 7k50:6, 7k53:5, 7k53:6, 7k54:6, 7k55:6, 7kgb:y, 5kps:31, 5kpv:31, 5kpw:31, 5kpx:31, 4l47:QV, 4l47:XV, 4l71:QV, 4l71:XV, 4lel:QV, 4lel:XV, 4lfz:QV, 4lfz:XV, 5lmq:Z, 5lmr:Z, 5lms:Z, 5lmt:Z, 5lmu:Z, 5lmv:Z, 4lnt:QV, 4lnt:XV, 4lsk:QV, 4lsk:XV, 4lt8:QV, 4lt8:XV, 7lv0:6, 7msc:y, 7msm:y, 7msz:y, 7mt2:y, 7mt7:x, 7mt7:y, 6ndk:QV, 6ndk:XV, 7nrd:Sm, 6of6:QV, 6of6:XV, 6ofx:5, 6oj2:QV, 6oj2:XV, 6ope:QV, 6ope:XV, 6ord:QV, 6ord:XV, 6otr:QV, 6otr:QW, 6otr:XV, 6otr:XW, 6oxa:QV, 6oxa:QW, 6oxa:XV, 6oxa:XW, 6oxi:QV, 6oxi:XV, 8p2f:D, 8p2g:D, 8p2h:D, 4p6f:QV, 4p6f:XV, 4p70:QV, 4p70:XV, 6q95:7, 6qnq:3K, 6qnq:2L, 6qnq:3L, 7sa4:5, 7sa4:6, 7ss9:6, 7ssl:6, 7ssn:6, 7sso:6, 7ssw:6, 7st2:6, 7st6:7, 7st6:6, 7st7:6, 6sv4:mb, 6sv4:mc, 8t5d:5, 8t5h:5, 7too:APTN, 7top:APTN, 7toq:PTRN, 7tor:ETRN, 4tua:QV, 4tua:XV, 4tub:QV, 4tub:XV, 4tuc:QV, 4tuc:XV, 4tud:QV, 4tud:XV, 4tue:QV, 4tue:XV, 7u2h:1x, 7u2h:2x, 7u2i:1x, 7u2i:2x, 7u2j:1x, 7u2j:2x, 5u4i:x, 5u4i:y, 5u9f:X, 5u9f:W, 5u9g:X, 5u9g:W, 5uyk:X, 5uyk:W, 5uyl:X, 5uyl:W, 5uym:X, 5uym:W, 5uyn:X, 5uyn:W, 5uyp:X, 5uyp:W, 5uyq:X, 5uyq:W, 4v5a:AW, 4v5a:CW, 4v5f:AV, 4v5f:AW, 4v5f:CV, 4v5f:CW, 4v5k:AV, 4v5k:AW, 4v5k:CV, 4v5k:CW, 4v5m:AV, 4v5n:AV, 4v63:AZ, 4v63:AY, 4v63:CZ, 4v63:CY, 4v67:AZ, 4v67:AY, 4v67:CZ, 4v67:CY, 4v68:AV, 4v69:AV, 4v6a:AW, 4v6a:CW, 4v6t:AX, 4v6y:A3, 4v6z:A3, 4v70:A3, 4v71:A3, 4v72:A3, 4v73:A3, 4v74:A3, 4v75:A3, 4v76:A3, 4v7j:Av, 4v7j:Aw, 4v7j:Bv, 4v7j:Bw, 4v7k:Av, 4v7k:Aw, 4v7k:Bv, 4v7k:Bw, 4v7l:AX, 4v7l:CX, 4v7m:CX, 4v7p:AW, 4v7p:DW, 4v8j:AV, 4v8j:CV, 4v8o:AV, 4v8q:BV, 4v8q:BW, 4v8u:AW, 4v8u:CW, 4v8x:AV, 4v8x:AW, 4v8x:CV, 4v8x:CW, 4v95:AV, 4v95:CV, 4v97:AV, 4v97:CV, 4v9i:AV, 4v9i:CV, 4v9n:AW, 4v9n:CW, 4v9q:BV, 4v9q:BW, 4v9q:DV, 4v9q:DW, 8vs9:ETRN, 8vtu:1x, 8vtu:2x, 8vtv:1x, 8vtv:2x, 8vtx:1x, 8vtx:2x, 1vvj:QV, 