4RKXA

Identification and characterization of a small molecule inhibitor of s. pyogenes speb.
Total Genus 79
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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
79
sequence length
254
structure length
254
Chain Sequence
QPVVKSLLNSKGIHYNQGNPYNLLTPVIEKVKPGEQSFVGQHAATGCVATATAQIMKYHNYPNKGLKDYTYTLSSNNPYFNHPKNLFAAISTRQYNWNNILPTYSGRESNVQKMAISELMADVGISVDMDYGPSSGSAGSSRVQRALKENFGYNQSVHQINRSDFSKQDWEAQIDKELSQNQPVYYQGVGKVGGHAFVIDGADGRNFYHVNWGWGGVSDGFFRLDALNPSALGTGGGAGGFNGYQSAVVGIKPL
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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 Identification and Co-complex Structure of a New S. pyogenes SpeB Small Molecule Inhibitor.
pubmed doi rcsb
source organism Streptococcus pyogenes
molecule tags Hydrolase/hydrolase inhibitor
molecule keywords Streptopain
total genus 79
structure length 254
sequence length 254
ec nomenclature ec 3.4.22.10: Streptopain.
pdb deposition date 2014-10-14

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01640 Peptidase_C10 Peptidase C10 family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.70.50 Alpha Beta Alpha-Beta Complex Cathepsin B; Chain A Cathepsin B; Chain A 4rkxA00
1DKIA 2UZJA 4D8EA 4RKXA 4D8BA 3BBAA 4D8IA 3BB7A 2JTCA 1PVJA
chains in the Genus database with same CATH superfamily
1DKIA 3CH3X 3HD3A 5CVNB 4YYQA 3F5VA 4D8IA 1GECE 1MEGA 1EF7A 1SP4B 2Y5BA 5EZSA 1EWPA 2HH5A 1A6RA 2YJ8A 1AECA 4YYUA 1Y08A 2J7QC 3N3KA 4XZXA 1S4VA 2AYNA 1PPPA 4BOSA 3H7DA 2AIMA 3IV2A 2G8JA 5JH3A 1NQCA 4W4UA 3H8BA 1ZCMA 4PP2E 1Q6KA 2PREA 4MZSA 2FT2A 2HD5A 1PPDA 2HXZA 4WURA 4PP1A 2G8EA 5KO3A 2O6XA 1CVZA 1QDQA 5K16A 4CDEB 1MIRA 1TU6A 3PSEA 4PT5A 3BPMA 2YJ9A 3KWBX 1QOLA 3N3GA 3P5VA 2BDLA 3MTVA 2DCAA 5CHVA 3RVVA 2ARYA 3GCBA 3HHAA 2VHSA 1TL9A 2DJGB 5CVOB 2XU3A 1JQPA 2DOSA 2E00A 3PT2A 4OEMA 3OISA 1STFE 2JTCA 1KXRA 4PADA 4YYRA 2AS8A 2DC9A 2BDZA 1GMYA 2JRIA 3I3TA 4W5BA 2R9CA 3PHUA 2PNSA 3LFYA 2CB5A 3MORA 