5L4OA

Structure of an e.coli initiator trnafmet a1-u72 variant
Total Genus 4
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively. For RNA structures we plot several genus traces for various types of base pairs, as explained here.

Total Genus
4
sequence length
76
structure length
71
Chain Sequence
AGCGGGGGGAGCAGCCUGGAGCUCGUCGGGUCAUAACCCGAAGAUCGUCGGCAAAUCCGGCCCCCGCUACC
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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molecule tags Translation
molecule keywords tRNA (76-MER)
publication title The structure of an E. coli tRNAf(Met) A1-U72 variant shows an unusual conformation of the A1-U72 base pair.
pubmed doi rcsb
source organism Escherichia coli
total genus 4
structure length 71
sequence length 76
RNA BGSU Site RNA BGSU Site Entry
equivalent chains according to BGSU RNA Site 5hcq 1x 4v6g CC 6cae 1x 4wqr 2K 5hcq 2x 4v5f CV 5ib7 2K 4v8d CC 5hcr 1x 4z8c 1x 5j4b 1x 5el7 2K 4wsd 2L 4v8d AC 5j4b 2x 4z8c 2x 4wsd 2K 6cae 2x 4wt1 2L 4wqr 2L 5j4c 1x 4wpo BX 5w4k 1x 4v6g AC 1vy4 AX 5dfe XV 4w2h AX 5hcr 2x 5el7 2L 4lnt XV 5hd1 1x 5hcp 1x 5hau 1w 5j4c 2x 4w2i AX 5wis 1x 5ib7 2L 5el6 2K 4wt1 2K 4w2g CX 4lnt QV 6nd5 1x 4w2h CX 4yzv XV 5w4k 2x 4v5f AV 5dfe QV 4wra 2K 4wra 2L 5el6 2L 5hau 2w 5e7k 2K 4v9s AX 4y4p 1x 4w2g AX 4wr6 2K 6o97 1x 4wr6 2L 3cw5 A 5hcp 2x 4w4g XV 5doy 1x 4zer 1x 5wit 1x 5el5 2K 5hd1 2x 4v9s CX 4w2i CX 6nd5 2x 5e7k 2L 1vy7 AX 4z3s 1x 4yzv QV 1vy4 CX 4w2f AX 1vy5 AX 4v51 CV 4wpo DX 4zsn XV 4ypb XV 4w4g QV 4v9r AX 4v9r CX 4wzo 2K 4w2f CX 5wis 2x 4v8e DC 4wro 2K 4v51 AV 4v5c AV 6nd6 1x 6o97 2x 4y4p 2x 1vy6 AX 4z3s 2x 4zer 2x 4zsn QV 1vy6 CX 4wqy BX 5doy 2x 4v8f BC 4wro 2L 5wit 2x 4v5c CV 5f8k 1x 4v87 CC 4wzo 2L 4tuc QV 6nd6 2x 4ypb QV 1vy5 CX 4v8b AC 4p6f XV 4lt8 XV 4v87 BC 4v8c DC 4tuc XV 4v8e BC 5el5 2L 4v5f AW 4v5f CW 4tua XV 4tua QV 4v67 AY 4tub XV 4v7l CX 6n9e 1x 4v7p DW 4v8b CC 4tub QV 4v7l AX 4tud QV 4lt8 QV 4p6f QV 6n9e 2x 4p70 XV 4v8c CC 6n9f 1x 4v7p AW 5f8k 2x 4v67 CY 4p70 QV 4tud XV 1vvj XV 4wqy DX 1vy7 CX 6n9f 2x 5czp XV 5czp QV 4v8f CC 4lsk XV 4v6g CD 4v63 AY 4lfz XV 4lsk QV 4v63 CY 1vvj QV 4lfz QV 3cw6 A 3qsy D 4l71 XV 5d8b FD 6b4v HB 4v97 AV 4lel XV 4v6g AD 4v8c DD 4wzo 1K 4l71 QV 5d8b ED 6b4v IA 6b4v D 6b4v MC 4lel QV 4v8c CD 4v97 CV 4v8b AD 4v87 BD 4w4g XW 4w4g QW 4v87 CD 4v63 CZ 4v8b CD 4v67 AZ 4v63 AZ 5d8b XC 4v8j CV 4v6g CB 4v8o AV 5d8b BD 4v8j AV 4v67 CZ 4ypb XW 4ypb QW 4v6a CW 4v6a AW 6boh NC 6boh IA 6boh D 6boh IB 4btc V 5afi v 5afi w 5h5u 5 5j3c XV 5wdt v 5wfs v 5wdt w 5wfs w 5j3c QV 5mdv 5 6bz6 QV 5we4 v 5we4 w 5u9g W 5uym W 5u9f W 5uq8 y 5u9g X 5u9f X 5uym X 6bz6 XV 5mdw 5 6c4i y 6c4i x 5j30 QV 5j30 XV 5mdz 5 2fmt D 2fmt C 5zep w 3jce 8 5we6 v 5wfk v 5wfk w 5we6 w 6bu8 X 6bu8 W 5uq7 y 5u4i y 5u4i x 5mdy 5 6buw XV 5uyl X 5uyl W 6buw QV 5lza v 5wf0 v 5wf0 w 5zeu v 6dnc D 6dnc LA 6bz7 XV 3jcj v 5uyq X 6gxm x 5uyq W 6gwt x 6bz8 QV 6bz8 XV 6ndk XV 6bz7 QV 5kps 31 5kpw 31 5uyk W 5uyp W 6gxn x 5uyk X 5uyp X 6gxo x 6ndk QV 5kpx 31 5kps 32 3j9y v 5uyn X 5uyn W 6o9k y 5iqr 5 6bz7 XW 5kpw 32 6bz8 XW 6bz7 QW 6bz8 QW 5kpx 32 5lmu Z
ec nomenclature
pdb deposition date 2016-05-26
Image from the rcsb pdb (www.rcsb.org)
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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