2yxt
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 2yxt |SIZE=350|CAPTION= <scene name='initialview01'>2yxt</scene>, resolution 2.0Å | |PDB= 2yxt |SIZE=350|CAPTION= <scene name='initialview01'>2yxt</scene>, resolution 2.0Å | ||
|SITE= <scene name='pdbsite=AC1:Na+Binding+Site+For+Residue+A+1314'>AC1</scene>, <scene name='pdbsite=AC2:Na+Binding+Site+For+Residue+B+1316'>AC2</scene>, <scene name='pdbsite=AC3:Po4+Binding+Site+For+Residue+A+1319'>AC3</scene>, <scene name='pdbsite=AC4:Po4+Binding+Site+For+Residue+B+1329'>AC4</scene>, <scene name='pdbsite=AC5:Po4+Binding+Site+For+Residue+B+1335'>AC5</scene>, <scene name='pdbsite=AC6:Po4+Binding+Site+For+Residue+B+1337'>AC6</scene>, <scene name='pdbsite=AC7:Po4+Binding+Site+For+Residue+B+1347'>AC7</scene>, <scene name='pdbsite=AC8:Po4+Binding+Site+For+Residue+B+1349'>AC8</scene>, <scene name='pdbsite=AC9:Mpd+Binding+Site+For+Residue+A+1001'>AC9</scene>, <scene name='pdbsite=BC1:Mpd+Binding+Site+For+Residue+A+1003'>BC1</scene>, <scene name='pdbsite=BC2:Mpd+Binding+Site+For+Residue+A+1005'>BC2</scene>, <scene name='pdbsite=BC3:Mpd+Binding+Site+For+Residue+A+1009'>BC3</scene>, <scene name='pdbsite=BC4:Mpd+Binding+Site+For+Residue+A+1013'>BC4</scene>, <scene name='pdbsite=BC5:Mpd+Binding+Site+For+Residue+B+1023'>BC5</scene>, <scene name='pdbsite=BC6:Mpd+Binding+Site+For+Residue+B+1025'>BC6</scene>, <scene name='pdbsite=BC7:Mpd+Binding+Site+For+Residue+B+1027'>BC7</scene>, <scene name='pdbsite=BC8:Mpd+Binding+Site+For+Residue+B+1031'>BC8</scene>, <scene name='pdbsite=BC9:Mpd+Binding+Site+For+Residue+B+1033'>BC9</scene>, <scene name='pdbsite=CC1:Mpd+Binding+Site+For+Residue+B+1039'>CC1</scene>, <scene name='pdbsite=CC2:Mpd+Binding+Site+For+Residue+B+1041'>CC2</scene>, <scene name='pdbsite=CC3:Mpd+Binding+Site+For+Residue+B+1045'>CC3</scene> and <scene name='pdbsite=CC4:Mpd+Binding+Site+For+Residue+B+1053'>CC4</scene> | |SITE= <scene name='pdbsite=AC1:Na+Binding+Site+For+Residue+A+1314'>AC1</scene>, <scene name='pdbsite=AC2:Na+Binding+Site+For+Residue+B+1316'>AC2</scene>, <scene name='pdbsite=AC3:Po4+Binding+Site+For+Residue+A+1319'>AC3</scene>, <scene name='pdbsite=AC4:Po4+Binding+Site+For+Residue+B+1329'>AC4</scene>, <scene name='pdbsite=AC5:Po4+Binding+Site+For+Residue+B+1335'>AC5</scene>, <scene name='pdbsite=AC6:Po4+Binding+Site+For+Residue+B+1337'>AC6</scene>, <scene name='pdbsite=AC7:Po4+Binding+Site+For+Residue+B+1347'>AC7</scene>, <scene name='pdbsite=AC8:Po4+Binding+Site+For+Residue+B+1349'>AC8</scene>, <scene name='pdbsite=AC9:Mpd+Binding+Site+For+Residue+A+1001'>AC9</scene>, <scene name='pdbsite=BC1:Mpd+Binding+Site+For+Residue+A+1003'>BC1</scene>, <scene name='pdbsite=BC2:Mpd+Binding+Site+For+Residue+A+1005'>BC2</scene>, <scene name='pdbsite=BC3:Mpd+Binding+Site+For+Residue+A+1009'>BC3</scene>, <scene name='pdbsite=BC4:Mpd+Binding+Site+For+Residue+A+1013'>BC4</scene>, <scene name='pdbsite=BC5:Mpd+Binding+Site+For+Residue+B+1023'>BC5</scene>, <scene name='pdbsite=BC6:Mpd+Binding+Site+For+Residue+B+1025'>BC6</scene>, <scene name='pdbsite=BC7:Mpd+Binding+Site+For+Residue+B+1027'>BC7</scene>, <scene name='pdbsite=BC8:Mpd+Binding+Site+For+Residue+B+1031'>BC8</scene>, <scene name='pdbsite=BC9:Mpd+Binding+Site+For+Residue+B+1033'>BC9</scene>, <scene name='pdbsite=CC1:Mpd+Binding+Site+For+Residue+B+1039'>CC1</scene>, <scene name='pdbsite=CC2:Mpd+Binding+Site+For+Residue+B+1041'>CC2</scene>, <scene name='pdbsite=CC3:Mpd+Binding+Site+For+Residue+B+1045'>CC3</scene> and <scene name='pdbsite=CC4:Mpd+Binding+Site+For+Residue+B+1053'>CC4</scene> | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.35 2.7.1.35] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Pyridoxal_kinase Pyridoxal kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.35 2.7.1.35] </span> |
