4U67S

Crystal structure of the large ribosomal subunit (50s) of deinococcus radiodurans containing a three residue insertion in l22
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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molecule tags Ribosome
molecule keywords 50S ribosomal protein L2
publication title The Ribosomal Protein uL22 Modulates the Shape of the Protein Exit Tunnel.
pubmed doi rcsb
total genus 21
structure length 175
sequence length 175
ec nomenclature
pdb deposition date 2014-07-28

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 4u67S01
2.170.120.20 Mainly Beta Beta Complex RNA Polymerase Alpha Subunit; Chain A, domain 2 Ribosomal protein L25, beta domain 4u67S02
5IZNA 3CF5S 4WFNS 5DM6S 2RE8A 2HZ7A 5JVHS 5DM7S 1NYLA 4WCES 1O0CA 1GTSA 4UY88 3PIOS 2ZJQS 3J7ZV 4IOAS 1GTRA 1QRUA 4P2BA 3DLLS 1B75A 5GAEW 5BNZA 4WFBS 3PIPS 5GAHW 2RD2A 4IO9S 4IOCS 1DFUP 1FEUA 5GADW 4WF9S 5JVGS 1QRTA 4U67S 4JYZA 5HL7S 2ZJPS 1O0BA 4WFAS 2ZJRS 5GAGW 1EUYA 4JXZA 3AIIA 1QRSA 1ZJWA 1EXDA 1QTQA 4JXXA 1D6KA 1EUQA 4H3SA
chains in the Genus database with same CATH superfamily
5IZNA 5DM6S 4H4KA 2RE8A 3PO2C 4QIWD 4A3MC 2PNWA 4A3JC 2PICA 3H0GC 5DM7S 1NYLA 1GTSA 2A6HA 3KW2A 4UY88 2BE5A 4MEYA 2YU9C 4OINA 3I4MC 1GTRA 4QJVA 3S1RC 1Z85A 2G6GA 5HQHA 3DLLS 2JA5C 2PPBA 2WB1D 2A69A 2PI8A 4XSXA 4E8BA 5GAEW 4WFBS 3HOZC 3PIPS 3S1NC 5IP9C 1I6HC 5C4XC 4IOCS 5GADW 1QRTA 4BY1C 1YNNA 2NVYC 1TWGC 1V6ZA 5HL7S 2ZJPS 1O0BA 4WFAS 1ZYRA 2WAQD 3WODA 3HOXC 4OIQA 5C3EC 2R93C 4KMUA 2VUMC 4A3CC 2EGVA 2E2HC 3H3VD 3DXJA 3X1LB 1EUQA 1VHKA 1YNJA 4XSZA 2PMZD 4H3SA 2KXYA 3CF5S 2R7ZC 3GTOC 5C44C 4LK0A 2HZ7A 3S1MC 4WCES 2ZJQS 5IP7C 3J7ZV 2GAEA 2NVXC 3W2VB 4C2MC 4A93C 3K7AC 4P2BA 4G7HA 1IW7A 4MQ9A 2O5IA 1I50C 1TWFC 3GTKC 1B75A 2B63C 1R9TC 4KN7A 4G7OA 2RD2A 4Y7NC 2E2IC 3HOYC 3GTMC 3RZOC 1DFUP 3I4NC 1FEUA 2KQ1A 5IYBC 3GTGC 5JVGS 3W2WB 5IYCC 4JYZA 4ZH4A 3M3YC 5FLMC 2ZJRS 3GTPC 4YFKA 1EUYA 4Q4ZA 1QRSA 4OIRA 1EXDA 3GTQC 1TWAC 4YFXA 4XLNA 2R92C 4A3IC 4GZYA 1Y1VC 4OIOA 4A3BC 4AYBD 4C3HC 2A68A 2Y0SD 3GTJC 2PA8D 4IOAS 4MEXA 4L69A 2CX8A 4OIPA 3LYWA 1NXZA 4C3JC 4BBRC 3FKIC 2PJJA 1WCMC 4A3FC 2JA8C 3HKZD 4NOIA 3S1QC 5GAHW 5IYDC 3S15C 3S2DC 1HQMA 3EQLA 4U67S 4A3GC 2L5NA 1TWCC 3CQZC 4LK1A 2JA6C 1UDXA 1BDFA 3S17C 5GAGW 4JXZA 4G7ZA 4Q5SA 2Z0YA 1Y1WC 2NWAA 1ZJWA 4XLPA 1SFOC 1QTQA 1SMYA 3RZDC 1TWHC 4YFNA 2L3UA 4A3KC 2NVTC 4BBSC 2A6EA 4WFNS 4KN4A 3PO3C 1VHYA 5JVHS 1O0CA 4YG2A 3PIOS 4J3CA 4Y52C 2AE0X 1QRUA 2EGWA 1I3QC 5TMCA 2KPUA 4V194 3S2HC 3HOUC 3GTLC 2CW0A 4BXXC 2JA7C 5BNZA 2O5JA 3HOWC 3S16C 3S14C 4LLGA 2E2JC 4IO9S 1I6VA 5D4DA 4WF9S 4BY7C 3HOVC 5TMFA 4A3EC 4LJZA 4A3DC 4C3IC 4A3LC 2NVQC 3M4OC 4JK1A 3AIIA 5C4JC 4X6AC 2G5DA 4JXXA 1D6KA 1K83C 3CZBA
chains in the Genus database with same CATH topology
5IZNA 3CF5S 4WFNS 4H4KA 5DM6S 2RE8A 2HZ7A 5JVHS 5DM7S 1NYLA 4WCES 1O0CA 1GTSA 4UY88 3PIOS 2ZJQS 3J7ZV 4IOAS 3W2VB 1GTRA 1QRUA 4P2BA 3DLLS 4V194 1B75A 5GAEW 5BNZA 4WFBS 3PIPS 5GAHW 2RD2A 4IO9S 4IOCS 1DFUP 1FEUA 5GADW 4WF9S 5JVGS 3W2WB 4U67S 1QRTA 4JYZA 5HL7S 2ZJPS 1O0BA 4WFAS 2ZJRS 1UDXA 5GAGW 1EUYA 4JXZA 3AIIA 1QRSA 1ZJWA 1EXDA 1QTQA 4JXXA 1D6KA 3X1LB 1EUQA 4H3SA
chains in the Genus database with same CATH homology


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