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BioLiP
>rna
ggaacccgggugaaagccuggggugccccgcccggggagcc

The query sequence (length=41) 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 4v5z:AH 41 41 1.0000 1.0000 1.0000 5.14e-16
2 2zm6:A 1506 41 0.9512 0.0259 0.9512 1.11e-12
3 4yhh:A 1507 41 0.9512 0.0259 0.9512 1.11e-12
4 4wzd:13 1499 41 0.9512 0.0260 0.9512 1.11e-12
5 4wu1:13 1501 41 0.9512 0.0260 0.9512 1.11e-12
6 4wsm:13 1507 41 0.9512 0.0259 0.9512 1.11e-12
7 4wra:1G 1504 41 0.9512 0.0259 0.9512 1.11e-12
8 4wra:13 1505 41 0.9512 0.0259 0.9512 1.11e-12
9 4w4g:XA 1508 41 0.9512 0.0259 0.9512 1.11e-12 4ypb:XA, 4yzv:XA, 4zsn:XA
10 4w4g:QA 1511 41 0.9512 0.0258 0.9512 1.11e-12 4ypb:QA, 4yzv:QA, 4zsn:QA
11 4w2i:AA 1496 41 0.9512 0.0261 0.9512 1.11e-12
12 4w2h:AA 1497 41 0.9512 0.0261 0.9512 1.11e-12
13 4w2f:AA 1497 41 0.9512 0.0261 0.9512 1.11e-12
14 4w2e:a 1496 41 0.9512 0.0261 0.9512 1.11e-12
15 1vy4:AA 1497 41 0.9512 0.0261 0.9512 1.11e-12 4wpo:BA
16 1vvj:XA 1501 41 0.9512 0.0260 0.9512 1.11e-12
17 5vpp:XA 1515 41 0.9512 0.0257 0.9512 1.11e-12
18 5vpp:QA 1511 41 0.9512 0.0258 0.9512 1.11e-12
19 4v9r:AA 1498 41 0.9512 0.0260 0.9512 1.11e-12 4v9s:AA, 1vy5:AA, 1vy6:AA, 1vy7:AA, 4w2g:AA
20 4v9j:AA 1511 41 0.9512 0.0258 0.9512 1.11e-12 4v9j:CA, 4v9k:AA, 4v9k:CA, 4v9l:AA, 4v9l:CA, 4v9m:AA, 4v9m:CA, 4w29:AA, 4w29:CA
21 4v9h:AA 1514 41 0.9512 0.0258 0.9512 1.11e-12
22 4v97:AA 1504 41 0.9512 0.0259 0.9512 1.11e-12 4v97:CA
23 5v8i:2a 1504 41 0.9512 0.0259 0.9512 1.11e-12
24 5v8i:1a 1500 41 0.9512 0.0260 0.9512 1.11e-12
25 4v8q:BA 1504 41 0.9512 0.0259 0.9512 1.11e-12
26 4v8j:CA 1503 41 0.9512 0.0259 0.9512 1.11e-12
27 4v8j:AA 1504 41 0.9512 0.0259 0.9512 1.11e-12
28 4v8i:CA 1491 41 0.9512 0.0262 0.9512 1.11e-12
29 4v8i:AA 1493 41 0.9512 0.0261 0.9512 1.11e-12
30 4v8h:CA 1497 41 0.9512 0.0261 0.9512 1.11e-12 4wqr:1G, 4wro:13, 4wro:1G, 4wt1:1G, 4wzo:13, 4wzo:1G
31 4v8h:AA 1501 41 0.9512 0.0260 0.9512 1.11e-12
32 4v8g:CA 1501 41 0.9512 0.0260 0.9512 1.11e-12
33 4v8g:AA 1505 41 0.9512 0.0259 0.9512 1.11e-12
34 4v8d:AA 1502 41 0.9512 0.0260 0.9512 1.11e-12 4v8d:CA, 4v8e:BA, 4v8e:DA, 4v8f:BA, 4v8f:CA
35 4v8a:CA 1498 41 0.9512 0.0260 0.9512 1.11e-12 4v8a:DA