|GENE= PDXK, PKH, PNK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]) | |GENE= PDXK, PKH, PNK ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1lhp|1LHP]], [[2yxu|2YXU]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2yxt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2yxt OCA], [http://www.ebi.ac.uk/pdbsum/2yxt PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2yxt RCSB]</span> | ||
}} | }} | ||
| Line 27: | Line 30: | ||
[[Category: Safo, M K.]] | [[Category: Safo, M K.]] | ||
[[Category: Schirch, V.]] | [[Category: Schirch, V.]] | ||
| - | [[Category: MPD]] | ||
| - | [[Category: NA]] | ||
| - | [[Category: PO4]] | ||
[[Category: beta sheet with alpha helix]] | [[Category: beta sheet with alpha helix]] | ||
[[Category: metal ion]] | [[Category: metal ion]] | ||
[[Category: transferase]] | [[Category: transferase]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:16:25 2008'' |
Revision as of 02:16, 31 March 2008
| |||||||
| , resolution 2.0Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | , , , , , , , , , , , , , , , , , , , , and | ||||||
| Ligands: | , , | ||||||
| Gene: | PDXK, PKH, PNK (Homo sapiens) | ||||||
| Activity: | Pyridoxal kinase, with EC number 2.7.1.35 | ||||||
| Related: | 1LHP, 2YXU
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Human Pyridoxal Kinase
Overview
Pyridoxal kinase catalyzes the transfer of a phosphate group from ATP to the 5' alcohol of pyridoxine, pyridoxamine, and pyridoxal. In this work, kinetic studies were conducted to examine monovalent cation dependence of human pyridoxal kinase kinetic parameters. The results show that hPLK affinity for ATP and PL is increased manyfold in the presence of K(+) when compared to Na(+); however, the maximal activity of the Na(+) form of the enzyme is more than double the activity in the presence of K(+). Other monovalent cations, Li(+), Cs(+), and Rb(+) do not show significant activity. We have determined the crystal structure of hPLK in the unliganded form, and in complex with MgATP to 2.0 and 2.2 A resolution, respectively. Overall, the two structures show similar open conformation, and likely represent the catalytically idle state. The crystal structure of the MgATP complex also reveals Mg(2+) and Na(+) acting in tandem to anchor the ATP at the active site. Interestingly, the active site of hPLK acts as a sink to bind several molecules of MPD. The features of monovalent and divalent metal cation binding, active site structure, and vitamin B6 specificity are discussed in terms of the kinetic and structural studies, and are compared with those of the sheep and Escherichia coli enzymes.
About this Structure
2YXT is a Single protein structure of sequence from Homo sapiens. Full crystallographic information is available from OCA.
Reference
Crystal Structure of human pyridoxal kinase: structural basis of M(+) and M(2+) activation., Musayev FN, di Salvo ML, Ko TP, Gandhi AK, Goswami A, Schirch V, Safo MK, Protein Sci. 2007 Oct;16(10):2184-94. Epub 2007 Aug 31. PMID:17766369
Page seeded by OCA on Mon Mar 31 05:16:25 2008
