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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publication title The Ribosomal Protein uL22 Modulates the Shape of the Protein Exit Tunnel.
pubmed doi rcsb
molecule tags Ribosome
molecule keywords 50S ribosomal protein L2
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
1GTSA 1EUQA 4UY88 5HL7S 3PIPS 1ZJWA 3DLLS 1EUYA 5GAGW 2RD2A 4JYZA 1D6KA 1GTRA 5JVGS 4IO9S 5BNZA 4JXXA 4P2BA 4U67S 2RE8A 5IZNA 1NYLA 4WFAS 3PIOS 1B75A 4IOCS 2ZJRS 4WFNS 1EXDA 3AIIA 5GADW 1O0BA 2ZJQS 2HZ7A 4H3SA 4WCES 4JXZA 1DFUP 5GAHW 5DM7S 4IOAS 1FEUA 1O0CA 1QRUA 4WF9S 1QTQA 3J7ZV 2ZJPS 1QRSA 3CF5S 5DM6S 4WFBS 5JVHS 1QRTA 5GAEW
chains in the Genus database with same CATH superfamily
4Q4ZA 3S2HC 3GTOC 4UY88 3I4NC 4BY1C 2WAQD 4XSXA 2RD2A 3HOYC 2PJJA 1VHYA 4JYZA 1GTRA 1NXZA 4A3BC 2A6HA 4IO9S 2EGWA 5IP7C 3S16C 1ZYRA 5C4XC 4P2BA 1B75A 2CW0A 3HOXC 3M4OC 4QIWD 1I6VA 4KN7A 5C44C 3CZBA 2HZ7A 3HOZC 4C3HC 4A3LC 3PO3C 4BXXC 5DM7S 1BDFA 2O5IA 4WF9S 3H0GC 1Y1WC 1QTQA 4V194 2NVYC 4MEYA 1HQMA 4WFBS 3K7AC 3RZOC 2JA5C 5GAEW 3GTMC 4MEXA 4L69A 2PMZD 1SFOC 2R93C 4J3CA 3DLLS 1EUYA 3GTJC 4A3KC 2E2HC 3HOWC 4OIPA 2CX8A 3WODA 4LLGA 2R92C 3M3YC 4A3DC 4Q5SA 4C3JC 4YG2A 2GAEA 5IZNA 4WFAS 2RE8A 1TWAC 2L3UA 1VHKA 5D4DA 4A3IC 4A3MC 3EQLA 2JA8C 3HKZD 1R9TC 2BE5A 2KXYA 2R7ZC 5GADW 2E2JC 3S14C 4XLPA 3GTLC 3I4MC 5GAHW 3S1RC 1FEUA 2AE0X 2Y0SD 1O0CA 4XLNA 4A93C 2PICA 4G7OA 3J7ZV 2ZJPS 3W2WB 2A6EA 2NVXC 4C3IC 3KW2A 5JVHS 4YFNA 3PO2C 1IW7A 4E8BA 4AYBD 3S1NC 2PI8A 2NVTC 3S2DC 3RZDC 1EUQA 5HL7S 1ZJWA 1I3QC 5TMCA 2L5NA 4NOIA 4LK0A 5GAGW 5IYDC 2PPBA 2YU9C 3HOVC 4OIRA 4GZYA 5JVGS 3CQZC 3FKIC 4QJVA 5BNZA 1Z85A 4U67S 5IP9C 1I6HC 1NYLA 3PIOS 2JA7C 2A69A 2ZJRS 4X6AC 1TWFC 1UDXA 2NWAA 2ZJQS 3S17C 2EGVA 4BBSC 1SMYA 2KQ1A 4ZH4A 3S1QC 4WCES 4H4KA 4MQ9A 4A3GC 1K83C 4A3CC 4IOAS 2PA8D 4OIQA 2VUMC 1YNNA 4OINA 1QRUA 2JA6C 4JK1A 3S1MC 1QRSA 2Z0YA 5IYCC 1V6ZA 2NVQC 1WCMC 4YFXA 4A3EC 1GTSA 3DXJA 4KN4A 1TWGC 5FLMC 3HOUC 3PIPS 3S15C 1D6KA 2G6GA 3W2VB 4JXXA 2KPUA 5C3EC 1I50C 4XSZA 4C2MC 4G7HA 4A3FC 4LJZA 4IOCS 4Y52C 4WFNS 1EXDA 4BBRC 3GTPC 4A3JC 3AIIA 2B63C 3GTQC 1O0BA 2A68A 2G5DA 1TWHC 2WB1D 3LYWA 3GTKC 3H3VD 4BY7C 1YNJA 2O5JA 4H3SA 5HQHA 4JXZA 1DFUP 5IYBC 3GTGC 4LK1A 2PNWA 4OIOA 1TWCC 3X1LB 2E2IC 3CF5S 4Y7NC 5DM6S 4KMUA 4G7ZA 1QRTA 4YFKA 5TMFA 5C4JC 1Y1VC
chains in the Genus database with same CATH topology
1GTSA 1EUQA 4UY88 5HL7S 3PIPS 1ZJWA 3DLLS 1EUYA 5GAGW 2RD2A 4JYZA 1D6KA 1GTRA 3W2VB 5JVGS 4IO9S 5BNZA 4JXXA 4P2BA 4U67S 2RE8A 5IZNA 1NYLA 4WFAS 3PIOS 1B75A 4IOCS 2ZJRS 4WFNS 1EXDA 3AIIA 5GADW 1UDXA 2ZJQS 1O0BA 2HZ7A 4H3SA 4H4KA 4WCES 4JXZA 1DFUP 5GAHW 5DM7S 4IOAS 1FEUA 1O0CA 1QRUA 4WF9S 1QTQA 3J7ZV 2ZJPS 3W2WB 1QRSA 4V194 3CF5S 3X1LB 5DM6S 4WFBS 5JVHS 1QRTA 5GAEW
chains in the Genus database with same CATH homology


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