4YYVA 1NB5A 1KFUL 2P7UA 4BOQA 1POPA 2IPPB 2AUXA 4BPVA 1CS8A 1F2CA 2YJCA 3P5WA 2DJFB 4XR7A 2G7YA 2DC8A 1CQDA 3BY4A 3W30A 3N4CA 4MSXA 1PPNA 1YZBA 1ICFA 2XU5A 4QH6A 2Z84A 3TRKA 4HXDB 1Y4HA 2NQDB 3PNRA 4BQVA 1U9XA 1F29A 2G6DA 3P5XA 2R9MA 3C9EA 1U5IA 2FO5A 1KHPA 2HWKA 2XU1A 3PDFA 1CSBB 7PCKA 4AXLA 4IP3A 1AU0A 2OP3A 4BS5A 1HUCB 4QRGA 2AGAA 3QT4A 3IMAA 4BOZA 1GCBA 2PBHA 4D8EA 1NL6A 2FRQA 5PADA 2AVWA 4MI7A 1AYWA 2P0RA 4QRXA 1SNKA 2B1MA 4RKXA 1QMYA 2P86A 1MDWA 3PBHA 1MS6A 3MHHA 3PHXA 4I04A 2DZYA 3CH2X 3IHPA 2UZJA 3TNXA 2C0YA 3O65A 3O0UA 3W31A 4XUIA 4YYSA 4R3DA 1PVJA 3PRMA 3S3QA 4I05A 3IOQA 1EWOA 1BP4A 3V6EA 2FTDA 5F02A 4FK5A 1CV8A 4YV8A 1MEMA 2R6NA 3LXSA 3KKUA 2IBIA 8PCHA 1CTEA 1PPOA 1U9QX 2DC7A 3KW9A 2Y6EA 4CDDB 3ERVA 2PADA 1ZIVA 2OULA 3BWKA 1M6DA 1YALA 3BB7A 4QBBA 3CBKA 4FJCA 1BQIA 1EWLA 5A24A 3M99A 4I07A 2NQAA 3TMPA 2GHUA 4OVZA 4YVAA 1YK7A 2E01A 5JZEA 1THEA 3PRPA 4RF0A 2E03A 3WXEA 5CVMA 1ME4A 3BCNA 4PI3A 2FQ9A 3AI8A 5J94A 2R9NA 1CB5A 1KFXL 1K3BB 2DZZA 3MHSA 2R9FA 4BOUA 4BSQA 2AU1A 3OF8A 1DEUA 3DF0A 3RNVA 4CDFB 2B1NA 3HHIA 1PIPA 4ZTBA 3PHWA 1VJVA 3KFQA 2NQIA 3IUTA 2AYOA 4GUAA 3WXFA 3H6SA 1NB3A 3MP2A 3E9SA 1ATKA 2YJBA 3HWNA 4P6EA 3B21A 3MTNA 5JA7A 2ATOA 4Q8GA 1AU3A 4RF1A 4KLBA 4K7CA 5FPWA 1AU2A 3KWZA 2DCDA 1NLJA 3BPFA 3I06A 4HWYA 1YVBA 3BBAA 4QRVA 3PW3A 2DCBA 1AYUA 2F7DA 2FUDA 3O1GA 3OVXA 2DC6A 3S3RA 2WBFX 3RVXA 4FIPA 1CPJA 3C0RA 3ZNHA 3D6SA 3IFUA 1EWMA 5EZQA 1BY8A 4DMYA 5EGWA 4X6IA 4CDCB 3OF9A 5EF4A 4MM3B 2FE8A 1NPZA 5CHTA 1QXPA 4X6JA 2BTWB 1AIMA 1UKFA 1AYVA 1CJLA 2OZ2A 4RNAA 4M0WA 1IWDA 3MJ5A 3OVZA 4W5CA 1PCIA 4BS6A 2DCCA 2F1GA 2FYEA 1ITOA 2J7QA 3V6CA 4WA6A 2CIOA 1AU4A 3OQCA 1ME3A 4N79A 1GLOA 4REZA 3RVWA 1PE6A 3F75A 2R9OA 4CZWA 2NQGA 1DF0A 4P16A 4N4ZA 4BOPA 4Q8HA 2E02A 4DMXA 3KX1A 1MHWA 3H8CA 2H7JA 9PAPA 4G54A 3WXGA 1VSNA 1XKGA 3KSEA 1TLOA 2ACTA 1BGOA 4RY2A 2HHNA 3E1ZB 1YT7A 3P5UA 3QJ3A 4OW0A 5E6JA 3H89A 4OVZB 4X6HA 4D8BA 1YK8A 1X9YA 1F2BA 3B79A 3K8UA 3BOWA 3K9MA 1U9WA 3K24A 1KHQA 6PADA 4IUMA 2AUZA 2XU4A 3NHEA 1F2AA 4MZOA 3BC3A 3QSDA 2JQGR 1PADA 2BTWA 1O0EA 1PBHA 4N8WA 2VHFA 4P6GA 4ZUXU 1FH0A 2GFOA 1U9VA 1PXVA 3U8EA 2YJ2A 3ZUAA 2JQFR 4YYWA 2FRAA 4AXMA 2BU3A 4OELA 3USVA 4A5UA 3IEJA 3CBJA
