1YLH | Genus

Total Genus 187

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	187
sequence length	535
structure length	524
Chain Sequence	DLNKLVKELNDLGLTDVKEIVYNPSYEQLFEEETKPGLEGFDKGTLTTLGAVAVDTGIFTGRSPKDKYIVCDETTKDTVWWNSEAAKNDNKPMTQETWKSLRELVAKQLSGKRLFVVEGYCGASEKHRIGVRMVTEVAWQAHFVKNMFIRPTDEELKNFKADFTVLNGAKCTNPNWKEQGLNSENFVAFNITEGIQLIGGTWYGGEMKKGMFSMMNYFLPLKGVASMHCSANVGKDGDVAIFFGLSGTGKTTLSTDPKRQLIGDDEHGWDESGVFNFEGGCYAKTINLSQENEPDIYGAIRRDALLENVVVRADGSVDFDDGSKTENTRVSYPIYHIDNIVRPVSKAGHATKVIFLTADAFGVLPPVSKLTPEQTEYYFLSGFTAPTPTFSACFGAAFLSLHPIQYADVLVERMKASGAEAYLVNTGWNGTGKRISIKDTRGIIDAILDGSIEKAEMGELPIFNLAIPKALPGVDPAILDPRDTYADKAQWQVKAEDLANRFVKNFVKYTANPEAAKLVGAGPK

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

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Viewer cachePut cache://localLOAD_/file/5cfc838f8454d17f813fccef/pdb.gz

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

molecule tags	Lyase
source organism	Actinobacillus succinogenes
publication title	Structure of PEP carboxykinase from the succinate-producing Actinobacillus succinogenes: a new conserved active-site motif. pubmed doi rcsb
molecule keywords	phosphoenolpyruvate carboxykinase
total genus	187
structure length	524
sequence length	535
ec nomenclature	ec 4.1.1.49: Phosphoenolpyruvate carboxykinase (ATP).
pdb deposition date	2005-01-19

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01293	PEPCK_ATP	Phosphoenolpyruvate carboxykinase

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
2.170.8.10	Mainly Beta	Beta Complex	Phosphoenolpyruvate Carboxykinase; domain 2	Phosphoenolpyruvate Carboxykinase, domain 2	1ylhA02
3.40.449.10	Alpha Beta	3-Layer(aba) Sandwich	Phosphoenolpyruvate Carboxykinase; domain 1	Phosphoenolpyruvate Carboxykinase, domain 1	1ylhA01
3.90.228.20	Alpha Beta	Alpha-Beta Complex	Phosphoenolpyruvate Carboxykinase; domain 3	Phosphoenolpyruvate Carboxykinase; domain 3	1ylhA03

2OLRA 4GMUA 2RKDA 4YWBA 3MOEA 2OLQA 4GMWA 2PXZX 4OX2A 1K3CA 3DT7A 4GMMA 4WPVA 1YVYA 1XKVA 2QZYA 1K3DA 3DT2A 2QEYA 1J3BA 2FAFA 5FH5A 1AQ2A 4WIUA 4GNQA 4WPUA 4YW9A 4YWDA 1YLHA 5FH3A 1OS1A 3DT4A 4YW8A 1OENA 4GNMA 1NHXA 1KHFA 1AYLA 2QF2A 2PC9A 2QF1A 2RK7A 4GNPA 5FH0A 5FH1A 2ZCIA 1KHEA 4WPTA 1II2A 5I67A 1M51A 2FAHA 1YGGA 2QEWA 3MOHA 2GMVA 1YTMA 4GNOA 5FH2A 5FH4A 2RK8A 4RCGA 4WIEA 4GMZA 2PY7X 4R43A 2RKAA 3DTBA 1KHBA 2RKEA 1KHGA 3MOFA 4WL8A 4WOUA 4GNLA
chains in the Genus database with same CATH superfamily

