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


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