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


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