Sandbox1503

3vuf

spinqualitylabelsall models 3vuf, resolution 3.00Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D 3vuf is a 1 chain structure protein which is synthesized by the Japanese rice (Oryza sativa japonica). it’s an enzyme, more accurately a transferase. It’s a NDP-glucose--starch glucosyltransferase, which is involved in the synthesis of amylose in the rice. This enzyme is located chloroplast and in amyloplast. The 3vuf protein is 609 amino acids long and weighs 66 476 Da. Function The protein have a role of transferase, more accurately it is a NDP-glucose--starch glucosyltransferase, which catalyse the reaction below : This is a reaction allowing the extension of amylose. It has a major role in the pathway starch biosynthesis. [SSG1_ORYSJ] Required for the synthesis of amylose in endosperm.[HAMAP-Rule:MF_00484] Structural highlights This protein is an enzyme, which is formed from one monomer and can bind to ADP. It binds to the ADP-glucose with amino acids 97,100, 408, 413,462 and 492. This allow the formation of an hydrophobic pocket in which ADP-glucose can binds to and in which he is protected from water and hydrolyse. we can also see that 3vuf can binds sulfate. This hydrophobic cage is allowed by the beta sheets and alpha helices that the protein have. 3vuf is a 1 chain structure with sequence from Japanese rice. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Ligands: ADP, SO4 Related: 3vue Gene: WAXY, WX, WX-B, Os06g0133000, LOC_Os06g04200, 134P10.7, P0679C08.19 (Japanese rice) Activity: NDP-glucose--starch glucosyltransferase, with EC number 2.4.1.242 Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT This is a sample scene created with SAT to color by Group, and another to make a transparent representation of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes. Structure Primary structure (amino acid sequence): MSALTTSQLA TSATGFGIAD RSAPSSLLRH GFQGLKPRSP AGGDATSLSV TTSARATPKQ QRSVQRGSRR FPSVVVYATG AGMNVVFVGA EMAPWSKTGG LGDVLGGLPP AMAANGHRVM VISPRYDQYK DAWDTSVVAE IKVADRYERV RFFHCYKRGV DRVFIDHPSF LEKVWGKTGE KIYGPDTGVD YKDNQMRFSL LCQAALEAPR ILNLNNNPYF KGTYGEDVVF VCNDWHTGPL ASYLKNNYQP NGIYRNAKVA FCIHNISYQG RFAFEDYPEL NLSERFRSSF DFIDGYDTPV EGRKINWMKA GILEADRVLT VSPYYAEELI SGIARGCELD NIMRLTGITG IVNGMDVSEW DPSKDKYITA KYDATTAIEA KALNKEALQA EAGLPVDRKI PLIAFIGRLE EQKGPDVMAA AIPELMQEDV QIVLLGTGKK KFEKLLKSME EKYPGKVRAV VKFNAPLAHL IMAGADVLAV PSRFEPCGLI QLQGMRYGTP CACASTGGLV DTVIEGKTGF HMGRLSVDCK VVEPSDVKKV AATLKRAIKV VGTPAYEEMV RNCMNQDLSW KGPAKNWENV LLGLGVAGSA PGIEGDEIAP LAKENVAAP Secondary structure: Relevance Amylose synthesis allows to the plant having some provisions, for a future seed or for some organ for passing bad seasons. In the rice, it is for a future seed, which is the rice itself. In this forme, amylose is chemically stable. This means that it can’t react except by depolymerisation or polymerisation, but not for producing bioenergy, like ATP or any others. Another property of this form of glucose, is that it doesn’t modify the chemical potential of the cell, which is very good and doesn’t unsettle the equilibrium of the cell. Disease The protein 3vuf has allergenic properties, for example in mammals it can bind to Immunoglobulin E (IgE) causing an allergic response.

References

(1) Momma M, Fujimoto Z. Interdomain Disulfide Bridge in the Rice Granule Bound Starch Synthase I Catalytic Domain as Elucidated by X-Ray Structure Analysis. Biosci Biotechnol Biochem. 2012 Aug 7. PMID:22878205