3VMKA

3-isopropylmalate dehydrogenase from shewanella benthica db21 mt-2
Total Genus 127
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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
127
sequence length
369
structure length
369
Chain Sequence
HHHHHGSSYQIAVLAGDGIGPEVMAEARKVLAAVEKRFDLSIEYSEYDVGGAAIDNHGCPLPEATLKGCEAADAVLFGSVGGPKWEHLPPNDQPERGALLPLRGHFELFCNMRPAKLHPGLEHMSPLRSDISEKGFDILCVRELTGGIYFGKPKGRQGEGENEEAFDTMRYSRKEIRRIAKIAFESAQGRRKKVTSVDKANVLACSVLWREVVEEVAKDYPDVELEHIYIDNATMQLLRRPNEFDVMLCSNLFGDIVSDEIAMLTGSMGLLASISMNSQGFGMYEPAGGSAPDIAGQGIANPVAQILSAALLLRHSLKLEDAALAIEAAVSKALSDGYLTCELLPASERSQAKSTSQMGDYIAQAIAEG
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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 Oxidoreductase
molecule keywords 3-isopropylmalate dehydrogenase
publication title Structural analysis of 3-isopropylmalate dehydrogenase from the obligate piezophile Shewanella benthica DB21MT-2 and the nonpiezophile Shewanella oneidensis MR-1
pubmed doi rcsb
source organism Shewanella benthica
total genus 127
structure length 369
sequence length 369
chains with identical sequence B
ec nomenclature ec 1.1.1.85: 3-isopropylmalate dehydrogenase.
pdb deposition date 2011-12-13