chains in the Genus database with same CATH topology
3PT2A 4RNAA 4M0WA 2HWKA 3BY4A 3W30A 1DKIA 3PHXA 4OW0A 5E6JA 4D8BA 4OVZB 4P16A 4BOUA 2BTWA 3MJ5A 3MTVA 2JTCA 3C0RA 4RF1A 1YZBA 3ZNHA 4BOPA 3IFUA 3TMPA 2UZJA 3RNVA 2Z84A 4IP3A 3TRKA 4OVZA 4HXDB 3O65A 2JRIA 5EZQA 3W31A 4D8IA 4R3DA 1PVJA 3PRMA 3PHWA 4ZTBA 2J7QA 2AGAA 4IUMA 4WURA 4BOZA 5EZSA 4D8EA 3PHUA 5KO3A 3BBAA 4MI7A 4MM3B 2FE8A 4GUAA 5JZEA 3PSEA 4PT5A 3OQCA 3PRPA 3MP2A 4BOQA 4RF0A 2J7QC 3E9SA 4REZA 2BU3A 3B21A 4RKXA 2BTWB 4XZXA 1UKFA 3BB7A 4A5UA 4BOSA 2DOSA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1DKI A;  2UZJ A;  4D8E A;  4RKX A;  4D8B A;  3BBA A;  4D8I A;  3BB7 A;  2JTC A;  1PVJ A; 
#chains in the Genus database with same CATH topology
 1DKI A;  3CH3 X;  3HD3 A;  5CVN B;  4YYQ A;  3F5V A;  4D8I A;  1GEC E;  1MEG A;  1EF7 A;  1SP4 B;  2Y5B A;  5EZS A;  1EWP A;  2HH5 A;  1A6R A;  2YJ8 A;  1AEC A;  4YYU A;  1Y08 A;  2J7Q C;  3N3K A;  4XZX A;  1S4V A;  2AYN A;  1PPP A;  4BOS A;  3H7D A;  2AIM A;  3IV2 A;  2G8J A;  5JH3 A;  1NQC A;  4W4U A;  3H8B A;  1ZCM A;  4PP2 E;  1Q6K A;  2PRE A;  4MZS A;  2FT2 A;  2HD5 A;  1PPD A;  2HXZ A;  4WUR A;  4PP1 A;  2G8E A;  5KO3 A;  2O6X A;  1CVZ A;  1QDQ A;  5K16 A;  4CDE B;  1MIR A;  1TU6 A;  3PSE A;  4PT5 A;  3BPM A;  2YJ9 A;  3KWB X;  1QOL A;  3N3G A;  3P5V A;  2BDL A;  3MTV A;  2DCA A;  5CHV A;  3RVV A;  2ARY A;  3GCB A;  3HHA A;  2VHS A;  1TL9 A;  2DJG B;  5CVO B;  2XU3 A;  1JQP A;  2DOS A;  2E00 A;  3PT2 A;  4OEM A;  3OIS A;  1STF E;  2JTC A;  1KXR A;  4PAD A;  4YYR A;  2AS8 A;  2DC9 A;  2BDZ A;  1GMY A;  2JRI A;  3I3T A;  4W5B A;  2R9C A;  3PHU A;  2PNS A;  3LFY A;  2CB5 A;  3MOR A;  4YYV A;  1NB5 A;  1KFU L;  2P7U A;  4BOQ A;  1POP A;  2IPP B;  2AUX A;  4BPV A;  1CS8 A;  1F2C A;  2YJC A;  3P5W A;  2DJF B;  4XR7 A;  2G7Y A;  2DC8 