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 |
50
|
sequence length |
160
|
structure length |
160
|
Chain Sequence |
b'TLPFRIGHGFDLHRLEPGYPLIIGGIVIPHDRGCEAHSDGDVLLHCVVDAILGALGLPDIGQIFPDSDPKWKGAASSVFIKEAVRLMDEAGYEIGNLDATLILQRPKISPHKETIRSNLSKLLGADPSVVNLKAKTHEKVDSLGENRSIAAHTVILLMKK'
|
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.
After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.
| publication title |
Biosynthesis of isoprenoids in plants: Structure of the 2C-methyl-D-erithrytol 2,4-cyclodiphosphate synthase from Arabidopsis thaliana. Comparison with the bacterial enzymes.
pubmed doi rcsb |
| molecule keywords |
2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase
|
| source organism |
Arabidopsis thaliana
|
| molecule tags |
Lyase
|
| total genus |
50
|
| structure length |
160
|
| sequence length |
160
|
| ec nomenclature |
ec
4.6.1.12: 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase. |
| pdb deposition date | 2007-04-23 |
| chain | Pfam Accession Code | Pfam Family Identifier | Pfam Description |
|---|---|---|---|
| A | PF02542 | YgbB | YgbB family |
Image from the rcsb pdb (www.rcsb.org)
cath code
| Class | Architecture | Topology | Homology | Domain |
|---|---|---|---|---|---|
| Alpha Beta | 2-Layer Sandwich | 60s Ribosomal Protein L30; Chain: A; | 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase |
#chains in the Genus database with same CATH superfamily 1U3P A; 3F0D A; 1IV1 A; 2AMT A; 3FPI A; 3Q8H A; 1KNK A; 1VH8 A; 4C82 A; 3IKE A; 2GZL A; 3GHZ A; 3F6M A; 3F0G A; 3QHD A; 4C8E A; 3MBM A; 1H48 A; 1T0A A; 1U3L A; 3ELC A; 3P0Z A; 3K2X A; 3F0E A; 3RE3 A; 1U43 A; 1IV3 A; 2PMP A; 1IV2 A; 2UZH A; 1YQN A; 1IV4 A; 1H47 A; 1U40 A; 3ESJ A; 3ERN A; 3P10 A; 3FBA A; 4C81 A; 1W57 A; 1W55 A; 1JY8 A; 3IEQ A; 5B8F A; 3T80 A; 4C8G A; 1KNJ A; 3JVH A; 1GX1 A; 1JN1 A; 3K14 A; 3IEW A; 4C8I A; 3B6N A; 3F0F A; 1VHA A; 3KE1 A; 3EOR A; 3IKF A; #chains in the Genus database with same CATH topology 3J81 M; 2JNB A; 3CPW F; 5JQG B; 5EYP