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


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