36 4v83:AA 1506 41 0.9512 0.0259 0.9512 1.11e-12 4v83:CA, 4v84:AA, 4v84:CA
37 4v7m:CA 1493 41 0.9512 0.0261 0.9512 1.11e-12
38 4v7l:AA 1495 41 0.9512 0.0261 0.9512 1.11e-12 4v7l:CA
39 4v6g:CA 1515 41 0.9512 0.0257 0.9512 1.11e-12
40 4v6g:AA 1517 41 0.9512 0.0257 0.9512 1.11e-12
41 4v6f:BA 1516 41 0.9512 0.0257 0.9512 1.11e-12
42 4v6a:AA 1495 41 0.9512 0.0261 0.9512 1.11e-12
43 4v5p:AA 1510 41 0.9512 0.0258 0.9512 1.11e-12 4v5p:CA, 4v5r:AA, 4v5r:CA
44 4v5k:AA 1508 41 0.9512 0.0259 0.9512 1.11e-12 4v5k:CA
45 4v4j:y 1514 41 0.9512 0.0258 0.9512 1.11e-12
46 4v4i:y 1502 41 0.9512 0.0260 0.9512 1.11e-12
47 7v2q:A 1391 41 0.9512 0.0280 0.9512 1.11e-12
48 7v2p:A 1394 41 0.9512 0.0280 0.9512 1.11e-12
49 7v2o:A 1487 41 0.9512 0.0262 0.9512 1.11e-12
50 7v2n:A 1394 41 0.9512 0.0280 0.9512 1.11e-12
51 7v2m:A 1486 41 0.9512 0.0262 0.9512 1.11e-12
52 7v2l:A 1507 41 0.9512 0.0259 0.9512 1.11e-12
53 6ucq:1a 1499 41 0.9512 0.0260 0.9512 1.11e-12
54 6qnr:1G 1513 41 0.9512 0.0258 0.9512 1.11e-12 4wsm:1G
55 6qnr:13 1516 41 0.9512 0.0257 0.9512 1.11e-12
56 6qnq:1G 1510 41 0.9512 0.0258 0.9512 1.11e-12
57 6qnq:13 1506 41 0.9512 0.0259 0.9512 1.11e-12
58 6otr:XA 1507 41 0.9512 0.0259 0.9512 1.11e-12 6oxa:XA, 6oxi:XA
59 6otr:QA 1510 41 0.9512 0.0258 0.9512 1.11e-12 6oxa:QA, 6oxi:QA
60 6nsh:QA 1511 41 0.9512 0.0258 0.9512 1.11e-12 6nwy:QA, 6osi:QA
61 5ndj:1G 1513 41 0.9512 0.0258 0.9512 1.11e-12 5ndk:1G, 5uq7:a, 5uq8:a
62 5ndj:13 1508 41 0.9512 0.0259 0.9512 1.11e-12 5ndk:13
63 6n1d:A16S 1517 41 0.9512 0.0257 0.9512 1.11e-12 6n1d:B16S
64 6mpf:A 1508 41 0.9512 0.0259 0.9512 1.11e-12
65 5lmn:A 1514 41 0.9512 0.0258 0.9512 1.11e-12 5lmo:A, 5lmp:A, 5lmq:A, 5lms:A
66 4lf6:A 1510 41 0.9512 0.0258 0.9512 1.11e-12
67 4l47:XA 1500 41 0.9512 0.0260 0.9512 1.11e-12 4l71:XA, 4lel:XA, 4lfz:XA, 4lnt:XA, 4lsk:XA, 4lt8:XA, 6nta:XA, 6nuo:XA, 6o3m:XA, 6of6:XA, 6oj2:XA, 6ope:XA, 4p6f:XA, 4p70:XA, 4tua:XA, 4tub:XA, 4tuc:XA, 4tud:XA, 4tue:XA, 5vpo:XA
68 4kvb:A 1514 41 0.9512 0.0258 0.9512 1.11e-12
69 4khp:A 1506 41 0.9512 0.0259 0.9512 1.11e-12
70 4jya:A 1516 41 0.9512 0.0257 0.9512 1.11e-12
71 4jv5:A 1511 41 0.9512 0.0258 0.9512 1.11e-12 4k0k:A
72 4ji5:A 1514 41 0.9512 0.0258 0.9512 1.11e-12 4ji6:A, 4ji7:A, 4ji8:A