A; 3CD6 F; 3CCU F; 1J7H A; 3N2G B; 5KMG B; 1U3L A; 3WJP A; 1QU9 A; 1U43 A; 2GVI A; 5G4U C; 4O4J A; 4ZI7 A; 1OAP A; 5ITZ B; 3HKE B; 2VGM A; 4BT7 A; 5HP7 A; 4X1I A; 3IEQ A; 3HKD B; 2K1S A; 2RHO A; 5HP8 A; 3T80 A; 3LME A; 4BT3 A; 5LP6 A; 3CME F; 1RLG A; 5LOV A; 1SZQ A; 4C8I A; 3HKB A; 3J7A R; 1KNK A; 4I55 A; 4B5C A; 3RYI A; 3RYF A; 4X3M A; 3WGK A; 3N2K A; 1W59 A; 3CYQ A; 1VQM F; 2OTM A; 5EWR A; 3IKE A; 4WBN A; 3CMA F; 3JAS A; 2HVY D; 4O4I B; 4LCK A; 1ONI A; 2QI2 A; 3ON1 A; 3UT5 A; 2Z01 A; 3GYQ A; 2IG8 A; 3E22 B; 1Q7Y H; 3ERN A; 3VTI C; 3VCZ A; 5LXT B; 4G4V A; 5GON B; 1VQN F; 1YJN F; 2HP3 A; 2VXY A; 4C82 A; 1Q8R A; 3S0W A; 3JAR A; 3JCM M; 4HNA A; 1CK2 A; 3TD3 A; 1JFF B; 2ZOD A; 5EB1 B; 3GHZ A; 3F6M A; 4X3L A; 1Z5V A; 3WGM A; 3KIZ A; 4ZHV A; 4G4Z A; 3C9T A; 4ZHW A; 3VYT C; 4NUT A; 4FFB B; 1TVK A; 1IV4 A; 5HXU A; 1UFY A; 1W57 A; 5IYZ B; 4O2A A; 3HTN A; 3HWU A; 4EB6 B; 1NQ3 A; 3B6N A; 3CG6 A; 3VYU C; 5EZY A; 2HP0 A; 1YJ9 F; 5LYJ B; 2W8B C; 2BTQ B; 2ZVY A; 4X1K B; 2WAL A; 5IJ0 A; 1RQ2 A; 1X25 A; 2HRU A; 3F0G A; 4KWE A; 1FNJ A; 4IIJ A; 3CCR F; 4ZOL B; 4TUY A; 1JFF A; 1W58 1; 4RHA A; 3WXM B; 2Q1X A; 1FFX B; 1JY8 A; 2VGN A; 3LWQ C; 3SIU A; 1VQO F; 4X1Y B; 3C8L A; 2HQS C; 4IHJ B; 1VQV A; 4EI7 A; 5HY1 A; 2Z1T A; 1NJI H; 3K0T A; 5CA0 A; 1H48 A; 2CZW A; 2ZVZ A; 5LYJ A; 3LWP C; 5IJ9 B; 1X52 A; 3N4Y A; 5BMV B; 3VOB A; 3D01 A; 3I3F A; 4BVR A; 1QAH A; 1H47 A; 4M8I A; 3RA6 A; 3GTZ A; 3WGL A; 1YIT F; 4C8G A; 1S72 F; 1QVG F; 5CA1 A; 2AIZ P; 3K14 A; 3M1X A; 4I50 B; 5FNV B; 3VIU A; 3IKF A; 5KX5 A; 3RYH A; 1N8R H; 1XV2 A; 3G4S F; 1RLU A; 4BY9 D; 3S06 A; 4ZHY B; 2UYJ A; 3JAM M; 3RYC B; 3LYB A; 4B45 A; 2PHN A; 3V7Q A; 3QHD A; 5IT9 M; 2GLZ A; 2HX0 A; 2UYN B; 3OBW A; 4X1Y A; 3IMP A; 3ZOP A; 5GIN C; 2H8E A; 5AVM A; 1X7O A; 5MN4 A; 3OW2 F; 3E20 B; 1VQ5 F; 5J2T B; 1KC8 H; 1QVF F; 1W3E X; 3JAW B; 1RQ7 A; 3CCS F; 1UI9 A; 3JAT B; 2OHW A; 5JH7 A; 1JN1 A; 1YGY A; 4BT6 A; 2Q1Y A; 3OON A; 4LNU B; 3EOR A; 3MQW A; 3N4Z A; 3C9U A; 3HKC B; 1GZ0 A; 3LFO A; 3LDT A; 5HY2 A; 4O4H A; 2KTV A; 3CXC F; 2DT4 