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


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