1VBIA

Crystal structure of type 2 malate/lactate dehydrogenase from thermus thermophilus hb8
Total Genus 114
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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
114
sequence length
340
structure length
340
Chain Sequence
MRWRADFLSAWAEALLRKAGADEPSAKAVAWALVEADLRGVGSHGLLRLPVYVRRLEAGLVNPSPTLPLEERGPVALLDGEHGFGPRVALKAVEAAQSLARRHGLGAVGVRRSTHFGMAGLYAEKLAREGFVAWVTTNAEPDVVPFGGREKALGTNPLAFAAPAPQGILVADLATSESAMGKVFLAREKGERIPPSWGVDREGSPTDDPHRVYALRPLGGPKGYALALLVEVLSGVLTGAGVAHGIGRMYDEWDRPQDVGHFLLALDPGRFVGKEAFLERMGALWQALKATPPAPGHEEVFLPGELEARRRERALAEGMALPERVVAELKALGERYGVPW
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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 Crystal structure of type 2 malate/lactate dehydrogenase from thermus thermophilus HB8
rcsb
source organism Thermus thermophilus
molecule tags Oxidoreductase
molecule keywords Type 2 malate/lactate dehydrogenase
total genus 114
structure length 340
sequence length 340
ec nomenclature ec 1.1.1.27: L-lactate dehydrogenase.
pdb deposition date 2004-02-27

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 1vbiA01
3.30.1370.60 Alpha Beta 2-Layer Sandwich Ribosomal Protein S8; Chain: A, domain 1 Hypothetical oxidoreductase yiak; domain 2 1vbiA02
1V9NA 3UOEA 2G8YA 1Z2IA 3I0PA 1WTJA 1S20A 1NXUA 4FJUA 2CWFA 4FJSA 4H8AA 1XRHA 2CWHA 1VBIA 1X0AA 2X06A
chains in the Genus database with same CATH superfamily
1HR0H 2JEAI 3RF2A 2PY9A 2Y3MA 4EC5A 2CTMA 4B8CD 4OD6A 2PQUA 5LMNH 2LF0A 1HNWH 4DV7H 1UG8A 1I94H 3VKEA 3UOEA 4NXMH 5FLXW 2UXBH 1I6UA 5DT9A 2CPQA 1TUAA 3OETA 3SB1A 5IWAH 3OTOH 2LTMA 4JI8H 2CTEA 1IBKH 4B3TH 4B3SH 2YQRA 2BA0A 4LIJA 2AXYA 2UUBH 3JAMW 4DV2H 1X9ZA 4LF6H 3KDKA 2VKCA 2CTLA 1ZZIA 2F4VH 2UXCH 5IT9W 1XNQH 4OX9H 3L7ZC 2FMRA 4FJUA 4DV4H 2JA9A 2M8WA 4LFCH 1DT4A 2CTFA 2A1SA 4YHHH 4JI1H 4AQYH 1VBIA 1X4MA 1ZTGA 2FFMA 1WE8A 4E9JA 3J7AK 4X66H 4JI4H 2UU9H 5K36G 5LL6b 2UUAH 1PQXA 4X64H 4DV6H 1S03G 2CWHA 3T1HH 4LF9H 4NZRM 1Z2IA 2VQFH 1N33H 2LTLA 1EC6A 4JV5H 5C0XG 4BA2I 1IBLH 4B3MH 1FJGH 1WTJA 2HH3A 4AM3A 4X65H 4AIMA 1J4WA 4JI5H 4DR6H 2CWFA 2UUCH 2PT7G 4OO1G 4NBQA 1N32H 4DV3H 2MJHA 2JZXA 2QNDA 2FPHX 3OSSD 4LFBH 1KHMA 1S20A 1DTJA 2K1HA 4DR5H 4FJSA 4GKJH 4K0KH 4DV1H 3V69A 1XMQH 4JYAH 4DR2H 4DR7H 2JE6I 1IBMH 4JI2H 1HNZH 4LF7H 1VIGA 2D9IA 1MSZA 2NN6G 2JVZA 4JI7H 3NCVA 1FKAH 2X06A 4JI0H 1WVNA 1ODHA 4LFAH 4DV5H 4DR3H 1NXUA 4BA1I 4DUZH 2HHHH 4JVHA 3QD7X 4G08A 2E5LH 2O4CA 4LF5H 4PDBA 3FAUA 4JVYA 2ANNA 2OPUA 1AN7A 1V8CA 4LF8H 5LMUH 5JEAG 2CTJA 3KDGA 1F0XA 3AEVB 2E3UA 3T1YH 3EZJA 2BL5A 3J81W 4NZTM 1N36H 1ZZKA 4YY3H 2OPVA 2VQEH 1X0AA 4DUYH 1ZZJA 2HH2A 2G8YA 4QMFB 3I0PA 3GKUA 4JI3H 4H8AA 2JEBI 5BR8H 3U1KA 4B8TA 2CTKA 4WALA 1XRHA 4WANA 2ZM6H 1XMOH 1XNRH 1J5KA 2DGRA 1HNXH 2M6QA 2CPMA 4X62H 2LRRA 5A2QW 4DV0H 1V9NA 2ANRA 3J80W 1SEIA 3GABA 4DR4H 2ZQEA 3GR5A 4KHPH 2P2RA 4JI6H 4OCHA 2Z0SA 1VIHA 1K1GA 4GKKH 4DR1H 1J5EH 2UXDH 1X4NA 4LF4H 1N34H 4B3RH 1WHRA 4IFDG 4NXNH
chains in the Genus database with same CATH topology
1V9NA 3UOEA 2G8YA 1Z2IA 3I0PA 1WTJA 1S20A 1NXUA 4FJUA 2CWFA 4FJSA 4H8AA 1XRHA 2CWHA 1VBIA 1X0AA 2X06A
chains in the Genus database with same CATH homology


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