1Z2IA

Crystal structure of agrobacterium tumefaciens malate dehydrogenase, new york structural genomics consortium
Total Genus 103
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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
103
sequence length
350
structure length
350
Chain Sequence
TVLARLDELERFCRAVFLAVGTDEETADAATRAMMHGTRLGVDSHGVRLLAHYVTALEGGRLNRRPQISRVSGFGAVETIDADHAHGARATYAAMENAMALAEKFGIGAVAIRNSSHFGPAGAYALEAARQGYIGLAFCNSDSFVRLHDGAMRFHGTNPIAVGVPAADDMPWLLDMATSAVPYNRVLLYRSLGQQLPQGVASDGDGVDTRDPNAVEMLAPVGGEFGFKGAALAGVVEIFSAVLTGMRLSFDLAPMGGPDFSTPRGLGAFVLALKPEAFLERDVFDESMKRYLEVLRGSPAREDCKVMAPGDREWAVAAKREREGAPVDPVTRAAFSELAEKFSVSPPTYH
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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 Crystal Structure of Agrobacterium Tumefaciens Malate Dehydrogenase
rcsb
source organism Agrobacterium tumefaciens
total genus 103
structure length 350
sequence length 350
chains with identical sequence B, C, D
ec nomenclature
pdb deposition date 2005-03-08

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 1z2iA01
3.30.60.50 Alpha Beta 2-Layer Sandwich Wheat Germ Agglutinin (Isolectin 2); domain 1 Hypothetical oxidoreductase yiak; domain 3 1z2iA03
3.30.1370.60 Alpha Beta 2-Layer Sandwich Ribosomal Protein S8; Chain: A, domain 1 Hypothetical oxidoreductase yiak; domain 2 1z2iA02
1WTJA 4FJUA 1X0AA 1Z2IA 2CWHA 1VBIA 2G8YA 1S20A 1NXUA 3UOEA 1V9NA 2CWFA 4FJSA 2X06A 4H8AA 1XRHA 3I0PA
chains in the Genus database with same CATH superfamily
2XRCA 4AQYH 1I94H 2QQDA 2AXYA 3UOEA 4DUZH 2LTLA 2DIPA 1SEIA 1WTJA 4DV6H 1LR8A 2OU2A 5E3QA 1SGYI 1R0RI 1DS2I 1J5KA 2FNFX 2W0TA 2BA0A 2Y0MA 3L7ZC 5J8CA 1U5KA 2L8EA 1MSZA 2E73A 2JW6A 2CPQA 2N71A 3VKEA 4X62H 1TGSI 3TO9A 4LF5H 2UUAH 5JHWC 3UGLA 2OPVA 1Q9BA 2SGEI 2Z0SA 4LF8H 2VQFH 1FAQA 1TUSA 2NU2I 1ULNA 1V1HA 3GR5A 3R5DA 1CGJI 2BL5A 1CHOI 4DR5H 1TBNA 4JI8H 1K1GA 2LB7A 4HGUA 4DR1H 3MEKA 2V1CC 1CT2I 1IY6A 2CPMA 2ANRA 4PDBA 4DV0H 2P2RA 2MJHA 2ANNA 4QMFB 4DV1H 5DAEA 4B3SH 1RFHA 2V1CA 2ENZA 4BA1I 4UXHA 3KDGA 2GKTI 