3P0NA 5AKUA 4L09A 4LI7A 3MOEA 4R6EA 2PXZX 1PAXA 4MT9A 4UI7A 4UUHA 4BU3A 5FH5A 3DT2A 2X5YA 5ADQA 4L7RA 4OQBC 4KZUA 5DCZA 4M7BA 4L0TA 4X52A 4BUYA 1YLHA 4L2FA 4UXBA 1OS1A 4UI8A 4UI3A 3SE2A 4L33A 4BUTA 1NHXA 3HKVA 3UH4A 4DVIA 5AL1A 5AL3A 5LXPA 4BU7A 4HKNA 4HL5A 2QF2A 4HLGA 4UVYA 2ZCIA 3C49A 4UW1A 4BUAA 4PJVA 5FH2A 4W5IA 5AEHA 4PNNA 4K4FA 4TJUA 4GMZA 1UK0A 4R43A 4BUSA 5LYHA 3DTBA 3UA9A 4UFYA 4J1ZA 1EFYA 4UVVA 4F1QA 3PAXA 4GNLA 2RF5A 2OLRA 4L0IA 4U6AA 4GMUA 2RKDA 4YWBA 4GV7A 4L7LA 3SMJA 4BU8A 4L7NA 4LI8A 5AL4A 3MHJA 4WPVA 3SMIA 4OQAC 4L0BA 4BJ9A 4TKGA 1AQ2A 2QEYA 1J3BA 4BU5A 4HLKA 4WIUA 4GNQA 4YWDA 3CE0A 3UDDA 3L3MA 3GOYA 4K4EA 4KZLA 3DT4A 4PNSA 4ZZXA 4BUEA 4GNMA 4DQYC 4L2KA 4UX4A 5C5PA 4L6ZA 1AYLA 4GV0A 4I9IA 5FPFA 4MSGA 4L2GA 2PC9A 4L0VA 4TK5A 1KHEA 4HHYA 1II2A 3C4HA 1M51A 2FAHA 1YGGA 3MOHA 4PNLA 4UNDA 4TK0A 3KCZA 4HLHA 4UHGA 4TJYA 4L31A 4RCGA 4WIEA 4BFPA 4UVLA 2PY7X 3GJWA 2RKAA 5C5RA 5C5QA 4HMHA 4UVZA 3GEYA 2RKEA 4J22A 4L70A 4WL8A 4L7PA 4J21A 4TKFA 4PY4A 5ADTA 3GN7A 4BU9A 3W51A 3BLJA 4GMWA 4OX2A 4UVPA 3UH2A 4L7OA 1XKVA 4KZQA 3KR7A 1K3DA 5AL2A 3P0PA 4J3LA 4IUEA 3U9HA 4PNMA 2RD6A 4UI6A 4L7UA 4N3RA 4N4VA 4OA7A 4YW8A 4AVUA 1OENA 4N4TA 4HLFA 5ADSA 4BJBA 2RK7A 5FH0A 3FHBA 4L10A 4GNPA 1GS0A 2PAWA 5EBTA 4PNQA 4UVOA 4PNRA 2GMVA 4PNTA 4BUDA 3U9YA 4R5WA 4ZZZA 3KJDA 1KHBA 4KRSA 4GV2A 4UVTA 1KHGA 4F0EA 3MOFA 4AVWA 4RV6A 5ADRA 4L34A 5ECEA 2OLQA 5ETYA 4TKIA 1K3CA 3DT7A 4GMMA 4HKKA 4MSKA 4W5SA 1YVYA 4PAXA 4BJCA 2QZYA 3P0QA 4L32A 4PMLA 2FAFA 4UFUA 4TVJA 4WPUA 5FH3A 4BUWA 4YW9A 4BUVA 4HKIA 1WOKA 4BUFA 5AKWA 5A00A 4OPXC 1A26A 1KHFA 3MHKA 4XHUA 4BU6A 4TOSA 2PAXA 2QF1A 4UI4A 4UVUA 1UK1A 4WPTA 5I67A 5AL5A 4BS4A 4TJWA 4BUIA 2QEWA 4BUUA 4L6SA 1YTMA 4GNOA 4PJTA 4J3MA 5FH4A 4HYFA 2RK8A 4F1LA 4L0SA 4UI5A 4GV4A 2PQFA 4HHZA 4LI6A 4TORA 4UVXA 5FPGA 4ZZYA 4UVSA 4UVNA 3L3LA 4HLMA 4W6EA 4UVWA 2RCWA 3KR8A 4WOUA 4BUXA 5FH1A 5LX6A
