3PIOS

Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit
Total Genus 14
Loading diagram...

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
MELTAKPRTPKQKLDESMIAAVAYNKENNVSFALDRKAFDRAFRQQSTTGLFDITVEGGETFPALVKAVQMDKRKRAPIHVDFYMVTYGEPVEVSVPVHTTGRSQGEVQGGLVDIVVHNLQIVAPGPRRIPQELVVDVTKMNIGDHITAGDIKLPEGCTLAADPELTVVSVLPPR
Loading diagram...

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


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...