2Y40 | Genus

Total Genus 117

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	117
sequence length	347
structure length	347
Chain Sequence	MKVAVLPGDGIGPEVTEAALKVLRALDEAEGLGLAYEVFPFGGAAIDAFGEPFPEPTRKGVEEAEAVLLGSVGGPKWDGLPRKIRPETGLLSLRKSQDLFANLRPAKVFPGLERLSPLKEEIARGVDVLIVRELTGGIYFGEPRGMSEAEAWNTERYSKPEVERVARVAFEAARKRRKHVVSVDKANVLEVGEFWRKTVEEVGRGYPDVALEHQYVDAMAMHLVRSPARFDVVVTGNIFGDILSDLASVLPGSLGLLPSASLGRGTPVFEPVHGSAPDIAGKGIANPTAAILSAAMMLEHAFGLVELARKVEDAVAKALLETPPPDLGGSAGTEAFTATVLRHLAAA

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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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

Chord Diagram

publication title	Atomic Level Description of the Domain Closure in a Dimeric Enzyme: Thermus Thermophilus 3-Isopropylmalate Dehydrogenase. pubmed doi rcsb
molecule keywords	3-ISOPROPYLMALATE DEHYDROGENASE
molecule tags	Oxidoreductase
source organism	Thermus thermophilus
total genus	117
structure length	347
sequence length	347
chains with identical sequence	B
ec nomenclature	ec 1.1.1.85: 3-isopropylmalate dehydrogenase.
pdb deposition date	2011-01-04

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00180	Iso_dh	Isocitrate/isopropylmalate dehydrogenase

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

cath code	Class	Architecture	Topology	Homology	Domain
3.40.718.10	Alpha Beta	3-Layer(aba) Sandwich	Isopropylmalate Dehydrogenase	Isopropylmalate Dehydrogenase	2y40A00

