6ylz

X-ray diffraction
1.56Å resolution

X-ray structure of the K72I,Y129F,R133L, H199A quadruple mutant of PNP-oxidase from E. coli

Released:
Source organism: Escherichia coli
Entry authors: Battista T, Sularea M, Barile A, Fiorillo A, Tramonti A, Ilari A

Function and Biology Details

Reaction catalysed:
Pyridoxamine 5'-phosphate + H(2)O + O(2) = pyridoxal 5'-phosphate + NH(3) + H(2)O(2)
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Pyridoxine/pyridoxamine 5'-phosphate oxidase Chain: AAA
Molecule details ›
Chain: AAA
Length: 218 amino acids
Theoretical weight: 25.44 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: E2QMK2 (Residues: 1-218; Coverage: 100%)
Gene names: A6592_06700, A8C65_01170, A8W81_004110, A9819_09890, AAG43_000382, ACN002_1388, ACU57_22365, ADS93_000231, AM464_26075, APX88_03115, AUQ29_17640, AW059_04790, AW086_06705, AWP47_10255, B6R12_001462, B6R15_002393, BANRA_00101, BANRA_00541, BE963_23555, BF481_000055, BG821_000141, BH692_04000, BHS87_09315, BIZ41_22505, BJI68_03650, BM922_000550, BMC34_004351, BMC79_000812, BMR21_06740, BMT49_10750, BN17_18981, BO068_000164, BON72_26560, BON73_09965, BON83_13580, BON92_20340, BON93_05930, BON94_13380, BON96_00825, BON98_16060, BOY03_001943, BUE81_02320, BUE82_10835, BvCms2454_03265, BvCmsC61A_00533, BvCmsHHP019_05450, BvCmsKKP036_02198, BvCmsKKP061_00710, BvCmsKSP011_01128, BvCmsKSP067_00095, BvCmsKSP076_00834, BvCmsSIP024_00791, C2121_000731, C2M16_15125, C5F72_12690, C5N07_00605, C5Y87_04985, C6L19_000810, C9Z43_02895, C9Z62_14655, CA593_19795, CD42_000211, CDC27_08280, CG692_07550, CG831_002041, CIG67_18240, CR539_12840, CXJ73_000892, CY655_10335, D0X26_02455, D3822_15715, D3G36_00090, D3O91_16385, D3Y67_19685, D4V09_02195, D9D31_06355, D9D43_00610, D9E34_06820, D9E49_08185, D9J03_23650, D9J61_02365, DAH37_02315, DAH50_17715, DD762_07255, DL654_04145, DLW88_01000, DLX40_03955, DM968_02265, DN627_11295, DP258_08825, DS966_09650, DTL43_15855, DTM45_00620, DU321_09500, DXT71_07620, E2119_03380, E2127_06050, E2128_03535, E2129_02300, E4K51_03945, E4K54_01995, E5P52_01840, E5S62_01560, EA435_04095, EBP16_08120, EC1094V2_2114, EC3234A_33c01400, EI021_03135, EI041_09295, EIZ93_08525, EL79_2059, EL80_2086, ELT17_06925, ELT21_14205, ELT29_04850, ELT31_12410, ELT33_06360, ELT48_20930, ELT72_02440, ELU83_12590, ELU85_03010, ELU95_10815, ELV13_03215, ELV15_05790, ELV22_06060, ELV24_03165, ELV28_01225, ELX56_15790, ELX68_11690, ELX69_18100, ELX70_01130, ELX79_19900, ELX83_05045, ELX96_08240, ELY05_08060, ELY23_01965, ELY24_16320, ELY32_04180, ELY41_03470, ELY48_04805, ELY50_00280, EPS76_10810, EQO00_12375, ERS085358_03661, ERS085366_03514, ERS085386_01406, ERS085406_03567, ETECE1373_02215, ETECE925_02301, EVY14_12420, EWK56_01740, EXX13_12660, EYX47_02385, EYY34_28240, Esc0902E_17490, F2N31_02250, F3N40_03735, F7F11_07545, F9B07_05390, F9S76_12780, F9S83_05695, F9V24_02285, FE587_15255, FEJ01_02460, FJQ51_05375, FKO60_10395, FNJ67_13135, FQ021_03150, FQF29_11995, FV293_04760, FWK02_08680, G3565_11225, G3813_000136, G4A38_00325, G5632_09405, G5696_08765, G6P89_12460, G6Z99_11505, GAJ26_04495, GF646_02965, GFY48_09550, GFZ60_01685, GIB53_01110, GKF86_15565, GKF89_16620, GKG12_05625, GNO40_08495, GOP20_04785, GP711_19220, GQE42_00330, GQE64_03345, GQM13_05405, GQW07_12200, GQW68_07045, GRC73_18645, GRO95_11445, GRW05_00280, GRW80_06550, GRW81_10305, GSY44_01315, GUB08_04405, GUI33_19575, GW978_09065, GXU05_000232, H4P50_11130, H4P51_11925, HHG09_002169, HI055_003840, HIE29_001022, HIE44_003861, HIF90_000881, HIN64_000182, HJQ60_001462, HJS37_000536, HJS41_000541, HJU54_000453, HL563_01905, HLU56_01675, HLZ50_03785, HMS79_06995, HMT08_01735, HMU06_03015, HMV95_01470, HMW38_05450, HNC36_07610, HNC52_04075, HNC59_04650, HNC66_04525, HNC99_01085, HV109_10790, HVV39_25620, HVV53_04705, HVW43_02830, HVY77_12255, HVZ33_11785, HVZ71_11615, HX136_13345, HZ72_001432, HmCms169_02871, HmCmsJML074_04233, IA00_000268, NCTC10089_02345, NCTC10974_02714, NCTC11022_01500, NCTC13216_04325, NCTC7922_02286, NCTC8008_01871, NCTC8621_02553, NCTC8959_01443, NCTC9044_05120, NCTC9045_02826, NCTC9048_02522, NCTC9117_03073, NCTC9702_02796, NCTC9706_03894, NCTC9777_04281, NCTC9969_02557, PGD_01599, SAMEA3472064_01703, SAMEA3472080_01395, SAMEA3472120_00065, SAMEA3472147_02379, SAMEA3484427_00798, SAMEA3484429_00909, SAMEA3751407_03843, SAMEA3752386_04456, SAMEA3753300_02654, THOESC010_21560, TUM18780_20600, UN91_12090, WP2S18E08_22770, WP4S18E07_21760, WP4S18E08_21990, WR15_14250, pdxH
Sequence domains:

Ligands and Environments


Cofactor: Ligand FMN 1 x FMN
2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I24
Spacegroup: P3121
Unit cell:
a: 63.776Å b: 63.776Å c: 124.727Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.172 0.171 0.202
Expression system: Escherichia coli