3PIOS

Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit
Total Genus 14
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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
14
sequence length
175
structure length
175
Chain Sequence
b'MELTAKPRTPKQKLDESMIAAVAYNKENNVSFALDRKAFDRAFRQQSTTGLFDITVEGGETFPALVKAVQMDKRKRAPIHVDFYMVTYGEPVEVSVPVHTTGRSQGEVQGGLVDIVVHNLQIVAPGPRRIPQELVVDVTKMNIGDHITAGDIKLPEGCTLAADPELTVVSVLPPR'
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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 Crystal structure of the synergistic antibiotic pair, lankamycin and lankacidin, in complex with the large ribosomal subunit.
pubmed doi rcsb
molecule keywords RIBOSOMAL 23S RNA
molecule tags Ribosome/antibiotic
total genus 14
structure length 175
sequence length 175
ec nomenclature
pdb deposition date 2010-11-07

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
S PF01386 Ribosomal_L25p Ribosomal L25p family
S PF14693 Ribosomal_TL5_C Ribosomal protein TL5, C-terminal domain
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 3pioS01
2.170.120.20 Mainly Beta Beta Complex RNA Polymerase Alpha Subunit; Chain A, domain 2 Ribosomal protein L25, beta domain 3pioS02
5GAEW 3CF5S 4U67S 4WCES 2ZJQS 2ZJPS 1O0BA 4WFAS 1QRUA 1B75A 3AIIA 1EUYA 3PIPS 5JVGS 4IOAS 1DFUP 3PIOS 4JXXA 1QTQA 1O0CA 1NYLA 5DM7S 5BNZA 5HL7S 4WFBS 1D6KA 4JYZA 2RE8A 3DLLS 1FEUA 4P2BA 4WF9S 4IO9S 1EUQA 2RD2A 3J7ZV 4UY88 5GAHW 5GADW 5IZNA 2HZ7A 1EXDA 4IOCS 4JXZA 4WFNS 5JVHS 2ZJRS 4H3SA 1QRSA 1ZJWA 5DM6S 1QRTA 1GTSA 1GTRA 5GAGW
chains in the Genus database with same CATH superfamily
4QIWD 4KN7A 5GAEW 2L3UA 4QJVA 2ZJQS 2E2HC 3HOUC 3S17C 1O0BA 3FKIC 4WFAS 1QRUA 4ZH4A 4Q4ZA 4JK1A 1EUYA 1V6ZA 4BXXC 3GTMC 2GAEA 4J3CA 1O0CA 1QTQA 1Y1VC 5DM7S 3WODA 5BNZA 1D6KA 4BY1C 5C4XC 4JYZA 2BE5A 1I3QC 3S14C 4WF9S 1I50C 4BY7C 2NVTC 5C3EC 3GTKC 3PO2C 2CW0A 3GTJC 2A6HA 1VHKA 5GADW 4YG2A 2PJJA 2R7ZC 2EGVA 4A3DC 1UDXA 3GTGC 3W2WB 4YFXA 4A3IC 2KQ1A 2NVYC 2JA6C 1VHYA 4G7ZA 1NXZA 5GAGW 4V194 3CQZC 4A3CC 2O5JA 1I6VA 1I6HC 4U67S 5IYCC 3LYWA 5IP9C 2JA8C 5HQHA 5TMCA 4OINA 3PO3C 2JA7C 3H3VD 4KMUA 3S1RC 2Z0YA 2E2JC 3S15C 3HOWC 2R93C 3AIIA 5C44C 3M4OC 5JVGS 4A93C 3PIOS 5IP7C 2B63C 5HL7S 4WFBS 3K7AC 2PNWA 2PICA 4Y7NC 2CX8A 4IO9S 1ZYRA 5C4JC 4G7HA 3GTLC 2NVXC 3J7ZV 4UY88 2WAQD 4MQ9A 4OIPA 3HOVC 2E2IC 1YNNA 5IZNA 1EXDA 3I4NC 1TWGC 2PPBA 4Y52C 1BDFA 4A3KC 4MEYA 1R9TC 4G7OA 3S2HC 2PA8D 4A3EC 1YNJA 3DXJA 3HKZD 4LLGA 1TWFC 1WCMC 