2JVZA 4B3RH 3OVOA 5EX3A 2PQUA 4JYAH 1OMTA 1SGPI 5A2QW 1TIHA 1F0XA 1HNWH 2X3TA 4NXNH 4H8AA 2SGFI 1BUSA 2CTEA 2OD1A 2ORVA 2WGCA 4DNCA 2JA9A 2DGRA 1KHMA 4DR6H 2PT7G 3KY9A 1Z7KB 3QWPA 1K7VA 2UU9H 5IWAH 1HNZH 4NZTM 1Y8FA 3UFFA 4B6DA 2KMOA 4LF9H 3R5CA 2ORWA 4BA2I 1MT1A 1X9ZA 1TBRR 2N17A 2OZUA 2FPHX 1FYBA 2M5XA 1PCEA 3VDPA 4NZRM 4X65H 1N13A 2PY9A 1X4NA 2J9RA 2LTMA 2JZMA 4NBQA 4OD6A 1CGII 1R79A 2E3UA 1XX6A 5HI7A 3FSXA 1WGCA 2OVOA 4FJSA 3VDUA 4E1PA 3NCVA 4DR7H 1XA6A 1TOTA 1FY7A 1KMAA 4JV5H 1TUAA 3J80W 2ROWA 1XRHA 1Z2IA 1UG8A 3FC3A 1SGRI 1CE3A 1IBMH 1ZTGA 3QAHA 4LFCH 2HH3A 4FKDA 5K36G 2JEAI 4OCHA 1SGDI 1J5EH 4L9MA 2B8TA 4IFDG 1YTPA 5E3RA 1HEVA 1IBLH 2WCYA 2VRWB 4B3TH 3SGBI 5EX0A 1VDDA 2UUBH 2QQ0A 2QPOA 5BR8H 1UVFA 1PPFI 2BUSA 1SGQI 3T1HH 2X06A 3FSYA 1CT0I 2UXDH 3E2IA 2ARPF 2F4VH 2G8YA 1WKXA 1SGEI 2GKRI 2A1SA 4WANA 1M8BA 2YQPA 2JZXA 2HHHH 1XNQH 5IT9W 1VIHA 4JI5H 2QQCA 4LF4H 3GOXA 1PTRA 4JVHA 4JCVE 3CXLA 4UXJA 2N52A 3TOAA 4JI2H 3HH2C 4B3MH 1WE8A 4KHPH 2ODDA 3OXLA 2OPUA 2SGDI 2P6AC 2WVJA 1X4MA 2KCXA 1XMQH 2X52A 2GIVA 4JVYA 3R5AA 5FUVA 2E5LH 1OVOA 2ELIA 4DV2H 1J4WA 4GKKH 1HPTA 2SGPI 3U1KA 1HDLA 4DR4H 4SGBI 1DTJA 2V53A 3OTOH 4AIMA 1SGNI 1NXUA 1AN1I 1XBTA 5CCLA 1OYVI 2ZM6H 3T1YH 3VE5A 2DKVA 2LEOA 4JI1H 9WGAA 3UEJA 1ZZKA 2O4CA 2DB6A 4LFBH 1IY5A 1M8CA 4B8TA 1V1IA 5FUXA 1FKAH 2M6QA 3E59A 4OVOA 2B0UC 1DS3I 2D9IA 1MJ9A 3J7AK 2KMQA 1DT4A 1WVNA 2NN6G 1MJBA 4FJUA 1Y1BA 2NU4I 4JI3H 3QD7X 3V69A 1ZZJA 2Y3MA 2VQEH 3SGQI 2CWFA 2N1AB 2KMPA 3RF2A 3J81W 1NUBA 1N32H 3SB1A 2UVOA 4LFAH 4DV3H 1OMUA 4B8CD 2NU3I 3SEKC 3TO6A 3BJIA 2LRRA 5FLXW 3UEYA 5LMNH 3D00A 1PQXA 4EC5A 1AN7A 5FUYA 1PTQA 4E1RA 1P9GA 3TJQA 1IW4A 2ZQEA 1XMOH 2K9HA 4AM3A 2GKVA 4JI4H 3B4VC 1KBEA 4X66H 1FARA 2J87A 1LR7A 1TBQR 1LR9A 1H0ZA 2FFMA 3TOBA 1ODHA 1MJAA 2VKCA 3OL0A 2UUCH 1EC6A 2JXDA 3OSSD 4G08A 2GVIA 2ENNA 1N34H 4DV7H 3KDKA 5HQ8A 1Y1CA 1K7TA 4X64H 5C0XG 2E5RA 4OO1G 2CTLA 3PDNA 2UXCH 4GKJH 1FJGH 2F3CI 2FMRA 3QTLD 3TO7A 2RC4A 3RU0A 1KBFA 1W3SA 5CCMA 2SGQI 3OXGA 3I0PA 5E3PA 4K0KH 1X74A 4DUYH 2LUYA 2PQ8A 3UGDA 2LF0A 1S03G 4JI6H 1TBOA 2CTFA 1VIGA 