5DE1A 3VL4A 6ICDA 4JA8A 1GRPA 2Y42A 3TSNA 1IDMA 1IDEA 2IV0A 5HN3A 4HCXA 3MASB 1CW4A 8ICDA 4KZOA 1GC8A 1DR0A 3VMKA 3VKZA 1IDDA 3LCBC 2HI1A 5ICDA 3FLKA 1HQSA 3LXYA 5HN6A 4I3LA 1IDCA 3US8A 4P69C 1T0LA 1V5BA 4UMXA 1DR8A 4L06A 1A05A 3U9EA 1AI2A 4I3KA 4L03A 5GRIB 4AOYA 9ICDA 1R8KA 1XACA 4AJAA 1X0LA 2QFVA 2Y40A 5L57A 1SJSA 1PB3A 1IKAA 5I95A 1BL5A 1V94A 1XAAA 1ZORA 5GRIA 3AH3A 3WZYA 3U1HA 4AJCA 7ICDA 1CW1A 3UDOA 3ASJA 3WZVA 2D1CA 3WZXA 1XADA 4XXVA 3VL3A 2UXQA 4UMYA 1CW7A 2UXRA 3TY3A 2E0CA 3UF6A 1OSJA 3ICDA 5J33A 3VMJA 3MARA 5K10A 1WALA 2Y3ZA 4BNPA 4WUOA 5GREB 1PTMA 3DMSA 4AOUA 1YCOA 5I96A 3VL2A 1U7NA 5GRLB 5K11A 5HN5A 3BLXB 3BLVA 3FMXX 1VLCA 3MAPA 1XKDA 3UDUA 2Y41A 5GREA 5L58A 1ISOA 1WPWA 5J34A 4IWHA 4YB4A 1LWDA 1CM7A 2QFWA 1HJ6A 5GRLA 2AYQA 3BLXA 2D4VA 4XRXA 4F7IA 3VL7A 3WZWA 4AJSA 3TNGA 2G4OA 1OSIA 1TYOA 5HN4A 1XGVA 1P8FA 4JQPA 3VL6A 3BLVB 1PB1A 1GROA 1PS6A 1IPDA 3VMLA 1VI1A 4AJRA 4ATYA 1GC9A 2ZTWA 4L04A 5GRHB 3R8WA 1CNZA 1DPZA 1IDFA 5GRFA 2QFXA 4Y1PA 3INMA 1PS7A 1V53A 1G2UA 5GRHA 4AJBA 2QFYA 5LGEA 1XABA 1AI3A 1HEXA 3MASA 4ICDA 2E5MA 3TY4A 1YXOA 4AJ3A 1W0DA 2DHTA 5J32A 5GRFB 4XS3A 1T09A 4AOVA
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 5DE1 A;  3VL4 A;  6ICD A;  4JA8 A;  1GRP A;  2Y42 A;  3TSN A;  1IDM A;  1IDE A;  2IV0 A;  5HN3 A;  4HCX A;  3MAS B;  1CW4 A;  8ICD A;  4KZO A;  1GC8 A;  1DR0 A;  3VMK A;  3VKZ A;  1IDD A;  3LCB C;  2HI1 A;  5ICD A;  3FLK A;  1HQS A;  3LXY A;  5HN6 A;  4I3L A;  1IDC A;  3US8 A;  4P69 C;  1T0L A;  1V5B A;  4UMX A;  1DR8 A;  4L06 A;  1A05 A;  3U9E A;  1AI2 A;  4I3K A;  4L03 A;  5GRI B;  4AOY A;  9ICD A;  1R8K A;  1XAC A;  4AJA A;  1X0L A;  2QFV A;  2Y40 A;  5L57 A;  1SJS A;  1PB3 A;  1IKA A;  5I95 A;  1BL5 A;  1V94 A;  1XAA A;  1ZOR A;  5GRI A;  3AH3 A;  3WZY A;  3U1H A;  4AJC A;  7ICD A;  1CW1 A;  3UDO A;  3ASJ A;  3WZV A;  2D1C A;  3WZX A;  1XAD A;  4XXV A;  3VL3 A;  2UXQ A;  4UMY A;  1CW7 A;  2UXR A;  3TY3 A;  2E0C A;  3UF6 A;  1OSJ A;  3ICD A;  5J33 A;  3VMJ A;  3MAR A;  5K10 A;  1WAL A;  2Y3Z A;  4BNP A;  4WUO A;  5GRE B;  1PTM A;  3DMS A;  4AOU A;  1YCO A;  5I96 A;  3VL2 A;  1U7N A;  5GRL B;  5K11 A;  5HN5 A;  3BLX B;  3BLV A;  3FMX X;  1VLC A;  3MAP A;  1XKD A;  3UDU A;  2Y41 A;  5GRE A;  5L58 A;  1ISO A;  1WPW A;  5J34 A;  4IWH A;  4YB4 A;  1LWD A;  1CM7 A;  2QFW A;  1HJ6 A;  5GRL A;  2AYQ A;  3BLX A;  2D4V A;  4XRX A;  4F7I A;  3VL7 A;  3WZW A;  4AJS A;  3TNG A;  2G4O A;  1OSI A;  1TYO A;  5HN4 A;  1XGV A;  1P8F A;  4JQP A;  3VL6 A;  3BLV B;  1PB1 A;  1GRO A;  1PS6 A;  1IPD A;  3VML A;  1VI1 A;  4AJR A;  4ATY A;  1GC9 A;  2ZTW A;  4L04 A;  5GRH B;  3R8W A;  1CNZ A;  1DPZ A;  1IDF A;  5GRF A;  2QFX A;  4Y1P A;  3INM A;  1PS7 A;  1V53 A;  1G2U A;  5GRH A;  4AJB A;  2QFY A;  5LGE A;  1XAB A;  1AI3 A;  1HEX A;  3MAS A;  4ICD A;  2E5M A;  3TY4 A;  1YXO A;  4AJ3 A;  1W0D A;  2DHT A;  5J32 A;  5GRF B;  4XS3 A;  1T09 A;  4AOV A; 
#chains in the Genus database with same CATH topology