73 4ji4:A 1512 41 0.9512 0.0258 0.9512 1.11e-12
74 4ji3:A 1511 41 0.9512 0.0258 0.9512 1.11e-12
75 5j8b:a 1498 41 0.9512 0.0260 0.9512 1.11e-12 4wq1:13, 4wq1:1G, 4wqr:13, 4wr6:13, 4wr6:1G, 4wsd:13, 4wsd:1G, 4wt1:13
76 5iwa:A 1509 41 0.9512 0.0258 0.9512 1.11e-12
77 5ib7:1G 1508 41 0.9512 0.0259 0.9512 1.11e-12
78 5ib7:13 1499 41 0.9512 0.0260 0.9512 1.11e-12
79 1i94:A 1514 41 0.9512 0.0258 0.9512 1.11e-12 1i95:A, 1i96:A, 1i97:A
80 2hhh:A 1505 41 0.9512 0.0259 0.9512 1.11e-12
81 5hau:2a 1501 41 0.9512 0.0260 0.9512 1.11e-12 4wqf:DA, 4wqu:DA, 4wqy:DA
82 5hau:1a 1495 41 0.9512 0.0261 0.9512 1.11e-12 4wqf:BA, 4wqu:BA, 4wqy:BA
83 6gzq:A2 1506 41 0.9512 0.0259 0.9512 1.11e-12 6gzx:A3, 6gzx:A4, 6gzz:A3, 6gzz:A4, 1ibk:A, 4v87:BA, 4v87:CA, 4v8b:AA, 4v8b:CA, 4v8c:CA, 4v8c:DA, 4v9a:AA, 4v9a:CA, 4v9b:AA, 4v9b:CA
84 6gsl:1G 1509 41 0.9512 0.0258 0.9512 1.11e-12 5ib8:1G
85 6gsl:13 1512 41 0.9512 0.0258 0.9512 1.11e-12
86 6gsj:13 1500 41 0.9512 0.0260 0.9512 1.11e-12 6gsk:13, 5ib8:13
87 4gkj:A 1513 41 0.9512 0.0258 0.9512 1.11e-12 4gkk:A, 1j5e:A, 4lf4:A, 4lf5:A, 1n32:A, 1n33:A, 1n34:A, 1n36:A, 6ny6:A, 3oto:A, 3t1h:A, 3t1y:A, 2uxb:A, 2uxc:A, 2vqe:A, 2vqf:A, 4yy3:A
88 8fom:XA 1511 41 0.9512 0.0258 0.9512 1.11e-12 8fon:XA, 6nsh:XA
89 8fom:QA 1500 41 0.9512 0.0260 0.9512 1.11e-12 8fon:QA, 4l47:QA, 4l71:QA, 4lel:QA, 4lfz:QA, 4lnt:QA, 4lsk:QA, 4lt8:QA, 6nta:QA, 6nuo:QA, 6o3m:QA, 6of6:QA, 6oj2:QA, 6ope:QA, 4p6f:QA, 4p70:QA, 4tua:QA, 4tub:QA, 4tuc:QA, 4tud:QA, 4tue:QA, 5vpo:QA, 1vvj:QA
90 2f4v:A 1507 41 0.9512 0.0259 0.9512 1.11e-12 1fjg:A, 1hnw:A, 1hnx:A, 1hnz:A, 1hr0:A, 1ibl:A, 1ibm:A, 5ot7:1, 4ox9:A, 4v90:AA
91 5el7:1G 1506 41 0.9512 0.0259 0.9512 1.11e-12
92 5el5:13 1493 41 0.9512 0.0261 0.9512 1.11e-12
93 5e81:1G 1506 41 0.9512 0.0259 0.9512 1.11e-12 5ibb:1G
94 5e7k:1G 1507 41 0.9512 0.0259 0.9512 1.11e-12 5el4:1G, 5el6:1G
95 5e7k:13 1496 41 0.9512 0.0261 0.9512 1.11e-12 5e81:13, 5el4:13, 5el6:13, 5el7:13, 5ibb:13
96 2e5l:A 1517 41 0.9512 0.0257 0.9512 1.11e-12
97 4dv6:A 1512 41 0.9512 0.0258 0.9512 1.11e-12 4dv7:A
98 4dv4:A 1512 41 0.9512 0.0258 0.9512 1.11e-12 4dv5:A
99 4dv2:A 1512 41 0.9512 0.0258 0.9512 1.11e-12 4dv3:A