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 2OLR A;  4GMU A;  2RKD A;  4YWB A;  3MOE A;  2OLQ A;  4GMW A;  2PXZ X;  4OX2 A;  1K3C A;  3DT7 A;  4GMM A;  4WPV A;  1YVY A;  1XKV A;  2QZY A;  1K3D A;  3DT2 A;  2QEY A;  1J3B A;  2FAF A;  5FH5 A;  1AQ2 A;  4WIU A;  4GNQ A;  4WPU A;  4YW9 A;  4YWD A;  1YLH A;  5FH3 A;  1OS1 A;  3DT4 A;  4YW8 A;  1OEN A;  4GNM A;  1NHX A;  1KHF A;  1AYL A;  2QF2 A;  2PC9 A;  2QF1 A;  2RK7 A;  4GNP A;  5FH0 A;  5FH1 A;  2ZCI A;  1KHE A;  4WPT A;  1II2 A;  5I67 A;  1M51 A;  2FAH A;  1YGG A;  2QEW A;  3MOH A;  2GMV A;  1YTM A;  4GNO A;  5FH2 A;  5FH4 A;  2RK8 A;  4RCG A;  4WIE A;  4GMZ A;  2PY7 X;  4R43 A;  2RKA A;  3DTB A;  1KHB A;  2RKE A;  1KHG A;  3MOF A;  4WL8 A;  4WOU A;  4GNL A; 
#chains in the Genus database with same CATH topology
 3P0N A;  5AKU A;  4L09 A;  4LI7 A;  3MOE A;  4R6E A;  2PXZ X;  1PAX A;  4MT9 A;  4UI7 A;  4UUH A;  4BU3 A;  5FH5 A;  3DT2 A;  2X5Y A;  5ADQ A;  4L7R A;  4OQB C;  4KZU A;  5DCZ A;  4M7B A;  4L0T A;  4X52 A;  4BUY A;  1YLH A;  4L2F A;  4UXB A;  1OS1 A;  4UI8 A;  4UI3 A;  3SE2 A;  4L33 A;  4BUT A;  1NHX A;  3HKV A;  3UH4 A;  4DVI A;  5AL1 A;  5AL3 A;  5LXP A;  4BU7 A;  4HKN A;  4HL5 A;  2QF2 A;  4HLG A;  4UVY A;  2ZCI A;  3C49 A;  4UW1 A;  4BUA A;  4PJV A;  5FH2 A;  4W5I A;  5AEH A;  4PNN A;  4K4F A;  4TJU A;  4GMZ A;  1UK0 A;  4R43 A;  4BUS A;  5LYH A;  3DTB A;  3UA9 A;  4UFY A;  4J1Z A;  1EFY A;  4UVV A;  4F1Q A;  3PAX A;  4GNL A;  2RF5 A;  2OLR A;  4L0I A;  4U6A A;  4GMU A;  2RKD A;  4YWB A;  4GV7 A;  4L7L A;  3SMJ A;  4BU8 A;  4L7N A;  4LI8 A;  5AL4 A;  3MHJ A;  4WPV A;  3SMI A;  4OQA C;  4L0B A;  4BJ9 A;  4TKG A;  1AQ2 A;  2QEY A;  1J3B A;  4BU5 A;  4HLK A;  4WIU A;  4GNQ A;  4YWD A;  3CE0 A;  3UDD A;  3L3M A;  3GOY A;  4K4E A;  4KZL A;  3DT4 A;  4PNS A;  4ZZX A;  4BUE A;  4GNM A;  4DQY C;  4L2K A;  4UX4 A;  5C5P A;  4L6Z A;  1AYL A;  4GV0 A;  4I9I A;  5FPF A;  4MSG A;  4L2G A;  2PC9 A;  4L0V A;  4TK5 A;  1KHE A;  4HHY A;  1II2 A;  3C4H A;  1M51 A;  2FAH A;  1YGG A;  3MOH A;  4PNL A;  4UND A;  4TK0 A;  3KCZ A;  4HLH A;  4UHG A;  4TJY A;  4L31 A;  4RCG A;  4WIE A;  4BFP A;  4UVL A;  2PY7 X;  3GJW A;  2RKA A;  5C5R A;  5C5Q A;  4HMH A;  4UVZ A;  3GEY A;  2RKE A;  4J22 A;  4L70 A;  4WL8 A;  4L7P A;  4J21 A;  4TKF A;  4PY4 A;  5ADT A;  3GN7 A;  4BU9 A;  3W51 A;  3BLJ A;  4GMW A;  4OX2 A;  4UVP A;  3UH2 A;  4L7O A;  1XKV A;  4KZQ A;  3KR7 A;  1K3D A;  5AL2 A;  3P0P A;  4J3L A;  4IUE A;  