A; 4TV8 A; 3NVK E; 2DYY A; 3MBM A; 4YJ3 A; 2VAW A; 4TV9 A; 1VQP F; 5MN6 A; 2LBX A; 3WGN A; 5JQG A; 1W5E A; 5EO3 A; 3R0P A; 4ZHQ B; 3N2G A; 5KMG A; 4F6R B; 2HRY A; 5MN5 A; 3P4E A; 3WGJ A; 3CCE F; 3WPW A; 3VMF B; 2ZAU A; 5ITZ A; 3HKE A; 1COM A; 4U3J B; 2B33 A; 4BT4 A; 3LWV C; 1SA0 B; 5G4V C; 3HKD A; 4O4L B; 4DRX B; 2N48 A; 1RA4 A; 1Z5W A; 2MQE A; 1M90 H; 3RA5 A; 4I4T B; 2F9Z C; 1K9M H; 2H8C A; 5EB0 A; 1ZWZ A; 4EI8 A; 2YYE A; 3JAK B; 4G4Y A; 5CB4 B; 1IPA A; 1DT9 A; 2HS3 A; 1H7M A; 4G4W A; 2RHL A; 1E7K A; 4ZK7 A; 4X20 B; 2VAM A; 2IAF A; 3NK6 A; 1GX1 A; 1VQ7 F; 4O4I A; 3IEW A; 4E6E A; 1JJ2 F; 1VHA A; 3E22 A; 2YXZ A; 3BYQ A; 4O2B B; 4PWT A; 2KG4 A; 4B46 A; 1KD1 H; 5LXT A; 5JCO C; 3V7E A; 1W5F A; 5JVD B; 1GO1 A; 5GON A; 5LA6 B; 3KHN A; 4BVQ A; 2I6R A; 1W5B A; 3CC7 F; 2ZOV A; 1QD9 A; 5J2U B; 3VOA A; 1YHQ F; 3J80 M; 2CHT A; 4C4W C; 1U40 A; 1TUB B; 3ESJ A; 1R1M A; 1VQ4 F; 3C9S A; 2LBT A; 1DBF A; 3TD5 A; 4YJ2 B; 5CB4 A; 3ZO8 A; 4BVT A; 2KGW A; 4FFB A; 3C9R A; 1XHO A; 2CSL A; 1IV1 A; 3FPI A; 2EWC A; 1W2B F; 4BW0 B; 5IYZ A; 4RQO A; 2UYP A; 4EB6 A; 3CC4 F; 4BT5 A; 2R75 1; 4C8E A; 4R40 B; 2V9Y A; 1K73 H; 3D00 A; 3JAL B; 2VAP A; 4X1K A; 1VK3 A; 2UZH A; 3FFM A; 2Z1F A; 3QUW A; 2ALE A; 3DC2 A; 2KTU A; 3S0Y A; 5EYP B; 3ZP4 A; 5J2U A; 3FD6 A; 3M4S A; 3TD4 A; 3V4D A; 3HAX D; 4ZOL A; 3U0O A; 1VQL F; 2BTO A; 3MDO A; 1VQK F; 2BTU A; 1FFX A; 3CB2 A; 1OFU A; 4O4J B; 4NQ3 A; 4ZI7 B; 2L26 A; 4BVS A; 3CC2 F; 2ZF8 A; 4TZZ A; 4X1I B; 2OTJ F; 1PXW A; 2FGY A; 5LP6 B; 3KJK A; 3WJR A; 3K2X A; 4B62 A; 5GAP K; 3HKB B; 3F0E A; 1JD1 A; 4IHJ A; 4I55 B; 5EIB C; 3RYI B; 4DXD A; 3AGK A; 3RYF B; 3CCQ F; 1SDS A; 3P10 A; 3S0H A; 3N2K B; 2HS4 A; 1KNJ A; 5IJ9 A; 4WBN B; 5BMV A; 3JAS B; 3KJJ A; 3FD5 A; 1PF5 A; 2FC3 A; 2Z1U A; 3NK7 A; 3I55 F; 2QTP A; 3UT5 B; 1FNK A; 3L7Q A; 3CCJ F; 3LWO C; 4I50 A; 5FNV A; 3ZP7 A; 3VI6 A; 5EAZ A; 3RYC A; 1W40 A; 3JAR B; 4HNA B; 5HWE A; 2UYN A; 4XCQ A; 2BO1 A; 5FJ4 C; 1W41 A; 5HXZ A; 2R6R 1; 3S03 A; 3E1Y A; 4BT2 A; 5HY4 A; 3VO8 A; 1Q81 H; 3PLA C; 2OTL F; 1VQ6 F; 5J2T A; 1KQS