4IOCS

Crystal structure of compound 4f bound to large ribosomal subunit (50s) from deinococcus radiodurans
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
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 Novel 3-O-carbamoyl erythromycin A derivatives (carbamolides) with activity against resistant staphylococcal and streptococcal isolates.
pubmed doi rcsb
molecule tags Ribosome/ribosome inhibitor
molecule keywords 23S ribosomal RNA
total genus 21
structure length 175
sequence length 175
ec nomenclature
pdb deposition date 2013-01-07

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 4iocS01
2.170.120.20 Mainly Beta Beta Complex RNA Polymerase Alpha Subunit; Chain A, domain 2 Ribosomal protein L25, beta domain 4iocS02
4IO9S 3J7ZV 4JXXA 1QRUA 5IZNA 4WFBS 2ZJPS 4H3SA 1GTRA 1D6KA 5JVGS 4WFNS 4JXZA 2RE8A 1O0BA 1EUQA 4IOAS 2ZJRS 1FEUA 1QRSA 3CF5S 1ZJWA 3AIIA 3PIPS 3DLLS 1QTQA 3PIOS 1GTSA 4WF9S 1EXDA 2HZ7A 1EUYA 1O0CA 4WCES 5DM7S 4U67S 5GAHW 5GAEW 5DM6S 5GADW 1B75A 4JYZA 4UY88 5HL7S 4IOCS 1DFUP 5BNZA 2RD2A 1NYLA 4WFAS 5JVHS 5GAGW 2ZJQS 4P2BA 1QRTA
chains in the Genus database with same CATH superfamily
3GTLC 3H0GC 4XSXA 5IZNA 4KMUA 4C3HC 4C3IC 4XLNA 2YU9C 3GTOC 3S2DC 2CX8A 1YNJA 4J3CA 2VUMC 4NOIA 2PPBA 4JXZA 4A93C 2AE0X 3S1NC 1I3QC 1UDXA 3RZDC 4BBSC 3CF5S 4G7HA 4LLGA 2GAEA 1NXZA 1EXDA 3X1LB 3S1RC 2HZ7A 4OIRA 4A3GC 1EUYA 2CW0A 4WCES 3GTGC 3PO3C 2KXYA 2KPUA 2BE5A 2PNWA 5IYCC 3GTPC 5GADW 4UY88 5TMCA 2JA5C 2JA7C 3HOVC 4V194 3FKIC 2JA6C 3S1MC 1DFUP 2A6HA 2PMZD 3S17C 3S1QC 4LK1A 2A68A 1Y1WC 2NVQC 3W2VB 5GAGW 3HKZD 5IP7C 4A3BC 4GZYA 5D4DA 5HQHA 2Y0SD 2ZJPS 5C44C 4YFNA 4YG2A 4KN4A 3GTJC 3HOWC 1VHYA 5JVGS 1SMYA 5IYDC 4WFNS 3EQLA 2RE8A 4L69A 1O0BA 4XLPA 2E2JC 4BY1C 4OINA 3PO2C 3AIIA 3PIPS 1TWFC 5IP9C 1GTSA 4LJZA 2G5DA 3DXJA 3CQZC 4BBRC 4MEYA 4QIWD 1TWGC 4BXXC 5DM7S 3M4OC 5GAEW 4MEXA 1IW7A 1Z85A 4JYZA 1B75A 2NVYC 5FLMC 4Q5SA 4IOCS 4Y52C 5BNZA 2KQ1A 1NYLA 4G7ZA 2JA8C 4AYBD 3H3VD 3GTMC 2PJJA 3J7ZV 3W2WB 4JXXA 1QRUA 4QJVA 4OIPA 1TWCC 1SFOC 4JK1A 5C4XC 4C3JC 4WFBS 1Y1VC 4H3SA 2Z0YA 1D6KA 1TWHC 2NWAA 1R9TC 2PI8A 1EUQA 2EGWA 4LK0A 3S15C 4XSZA 4WF9S 3S14C 3I4MC 4YFKA 3GTQC 2WAQD 3K7AC 1O0CA 4KN7A 4A3EC 2PICA 5IYBC 4BY7C 4Q4ZA 1V6ZA 3CZBA 4A3LC 1ZYRA 4A3MC 1WCMC 2G6GA 3WODA 2EGVA 4E8BA 1K83C 4MQ9A 2A69A 2RD2A 4A3FC 3GTKC 2E2HC 4WFAS 2ZJQS 4ZH4A 1I6HC 4IO9S 2B63C 3HOZC 2NVTC 2L3UA 4X6AC 2A6EA 1HQMA 1TWAC 2E2IC 2O5JA 1GTRA 4A3IC 3I4NC 5TMFA 4A3DC 4IOAS 1FEUA 2ZJRS 1YNNA 4OIOA 3S16C 1QRSA 2R7ZC 3HOXC 1ZJWA 1BDFA 3DLLS 1QTQA 4A3JC 3PIOS 4A3KC 4OIQA 3M3YC 4Y7NC 2WB1D 1VHKA 1I6VA 4YFXA 3S2HC 3HOYC 1I50C 4U67S 5C4JC 5GAHW 5DM6S 4H4KA 3HOUC 3KW2A 4A3CC 5HL7S 5C3EC 2PA8D 2R92C 2R93C 4C2MC 4G7OA 2L5NA 2NVXC 5JVHS 3LYWA 2O5IA 3RZOC 4P2BA 1QRTA
chains in the Genus database with same CATH topology
4IO9S 3J7ZV 3W2WB 4JXXA 1QRUA 5IZNA 4WFBS 2ZJPS 4H3SA 1GTRA 1D6KA 5JVGS 4WFNS 4JXZA 2RE8A 1O0BA 1EUQA 4IOAS 2ZJRS 1FEUA 1UDXA 1QRSA 3CF5S 1ZJWA 3AIIA 3PIPS 3DLLS 1QTQA 3PIOS 1GTSA 4WF9S 1EXDA 3X1LB 2HZ7A 1EUYA 1O0CA 4WCES 5DM7S 4U67S 5GAHW 5GAEW 5DM6S 5GADW 1B75A 4H4KA 4JYZA 4UY88 5HL7S 4V194 4IOCS 1DFUP 5BNZA 2RD2A 1NYLA 4WFAS 5JVHS 3W2VB 5GAGW 2ZJQS 4P2BA 1QRTA
chains in the Genus database with same CATH homology


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