A;  1CQD A;  3BY4 A;  3W30 A;  3N4C A;  4MSX A;  1PPN A;  1YZB A;  1ICF A;  2XU5 A;  4QH6 A;  2Z84 A;  3TRK A;  4HXD B;  1Y4H A;  2NQD B;  3PNR A;  4BQV A;  1U9X A;  1F29 A;  2G6D A;  3P5X A;  2R9M A;  3C9E A;  1U5I A;  2FO5 A;  1KHP A;  2HWK A;  2XU1 A;  3PDF A;  1CSB B;  7PCK A;  4AXL A;  4IP3 A;  1AU0 A;  2OP3 A;  4BS5 A;  1HUC B;  4QRG A;  2AGA A;  3QT4 A;  3IMA A;  4BOZ A;  1GCB A;  2PBH A;  4D8E A;  1NL6 A;  2FRQ A;  5PAD A;  2AVW A;  4MI7 A;  1AYW A;  2P0R A;  4QRX A;  1SNK A;  2B1M A;  4RKX A;  1QMY A;  2P86 A;  1MDW A;  3PBH A;  1MS6 A;  3MHH A;  3PHX A;  4I04 A;  2DZY A;  3CH2 X;  3IHP A;  2UZJ A;  3TNX A;  2C0Y A;  3O65 A;  3O0U A;  3W31 A;  4XUI A;  4YYS A;  4R3D A;  1PVJ A;  3PRM A;  3S3Q A;  4I05 A;  3IOQ A;  1EWO A;  1BP4 A;  3V6E A;  2FTD A;  5F02 A;  4FK5 A;  1CV8 A;  4YV8 A;  1MEM A;  2R6N A;  3LXS A;  3KKU A;  2IBI A;  8PCH A;  1CTE A;  1PPO A;  1U9Q X;  2DC7 A;  3KW9 A;  2Y6E A;  4CDD B;  3ERV A;  2PAD A;  1ZIV A;  2OUL A;  3BWK A;  1M6D A;  1YAL A;  3BB7 A;  4QBB A;  3CBK A;  4FJC A;  1BQI A;  1EWL A;  5A24 A;  3M99 A;  4I07 A;  2NQA A;  3TMP A;  2GHU A;  4OVZ A;  4YVA A;  1YK7 A;  2E01 A;  5JZE A;  1THE A;  3PRP A;  4RF0 A;  2E03 A;  3WXE A;  5CVM A;  1ME4 A;  3BCN A;  4PI3 A;  2FQ9 A;  3AI8 A;  5J94 A;  2R9N A;  1CB5 A;  1KFX L;  1K3B B;  2DZZ A;  3MHS A;  2R9F A;  4BOU A;  4BSQ A;  2AU1 A;  3OF8 A;  1DEU A;  3DF0 A;  3RNV A;  4CDF B;  2B1N A;  3HHI A;  1PIP A;  4ZTB A;  3PHW A;  1VJV A;  3KFQ A;  2NQI A;  3IUT A;  2AYO A;  4GUA A;  3WXF A;  3H6S A;  1NB3 A;  3MP2 A;  3E9S A;  1ATK A;  2YJB A;  3HWN A;  4P6E A;  3B21 A;  3MTN A;  5JA7 A;  2ATO A;  4Q8G A;  1AU3 A;  4RF1 A;  4KLB A;  4K7C A;  5FPW A;  1AU2 A;  3KWZ A;  2DCD A;  1NLJ A;  3BPF A;  3I06 A;  4HWY A;  1YVB A;  3BBA A;  4QRV A;  3PW3 A;  2DCB A;  1AYU A;  2F7D A;  2FUD A;  3O1G A;  3OVX A;  2DC6 A;  3S3R A;  2WBF X;  3RVX A;  4FIP A;  1CPJ A;  3C0R A;  3ZNH A;  3D6S A;  3IFU A;  1EWM A;  5EZQ A;  1BY8 A;  4DMY A;  5EGW A;  