2ERWA 1WHRA 2CTKA 2K1HA 2JE6I 1ULKA 4YY3H 1V9NA 2YUUA 1UUCA 1V8CA 3UGIA 2A20A 2UXBH 4MPIA 3OETA 1TURA 5LMUH 4GI3C 2CWHA 1S20A 5JEAG 1K7UA 4LF6H 1ZZIA 2CJSC 4LF7H 4WALA 2CTMA 2JYYA 4OX9H 2YQRA 3GKUA 1CSOI 1XNRH 2NU1I 1WGTA 4WP4A 1ULMA 1N36H 1PJUA 5FUWA 4DV5H 3JAMW 1YU6C 4UXIA 4JI0H 1N33H 2RIJA 2JEBI 4A24A 2M8WA 4E9JA 4AMLA 1UVGA 5LL6b 5DT9A 4LIJA 2L7XA 1HR0H 1HNXH 4NXMH 1W4RA 3R5BA 7WGAA 4YHHH 1VBIA 1BMOA 1CT4I 1X4SA 2QQEA 1IBKH 1I6UA 2JA1A 1HJAI 3GABA 1P9ZA 3EZJA 4DR3H 2UZ3A 5J8FA 1X0AA 4DV4H 2NU0I 2CTJA 2CWGA 4DR2H 2KMRA 3AEVB 3FAUA 3OXFA 1UHAA 2QNDA 4JI7H 2HH2A
chains in the Genus database with same CATH topology
1WTJA 4FJUA 1X0AA 1Z2IA 2CWHA 1VBIA 2G8YA 1S20A 1NXUA 3UOEA 1V9NA 2CWFA 4FJSA 2X06A 4H8AA 1XRHA 3I0PA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1WTJ A;  4FJU A;  1X0A A;  1Z2I A;  2CWH A;  1VBI A;  2G8Y A;  1S20 A;  1NXU A;  3UOE A;  1V9N A;  2CWF A;  4FJS A;  2X06 A;  4H8A A;  1XRH A;  3I0P A; 
#chains in the Genus database with same CATH topology
 2XRC A;  4AQY H;  1I94 H;  2QQD A;  2AXY A;  3UOE A;  4DUZ H;  2LTL A;  2DIP A;  1SEI A;  1WTJ A;  4DV6 H;  1LR8 A;  2OU2 A;  5E3Q A;  1SGY I;  1R0R I;  1DS2 I;  1J5K A;  2FNF X;  2W0T A;  2BA0 A;  2Y0M A;  3L7Z C;  5J8C A;  1U5K A;  2L8E A;  1MSZ A;  2E73 A;  2JW6 A;  2CPQ A;  2N71 A;  3VKE A;  4X62 H;  1TGS I;  3TO9 A;  4LF5 H;  2UUA H;  5JHW C;  3UGL A;  2OPV A;  1Q9B A;  2SGE I;  2Z0S A;  4LF8 H;  2VQF H;  1FAQ A;  1TUS A;  2NU2 I;  1ULN A;  1V1H A;  3GR5 A;  3R5D A;  1CGJ I;  2BL5 A;  1CHO I;  4DR5 H;  1TBN A;  4JI8 H;  1K1G A;  2LB7 A;  4HGU A;  4DR1 H;  3MEK A;  2V1C C;  1CT2 I;  1IY6 A;  2CPM A;  2ANR A;  4PDB A;  4DV0 H;  2P2R A;  2MJH A;  2ANN A;  4QMF B;  4DV1 H;  5DAE A;  4B3S H;  1RFH A;  2V1C A;  2ENZ A;  4BA1 I;  4UXH A;  3KDG A;  2GKT I;  2JVZ A;  4B3R H;  3OVO A;  5EX3 A;  2PQU A;  4JYA H;  1OMT A;  1SGP I;  5A2Q W;  1TIH A;  1F0X A;  1HNW H;  2X3T A;  4NXN H;  4H8A A;  2SGF I;  1BUS A;  2CTE A;  2OD1 A;  2ORV A;  2WGC A;  4DNC A;  2JA9 A;  2DGR A;  1KHM A;  4DR6 H;  2PT7 G;  3KY9 A;  1Z7K B;  3QWP