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
ClassArchitectureTopologyHomologyDomain
3.40.718.10 Alpha Beta 3-Layer(aba) Sandwich Isopropylmalate Dehydrogenase Isopropylmalate Dehydrogenase 3vmkA00
3UDOA 2E5MA 4AOUA 5GRHB 1VLCA 1X0LA 1DR8A 3ASJA 2D4VA 3US8A 1IKAA 5GREB 5K11A 4AJAA 3WZVA 1ZORA 4AOVA 3MAPA 1A05A 3WZXA 4AJRA 2QFYA 5L57A 4YB4A 1GROA 1PB3A 1HQSA 2Y41A 4IWHA 7ICDA 3BLXB 3TSNA 1OSIA 1PB1A 1W0DA 3UF6A 3VMKA 3U1HA 5ICDA 1PTMA 4XRXA 2Y40A 3FMXX 4JQPA 1R8KA 5GRIB 1IPDA 3VL3A 2Y3ZA 3U9EA 5GRHA 5HN5A 4L03A 4XXVA 3VL7A 3MARA 4L04A 5GREA 1XACA 1G2UA 1V5BA 1TYOA 4ATYA 1XABA 5HN4A 3WZWA 4P69C 2ZTWA 1XADA 3WZYA 4XS3A 1CM7A 1CW7A 1ISOA 1HEXA 8ICDA 3BLXA 1BL5A 2Y42A 1IDCA 2AYQA 1AI3A 5GRFA 3VL2A 4AJCA 5GRIA 1DPZA 1CNZA 5GRFB 5HN6A 1IDDA 4AJBA 3TY3A 1YXOA 4UMYA 2IV0A 5L58A 3AH3A 1P8FA 5GRLB 6ICDA 1VI1A 2UXQA 3VL4A 1XAAA 1IDFA 1V53A 4JA8A 1CW1A 3R8WA 1T09A 1PS6A 4ICDA 4I3KA 2HI1A 1WPWA 5J34A 9ICDA 3BLVB 4Y1PA 2QFWA 4L06A 5I96A 3MASB 1GRPA 1LWDA 2QFXA 4WUOA 4UMXA 2E0CA 3INMA 2UXRA 3DMSA 5LGEA 2G4OA 1OSJA 4AOYA 5DE1A 1IDEA 1V94A 4BNPA 5J33A 1T0LA 3VMJA 5GRLA 1PS7A 4HCXA 1XGVA 3ICDA 2D1CA 3LCBC 4KZOA 1GC8A 4AJSA 3LXYA 1HJ6A 1YCOA 5J32A 5I95A 3BLVA 1IDMA 3VL6A 1WALA 2DHTA 5HN3A 1SJSA 3MASA 3TNGA 1DR0A 5K10A 4AJ3A 3FLKA 1AI2A 3VMLA 1CW4A 1GC9A 3UDUA 4F7IA 1XKDA 3VKZA 3TY4A 1U7NA 4I3LA 2QFVA
chains in the Genus database with same CATH superfamily
3UDOA 2E5MA 4AOUA 5GRHB 1VLCA 1X0LA 1DR8A 3ASJA 2D4VA 3US8A 1IKAA 5GREB 5K11A 4AJAA 3WZVA 1ZORA 4AOVA 3MAPA 1A05A 3WZXA 4AJRA 2QFYA 5L57A 4YB4A 1GROA 1PB3A 1HQSA 2Y41A 4IWHA 7ICDA 3BLXB 3TSNA 1OSIA 1PB1A 1W0DA 3UF6A 3VMKA 3U1HA 5ICDA 1PTMA 4XRXA 2Y40A 3FMXX 4JQPA 1R8KA 5GRIB 1IPDA 3VL3A 2Y3ZA 3U9EA 5GRHA 5HN5A 4L03A 4XXVA 3VL7A 3MARA 4L04A 5GREA 1XACA 1G2UA 1V5BA 1TYOA 4ATYA 1XABA 5HN4A 3WZWA 4P69C 2ZTWA 1XADA 3WZYA 4XS3A 1CM7A 1CW7A 1ISOA 1HEXA 8ICDA 3BLXA 1BL5A 2Y42A 1IDCA 2AYQA 1AI3A 5GRFA 3VL2A 4AJCA 5GRIA 1DPZA 1CNZA 5GRFB 5HN6A 1IDDA 4AJBA 3TY3A 1YXOA 4UMYA 2IV0A 5L58A 3AH3A 1P8FA 5GRLB 6ICDA 1VI1A 2UXQA 3VL4A 1XAAA 1IDFA 1V53A 4JA8A 1CW1A 3R8WA 1T09A 1PS6A 4ICDA 4I3KA 2HI1A 1WPWA 5J34A 9ICDA 3BLVB 4Y1PA 2QFWA 4L06A 5I96A 3MASB 1GRPA 1LWDA 2QFXA 4WUOA 4UMXA 2E0CA 3INMA 2UXRA 3DMSA 5LGEA 2G4OA 1OSJA 4AOYA 5DE1A 1IDEA 1V94A 4BNPA 5J33A 1T0LA 3VMJA 5GRLA 1PS7A 4HCXA 1XGVA 3ICDA 2D1CA 3LCBC 4KZOA 1GC8A 4AJSA 3LXYA 1HJ6A 1YCOA 5J32A 5I95A 3BLVA 1IDMA 3VL6A 1WALA 2DHTA 5HN3A 1SJSA 3MASA 3TNGA 1DR0A 5K10A 4AJ3A 3FLKA 1AI2A 3VMLA 1CW4A 1GC9A 3UDUA 4F7IA 1XKDA 3VKZA 3TY4A 1U7NA 4I3LA 2QFVA
chains in the Genus database with same CATH topology
3UDOA 2E5MA 4AOUA 5GRHB 1VLCA 1X0LA 1DR8A 3ASJA 2D4VA 3US8A 1IKAA 5GREB 5K11A 4AJAA 3WZVA 1ZORA 4AOVA 3MAPA 1A05A 3WZXA 4AJRA 2QFYA 5L57A 4YB4A 1GROA 1PB3A 1HQSA 2Y41A 4IWHA 7ICDA 3BLXB 3TSNA 1OSIA 1PB1A 1W0DA 3UF6A 3VMKA 3U1HA 5ICDA 1PTMA 4XRXA 2Y40A 3FMXX 4JQPA 1R8KA 5GRIB 1IPDA 3VL3A 2Y3ZA 3U9EA 5GRHA 5HN5A 4L03A 4XXVA 3VL7A 3MARA 4L04A 5GREA 1XACA 1G2UA 1V5BA 1TYOA 4ATYA 1XABA 5HN4A 3WZWA 4P69C 2ZTWA 1XADA 3WZYA 4XS3A 1CM7A 1CW7A 1ISOA 1HEXA 8ICDA 3BLXA 1BL5A 2Y42A 1IDCA 2AYQA 1AI3A 5GRFA 3VL2A 4AJCA 5GRIA 1DPZA 1CNZA 5GRFB 5HN6A 1IDDA 4AJBA 3TY3A 1YXOA 4UMYA 2IV0A 5L58A 3AH3A 1P8FA 5GRLB 6ICDA 1VI1A 2UXQA 3VL4A 1XAAA 1IDFA 1V53A 4JA8A 1CW1A 3R8WA 1T09A 1PS6A 4ICDA 4I3KA 2HI1A 1WPWA 5J34A 9ICDA 3BLVB 4Y1PA 2QFWA 4L06A 5I96A 3MASB 1GRPA 1LWDA 2QFXA 4WUOA 4UMXA 2E0CA 3INMA 2UXRA 3DMSA 5LGEA 2G4OA 1OSJA 4AOYA 5DE1A 1IDEA 1V94A 4BNPA 5J33A 1T0LA 3VMJA 5GRLA 1PS7A 4HCXA 1XGVA 3ICDA 2D1CA 3LCBC 4KZOA 1GC8A 4AJSA 3LXYA 1HJ6A 1YCOA 5J32A 5I95A 3BLVA 1IDMA 3VL6A 1WALA 2DHTA 5HN3A 1SJSA 3MASA 3TNGA 1DR0A 5K10A 4AJ3A 3FLKA 1AI2A 3VMLA 1CW4A 1GC9A 3UDUA 4F7IA 1XKDA 3VKZA 3TY4A 1U7NA 4I3LA 2QFVA
chains in the Genus database with same CATH homology


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