2D4VA

Crystal structure of nad dependent isocitrate dehydrogenase from acidithiobacillus thiooxidans
Total Genus 139
50100150200250300350400020406080100120140
Genus TraceResidueGenus

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
139
sequence length
427
structure length
427
Chain Sequence
THIQKPATGSPLTLLNGVLQVPDQPIIPFIEGDGIGCDVTPAMRSVVDAAVAKVYGGQRQIAWMELFAGQKAVQLYGEGQYLPDETMAAIREYKVAIKGPLETPVGGGIRSLNVAMRQDLDLYVCLRPVRYFEGTPSPMRHPEKVDMVIFRENSEDIYAGIEWPAGSPEAEKIIRFLREEMGVTKIRFPDSSAIGIKPVSTEGSERLIRRTIQYALEHGKPSVSLVHKGNIMKFTEGGFRDWGYALAEREFAGRVFTWRQKAAISKAEGKAAGQKAEQQAIADGKLIIKDVIADNFLQQILLRPEDYSVVATLNLNGDYVSDALAAEVGGIGMAPGANLSDTHAIFEATHGTAPDIAGQGKANPSSLILSAVMMLEHLGWGEAAQAIVAAMNATIAAGEVTGDLAALRGDVPALSTTEFTAALIRRF
50100150200250300350400400300200100
020406080100120Genus Matrix

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
EMPTYS2 (20-22)S1 (15-17)TIV1 (16-19)S4 (64-67)TIV3 (24-27)AH1 (37-57)S3 (28-32)AH2 (71-78)TI'1 (57-60)AH13 (383-399)AH3 (86-95)TII1 (79-82)TVIII2 (82-85)AH4 (114-122)S5 (97-100)S15 (346-349)AH6 (203-220)S7 (148-154)O1 (123-125)S6 (126-132)AH11 (316-330)TII3 (134-137)3H3 (306-308)S13 (311-314)S9 (196-197)3H2 (159-161)TI3 (191-194)S8 (164-165)TII4 (166-169)TIV5 (188-191)TI2 (190-193)TI6 (234-237)S14 (339-341)S12 (288-294)S10 (224-229)TI4 (230-233)AH7 (237-253)TIV6 (232-235)TII5 (253-256)AH9 (272-285)S11 (257-259)TI7 (332-335)AH12 (366-380)TIV8 (333-336)TI8 (342-345)TI9 (355-358)TI10 (356-359)TII6 (358-361)AH15 (418-427)TI1 (8-11)TVIII1 (59-62)3H1 (144-146)TIV4 (141-144)AH10 (295-304)AH14 (404-408)TI11 (410-413)AH8 (260-270)AH5 (170-183)Updating...
connected with : NaN
publication title Structure and quantum chemical analysis of NAD+-dependent isocitrate dehydrogenase: hydride transfer and co-factor specificity
pubmed doi rcsb
molecule keywords isocitrate dehydrogenase
molecule tags Oxidoreductase
source organism Acidithiobacillus thiooxidans
total genus 139
structure length 427
sequence length 427
chains with identical sequence B, C, D
ec nomenclature
pdb deposition date 2005-10-24