100 4dv0:A 1512 41 0.9512 0.0258 0.9512 1.11e-12 4dv1:A
101 4dr7:A 1513 41 0.9512 0.0258 0.9512 1.11e-12
102 4dr6:A 1514 41 0.9512 0.0258 0.9512 1.11e-12
103 5d8b:UC 1504 41 0.9512 0.0259 0.9512 1.11e-12 5d8b:YC, 4v63:AA, 4v63:CA, 4v67:AA, 4v67:CA, 4v7p:AA, 4v7p:DA, 4v9n:AA, 4v9n:CA, 4v9q:BA, 4v9q:DA, 4xej:A16S, 4xej:B16S
104 6cfk:2a 1504 41 0.9512 0.0259 0.9512 1.11e-12 6cfl:2a, 5czp:XA, 6czr:2a, 5dfe:XA, 5dox:2a, 5f8k:2a, 8fc1:2a, 8fc2:2a, 8fc3:2a, 8fc4:2a, 8fc5:2a, 8fc6:2a, 5fdu:2a, 5fdv:2a, 5j30:XA, 5j3c:XA, 7md7:2a, 6ndk:XA, 6ord:XA, 7rqa:2a, 7rqb:2a, 7rqc:2a, 7rqd:2a, 7rqe:2a, 8t8b:2a, 8t8c:2a, 8vtw:2a, 8vty:2a, 4wu1:1G, 6xhx:2a, 4y4o:2a, 4zer:2a
105 6car:A 1511 41 0.9512 0.0258 0.9512 1.11e-12
106 6cap:A 1512 41 0.9512 0.0258 0.9512 1.11e-12 6caq:A, 6cas:A, 4duy:A, 4duz:A, 7dug:A, 7duh:A, 7dui:A, 7duj:A, 7duk:A, 7dul:A
107 6c5l:AA 1504 41 0.9512 0.0259 0.9512 1.11e-12 6c5l:CA, 7lh5:AA, 7lh5:CA, 6q95:2, 4v51:AA, 4v51:CA, 4v5a:AA, 4v5a:CA, 4v5c:AA, 4v5c:CA, 4v5d:AA, 4v5d:CA, 4v5e:AA, 4v5e:CA, 4v5f:AA, 4v5f:CA, 4v5g:AA, 4v5g:CA, 4v5j:AA, 4v5j:CA, 4v5l:AA, 4v5m:AA, 4v5n:AA, 4v5q:AA, 4v5q:CA, 4v5s:AA, 4v5s:CA, 4v68:AA, 4v6a:CA, 4v7j:Aa, 4v7j:Ba, 4v7k:Aa, 4v7k:Ba, 4v7w:AA, 4v7w:CA, 4v7x:AA, 4v7x:CA, 4v7y:AA, 4v7y:CA, 4v7z:AA, 4v7z:CA, 4v8n:AA, 4v8n:CA, 4v8o:AA, 4v8u:AA, 4v8u:CA, 4v8x:AA, 4v8x:CA, 4v9i:AA, 4v9i:CA, 4wt8:Ab, 4wt8:Bb
108 6bz8:QA 1500 41 0.9512 0.0260 0.9512 1.11e-12
109 6bz6:XA 1500 41 0.9512 0.0260 0.9512 1.11e-12 6bz8:XA
110 6bz6:QA 1498 41 0.9512 0.0260 0.9512 1.11e-12
111 6buw:XA 1500 41 0.9512 0.0260 0.9512 1.11e-12 6bz7:XA
112 6buw:QA 1500 41 0.9512 0.0260 0.9512 1.11e-12 6bz7:QA
113 6b4v:A 1507 41 0.9512 0.0259 0.9512 1.11e-12 6b4v:EB, 6boh:A, 6boh:FB, 6bok:A, 6bok:DB, 5j4d:A, 5j4d:FB
114 4b3m:A 1512 41 0.9512 0.0258 0.9512 1.11e-12 4b3r:A, 4b3t:A, 5br8:A, 6cao:A, 4dr1:A, 4dr2:A, 4dr3:A, 4dr4:A, 4dr5:A, 4ji0:A, 4ji1:A, 4ji2:A, 4lf9:A, 4lfa:A, 4lfb:A, 4lfc:A, 4nxm:A, 4nxn:A, 2uu9:A, 2uua:A, 2uub:A, 2uuc:A, 5wnp:A, 5wnq:A, 5wnr:A, 5wns:A, 5wnt:A, 5wnu:A, 5wnv:A, 4x62:A, 4x64:A, 4x65:A, 4x66:A