1vvj:XV, 4w4g:QV, 4w4g:QW, 4w4g:XV, 4w4g:XW, 6wd0:5, 6wd0:6, 6wd1:5, 6wd2:5, 6wd2:6, 6wd3:5, 6wd3:6, 6wd4:5, 6wd4:6, 6wd5:5, 6wd5:6, 6wd6:5, 6wd6:6, 6wd7:5, 6wd7:6, 6wd8:5, 6wd8:6, 6wd9:5, 6wd9:6, 6wda:5, 6wda:6, 6wdb:5, 6wdb:6, 6wdc:5, 6wdc:6, 6wdd:5, 6wdd:6, 6wde:5, 6wde:6, 6wdf:5, 6wdg:5, 6wdh:5, 6wdh:6, 6wdi:5, 6wdi:6, 6wdj:5, 6wdj:6, 6wdk:5, 6wdk:6, 6wdl:5, 6wdl:6, 6wdm:5, 6wdm:6, 6wnw:5, 4wt8:C4, 6yef:x, 4ypb:QV, 4ypb:QW, 4ypb:XV, 4ypb:XW, 4yzv:QV, 4yzv:XV, 4zsn:QV, 4zsn:XV, 7zux:7
11 8rxh:S3 75 76 0.9868 1.0000 0.9868 7.44e-33
12 8g6w:Z 75 75 0.9737 0.9867 0.9867 7.44e-33 8g6y:Z
13 6bz7:QW 76 75 0.9737 0.9737 0.9867 7.44e-33 6bz7:XW, 7jt3:5
14 7msh:y 75 74 0.9605 0.9733 0.9865 2.68e-32 6og7:5
15 6ogi:5 74 73 0.9474 0.9730 0.9863 9.63e-32 7tor:PTRN
16 6h4n:w 77 76 0.9737 0.9610 0.9737 9.63e-32 6h58:w, 6h58:ww
17 8ccs:Cc 77 76 0.9737 0.9610 0.9737 9.63e-32 8cdl:Cc, 8cdr:Cc, 8ceh:Cc, 8cf5:Cc, 8cg8:Cc, 8cgn:Bb, 8cgn:Cc, 8civ:Cc, 8cku:Cc, 5e81:2K, 5e81:2L, 5el5:2K, 5el5:2L, 5el6:2K, 5el6:2L, 5el7:2K, 5el7:2L, 8g5y:Pt, 8g5z:Pt, 8g60:Pt, 8g61:Pt, 8g6j:Pt, 8glp:Pt, 6gsl:2K, 6gsl:2L, 5ib7:2K, 5ib7:2L, 5ib8:2K, 5ib8:2L, 5ibb:2K, 7osa:PSIT, 7osm:PSIT, 7ug7:Dt, 5uq7:y, 5uq8:y, 4v6g:AC, 4v6g:AD, 4v6g:CC, 4v6g:CD, 4v87:BC, 4v87:BD, 4v87:CC, 4v87:CD, 4v8b:AD, 4v8b:CC, 4v8b:CD, 4v8c:CC, 4v8c:CD, 4v8c:DC, 4v8c:DD, 4v8d:AC, 4v8d:CC, 4v8e:BC, 4v8e:DC, 4v8f:BC, 4v8f:CC, 4v9a:AC, 4v9a:CC, 4v9b:AC, 4v9b:AD, 4v9b:CC, 4v9b:CD, 4wq1:2K, 4wq1:2L, 4wqr:2K, 4wqr:2L, 4wr6:2K, 4wr6:2L, 4wra:2K, 4wra:2L, 4wro:2K, 4wsd:2K, 4wt1:2K, 4wt1:2L, 4wzo:2K, 4wzo:2L
18 9ax8:y 77 76 0.9737 0.9610 0.9737 9.63e-32
