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


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