115 9b00:2a 1503 41 0.9512 0.0259 0.9512 1.11e-12 6cae:2a, 6cfj:2a, 8cvj:2a, 8cvk:2a, 8cvl:2a, 5doy:2a, 8ekb:2a, 8ev6:2a, 8ev7:2a, 8g29:2a, 8g2a:2a, 8g2b:2a, 8g2c:2a, 8g2d:2a, 5j4b:2a, 5j4c:2a, 7jql:2a, 7jqm:2a, 6n9e:2a, 6n9f:2a, 6nd5:2a, 6nd6:2a, 6o97:2a, 6of1:2a, 7rq8:2a, 7rq9:2a, 7u2h:2a, 7u2i:2a, 7u2j:2a, 6ucq:2a, 8ud6:2a, 8ud7:2a, 8ud8:2a, 6uo1:2a, 8uvr:2a, 8uvs:2a, 4v9r:CA, 4v9s:CA, 5vp2:2a, 8vtu:2a, 8vtv:2a, 8vtx:2a, 1vy4:CA, 1vy5:CA, 1vy6:CA, 1vy7:CA, 4w2f:CA, 4w2g:CA, 4w2h:CA, 4w2i:CA, 5w4k:2a, 5wis:2a, 5wit:2a, 4wpo:DA, 4wzd:1G, 6xhv:2a, 6xhw:2a, 6xhy:2a, 6xqd:2a, 6xqe:2a, 4y4p:2a, 4z3s:2a
116 9b00:1a 1500 41 0.9512 0.0260 0.9512 1.11e-12 6cae:1a, 6cfj:1a, 6cfk:1a, 6cfl:1a, 8cvj:1a, 8cvk:1a, 8cvl:1a, 5czp:QA, 6czr:1a, 5dfe:QA, 5dox:1a, 5doy:1a, 8ekb:1a, 8ev6:1a, 8ev7:1a, 5f8k:1a, 8fc1:1a, 8fc2:1a, 8fc3:1a, 8fc4:1a, 8fc5:1a, 8fc6:1a, 5fdu:1a, 5fdv:1a, 6fkr:1a, 6fkr:2a, 8g29:1a, 8g2a:1a, 8g2b:1a, 8g2c:1a, 8g2d:1a, 5j30:QA, 5j3c:QA, 5j4b:1a, 5j4c:1a, 7jql:1a, 7jqm:1a, 7md7:1a, 6n9e:1a, 6n9f:1a, 6nd5:1a, 6nd6:1a, 6ndk:QA, 6o97:1a, 6of1:1a, 6ord:QA, 7rq8:1a, 7rq9:1a, 7rqa:1a, 7rqb:1a, 7rqc:1a, 7rqd:1a, 7rqe:1a, 8t8b:1a, 8t8c:1a, 7u2h:1a, 7u2i:1a, 7u2j:1a, 8ud6:1a, 8ud7:1a, 8ud8:1a, 6uo1:1a, 8uvr:1a, 8uvs:1a, 5vp2:1a, 8vtu:1a, 8vtv:1a, 8vtw:1a, 8vtx:1a, 8vty:1a, 5w4k:1a, 5wis:1a, 5wit:1a, 6xhv:1a, 6xhw:1a, 6xhx:1a, 6xhy:1a, 6xqd:1a, 6xqe:1a, 4y4o:1a, 4y4p:1a, 4z3s:1a, 4zer:1a
117 7azs:16SB 1507 41 0.9512 0.0259 0.9512 1.11e-12
118 7azs:16SA 1511 41 0.9512 0.0258 0.9512 1.11e-12
119 7azo:16SB 1508 41 0.9512 0.0259 0.9512 1.11e-12
120 7azo:16SA 1512 41 0.9512 0.0258 0.9512 1.11e-12
121 4aqy:A 1510 41 0.9512 0.0258 0.9512 1.11e-12 4b3s:A, 4lf7:A, 4lf8:A
122 5a9z:BA 1515 41 0.9512 0.0257 0.9512 1.11e-12 5aa0:BA, 5imq:A, 5imr:A, 5lmr:A, 5lmt:A, 5lmu:A, 5lmv:A, 6nwy:XA, 6osi:XA, 4v4p:BA, 4v4r:AA, 4v4s:AA, 4v4t:AA, 4v4x:AA, 4v4y:AA, 4v4z:AA, 4v6f:CA
123 2uxd:A 1484 39 0.9024 0.0249 0.9487 1.44e-11
124 5zlu:G 1514 41 0.9268 0.0251 0.9268 1.86e-10
125 6dti:A 1507 30 0.7317 0.0199 1.0000 6.70e-10 6mkn:A, 6mpi:A, 1xmo:A, 1xmq:A, 1xnq:A, 1xnr:A
126 6gsj:1G 1490 28 0.6829 0.0188 1.0000 8.67e-09 6gsk:1G
127 1fka:A 1479 28 0.6829 0.0189 1.0000 8.67e-09

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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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