3U9H A;  4PNM A;  2RD6 A;  4UI6 A;  4L7U A;  4N3R A;  4N4V A;  4OA7 A;  4YW8 A;  4AVU A;  1OEN A;  4N4T A;  4HLF A;  5ADS A;  4BJB A;  2RK7 A;  5FH0 A;  3FHB A;  4L10 A;  4GNP A;  1GS0 A;  2PAW A;  5EBT A;  4PNQ A;  4UVO A;  4PNR A;  2GMV A;  4PNT A;  4BUD A;  3U9Y A;  4R5W A;  4ZZZ A;  3KJD A;  1KHB A;  4KRS A;  4GV2 A;  4UVT A;  1KHG A;  4F0E A;  3MOF A;  4AVW A;  4RV6 A;  5ADR A;  4L34 A;  5ECE A;  2OLQ A;  5ETY A;  4TKI A;  1K3C A;  3DT7 A;  4GMM A;  4HKK A;  4MSK A;  4W5S A;  1YVY A;  4PAX A;  4BJC A;  2QZY A;  3P0Q A;  4L32 A;  4PML A;  2FAF A;  4UFU A;  4TVJ A;  4WPU A;  5FH3 A;  4BUW A;  4YW9 A;  4BUV A;  4HKI A;  1WOK A;  4BUF A;  5AKW A;  5A00 A;  4OPX C;  1A26 A;  1KHF A;  3MHK A;  4XHU A;  4BU6 A;  4TOS A;  2PAX A;  2QF1 A;  4UI4 A;  4UVU A;  1UK1 A;  4WPT A;  5I67 A;  5AL5 A;  4BS4 A;  4TJW A;  4BUI A;  2QEW A;  4BUU A;  4L6S A;  1YTM A;  4GNO A;  4PJT A;  4J3M A;  5FH4 A;  4HYF A;  2RK8 A;  4F1L A;  4L0S A;  4UI5 A;  4GV4 A;  2PQF A;  4HHZ A;  4LI6 A;  4TOR A;  4UVX A;  5FPG A;  4ZZY A;  4UVS A;  4UVN A;  3L3L A;  4HLM A;  4W6E A;  4UVW A;  2RCW A;  3KR8 A;  4WOU A;  4BUX A;  5FH1 A;  5LX6 A; 
#chains in the Genus database with same CATH homology
 3P0N A;  5AKU A;  4L09 A;  4LI7 A;  3MOE A;  4R6E A;  2PXZ X;  1PAX A;  4MT9 A;  4UI7 A;  4UUH A;  4BU3 A;  5FH5 A;  3DT2 A;  2X5Y A;  5ADQ A;  4L7R A;  4OQB C;  4KZU A;  5DCZ A;  4M7B A;  4L0T A;  4X52 A;  4BUY A;  1YLH A;  4L2F A;  4UXB A;  1OS1 A;  4UI8 A;  4UI3 A;  3SE2 A;  4L33 A;  4BUT A;  1NHX A;  3HKV A;  3UH4 A;  4DVI A;  5AL1 A;  5AL3 A;  5LXP A;  4BU7 A;  4HKN A;  4HL5 A;  2QF2 A;  4HLG A;  4UVY A;  2ZCI A;  3C49 A;  4UW1 A;  4BUA A;  4PJV A;  5FH2 A;  4W5I A;  5AEH A;  4PNN A;  4K4F A;  4TJU A;  4GMZ A;  1UK0 A;  4R43 A;  4BUS A;  5LYH A;  3DTB A;  3UA9 A;  4UFY A;  4J1Z A;  1EFY A;  4UVV A;  4F1Q A;  3PAX A;  4GNL A;  2RF5 A;  2OLR A;  4L0I A;  4U6A A;  4GMU A;  2RKD A;  4YWB A;  4GV7 A;  4L7L A;  3SMJ A;  4BU8 A;  4L7N A;  4LI8 A;  5AL4 A;  3MHJ A;  4WPV A;  3SMI A;  4OQA C;  4L0B A;  4BJ9 A;  4TKG A;  1AQ2 A;  2QEY A;  1J3B A;  4BU5 A;  4HLK A;  4WIU A;  4GNQ A;  4YWD A;  3CE0 A;  3UDD A;  3L3M A;  