1V9NA

Structure of malate dehydrogenase from pyrococcus horikoshii ot3
Total Genus 99
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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
99
sequence length
360
structure length
348
Chain Sequence
MFEKGYVDENYIRVPKDRLFSFIVRVLTKLGVPEEDAKIVADNLVMADLRGVESHGVQRLKRYVDGIISGGVNLHPKIRVIREGPSYALIDGDEGLGQVVGYRSMKLAIKKAKDTGIGIVIARNSNHYGIAGYYALMAAEEGMIGISMTNSRPLVAPTGGIERILGTNPIALAAPTKDKPFLLDMATSVVPIGKLEWAINREGNITTKVEEVFNGGALLPLGGFGELLGGHKGYGLSLMVDILSGILSGGTWSKYVKNTSEKGSNVCHFFMVIDIEHFIPLEEFKEKISQMIEEIKSSRKHPEFERIWIHGEKGFLTMETRLKLGIPIYRKVLEELNEIAKRVGVEGL
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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 Malate dehydrogenase
publication title Structure of Malate Dehydrogenase from Pyrococcus horikoshii OT3
rcsb
source organism Pyrococcus horikoshii
total genus 99
structure length 348
sequence length 360
ec nomenclature ec 1.1.1.37: Malate dehydrogenase.
pdb deposition date 2004-01-26

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02615 Ldh_2 Malate/L-lactate dehydrogenase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.1530.10 Mainly Alpha Orthogonal Bundle Hypothetical Oxidoreductase Yiak; Chain: A, domain 1 Hypothetical Oxidoreductase Yiak; Chain: A, domain 1 1v9nA01
3.30.1370.60 Alpha Beta 2-Layer Sandwich Ribosomal Protein S8; Chain: A, domain 1 Hypothetical oxidoreductase yiak; domain 2 1v9nA02
1VBIA 4H8AA 1WTJA 1Z2IA 1S20A 2G8YA 2CWFA 4FJUA 4FJSA 1X0AA 3I0PA 2CWHA 1XRHA 1V9NA 3UOEA 1NXUA 2X06A
chains in the Genus database with same CATH superfamily
1F0XA 2FMRA 2MJHA 4LF5H 4DR6H 4DR7H 4X66H 3U1KA 4DV3H 2NN6G 2E5LH 4NZRM 3T1YH 4NBQA 1HNXH 2JEBI 4OX9H 2BA0A 5JEAG 2CWFA 1X4NA 3OTOH 2UUAH 4B3SH 4JYAH 2LTLA 4JVYA 1NXUA 4OCHA 1FKAH 2LTMA 2UXCH 4JI3H 4DV1H 5FLXW 2HHHH 2VQEH 4JI5H 2VKCA 2LF0A 3UOEA 4K0KH 4JI8H 1XMQH 4JI6H 2Y3MA 1XNRH 1ZTGA 1V8CA 2D9IA 4YHHH 1IBMH 1ZZKA 1WHRA 1WVNA 3L7ZC 3J81W 4GKKH 5LMUH 1V9NA 4E9JA 1Z2IA 2OPUA 2O4CA 3KDKA 4DV6H 4DV4H 4JI7H 1X0AA 2CPQA 1DT4A 1VIGA 1WE8A 2CTJA 2CTKA 2UU9H 4IFDG 1MSZA 5IWAH 2UXBH 4X62H 4PDBA 1S20A 3KDGA 4LFCH 1I94H 2JZXA 3J7AK 4AQYH 4BA1I 5BR8H 3GABA 1HR0H 4LF9H 1N36H 2UUBH 3T1HH 2JEAI 3OETA 4DUYH 4DUZH 2QNDA 2CWHA 3JAMW 1N33H 4JV5H 4OD6A 4DV2H 1J5KA 2M6QA 1KHMA 2K1HA 4DV5H 2ANNA 2F4VH 2UXDH 1I6UA 4DR2H 4LFAH 5K36G 1WTJA 3RF2A 1HNZH 1XMOH 4B8TA 2UUCH 5LL6b 4DR1H 4X65H 4JI1H 2X06A 3OSSD 4NXNH 4KHPH 2M8WA 2CTEA 1AN7A 1SEIA 4JI4H 4LF6H 2CPMA 2ZQEA 4EC5A 1N34H 4H8AA 1N32H 4B3RH 2DGRA 4LF4H 2YQRA 3SB1A 5A2QW 4JVHA 4LF7H 1XRHA 4QMFB 1X9ZA 2BL5A 4X64H 2JVZA 5LMNH 1HNWH 3NCVA 4DR3H 3AEVB 2P2RA 4DV0H 4FJSA 4WANA 4WALA 1ZZIA 2ZM6H 4YY3H 2A1SA 4B3MH 2PT7G 5C0XG 1PQXA 4JI0H 1EC6A 2CTFA 1UG8A 3QD7X 3V69A 2LRRA 2VQFH 2HH2A 3GR5A 4B3TH 2PY9A 4DR4H 5IT9W 4GKJH 2Z0SA 4BA2I 2JE6I 2FFMA 1IBLH 4LF8H 2CTMA 1VBIA 1VIHA 1J4WA 2E3UA 1ZZJA 1FJGH 2FPHX 1J5EH 4FJUA 2AXYA 3FAUA 4AM3A 3GKUA 2HH3A 3VKEA 1ODHA 2CTLA 1X4MA 4G08A 4JI2H 2OPVA 1XNQH 4AIMA 2JA9A 1K1GA 4LFBH 1IBKH 4DR5H 1S03G 2G8YA 3EZJA 4NXMH 4LIJA 3J80W 4OO1G 4NZTM 2ANRA 4B8CD 2PQUA 4DV7H 5DT9A 1TUAA 3I0PA 1DTJA
