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


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