3GOY A;  4K4E A;  4KZL A;  3DT4 A;  4PNS A;  4ZZX A;  4BUE A;  4GNM A;  4DQY C;  4L2K A;  4UX4 A;  5C5P A;  4L6Z A;  1AYL A;  4GV0 A;  4I9I A;  5FPF A;  4MSG A;  4L2G A;  2PC9 A;  4L0V A;  4TK5 A;  1KHE A;  4HHY A;  1II2 A;  3C4H A;  1M51 A;  2FAH A;  1YGG A;  3MOH A;  4PNL A;  4UND A;  4TK0 A;  3KCZ A;  4HLH A;  4UHG A;  4TJY A;  4L31 A;  4RCG A;  4WIE A;  4BFP A;  4UVL A;  2PY7 X;  3GJW A;  2RKA A;  5C5R A;  5C5Q A;  4HMH A;  4UVZ A;  3GEY A;  2RKE A;  4J22 A;  4L70 A;  4WL8 A;  4L7P A;  4J21 A;  4TKF A;  4PY4 A;  5ADT A;  3GN7 A;  4BU9 A;  3W51 A;  3BLJ A;  4GMW A;  4OX2 A;  4UVP A;  3UH2 A;  4L7O A;  1XKV A;  4KZQ A;  3KR7 A;  1K3D A;  5AL2 A;  3P0P A;  4J3L A;  4IUE A;  3U9H A;  4PNM A;  2RD6 A;  4UI6 A;  4L7U A;  4N3R A;  4N4V A;  4OA7 A;  4YW8 A;  4AVU A;  1OEN A;  4N4T A;  4HLF A;  5ADS A;  4BJB A;  2RK7 A;  5FH0 A;  3FHB A;  4L10 A;  4GNP A;  1GS0 A;  2PAW A;  5EBT A;  4PNQ A;  4UVO A;  4PNR A;  2GMV A;  4PNT A;  4BUD A;  3U9Y A;  4R5W A;  4ZZZ A;  3KJD A;  1KHB A;  4KRS A;  4GV2 A;  4UVT A;  1KHG A;  4F0E A;  3MOF A;  4AVW A;  4RV6 A;  5ADR A;  4L34 A;  5ECE A;  2OLQ A;  5ETY A;  4TKI A;  1K3C A;  3DT7 A;  4GMM A;  4HKK A;  4MSK A;  4W5S A;  1YVY A;  4PAX A;  4BJC A;  2QZY A;  3P0Q A;  4L32 A;  4PML A;  2FAF A;  4UFU A;  4TVJ A;  4WPU A;  5FH3 A;  4BUW A;  4YW9 A;  4BUV A;  4HKI A;  1WOK A;  4BUF A;  5AKW A;  5A00 A;  4OPX C;  1A26 A;  1KHF A;  3MHK A;  4XHU A;  4BU6 A;  4TOS A;  2PAX A;  2QF1 A;  4UI4 A;  4UVU A;  1UK1 A;  4WPT A;  5I67 A;  5AL5 A;  4BS4 A;  4TJW A;  4BUI A;  2QEW A;  4BUU A;  4L6S A;  1YTM A;  4GNO A;  4PJT A;  4J3M A;  5FH4 A;  4HYF A;  2RK8 A;  4F1L A;  4L0S A;  4UI5 A;  4GV4 A;  2PQF A;  4HHZ A;  4LI6 A;  4TOR A;  4UVX A;  5FPG A;  4ZZY A;  4UVS A;  4UVN A;  3L3L A;  4HLM A;  4W6E A;  4UVW A;  2RCW A;  3KR8 A;  4WOU A;  4BUX A;  5FH1 A;  5LX6 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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#similar chains in the pdb database (?% sequence similarity)
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1YLHA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

pfam database annotations