A;  1K7V A;  2UU9 H;  5IWA H;  1HNZ H;  4NZT M;  1Y8F A;  3UFF A;  4B6D A;  2KMO A;  4LF9 H;  3R5C A;  2ORW A;  4BA2 I;  1MT1 A;  1X9Z A;  1TBR R;  2N17 A;  2OZU A;  2FPH X;  1FYB A;  2M5X A;  1PCE A;  3VDP A;  4NZR M;  4X65 H;  1N13 A;  2PY9 A;  1X4N A;  2J9R A;  2LTM A;  2JZM A;  4NBQ A;  4OD6 A;  1CGI I;  1R79 A;  2E3U A;  1XX6 A;  5HI7 A;  3FSX A;  1WGC A;  2OVO A;  4FJS A;  3VDU A;  4E1P A;  3NCV A;  4DR7 H;  1XA6 A;  1TOT A;  1FY7 A;  1KMA A;  4JV5 H;  1TUA A;  3J80 W;  2ROW A;  1XRH A;  1Z2I A;  1UG8 A;  3FC3 A;  1SGR I;  1CE3 A;  1IBM H;  1ZTG A;  3QAH A;  4LFC H;  2HH3 A;  4FKD A;  5K36 G;  2JEA I;  4OCH A;  1SGD I;  1J5E H;  4L9M A;  2B8T A;  4IFD G;  1YTP A;  5E3R A;  1HEV A;  1IBL H;  2WCY A;  2VRW B;  4B3T H;  3SGB I;  5EX0 A;  1VDD A;  2UUB H;  2QQ0 A;  2QPO A;  5BR8 H;  1UVF A;  1PPF I;  2BUS A;  1SGQ I;  3T1H H;  2X06 A;  3FSY A;  1CT0 I;  2UXD H;  3E2I A;  2ARP F;  2F4V H;  2G8Y A;  1WKX A;  1SGE I;  2GKR I;  2A1S A;  4WAN A;  1M8B A;  2YQP A;  2JZX A;  2HHH H;  1XNQ H;  5IT9 W;  1VIH A;  4JI5 H;  2QQC A;  4LF4 H;  3GOX A;  1PTR A;  4JVH A;  4JCV E;  3CXL A;  4UXJ A;  2N52 A;  3TOA A;  4JI2 H;  3HH2 C;  4B3M H;  1WE8 A;  4KHP H;  2ODD A;  3OXL A;  2OPU A;  2SGD I;  2P6A C;  2WVJ A;  1X4M A;  2KCX A;  1XMQ H;  2X52 A;  2GIV A;  4JVY A;  3R5A A;  5FUV A;  2E5L H;  1OVO A;  2ELI A;  4DV2 H;  1J4W A;  4GKK H;  1HPT A;  2SGP I;  3U1K A;  1HDL A;  4DR4 H;  4SGB I;  1DTJ A;  2V53 A;  3OTO H;  4AIM A;  1SGN I;  1NXU A;  1AN1 I;  1XBT A;  5CCL A;  1OYV I;  2ZM6 H;  3T1Y H;  3VE5 A;  2DKV A;  2LEO A;  4JI1 H;  9WGA A;  3UEJ A;  1ZZK A;  2O4C A;  2DB6 A;  4LFB H;  1IY5 A;  1M8C A;  4B8T A;  1V1I A;  5FUX A;  1FKA H;  2M6Q A;  3E59 A;  4OVO A;  2B0U C;  1DS3 I;  2D9I A;  1MJ9 A;  3J7A K;  2KMQ A;  1DT4 A;  1WVN A;  2NN6 G;  1MJB A;  4FJU A;  1Y1B A;  2NU4 I;  4JI3 H;  3QD7 X;  3V69 A;  1ZZJ A;  2Y3M A;  2VQE H;  3SGQ I;  2CWF A;  2N1A B;  2KMP A;  3RF2 A;  3J81 W;  1NUB A;  1N32 H;  3SB1 A;  2UVO A;  4LFA H;  4DV3 H;  1OMU A;  4B8C D;  2NU3 I;  3SEK C;  3TO6 A;  3BJI A;  2LRR