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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publication title Structure of Malate Dehydrogenase from Pyrococcus horikoshii OT3
rcsb
molecule tags Oxidoreductase
source organism Pyrococcus horikoshii
molecule keywords Malate dehydrogenase
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
1Z2IA 1WTJA 2CWHA 4FJSA 1XRHA 1NXUA 1X0AA 4H8AA 3I0PA 4FJUA 1V9NA 1S20A 1VBIA 2X06A 2G8YA 2CWFA 3UOEA
chains in the Genus database with same CATH superfamily
1SEIA 2LRRA 1DTJA 1XRHA 3V69A 4LF7H 4JI8H 4LFBH 3I0PA 4FJUA 4GKJH 4LIJA 4X66H 4B3RH 4PDBA 4JV5H 2FMRA 1WE8A 2VQFH 1ZZIA 2UUBH 3U1KA 4EC5A 4LF4H 1ZZKA 2ANNA 2A1SA 4DV4H 1N33H 2UU9H 1X4NA 4JI2H 2CWFA 2JEBI 1Z2IA 4OD6A 4OX9H 4K0KH 4NZTM 2QNDA 2P2RA 4DR7H 2VQEH 1X4MA 1V9NA 2HH2A 2PT7G 4DR5H 1HR0H 4JI7H 4DUZH 1J4WA 3VKEA 1K1GA 5JEAG 1XNRH 2F4VH 2ZQEA 1X9ZA 2DGRA 1N36H 5LL6b 5K36G 3GR5A 2ZM6H 4LFCH 2PY9A 3FAUA 2FFMA 3OETA 4DR6H 4B8CD 1X0AA 3KDKA 4X64H 2CTFA 4B3SH 4OCHA 4DR1H 1VBIA 4JVHA 4DR3H 3JAMW 2HHHH 4X65H 2Y3MA 4DR2H 3GKUA 4DV2H 1PQXA 2G8YA 1MSZA 1XMQH 4QMFB 5LMUH 2UXCH 5IWAH 3T1YH 4OO1G 2AXYA 3J81W 1V8CA 4X62H 1AN7A 1N34H 4JI4H 4DV5H 5C0XG 4LF6H 4NXMH 1I6UA 1TUAA 2VKCA 5LMNH 1WTJA 2OPVA 5DT9A 2O4CA 4DV3H 4B3MH 1DT4A 3NCVA 4LF5H 2YQRA 5BR8H 1VIHA 4AM3A 3UOEA 4E9JA 3J7AK 4AIMA 4JI5H 1XNQH 4LFAH 4WALA 2JVZA 4DV7H 1S03G 2JZXA 1HNXH 1J5EH 2K1HA 5IT9W 4BA1I 2E3UA 3SB1A 2UUAH 2NN6G 1KHMA 2BA0A 2CTEA 4G08A 3OTOH 2HH3A 2FPHX 2LTMA 2PQUA 1IBLH 4B3TH 4WANA 3T1HH 1IBKH 1FKAH 4KHPH 4JI3H 1WVNA 4IFDG 4JI6H 4NZRM 4B8TA 1HNWH 1I94H 4DR4H 2CTMA 1F0XA 2M6QA 2Z0SA 1FJGH 2D9IA 3AEVB 2OPUA 1ZZJA 2MJHA 1J5KA 2UUCH 4DV0H 1IBMH 2JEAI 2M8WA 4DV1H 1NXUA 3OSSD 4BA2I 4JI1H 4YY3H 4LF9H 1HNZH 3L7ZC 2CPMA 1UG8A 3KDGA 2BL5A 2CPQA 4AQYH 1S20A 1EC6A 2ANRA 4NXNH 2LF0A 1VIGA 4DUYH 2JE6I 4NBQA 2CWHA 3GABA 1ODHA 4LF8H 4H8AA 4GKKH 4JYAH 2UXBH 4DV6H 2LTLA 2CTKA 5A2QW 1N32H 4JVYA 2CTJA 5FLXW 2JA9A 4YHHH 2E5LH 3EZJA 2UXDH 3RF2A 3J80W 1XMOH 1ZTGA 2CTLA 4JI0H 2X06A 4FJSA 3QD7X 1WHRA
chains in the Genus database with same CATH topology
1Z2IA 1WTJA 2CWHA 4FJSA 1XRHA 1NXUA 1X0AA 4H8AA 3I0PA 4FJUA 1V9NA 1S20A 1VBIA 2X06A 2G8YA 2CWFA 3UOEA
chains in the Genus database with same CATH homology


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