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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molecule keywords Type 2 malate/lactate dehydrogenase
publication title Crystal structure of type 2 malate/lactate dehydrogenase from thermus thermophilus HB8
rcsb
source organism Thermus thermophilus
molecule tags Oxidoreductase
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
3UOEA 1S20A 1WTJA 4FJUA 2G8YA 2CWHA 1XRHA 1Z2IA 2X06A 2CWFA 1NXUA 3I0PA 1VBIA 4FJSA 4H8AA 1X0AA 1V9NA
chains in the Genus database with same CATH superfamily
2UXCH 3OTOH 4X64H 1VIHA 5FLXW 2BA0A 4OCHA 2CTFA 3GR5A 4DUYH 2FFMA 4E9JA 3T1YH 3NCVA 4NXNH 2LRRA 2CTEA 2HH2A 3J7AK 4BA1I 2QNDA 1N32H 3I0PA 1V9NA 1ZZKA 4LFBH 2ZQEA 2K1HA 2LF0A 1X4MA 4OX9H 1AN7A 4NZRM 1X4NA 4DR2H 1J5EH 3AEVB 2HHHH 2E3UA 4LF7H 1TUAA 1N33H 4WANA 2VKCA 4B3SH 1WTJA 4QMFB 4JI2H 1J5KA 4LF9H 3VKEA 5K36G 1DTJA 1VBIA 4B8CD 4DV6H 1I94H 4LF6H 4LFCH 3GKUA 4B8TA 2UUBH 3SB1A 1HNZH 2Y3MA 2G8YA 2D9IA 2JEBI 4JI4H 3OSSD 4JI5H 5C0XG 2MJHA 1S03G 4GKKH 1X0AA 3UOEA 2JE6I 2BL5A 1F0XA 2CPQA 3EZJA 3JAMW 5LMUH 4DV3H 1ZTGA 2JVZA 3FAUA 2CWFA 4X65H 1XMOH 4NBQA 4KHPH 2Z0SA 1KHMA 4B3MH 2CWHA 4B3TH 2E5LH 1I6UA 4JI0H 4EC5A 2DGRA 4AQYH 1V8CA 4JI8H 4IFDG 4DV7H 1FJGH 1UG8A 3RF2A 2LTMA 1HR0H 1XNQH 4BA2I 4AIMA 2UXDH 2P2RA 1ODHA 2JEAI 2VQFH 4LFAH 2NN6G 1HNXH 2CTMA 1S20A 4G08A 4NZTM 4DR1H 2OPUA 3QD7X 1IBMH 1WVNA 4JI3H 4AM3A 4DR6H 1Z2IA 4DR7H 2CTJA 2UXBH 4JV5H 2ZM6H 2CTLA 2PY9A 4DR5H 1SEIA 1ZZJA 2F4VH 3J80W 2A1SA 1XMQH 4H8AA 2M8WA 2PT7G 4WALA 2M6QA 2ANNA 1DT4A 5A2QW 1N34H 2CTKA 2FPHX 2YQRA 1J4WA 1K1GA 4DR3H 2LTLA 4JVHA 1WHRA 4DV0H 1N36H 3GABA 1HNWH 4OD6A 2UUAH 4DUZH 1IBKH 2CPMA 4LF5H 1VIGA 2AXYA 4JI6H 4LF4H 4DV4H 4GKJH 4X62H 4LF8H 2HH3A 4DV2H 2FMRA 1ZZIA 4X66H 2PQUA 1NXUA 4JYAH 3J81W 5LMNH 2OPVA 4JVYA 4FJUA 4DV1H 3U1KA 3OETA 1FKAH 1XRHA 5IWAH 4OO1G 4YY3H 5DT9A 2VQEH 1EC6A 3KDKA 3V69A 4YHHH 4DV5H 1IBLH 5IT9W 1WE8A 1MSZA 1X9ZA 5JEAG 5BR8H 4PDBA 3KDGA 3T1HH 2UUCH 4B3RH 1PQXA 2JZXA 1XNRH 4K0KH 2JA9A 4LIJA 4JI7H 2UU9H 3L7ZC 5LL6b 4DR4H 4JI1H 2X06A 4FJSA 2O4CA 4NXMH 2ANRA
chains in the Genus database with same CATH topology
3UOEA 1S20A 1WTJA 4FJUA 2G8YA 2CWHA 1XRHA 1Z2IA 2X06A 2CWFA 1NXUA 3I0PA 1VBIA 4FJSA 4H8AA 1X0AA 1V9NA
chains in the Genus database with same CATH homology


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