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 2d4vA00
1HQSA 1IDFA 1GC9A 2QFXA 3ASJA 1DPZA 3TY3A 6ICDA 5J33A 5GRIB 4WUOA 3MARA 3LCBC 1XGVA 3WZVA 4AJSA 3US8A 2HI1A 3BLXA 3R8WA 4AJBA 3TNGA 4AOVA 4YB4A 1YXOA 2QFWA 4L03A 1WALA 3VL2A 3VL6A 1CW1A 2D1CA 3TSNA 2UXQA 1BL5A 1IDCA 1WPWA 1AI2A 3UDUA 7ICDA 5GRHA 4AJ3A 1SJSA 4UMYA 1XABA 3FLKA 1CM7A 1IDEA 3VKZA 1T0LA 1R8KA 2E0CA 3MAPA 1LWDA 1V5BA 5GRFB 3U9EA 3AH3A 5HN4A 5GRHB 3FMXX 5GREB 3UDOA 5L57A 1DR8A 3WZXA 1W0DA 1T09A 1IDDA 1G2UA 1PS6A 1ISOA 2Y3ZA 4HCXA 1CW4A 5I96A 5J32A 3VMLA 4UMXA 5I95A 9ICDA 3BLVA 4JA8A 3VL4A 1OSIA 2IV0A 2ZTWA 3VL3A 1GROA 3MASB 4KZOA 1PTMA 1DR0A 4L06A 1XACA 4XXVA 1IDMA 5GRFA 2G4OA 3VL7A 4IWHA 1VI1A 3BLVB 4AOUA 1TYOA 2DHTA 3INMA 4P69C 5GREA 1CW7A 3VMJA 3TY4A 1PS7A 5DE1A 1ZORA 1XKDA 5ICDA 2QFVA 5L58A 5LGEA 1IPDA 5J34A 3VMKA 4F7IA 2Y41A 4L04A 1P8FA 5HN3A 2AYQA 4ICDA 1YCOA 5K11A 4AJAA 5GRLB 1GC8A 3MASA 1OSJA 8ICDA 1V53A 2D4VA 2Y42A 3LXYA 4JQPA 4I3KA 1HEXA 4BNPA 4XS3A 1VLCA 3UF6A 4XRXA 4AJRA 4ATYA 5GRLA 1AI3A 1PB3A 4AJCA 1XAAA 2QFYA 3DMSA 5K10A 3WZWA 1PB1A 4Y1PA 3ICDA 1U7NA 1CNZA 5HN5A 2Y40A 5HN6A 1GRPA 4I3LA 5GRIA 1HJ6A 3BLXB 1V94A 2UXRA 1IKAA 4AOYA 3U1HA 1XADA 1X0LA 2E5MA 3WZYA 1A05A
chains in the Genus database with same CATH superfamily
1HQSA 1IDFA 1GC9A 2QFXA 3ASJA 1DPZA 3TY3A 6ICDA 5J33A 5GRIB 4WUOA 3MARA 3LCBC 1XGVA 3WZVA 4AJSA 3US8A 2HI1A 3BLXA 3R8WA 4AJBA 3TNGA 4AOVA 4YB4A 1YXOA 2QFWA 4L03A 1WALA 3VL2A 3VL6A 1CW1A 2D1CA 3TSNA 2UXQA 1BL5A 1IDCA 1WPWA 1AI2A 3UDUA 7ICDA 5GRHA 4AJ3A 1SJSA 4UMYA 1XABA 3FLKA 1CM7A 1IDEA 3VKZA 1T0LA 1R8KA 2E0CA 3MAPA 1LWDA 1V5BA 5GRFB 3U9EA 3AH3A 5HN4A 5GRHB 3FMXX 5GREB 3UDOA 5L57A 1DR8A 3WZXA 1W0DA 1T09A 1IDDA 1G2UA 1PS6A 1ISOA 2Y3ZA 4HCXA 1CW4A 5I96A 5J32A 3VMLA 4UMXA 5I95A 9ICDA 3BLVA 4JA8A 3VL4A 1OSIA 2IV0A 2ZTWA 3VL3A 1GROA 3MASB 4KZOA 1PTMA 1DR0A 4L06A 1XACA 4XXVA 1IDMA 5GRFA 2G4OA 3VL7A 4IWHA 1VI1A 3BLVB 4AOUA 1TYOA 2DHTA 3INMA 4P69C 5GREA 1CW7A 3VMJA 3TY4A 1PS7A 5DE1A 1ZORA 1XKDA 5ICDA 2QFVA 5L58A 5LGEA 1IPDA 5J34A 3VMKA 4F7IA 2Y41A 4L04A 1P8FA 5HN3A 2AYQA 4ICDA 1YCOA 5K11A 4AJAA 5GRLB 1GC8A 3MASA 1OSJA 8ICDA 1V53A 2D4VA 2Y42A 3LXYA 4JQPA 4I3KA 1HEXA 4BNPA 4XS3A 1VLCA 3UF6A 4XRXA 4AJRA 4ATYA 5GRLA 1AI3A 1PB3A 4AJCA 1XAAA 2QFYA 3DMSA 5K10A 3WZWA 1PB1A 4Y1PA 3ICDA 1U7NA 1CNZA 5HN5A 2Y40A 5HN6A 1GRPA 4I3LA 5GRIA 1HJ6A 3BLXB 1V94A 2UXRA 1IKAA 4AOYA 3U1HA 1XADA 1X0LA 2E5MA 3WZYA 1A05A
chains in the Genus database with same CATH topology
1HQSA 1IDFA 1GC9A 2QFXA 3ASJA 1DPZA 3TY3A 6ICDA 5J33A 5GRIB 4WUOA 3MARA 3LCBC 1XGVA 3WZVA 4AJSA 3US8A 2HI1A 3BLXA 3R8WA 4AJBA 3TNGA 4AOVA 4YB4A 1YXOA 2QFWA 4L03A 1WALA 3VL2A 3VL6A 1CW1A 2D1CA 3TSNA 2UXQA 1BL5A 1IDCA 1WPWA 1AI2A 3UDUA 7ICDA 5GRHA 4AJ3A 1SJSA 4UMYA 1XABA 3FLKA 1CM7A 1IDEA 3VKZA 1T0LA 1R8KA 2E0CA 3MAPA 1LWDA 1V5BA 5GRFB 3U9EA 3AH3A 5HN4A 5GRHB 3FMXX 5GREB 3UDOA 5L57A 1DR8A 3WZXA 1W0DA 1T09A 1IDDA 1G2UA 1PS6A 1ISOA 2Y3ZA 4HCXA 1CW4A 5I96A 5J32A 3VMLA 4UMXA 5I95A 9ICDA 3BLVA 4JA8A 3VL4A 1OSIA 2IV0A 2ZTWA 3VL3A 1GROA 3MASB 4KZOA 1PTMA 1DR0A 4L06A 1XACA 4XXVA 1IDMA 5GRFA 2G4OA 3VL7A 4IWHA 1VI1A 3BLVB 4AOUA 1TYOA 2DHTA 3INMA 4P69C 5GREA 1CW7A 3VMJA 3TY4A 1PS7A 5DE1A 1ZORA 1XKDA 5ICDA 2QFVA 5L58A 5LGEA 1IPDA 5J34A 3VMKA 4F7IA 2Y41A 4L04A 1P8FA 5HN3A 2AYQA 4ICDA 1YCOA 5K11A 4AJAA 5GRLB 1GC8A 3MASA 1OSJA 8ICDA 1V53A 2D4VA 2Y42A 3LXYA 4JQPA 4I3KA 1HEXA 4BNPA 4XS3A 1VLCA 3UF6A 4XRXA 4AJRA 4ATYA 5GRLA 1AI3A 1PB3A 4AJCA 1XAAA 2QFYA 3DMSA 5K10A 3WZWA 1PB1A 4Y1PA 3ICDA 1U7NA 1CNZA 5HN5A 2Y40A 5HN6A 1GRPA 4I3LA 5GRIA 1HJ6A 3BLXB 1V94A 2UXRA 1IKAA 4AOYA 3U1HA 1XADA 1X0LA 2E5MA 3WZYA 1A05A
chains in the Genus database with same CATH homology


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