A;  5FLX W;  3UEY A;  5LMN H;  3D00 A;  1PQX A;  4EC5 A;  1AN7 A;  5FUY A;  1PTQ A;  4E1R A;  1P9G A;  3TJQ A;  1IW4 A;  2ZQE A;  1XMO H;  2K9H A;  4AM3 A;  2GKV A;  4JI4 H;  3B4V C;  1KBE A;  4X66 H;  1FAR A;  2J87 A;  1LR7 A;  1TBQ R;  1LR9 A;  1H0Z A;  2FFM A;  3TOB A;  1ODH A;  1MJA A;  2VKC A;  3OL0 A;  2UUC H;  1EC6 A;  2JXD A;  3OSS D;  4G08 A;  2GVI A;  2ENN A;  1N34 H;  4DV7 H;  3KDK A;  5HQ8 A;  1Y1C A;  1K7T A;  4X64 H;  5C0X G;  2E5R A;  4OO1 G;  2CTL A;  3PDN A;  2UXC H;  4GKJ H;  1FJG H;  2F3C I;  2FMR A;  3QTL D;  3TO7 A;  2RC4 A;  3RU0 A;  1KBF A;  1W3S A;  5CCM A;  2SGQ I;  3OXG A;  3I0P A;  5E3P A;  4K0K H;  1X74 A;  4DUY H;  2LUY A;  2PQ8 A;  3UGD A;  2LF0 A;  1S03 G;  4JI6 H;  1TBO A;  2CTF A;  1VIG A;  2ERW A;  1WHR A;  2CTK A;  2K1H A;  2JE6 I;  1ULK A;  4YY3 H;  1V9N A;  2YUU A;  1UUC A;  1V8C A;  3UGI A;  2A20 A;  2UXB H;  4MPI A;  3OET A;  1TUR A;  5LMU H;  4GI3 C;  2CWH A;  1S20 A;  5JEA G;  1K7U A;  4LF6 H;  1ZZI A;  2CJS C;  4LF7 H;  4WAL A;  2CTM A;  2JYY A;  4OX9 H;  2YQR A;  3GKU A;  1CSO I;  1XNR H;  2NU1 I;  1WGT A;  4WP4 A;  1ULM A;  1N36 H;  1PJU A;  5FUW A;  4DV5 H;  3JAM W;  1YU6 C;  4UXI A;  4JI0 H;  1N33 H;  2RIJ A;  2JEB I;  4A24 A;  2M8W A;  4E9J A;  4AML A;  1UVG A;  5LL6 b;  5DT9 A;  4LIJ A;  2L7X A;  1HR0 H;  1HNX H;  4NXM H;  1W4R A;  3R5B A;  7WGA A;  4YHH H;  1VBI A;  1BMO A;  1CT4 I;  1X4S A;  2QQE A;  1IBK H;  1I6U A;  2JA1 A;  1HJA I;  3GAB A;  1P9Z A;  3EZJ A;  4DR3 H;  2UZ3 A;  5J8F A;  1X0A A;  4DV4 H;  2NU0 I;  2CTJ A;  2CWG A;  4DR2 H;  2KMR A;  3AEV B;  3FAU A;  3OXF A;  1UHA A;  2QND A;  4JI7 H;  2HH2 A; 
#chains in the Genus database with same CATH homology
 1WTJ A;  4FJU A;  1X0A A;  1Z2I A;  2CWH A;  1VBI A;  2G8Y A;  1S20 A;  1NXU A;  3UOE A;  1V9N A;  2CWF A;  4FJS A;  2X06 A;  4H8A A;  1XRH A;  3I0P 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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#similar chains in the pdb database (?% sequence similarity)
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