5GAGW

Rnc in complex with srp-sr in the closed state
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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molecule keywords SRP 4.5S RNA
publication title Structures of the E. coli translating ribosome with SRP and its receptor and with the translocon.
pubmed doi rcsb
source organism Escherichia coli
molecule tags Ribosome
total genus 22
structure length 94
sequence length 94
ec nomenclature
pdb deposition date 2015-11-26

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
W 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 5gagW00
1EUQA 1GTSA 3PIOS 1O0BA 1NYLA 5JVGS 3J7ZV 1QTQA 3DLLS 4WF9S 4WFNS 3CF5S 4WFAS 2ZJQS 5HL7S 4IOCS 1QRSA 5GAHW 1EUYA 4JXXA 5GAGW 1ZJWA 2HZ7A 4JYZA 1O0CA 1QRTA 3PIPS 2RD2A 1D6KA 5DM7S 4IO9S 4P2BA 1EXDA 1B75A 5BNZA 5IZNA 4JXZA 4WCES 2ZJRS 5GAEW 3AIIA 1QRUA 5GADW 4IOAS 4WFBS 2RE8A 1GTRA 1FEUA 4U67S 4UY88 2ZJPS 4H3SA 1DFUP 5DM6S 5JVHS
chains in the Genus database with same CATH superfamily
4J3CA 1NYLA 3CF5S 2EGWA 1QRSA 1QRTA 2Z0YA 4H4KA 3X1LB 4E8BA 5DM7S 4IO9S 1EXDA 2CX8A 5IZNA 4WCES 5GAEW 1Z85A 1EUQA 1QTQA 3DLLS 4WF9S 2PJJA 2ZJQS 2PICA 5GAHW 2HZ7A 1VHYA 1B75A 1QRUA 2EGVA 1V6ZA 2PI8A 3CZBA 4U67S 2ZJPS 4H3SA 2G5DA 1GTSA 3PIOS 2G6GA 4WFAS 5HL7S 4IOCS 1EUYA 4JXXA 1ZJWA 4JYZA 1O0CA 2RD2A 3W2VB 4P2BA 3AIIA 1NXZA 5GADW 4IOAS 1VHKA 1GTRA 2GAEA 4V194 5DM6S 2AE0X 1UDXA 3W2WB 1O0BA 5JVGS 3J7ZV 4WFNS 2NWAA 5GAGW 3PIPS 1D6KA 3KW2A 5BNZA 4JXZA 2ZJRS 4L69A 2PNWA 4WFBS 1FEUA 4UY88 1DFUP 2RE8A 5JVHS
chains in the Genus database with same CATH topology
1UDXA 3W2WB 1EUQA 1GTSA 3PIOS 1O0BA 1NYLA 5JVGS 3J7ZV 1QTQA 3DLLS 4WF9S 4WFNS 3CF5S 4WFAS 2ZJQS 5HL7S 4IOCS 1QRSA 5GAHW 1EUYA 4JXXA 5GAGW 1ZJWA 2HZ7A 4JYZA 1O0CA 1QRTA 3PIPS 4H4KA 2RD2A 1D6KA 3X1LB 3W2VB 5DM7S 4IO9S 4P2BA 1EXDA 1B75A 5BNZA 5IZNA 4JXZA 4WCES 2ZJRS 5GAEW 3AIIA 4V194 1QRUA 5GADW 4IOAS 4WFBS 2RE8A 1GTRA 1FEUA 4U67S 4UY88 2ZJPS 4H3SA 1DFUP 5DM6S 5JVHS
chains in the Genus database with same CATH homology


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

 
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#similar chains, but unknotted
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