4XSXA 4AYBD 3CF5S 3HOZC 3GTPC 2PI8A 3M3YC 3S16C 4C3IC 3KW2A 2ZJPS 4H4KA 4A3BC 5D4DA 1TWAC 1B75A 2R92C 4LK0A 4A3GC 4Q5SA 1IW7A 4MEXA 3RZDC 3PIPS 4IOAS 4JXXA 4A3LC 1Y1WC 4A3MC 5IYBC 1TWCC 5FLMC 4C3JC 2RE8A 3DLLS 1FEUA 4P2BA 2A69A 3S1NC 3GTOC 2G5DA 2EGWA 5GAHW 2PMZD 4YFKA 4A3JC 3I4MC 4IOCS 2NWAA 2AE0X 4BBRC 4JXZA 2A6EA 2Y0SD 5DM6S 1QRTA 1K83C 4XSZA 4OIRA 1DFUP 2KPUA 5IYDC 3EQLA 4OIQA 3S2DC 1HQMA 3S1MC 2JA5C 4LK1A 2L5NA 5TMFA 4WCES 4KN4A 3CZBA 4LJZA 3W2VB 4OIOA 4XLNA 3HOYC 4GZYA 1SMYA 4BBSC 2VUMC 4NOIA 4A3FC 4L69A 1NYLA 1TWHC 4E8BA 2WB1D 1EUQA 2RD2A 4XLPA 2KXYA 3RZOC 3X1LB 2YU9C 2HZ7A 4C3HC 3HOXC 3GTQC 4YFNA 4WFNS 5JVHS 4X6AC 2G6GA 2ZJRS 2A68A 4H3SA 1QRSA 2O5IA 1ZJWA 2NVQC 1SFOC 4C2MC 1GTSA 3H0GC 3S1QC 1GTRA 1Z85A
chains in the Genus database with same CATH topology
4V194 5GAEW 3CF5S 4U67S 4WCES 2ZJQS 2ZJPS 4H4KA 3W2VB 1O0BA 4WFAS 1QRUA 1B75A 3AIIA 1EUYA 3PIPS 5JVGS 4IOAS 1DFUP 3PIOS 4JXXA 1QTQA 1O0CA 1NYLA 5DM7S 5BNZA 5HL7S 4WFBS 1D6KA 4JYZA 2RE8A 3DLLS 1FEUA 4P2BA 4WF9S 4IO9S 1EUQA 2RD2A 3J7ZV 4UY88 3X1LB 5GAHW 5GADW 5IZNA 2HZ7A 1EXDA 4IOCS 4JXZA 1UDXA 4WFNS 5JVHS 3W2WB 2ZJRS 4H3SA 1QRSA 1ZJWA 5DM6S 1QRTA 1GTSA 1GTRA 5GAGW
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 5GAE W;  3CF5 S;  4U67 S;  4WCE S;  2ZJQ S;  2ZJP S;  1O0B A;  4WFA S;  1QRU A;  1B75 A;  3AII A;  1EUY A;  3PIP S;  5JVG S;  4IOA S;  1DFU P;  3PIO S;  4JXX A;  1QTQ A;  1O0C A;  1NYL A;  5DM7 S;  5BNZ A;  5HL7 S;  4WFB S;  1D6K A;  4JYZ A;  2RE8 A;  3DLL S;  1FEU A;  4P2B A;  4WF9 S;  4IO9 S;  1EUQ A;  2RD2 A;  3J7Z V;  4UY8 8;  5GAH W;  5GAD W;  5IZN A;  2HZ7 A;  1EXD A;  4IOC S;  4JXZ A;  4WFN S;  5JVH S;  2ZJR S;  4H3S A;  1QRS A;  1ZJW A;  5DM6 S;  1QRT A;  1GTS A;  1GTR A;  5GAG W; 
#chains in the Genus database with same CATH topology
 4QIW D;  4KN7 A;  5GAE W;  2L3U A;  4QJV A;  2ZJQ S;  2E2H C;  3HOU C;  3S17 C;  1O0B A;  3FKI C;  4WFA S;  1QRU A;  4ZH4 A;  4Q4Z A;  4JK1 A;  1EUY A;  1V6Z A;  4BXX C;  3GTM C;  2GAE A;  4J3C A;  1O0C A;  1QTQ A;  1Y1V C;  5DM7 S;  3WOD A;  5BNZ A;  1D6K A;  4BY1 C;  5C4X C;  4JYZ A;  2BE5 A;  1I3Q C;  3S14 C;  4WF9 S;  1I50 C;  4BY7 C;  2NVT C;  5C3E C;  3GTK C;  3PO2 C;  2CW0 A;  3GTJ C;  2A6H A;  1VHK A;  5GAD W;  4YG2 A;  2PJJ A;  2R7Z C;  2EGV A;  4A3D C;  1UDX A;  3GTG C;  3W2W B;  4YFX A;  4A3I C;  2KQ1 A;  2NVY C;  2JA6 C;  1VHY A;  4G7Z A;  1NXZ A;  5GAG W;  4V19 4;  3CQZ C;  4A3C C;  2O5J A;  1I6V A;  1I6H C;  4U67 S;  5IYC C;  3LYW A;  5IP9 C;  