 5DE1 A;  3VL4 A;  6ICD A;  4JA8 A;  1GRP A;  2Y42 A;  3TSN A;  1IDM A;  1IDE A;  2IV0 A;  5HN3 A;  4HCX A;  3MAS B;  1CW4 A;  8ICD A;  4KZO A;  1GC8 A;  1DR0 A;  3VMK A;  3VKZ A;  1IDD A;  3LCB C;  2HI1 A;  5ICD A;  3FLK A;  1HQS A;  3LXY A;  5HN6 A;  4I3L A;  1IDC A;  3US8 A;  4P69 C;  1T0L A;  1V5B A;  4UMX A;  1DR8 A;  4L06 A;  1A05 A;  3U9E A;  1AI2 A;  4I3K A;  4L03 A;  5GRI B;  4AOY A;  9ICD A;  1R8K A;  1XAC A;  4AJA A;  1X0L A;  2QFV A;  2Y40 A;  5L57 A;  1SJS A;  1PB3 A;  1IKA A;  5I95 A;  1BL5 A;  1V94 A;  1XAA A;  1ZOR A;  5GRI A;  3AH3 A;  3WZY A;  3U1H A;  4AJC A;  7ICD A;  1CW1 A;  3UDO A;  3ASJ A;  3WZV A;  2D1C A;  3WZX A;  1XAD A;  4XXV A;  3VL3 A;  2UXQ A;  4UMY A;  1CW7 A;  2UXR A;  3TY3 A;  2E0C A;  3UF6 A;  1OSJ A;  3ICD A;  5J33 A;  3VMJ A;  3MAR A;  5K10 A;  1WAL A;  2Y3Z A;  4BNP A;  4WUO A;  5GRE B;  1PTM A;  3DMS A;  4AOU A;  1YCO A;  5I96 A;  3VL2 A;  1U7N A;  5GRL B;  5K11 A;  5HN5 A;  3BLX B;  3BLV A;  3FMX X;  1VLC A;  3MAP A;  1XKD A;  3UDU A;  2Y41 A;  5GRE A;  5L58 A;  1ISO A;  1WPW A;  5J34 A;  4IWH A;  4YB4 A;  1LWD A;  1CM7 A;  2QFW A;  1HJ6 A;  5GRL A;  2AYQ A;  3BLX A;  2D4V A;  4XRX A;  4F7I A;  3VL7 A;  3WZW A;  4AJS A;  3TNG A;  2G4O A;  1OSI A;  1TYO A;  5HN4 A;  1XGV A;  1P8F A;  4JQP A;  3VL6 A;  3BLV B;  1PB1 A;  1GRO A;  1PS6 A;  1IPD A;  3VML A;  1VI1 A;  4AJR A;  4ATY A;  1GC9 A;  2ZTW A;  4L04 A;  5GRH B;  3R8W A;  1CNZ A;  1DPZ A;  1IDF A;  5GRF A;  2QFX A;  4Y1P A;  3INM A;  1PS7 A;  1V53 A;  1G2U A;  5GRH A;  4AJB A;  2QFY A;  5LGE A;  1XAB A;  1AI3 A;  1HEX A;  3MAS A;  4ICD A;  2E5M A;  3TY4 A;  1YXO A;  4AJ3 A;  1W0D A;  2DHT A;  5J32 A;  5GRF B;  4XS3 A;  1T09 A;  4AOV A; 
#chains in the Genus database with same CATH homology
 5DE1 A;  3VL4 A;  6ICD A;  4JA8 A;  1GRP A;  2Y42 A;  3TSN A;  1IDM A;  1IDE A;  2IV0 A;  5HN3 A;  4HCX A;  3MAS B;  1CW4 A;  8ICD A;  4KZO A;  1GC8 A;  1DR0 A;  3VMK A;  3VKZ A;  1IDD A;  3LCB C;  2HI1 A;  5ICD A;  3FLK A;  1HQS A;  3LXY A;  5HN6 A;  4I3L A;  1IDC A;  3US8 A;  4P69 C;  1T0L A;  1V5B A;  4UMX A;  1DR8 A;  4L06 A;  1A05 A;  3U9E A;  1AI2 A;  4I3K A;  4L03 A;  5GRI B;  4AOY A;  9ICD A;  1R8K A;  1XAC A;  4AJA A;  1X0L A;  2QFV A;  2Y40 A;  5L57 A;  1SJS A;  1PB3 A;  1IKA A;  5I95 A;  1BL5 A;  1V94 A;  1XAA A;  1ZOR A;  5GRI A;  3AH3 A;  3WZY A;  3U1H A;  4AJC A;  7ICD A;  1CW1 A;  3UDO A;  3ASJ A;  3WZV A;  2D1C A;  3WZX A;  1XAD A;  4XXV A;  3VL3 A;  2UXQ A;  4UMY A;  1CW7 A;  2UXR A;  3TY3 A;  2E0C A;  3UF6 A;  1OSJ A;  3ICD A;  5J33 A;  3VMJ A;  3MAR A;  5K10 A;  1WAL A;  2Y3Z A;  4BNP A;  4WUO A;  5GRE B;  1PTM A;  3DMS A;  4AOU A;  1YCO A;  5I96 A;  3VL2 A;  1U7N A;  5GRL B;  5K11 A;  5HN5 A;  3BLX B;  3BLV A;  3FMX X;  1VLC A;  3MAP A;  1XKD A;  3UDU A;  2Y41 A;  5GRE A;  5L58 A;  1ISO A;  1WPW A;  5J34 A;  4IWH A;  4YB4 A;  1LWD A;  1CM7 A;  2QFW A;  1HJ6 A;  5GRL A;  2AYQ A;  3BLX A;  2D4V A;  4XRX A;  4F7I A;  3VL7 A;  3WZW A;  4AJS A;  3TNG A;  2G4O A;  1OSI A;  1TYO A;  5HN4 A;  1XGV A;  1P8F A;  4JQP A;  3VL6 A;  3BLV B;  1PB1 A;  1GRO A;  1PS6 A;  1IPD A;  3VML A;  1VI1 A;  4AJR A;  4ATY A;  1GC9 A;  2ZTW A;  4L04 A;  5GRH B;  3R8W A;  1CNZ A;  1DPZ A;  1IDF A;  5GRF A;  2QFX A;  4Y1P A;  3INM A;  1PS7 A;  1V53 A;  1G2U A;  5GRH A;  4AJB A;  2QFY A;  5LGE A;  1XAB A;  1AI3 A;  1HEX A;  3MAS A;  4ICD A;  2E5M A;  3TY4 A;  1YXO A;  4AJ3 A;  1W0D A;  2DHT A;  5J32 A;  5GRF B;  4XS3 A;  1T09 A;  4AOV A;

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similar chains in the Genus database (?% sequence similarity)

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#similar chains, but unknotted
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2Y40A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations