3DLLS

The oxazolidinone antibiotics perturb the ribosomal peptidyl-transferase center and effect trna positioning
Total Genus 21
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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
21
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 The oxazolidinone antibiotics perturb the ribosomal peptidyl-transferase center and effect tRNA positioning
pubmed doi rcsb
molecule keywords rRNA-23S ribosomal RNA
molecule tags Ribosome
total genus 21
structure length 175
sequence length 175
ec nomenclature
pdb deposition date 2008-06-27

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 3dllS01
2.170.120.20 Mainly Beta Beta Complex RNA Polymerase Alpha Subunit; Chain A, domain 2 Ribosomal protein L25, beta domain 3dllS02
1O0CA 4WFNS 5BNZA 1EUQA 1D6KA 3PIOS 1EXDA 4UY88 2ZJQS 4JXXA 3PIPS 4WFBS 1QRTA 3J7ZV 1DFUP 4IOCS 1ZJWA 1O0BA 1EUYA 2RD2A 1FEUA 5HL7S 5IZNA 4JXZA 1QRUA 2ZJPS 4P2BA 4WF9S 4H3SA 4U67S 1QTQA 4IOAS 3AIIA 4IO9S 1GTSA 1GTRA 5DM6S 2RE8A 5JVHS 5GAGW 2HZ7A 5DM7S 1NYLA 5GADW 2ZJRS 3CF5S 4WFAS 4JYZA 5GAHW 4WCES 3DLLS 1B75A 1QRSA 5GAEW 5JVGS
chains in the Genus database with same CATH superfamily
4G7HA 2CX8A 3W2VB 4AYBD 2G5DA 2A69A 4A3MC 2JA8C 1SMYA 5BNZA 1EUQA 3PIOS 4UY88 1VHYA 2GAEA 2ZJQS 4QIWD 4JXXA 3HOUC 4WFBS 1R9TC 4X6AC 2NVTC 2Z0YA 4YFXA 4IOCS 3S1QC 4A3CC 1Y1WC 1I6HC 2YU9C 1VHKA 3K7AC 4ZH4A 4OIRA 3S1NC 1EUYA 5HL7S 4E8BA 5IZNA 4LLGA 2B63C 5C4XC 2ZJPS 3HOZC 4P2BA 2JA7C 3HOWC 2Y0SD 4A3DC 2E2JC 5TMCA 4IOAS 4OIQA 4IO9S 1GTSA 5C44C 4MEYA 4Y52C 3DXJA 2KQ1A 4YFNA 4L69A 5DM7S 5GADW 3S1MC 2O5IA 4WFAS 2NVXC 4WCES 2WAQD 1HQMA 1V6ZA 4XLPA 4KN4A 3GTOC 2R7ZC 5HQHA 4Y7NC 4WFNS 3CQZC 4BY1C 1TWAC 1D6KA 3GTGC 3S2DC 2O5JA 3KW2A 3PO2C 4A3IC 3HOVC 2AE0X 5C4JC 2NVQC 2A68A 3H0GC 4A93C 4A3EC 4OINA 3GTJC 3GTQC 1K83C 2A6EA 4U67S 1QTQA 3WODA 1IW7A 4Q5SA 1I3QC 3M4OC 4MQ9A 2PICA 2PNWA 1YNJA 1NYLA 3CF5S 1TWGC 2KXYA 2L3UA 5IYCC 4LK0A 5GAHW 1B75A 3DLLS 1I6VA 4KMUA 3H3VD 3HKZD 3S2HC 3GTPC 2PPBA 1TWFC 1BDFA 4LJZA 4OIOA 2JA6C 2EGVA 3S17C 2A6HA 5TMFA 4V194 2PJJA 1UDXA 4A3JC 3PIPS 1QRTA 4BBRC 4MEXA 3GTMC 1TWCC 4C3HC 2CW0A 4C3JC 3GTLC 1O0BA 2PI8A 4A3BC 4A3FC 4BBSC 1FEUA 4GZYA 3RZDC 2PMZD 4XLNA 1ZYRA 3FKIC 5D4DA 3HOXC 2R93C 5DM6S 3I4NC 2RE8A 5JVHS 1YNNA 2NVYC 4QJVA 3I4MC 4KN7A 2PA8D 3M3YC 3EQLA 1TWHC 2ZJRS 4A3GC 3X1LB 3S15C 3RZOC 5JVGS 4YFKA 1Y1VC 1O0CA 2E2IC 4OIPA 3CZBA 3S1RC 1EXDA 3LYWA 1DFUP 4NOIA 3J7ZV 5IP7C 5IYBC 3S16C 2BE5A 2VUMC 4XSXA 1ZJWA 2RD2A 3HOYC 2KPUA 1I50C 2L5NA 4Q4ZA 3S14C 2G6GA 4JXZA 1QRUA 4BY7C 2JA5C 3PO3C 1SFOC 4J3CA 4A3LC 4WF9S 4H3SA 4A3KC 4G7OA 3GTKC 2R92C 5IYDC 4YG2A 3AIIA 3W2WB 1GTRA 4JK1A 5C3EC 2EGWA 1Z85A 4H4KA 1WCMC 4LK1A 4G7ZA 4BXXC 2E2HC 5GAGW 2HZ7A 4XSZA 2NWAA 1NXZA 5FLMC 4JYZA 4C2MC 4C3IC 1QRSA 5IP9C 5GAEW 2WB1D
chains in the Genus database with same CATH topology
3W2VB 1O0CA 4WFNS 5BNZA 1EUQA 1D6KA 3PIOS 1EXDA 4UY88 2ZJQS 4V194 1UDXA 4JXXA 3PIPS 4WFBS 1QRTA 3J7ZV 1DFUP 4IOCS 1ZJWA 1O0BA 1EUYA 2RD2A 1FEUA 5HL7S 5IZNA 4JXZA 1QRUA 2ZJPS 4P2BA 4WF9S 4H3SA 4U67S 1QTQA 4IOAS 3AIIA 3W2WB 4IO9S 1GTSA 1GTRA 5DM6S 4H4KA 2RE8A 5JVHS 5GAGW 2HZ7A 5DM7S 1NYLA 5GADW 2ZJRS 3CF5S 4WFAS 4JYZA 3X1LB 5GAHW 4WCES 3DLLS 1B75A 1QRSA 5GAEW 5JVGS
chains in the Genus database with same CATH homology


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

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