19 8upo:A 76 76 0.9737 0.9737 0.9737 3.46e-31 8upo:B, 8upr:A, 8upr:B, 8uql:A, 8uql:B, 8uqm:A, 8uqm:B, 8uqp:A, 8uqp:B, 8ur0:A, 8ur0:B, 8urh:A, 8urh:B, 8uri:A, 8uri:B, 8urx:A, 8urx:B, 8ury:A, 8ury:B, 4v4x:AC, 4v4z:AC, 6vu3:A, 6vyq:A, 6vyr:A, 6vys:A, 6vyt:A, 6vyu:A, 6vyw:A, 6vyx:A, 6vyy:A, 6vyz:A, 6vz2:A, 6vz3:A, 6vz5:A, 6vz7:A, 6vzj:A, 6x6t:A, 6x7f:A, 6x7k:A, 6x9q:A, 6xdq:A, 6xdr:A, 6xgf:A, 6xii:A, 6xij:A
20 6ogf:5 73 72 0.9342 0.9726 0.9861 3.46e-31
21 5h5u:5 76 76 0.9737 0.9737 0.9737 3.46e-31
22 5el4:2L 76 76 0.9737 0.9737 0.9737 3.46e-31
23 8fiz:BB 75 75 0.9605 0.9733 0.9733 1.25e-30 3jbo:7
24 8eiu:Y 74 75 0.9605 0.9865 0.9733 1.25e-30 8eiu:Z
25 5zlu:DD 77 76 0.9605 0.9481 0.9605 4.48e-30
26 4v7b:AV 77 76 0.9605 0.9481 0.9605 4.48e-30
27 7m5d:5 76 76 0.9605 0.9605 0.9605 4.48e-30 6ore:5, 6orl:5, 6osk:5, 6osq:5, 6ost:5, 6ot3:5, 6ouo:5
28 8wib:C 76 76 0.9605 0.9605 0.9605 1.61e-29
29 3j92:2 75 76 0.9605 0.9733 0.9605 1.61e-29
30 5ibb:2L 76 76 0.9605 0.9605 0.9605 1.61e-29
31 8b0x:Z 75 76 0.9474 0.9600 0.9474 7.49e-28
32 9ax7:Z 75 76 0.9474 0.9600 0.9474 7.49e-28 9cg5:Z, 9cg6:Z, 9cg7:Z
33 6qnq:1K 65 65 0.8421 0.9846 0.9846 2.70e-27
34 7nhn:D 74 74 0.9211 0.9459 0.9459 2.70e-27
35 9fbv:Z 73 76 0.9474 0.9863 0.9474 2.70e-27
36 7p7u:D 77 76 0.9342 0.9221 0.9342 9.69e-27
37 7p7q:D 76 76 0.9342 0.9342 0.9342 9.69e-27 7p7r:D, 7p7s:D, 7p7t:D
38 6y69:w 74 76 0.9342 0.9595 0.9342 1.25e-25
39 4v6g:CB 65 65 0.8289 0.9692 0.9692 1.25e-25
40 7nhl:D 73 73 0.8947 0.9315 0.9315 4.51e-25
41 7nhk:D 74 73 0.8947 0.9189 0.9315 4.51e-25
42 8rxx:S3 71 56 0.7368 0.7887 1.0000 5.83e-24
43 8ap4:Z 71 76 0.9211 0.9859 0.9211 2.10e-23
44 7nhm:D 77 76 0.8947 0.8831 0.8947 9.76e-22
45 8buu:V 73 73 0.8684 0.9041 0.9041 9.76e-22
46 7p48:5 73 73 0.8421 0.8767 0.8767 2.11e-18

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Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).

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