F; 3JAW A; 1FSZ A; 3JAT A; 4U39 A; 5GIO C; 5C8Y B; 1CN7 A; 2IQQ A; 2NMU A; 1TVK B; 5JCO A; 3CCL F; 2CVL A; 4O2A B; 3S02 A; 3PAF A; 4LNU A; 3HKC A; 1VQ8 F; 3CPQ A; 3CYP B; 2G9I A; 2PMP A; 5EZY B; 2HP0 B; 1YQN A; 3MCQ A; 3CCV F; 2CHS A; 3FBA A; 3K12 A; 5FLX M; 2CW4 A; 5LP6 C; 1NMU B; 5IJ0 B; 3JVH A; 2Z1E A; 3VYS C; 2I6D A; 3O85 A; 3MCA B; 1W5A A; 4G4X A; 4EI9 A; 4ZHQ A; 4IIJ B; 4NWO B; 4TUY B; 4F6R A; 2H6L A; 1VH8 A; 2LBW A; 1YIJ F; 2CWJ A; 5GIP C; 1T0A A; 3P0Z A; 4U3J A; 1SA0 A; 5C8Y A; 3RE3 A; 4O4L A; 4DRX A; 4ERH A; 1IV2 A; 1K8A H; 4C81 A; 5DCV A; 4I4T A; 1VQ9 F; 5CA0 B; 1CLI A; 3NVI B; 3KE1 A; 3JAK A; 1XBI A; 1U3P A; 3SIV A; 3F0D A; 2OZB A; 3DDN A; 3Q8H A; 3QTY A; 4X20 A; 2UYK A; 5EIB D; 1YJW F; 2GZL A; 2QEX F; 2AIF A; 3M84 A; 1ODE A; 2P6Y A; 5HY0 A; 2RB9 A; 4O2B A; 5CA1 B; 3D54 A; 1IV3 A; 3V3T A; 3CCM F; 5KX5 B; 3RYH B; 5JVD A; 1W42 A; 3NMU C; 5A2Q M; 1W55 A; 1XRG A; 5LA6 A; 2RHJ A; 3I7T A; 1M1K H; 1YI2 F; 1GO0 A; 2LCA A; 1Q86 H; 3F0F A; 3G6E F; 4G88 A; 3LWR C; 1TUB A; 2QA4 F; 2AMT A; 3WJQ A; 3OBY A; 2RHH A; 4YJ2 A; 3ELC A; 1X7P A; 5JH7 B; 3WPX A; 5LOV B; 2HS0 A; 3HJW C; 5B8F A; 3I56 F; 1T0K B; 4O4H B; 1Q82 H; 5GAN K; 3JAL A; 4TV8 B; 3IR9 A; 4YJ3 B; 3G71 F; 4TV9 B; #chains in the Genus database with same CATH homology 1U3P A; 3F0D A; 1IV1 A; 2AMT A; 3FPI A; 3Q8H A; 1KNK A; 1VH8 A; 4C82 A; 3IKE A; 2GZL A; 3GHZ A; 3F6M A; 3F0G A; 3QHD A; 4C8E A; 3MBM A; 1H48 A; 1T0A A; 1U3L A; 3ELC A; 3P0Z A; 3K2X A; 3F0E A; 3RE3 A; 1U43 A; 1IV3 A; 2PMP A; 1IV2 A; 2UZH A; 1YQN A; 1IV4 A; 1H47 A; 1U40 A; 3ESJ A; 3ERN A; 3P10 A; 3FBA A; 4C81 A; 1W57 A; 1W55 A; 1JY8 A; 3IEQ A; 5B8F A; 3T80 A; 4C8G A; 1KNJ A; 3JVH A; 1GX1 A; 1JN1 A; 3K14 A; 3IEW A; 4C8I A; 3B6N A; 3F0F A; 1VHA A; 3KE1 A; 3EOR A; 3IKF A;
#similar chains in the Genus database (?% sequence similarity) ...loading similar chains, please wait... #similar chains, but unknotted ...loading similar chains, please wait... #similar chains in the pdb database (?% sequence similarity) ...loading similar chains, please wait...