4X6I A;  4CDC B;  3OF9 A;  5EF4 A;  4MM3 B;  2FE8 A;  1NPZ A;  5CHT A;  1QXP A;  4X6J A;  2BTW B;  1AIM A;  1UKF A;  1AYV A;  1CJL A;  2OZ2 A;  4RNA A;  4M0W A;  1IWD A;  3MJ5 A;  3OVZ A;  4W5C A;  1PCI A;  4BS6 A;  2DCC A;  2F1G A;  2FYE A;  1ITO A;  2J7Q A;  3V6C A;  4WA6 A;  2CIO A;  1AU4 A;  3OQC A;  1ME3 A;  4N79 A;  1GLO A;  4REZ A;  3RVW A;  1PE6 A;  3F75 A;  2R9O A;  4CZW A;  2NQG A;  1DF0 A;  4P16 A;  4N4Z A;  4BOP A;  4Q8H A;  2E02 A;  4DMX A;  3KX1 A;  1MHW A;  3H8C A;  2H7J A;  9PAP A;  4G54 A;  3WXG A;  1VSN A;  1XKG A;  3KSE A;  1TLO A;  2ACT A;  1BGO A;  4RY2 A;  2HHN A;  3E1Z B;  1YT7 A;  3P5U A;  3QJ3 A;  4OW0 A;  5E6J A;  3H89 A;  4OVZ B;  4X6H A;  4D8B A;  1YK8 A;  1X9Y A;  1F2B A;  3B79 A;  3K8U A;  3BOW A;  3K9M A;  1U9W A;  3K24 A;  1KHQ A;  6PAD A;  4IUM A;  2AUZ A;  2XU4 A;  3NHE A;  1F2A A;  4MZO A;  3BC3 A;  3QSD A;  2JQG R;  1PAD A;  2BTW A;  1O0E A;  1PBH A;  4N8W A;  2VHF A;  4P6G A;  4ZUX U;  1FH0 A;  2GFO A;  1U9V A;  1PXV A;  3U8E A;  2YJ2 A;  3ZUA A;  2JQF R;  4YYW A;  2FRA A;  4AXM A;  2BU3 A;  4OEL A;  3USV A;  4A5U A;  3IEJ A;  3CBJ A; 
#chains in the Genus database with same CATH homology
 3PT2 A;  4RNA A;  4M0W A;  2HWK A;  3BY4 A;  3W30 A;  1DKI A;  3PHX A;  4OW0 A;  5E6J A;  4D8B A;  4OVZ B;  4P16 A;  4BOU A;  2BTW A;  3MJ5 A;  3MTV A;  2JTC A;  3C0R A;  4RF1 A;  1YZB A;  3ZNH A;  4BOP A;  3IFU A;  3TMP A;  2UZJ A;  3RNV A;  2Z84 A;  4IP3 A;  3TRK A;  4OVZ A;  4HXD B;  3O65 A;  2JRI A;  5EZQ A;  3W31 A;  4D8I A;  4R3D A;  1PVJ A;  3PRM A;  3PHW A;  4ZTB A;  2J7Q A;  2AGA A;  4IUM A;  4WUR A;  4BOZ A;  5EZS A;  4D8E A;  3PHU A;  5KO3 A;  3BBA A;  4MI7 A;  4MM3 B;  2FE8 A;  4GUA A;  5JZE A;  3PSE A;  4PT5 A;  3OQC A;  3PRP A;  3MP2 A;  4BOQ A;  4RF0 A;  2J7Q C;  3E9S A;  4REZ A;  2BU3 A;  3B21 A;  4RKX A;  2BTW B;  4XZX A;  1UKF A;  3BB7 A;  4A5U A;  4BOS A;  2DOS 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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