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


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