chains in the Genus database with same CATH topology
1VBIA 4H8AA 1WTJA 1Z2IA 1S20A 2G8YA 2CWFA 4FJUA 4FJSA 1X0AA 3I0PA 2CWHA 1XRHA 1V9NA 3UOEA 1NXUA 2X06A
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1VBI A;  4H8A A;  1WTJ A;  1Z2I A;  1S20 A;  2G8Y A;  2CWF A;  4FJU A;  4FJS A;  1X0A A;  3I0P A;  2CWH A;  1XRH A;  1V9N A;  3UOE A;  1NXU A;  2X06 A; 
#chains in the Genus database with same CATH topology
 1F0X A;  2FMR A;  2MJH A;  4LF5 H;  4DR6 H;  4DR7 H;  4X66 H;  3U1K A;  4DV3 H;  2NN6 G;  2E5L H;  4NZR M;  3T1Y H;  4NBQ A;  1HNX H;  2JEB I;  4OX9 H;  2BA0 A;  5JEA G;  2CWF A;  1X4N A;  3OTO H;  2UUA H;  4B3S H;  4JYA H;  2LTL A;  4JVY A;  1NXU A;  4OCH A;  1FKA H;  2LTM A;  2UXC H;  4JI3 H;  4DV1 H;  5FLX W;  2HHH H;  2VQE H;  4JI5 H;  2VKC A;  2LF0 A;  3UOE A;  4K0K H;  4JI8 H;  1XMQ H;  4JI6 H;  2Y3M A;  1XNR H;  1ZTG A;  1V8C A;  2D9I A;  4YHH H;  1IBM H;  1ZZK A;  1WHR A;  1WVN A;  3L7Z C;  3J81 W;  4GKK H;  5LMU H;  1V9N A;  4E9J A;  1Z2I A;  2OPU A;  2O4C A;  3KDK A;  4DV6 H;  4DV4 H;  4JI7 H;  1X0A A;  2CPQ A;  1DT4 A;  1VIG A;  1WE8 A;  2CTJ A;  2CTK A;  2UU9 H;  4IFD G;  1MSZ A;  5IWA H;  2UXB H;  4X62 H;  4PDB A;  1S20 A;  3KDG A;  4LFC H;  1I94 H;  2JZX A;  3J7A K;  4AQY H;  4BA1 I;  5BR8 H;  3GAB A;  1HR0 H;  4LF9 H;  1N36 H;  2UUB H;  3T1H H;  2JEA I;  3OET A;  4DUY H;  4DUZ H;  2QND A;  2CWH A;  3JAM W;  1N33 H;  4JV5 H;  4OD6 A;  4DV2 H;  1J5K A;  2M6Q A;  1KHM A;  2K1H A;  4DV5 H;  2ANN A;  2F4V H;  2UXD H;  1I6U A;  4DR2 H;  4LFA H;  5K36 G;  1WTJ A;  3RF2 A;  1HNZ H;  1XMO H;  4B8T A;  2UUC H;  5LL6 b;  4DR1 H;  4X65 H;  4JI1 H;  2X06 A;  3OSS D;  4NXN H;  4KHP H;  2M8W A;  2CTE A;  1AN7 A;  1SEI A;  4JI4 H;  4LF6 H;  2CPM A;  2ZQE A;  4EC5 A;  1N34 H;  4H8A A;  1N32 H;  4B3R H;  2DGR A;  4LF4 H;  2YQR A;  3SB1 A;  5A2Q W;  4JVH A;  4LF7 H;  1XRH A;  4QMF B;  1X9Z A;  2BL5 A;  4X64 H;  2JVZ A;  5LMN H;  1HNW H;  3NCV A;  4DR3 H;  3AEV B;  2P2R A;  4DV0 H;  4FJS A;  4WAN A;  4WAL A;  1ZZI A;  2ZM6 H;  4YY3 H;  2A1S A;  4B3M H;  2PT7 G;  5C0X G;  1PQX A;  4JI0 H;  1EC6 A;  2CTF A;  1UG8 A;  3QD7 X;  3V69 A;  2LRR A;  2VQF H;  2HH2 A;  3GR5 A;  4B3T H;  2PY9 A;  4DR4 H;  5IT9 W;  4GKJ H;  2Z0S A;  4BA2 I;  2JE6 I;  2FFM A;  1IBL H;  4LF8 H;  2CTM A;  1VBI A;  1VIH A;  1J4W A;  2E3U A;  1ZZJ A;  1FJG H;  2FPH X;  1J5E H;  4FJU A;  2AXY A;  3FAU A;  4AM3 A;  3GKU A;  2HH3 A;  3VKE A;  1ODH A;  2CTL A;  1X4M A;  4G08 A;  4JI2 H;  2OPV A;  1XNQ H;  4AIM A;  2JA9 A;  1K1G A;  4LFB H;  1IBK H;  4DR5 H;  1S03 G;  2G8Y A;  3EZJ A;  4NXM H;  4LIJ A;  3J80 W;  4OO1 G;  4NZT M;  2ANR A;  4B8C D;  2PQU A;  4DV7 H;  5DT9 A;  1TUA A;  3I0P A;  1DTJ A; 
#chains in the Genus database with same CATH homology
 1VBI A;  4H8A A;  1WTJ A;  1Z2I A;  1S20 A;  2G8Y A;  2CWF A;  4FJU A;  4FJS A;  1X0A A;  3I0P A;  2CWH A;  1XRH A;  1V9N A;  3UOE A;  1NXU A;  2X06 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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