1D6KA

Nmr solution structure of the 5s rrna e-loop/l25 complex
Total Genus 22
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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.

Total Genus
22
sequence length
94
structure length
94
Chain Sequence
MFTINAEVRKEQGKGASRRLRAANKFPAIIYGGKEAPLAIELDHDKVMNMQAKAEFYSEVLTIVVDGKEIKVKAQDVQRHPYKPKLQHIDFVRA
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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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publication title The NMR structure of the 5S rRNA E-domain-protein L25 complex shows preformed and induced recognition.
pubmed doi rcsb
source organism Escherichia coli
molecule tags Ribosome
molecule keywords 5S RRNA E-LOOP (5SE)
total genus 22
structure length 94
sequence length 94
ec nomenclature
pdb deposition date 1999-10-14

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01386 Ribosomal_L25p Ribosomal L25p family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.240.10 Mainly Beta Beta Barrel Ribosomal Protein L25; Chain P Ribosomal Protein L25; Chain P 1d6kA00
1FEUA 4WF9S 4P2BA 5GAHW 3DLLS 2ZJPS 1GTSA 5GAEW 1EUYA 2ZJQS 1ZJWA 1O0CA 5DM7S 2ZJRS 5BNZA 4IOCS 5HL7S 1DFUP 3AIIA 3PIPS 4U67S 5GAGW 4IOAS 5IZNA 5DM6S 1D6KA 4JXXA 1QRUA 4JXZA 4H3SA 1QRTA 5JVGS 1EUQA 1QTQA 4IO9S 1EXDA 1GTRA 2HZ7A 4WFBS 1NYLA 4WFAS 2RD2A 4JYZA 1QRSA 4WCES 5JVHS 5GADW 2RE8A 4UY88 4WFNS 3CF5S 1B75A 3PIOS 1O0BA 3J7ZV
chains in the Genus database with same CATH superfamily
1VHKA 1FEUA 4WF9S 4P2BA 5GAHW 2PJJA 2AE0X 3DLLS 2ZJPS 1GTSA 2GAEA 5GAEW 4J3CA 3W2WB 2ZJQS 1ZJWA 3J7ZV 1O0CA 1EUYA 4E8BA 5DM7S 2ZJRS 1GTRA 5BNZA 4IOCS 5HL7S 1DFUP 3AIIA 2NWAA 3PIPS 4U67S 2CX8A 2Z0YA 5GAGW 4V194 4H4KA 2EGWA 5IZNA 5DM6S 4JXXA 1D6KA 1V6ZA 1QRUA 2G5DA 4JXZA 1Z85A 2EGVA 4H3SA 1QRTA 5JVGS 2PI8A 3X1LB 1EUQA 4IOAS 1QTQA 1VHYA 3KW2A 4IO9S 1UDXA 3W2VB 1EXDA 2HZ7A 4L69A 1NYLA 4WFBS 4WFAS 1NXZA 2RD2A 4JYZA 1QRSA 4WCES 5JVHS 5GADW 2RE8A 4UY88 3CZBA 2PICA 2G6GA 4WFNS 3CF5S 1B75A 3PIOS 1O0BA 2PNWA
chains in the Genus database with same CATH topology
1FEUA 4WF9S 4P2BA 5GAHW 3DLLS 2ZJPS 1GTSA 5GAEW 1EUYA 3W2WB 2ZJQS 1ZJWA 1O0CA 5DM7S 2ZJRS 5BNZA 4IOCS 5HL7S 1DFUP 3AIIA 3PIPS 4U67S 5GAGW 4IOAS 4V194 4H4KA 5DM6S 5IZNA 1D6KA 4JXXA 1QRUA 4JXZA 4H3SA 1QRTA 5JVGS 3X1LB 1EUQA 1QTQA 4IO9S 1EXDA 3W2VB 1UDXA 1GTRA 2HZ7A 4WFBS 1NYLA 4WFAS 2RD2A 4JYZA 1QRSA 4WCES 5JVHS 5GADW 2RE8A 4UY88 4WFNS 3CF5S 1B75A 3PIOS 1O0BA 3J7ZV