2JA8 C;  5HQH A;  5TMC A;  4OIN A;  3PO3 C;  2JA7 C;  3H3V D;  4KMU A;  3S1R C;  2Z0Y A;  2E2J C;  3S15 C;  3HOW C;  2R93 C;  3AII A;  5C44 C;  3M4O C;  5JVG S;  4A93 C;  3PIO S;  5IP7 C;  2B63 C;  5HL7 S;  4WFB S;  3K7A C;  2PNW A;  2PIC A;  4Y7N C;  2CX8 A;  4IO9 S;  1ZYR A;  5C4J C;  4G7H A;  3GTL C;  2NVX C;  3J7Z V;  4UY8 8;  2WAQ D;  4MQ9 A;  4OIP A;  3HOV C;  2E2I C;  1YNN A;  5IZN A;  1EXD A;  3I4N C;  1TWG C;  2PPB A;  4Y52 C;  1BDF A;  4A3K C;  4MEY A;  1R9T C;  4G7O A;  3S2H C;  2PA8 D;  4A3E C;  1YNJ A;  3DXJ A;  3HKZ D;  4LLG A;  1TWF C;  1WCM C;  4XSX A;  4AYB D;  3CF5 S;  3HOZ C;  3GTP C;  2PI8 A;  3M3Y C;  3S16 C;  4C3I C;  3KW2 A;  2ZJP S;  4H4K A;  4A3B C;  5D4D A;  1TWA C;  1B75 A;  2R92 C;  4LK0 A;  4A3G C;  4Q5S A;  1IW7 A;  4MEX A;  3RZD C;  3PIP S;  4IOA S;  4JXX A;  4A3L C;  1Y1W C;  4A3M C;  5IYB C;  1TWC C;  5FLM C;  4C3J C;  2RE8 A;  3DLL S;  1FEU A;  4P2B A;  2A69 A;  3S1N C;  3GTO C;  2G5D A;  2EGW A;  5GAH W;  2PMZ D;  4YFK A;  4A3J C;  3I4M C;  4IOC S;  2NWA A;  2AE0 X;  4BBR C;  4JXZ A;  2A6E A;  2Y0S D;  5DM6 S;  1QRT A;  1K83 C;  4XSZ A;  4OIR A;  1DFU P;  2KPU A;  5IYD C;  3EQL A;  4OIQ A;  3S2D C;  1HQM A;  3S1M C;  2JA5 C;  4LK1 A;  2L5N A;  5TMF A;  4WCE S;  4KN4 A;  3CZB A;  4LJZ A;  3W2V B;  4OIO A;  4XLN A;  3HOY C;  4GZY A;  1SMY A;  4BBS C;  2VUM C;  4NOI A;  4A3F C;  4L69 A;  1NYL A;  1TWH C;  4E8B A;  2WB1 D;  1EUQ A;  2RD2 A;  4XLP A;  2KXY A;  3RZO C;  3X1L B;  2YU9 C;  2HZ7 A;  4C3H C;  3HOX C;  3GTQ C;  4YFN A;  4WFN S;  5JVH S;  4X6A C;  2G6G A;  2ZJR S;  2A68 A;  4H3S A;  1QRS A;  2O5I A;  1ZJW A;  2NVQ C;  1SFO C;  4C2M C;  1GTS A;  3H0G C;  3S1Q C;  1GTR A;  1Z85 A; 
#chains in the Genus database with same CATH homology
 4V19 4;  5GAE W;  3CF5 S;  4U67 S;  4WCE S;  2ZJQ S;  2ZJP S;  4H4K A;  3W2V B;  1O0B A;  4WFA S;  1QRU A;  1B75 A;  3AII A;  1EUY A;  3PIP S;  5JVG S;  4IOA S;  1DFU P;  3PIO S;  4JXX A;  1QTQ A;  1O0C A;  1NYL A;  5DM7 S;  5BNZ A;  5HL7 S;  4WFB S;  1D6K A;  4JYZ A;  2RE8 A;  3DLL S;  1FEU A;  4P2B A;  4WF9 S;  4IO9 S;  1EUQ A;  2RD2 A;  3J7Z V;  4UY8 8;  3X1L B;  5GAH W;  5GAD W;  5IZN A;  2HZ7 A;  1EXD A;  4IOC S;  4JXZ A;  1UDX A;  4WFN S;  5JVH S;  3W2W B;  2ZJR S;  4H3S A;  1QRS A;  1ZJW A;  5DM6 S;  1QRT A;  1GTS A;  1GTR A;  5GAG W; 
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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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