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1FEU A;  4WF9 S;  4P2B A;  5GAH W;  3DLL S;  2ZJP S;  1GTS A;  5GAE W;  1EUY A;  2ZJQ S;  1ZJW A;  1O0C A;  5DM7 S;  2ZJR S;  5BNZ A;  4IOC S;  5HL7 S;  1DFU P;  3AII A;  3PIP S;  4U67 S;  5GAG W;  4IOA S;  5IZN A;  5DM6 S;  1D6K A;  4JXX A;  1QRU A;  4JXZ A;  4H3S A;  1QRT A;  5JVG S;  1EUQ A;  1QTQ A;  4IO9 S;  1EXD A;  1GTR A;  2HZ7 A;  4WFB S;  1NYL A;  4WFA S;  2RD2 A;  4JYZ A;  1QRS A;  4WCE S;  5JVH S;  5GAD W;  2RE8 A;  4UY8 8;  4WFN S;  3CF5 S;  1B75 A;  3PIO S;  1O0B A;  3J7Z V; 
#chains in the Genus database with same CATH topology
 1VHK A;  1FEU A;  4WF9 S;  4P2B A;  5GAH W;  2PJJ A;  2AE0 X;  3DLL S;  2ZJP S;  1GTS A;  2GAE A;  5GAE W;  4J3C A;  3W2W B;  2ZJQ S;  1ZJW A;  3J7Z V;  1O0C A;  1EUY A;  4E8B A;  5DM7 S;  2ZJR S;  1GTR A;  5BNZ A;  4IOC S;  5HL7 S;  1DFU P;  3AII A;  2NWA A;  3PIP S;  4U67 S;  2CX8 A;  2Z0Y A;  5GAG W;  4V19 4;  4H4K A;  2EGW A;  5IZN A;  5DM6 S;  4JXX A;  1D6K A;  1V6Z A;  1QRU A;  2G5D A;  4JXZ A;  1Z85 A;  2EGV A;  4H3S A;  1QRT A;  5JVG S;  2PI8 A;  3X1L B;  1EUQ A;  4IOA S;  1QTQ A;  1VHY A;  3KW2 A;  4IO9 S;  1UDX A;  3W2V B;  1EXD A;  2HZ7 A;  4L69 A;  1NYL A;  4WFB S;  4WFA S;  1NXZ A;  2RD2 A;  4JYZ A;  1QRS A;  4WCE S;  5JVH S;  5GAD W;  2RE8 A;  4UY8 8;  3CZB A;  2PIC A;  2G6G A;  4WFN S;  3CF5 S;  1B75 A;  3PIO S;  1O0B A;  2PNW A; 
#chains in the Genus database with same CATH homology
 1FEU A;  4WF9 S;  4P2B A;  5GAH W;  3DLL S;  2ZJP S;  1GTS A;  5GAE W;  1EUY A;  3W2W B;  2ZJQ S;  1ZJW A;  1O0C A;  5DM7 S;  2ZJR S;  5BNZ A;  4IOC S;  5HL7 S;  1DFU P;  3AII A;  3PIP S;  4U67 S;  5GAG W;  4IOA S;  4V19 4;  4H4K A;  5DM6 S;  5IZN A;  1D6K A;  4JXX A;  1QRU A;  4JXZ A;  4H3S A;  1QRT A;  5JVG S;  3X1L B;  1EUQ A;  1QTQ A;  4IO9 S;  1EXD A;  3W2V B;  1UDX A;  1GTR A;  2HZ7 A;  4WFB S;  1NYL A;  4WFA S;  2RD2 A;  4JYZ A;  1QRS A;  4WCE S;  5JVH S;  5GAD W;  2RE8 A;  4UY8 8;  4WFN S;  3CF5 S;  1B75 A;  3PIO S;  1O0B A;  3J7Z V; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
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#similar chains, but unknotted
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