HEADER TRANSFERASE 07-MAR-18 6FWZ TITLE CRYSTAL STRUCTURE OF HUMAN UDP-N-ACETYLGLUCOSAMINE-DOLICHYL-PHOSPHATE TITLE 2 N-ACETYLGLUCOSAMINEPHOSPHOTRANSFERASE (DPAGT1) (V264G MUTANT) IN TITLE 3 COMPLEX WITH UDP-GLCNAC COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-N-ACETYLGLUCOSAMINE--DOLICHYL-PHOSPHATE N- COMPND 3 ACETYLGLUCOSAMINEPHOSPHOTRANSFERASE; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: GLCNAC-1-P TRANSFERASE,GPT,N-ACETYLGLUCOSAMINE-1-PHOSPHATE COMPND 6 TRANSFERASE; COMPND 7 EC: 2.7.8.15; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DPAGT1, DPAGT2; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PFB-LIC-BSE KEYWDS PROTEIN GLYCOSYLATION, INTEGRAL MEMBRANE PROTEIN, PNPT, CONGENITAL KEYWDS 2 MYASTHENIC SYNDROME, ANTIBIOTIC, STRUCTURAL GENOMICS, STRUCTURAL KEYWDS 3 GENOMICS CONSORTIUM, SGC, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.C.W.PIKE,Y.Y.DONG,A.CHU,A.TESSITORE,S.GOUBIN,L.DONG,S.MUKHOPADHYAY, AUTHOR 2 P.MAHAJAN,R.CHALK,G.BERRIDGE,D.WANG,K.KUPINSKA,K.BELAYA,D.BEESON, AUTHOR 3 N.BURGESS-BROWN,A.M.EDWARDS,C.H.ARROWSMITH,C.BOUNTRA,E.P.CARPENTER, AUTHOR 4 STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 3 17-JAN-24 6FWZ 1 LINK REVDAT 2 20-NOV-19 6FWZ 1 JRNL REVDAT 1 25-JUL-18 6FWZ 0 JRNL AUTH Y.Y.DONG,H.WANG,A.C.W.PIKE,S.A.COCHRANE,S.HAMEDZADEH, JRNL AUTH 2 F.J.WYSZYNSKI,S.R.BUSHELL,S.F.ROYER,D.A.WIDDICK,A.SAJID, JRNL AUTH 3 H.I.BOSHOFF,Y.PARK,R.LUCAS,W.M.LIU,S.S.LEE,T.MACHIDA, JRNL AUTH 4 L.MINALL,S.MEHMOOD,K.BELAYA,W.W.LIU,A.CHU,L.SHRESTHA, JRNL AUTH 5 S.M.M.MUKHOPADHYAY,C.STRAIN-DAMERELL,R.CHALK, JRNL AUTH 6 N.A.BURGESS-BROWN,M.J.BIBB,C.E.BARRY III,C.V.ROBINSON, JRNL AUTH 7 D.BEESON,B.G.DAVIS,E.P.CARPENTER JRNL TITL STRUCTURES OF DPAGT1 EXPLAIN GLYCOSYLATION DISEASE JRNL TITL 2 MECHANISMS AND ADVANCE TB ANTIBIOTIC DESIGN. JRNL REF CELL V. 175 1045 2018 JRNL REFN ISSN 1097-4172 JRNL PMID 30388443 JRNL DOI 10.1016/J.CELL.2018.10.037 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 13395 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.223 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 728 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.18 REMARK 3 REFLECTION IN BIN (WORKING SET) : 947 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.3360 REMARK 3 BIN FREE R VALUE SET COUNT : 49 REMARK 3 BIN FREE R VALUE : 0.3640 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2892 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 87 REMARK 3 SOLVENT ATOMS : 19 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 85.75 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 128.4 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.24000 REMARK 3 B22 (A**2) : 0.24000 REMARK 3 B33 (A**2) : -0.79000 REMARK 3 B12 (A**2) : 0.12000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.027 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.353 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.314 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 38.277 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.912 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3051 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2886 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4149 ; 1.554 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6651 ; 1.018 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 370 ; 3.884 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 113 ;36.766 ;23.274 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 464 ;15.474 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;16.324 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 498 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3277 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 644 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1489 ; 2.968 ; 8.081 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1488 ; 2.968 ; 8.082 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1856 ; 4.669 ;12.124 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1857 ; 4.668 ;12.123 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1562 ; 3.599 ; 8.619 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1563 ; 3.599 ; 8.621 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2294 ; 5.629 ;12.774 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 12716 ; 9.147 ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 12717 ; 9.148 ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 7 A 400 REMARK 3 ORIGIN FOR THE GROUP (A): 46.1410 49.5185 127.6888 REMARK 3 T TENSOR REMARK 3 T11: 0.0717 T22: 0.5389 REMARK 3 T33: 0.1843 T12: -0.0819 REMARK 3 T13: 0.0058 T23: 0.1616 REMARK 3 L TENSOR REMARK 3 L11: 4.3382 L22: 5.8768 REMARK 3 L33: 3.3052 L12: 1.1225 REMARK 3 L13: -0.8347 L23: -0.2781 REMARK 3 S TENSOR REMARK 3 S11: -0.1972 S12: 0.6136 S13: 0.5831 REMARK 3 S21: -0.2193 S22: 0.2897 S23: -0.4995 REMARK 3 S31: -0.3603 S32: 0.6146 S33: -0.0925 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 REFINED WITH AUTOBUSTER AND REFMAC IN FINAL CYCLE TO OPTIMISE UD1 REMARK 3 GEOMETRY. PROSMART HBOND RESTRAINTS. SINGLE TLS GROUP FOR ENTIRE REMARK 3 PROTEIN CHAIN REMARK 4 REMARK 4 6FWZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-MAR-18. REMARK 100 THE DEPOSITION ID IS D_1200009075. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JAN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9686 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS OCTOBER 15, 2015 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14197 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 59.550 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.500 REMARK 200 R MERGE (I) : 0.09500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.90 REMARK 200 R MERGE FOR SHELL (I) : 2.37600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.6.1 REMARK 200 STARTING MODEL: 5LEV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.91 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BICINE PH 9.0 -- 0.05M SODIUM REMARK 280 CHLORIDE -- 37.5% PEG300, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 158.80600 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 79.40300 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 119.10450 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 39.70150 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 198.50750 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 158.80600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 79.40300 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 39.70150 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 119.10450 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 198.50750 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7460 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -93.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 0.500000 -0.866025 0.000000 51.22950 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 88.73210 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 277.91050 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 TRP A 2 REMARK 465 ALA A 3 REMARK 465 PHE A 4 REMARK 465 SER A 5 REMARK 465 GLU A 6 REMARK 465 ASN A 80 REMARK 465 CYS A 81 REMARK 465 PHE A 82 REMARK 465 VAL A 83 REMARK 465 LYS A 84 REMARK 465 GLU A 85 REMARK 465 GLN A 86 REMARK 465 CYS A 87 REMARK 465 LYS A 88 REMARK 465 ALA A 89 REMARK 465 PHE A 90 REMARK 465 PRO A 152 REMARK 465 LYS A 153 REMARK 465 PRO A 154 REMARK 465 PHE A 155 REMARK 465 ARG A 156 REMARK 465 PRO A 157 REMARK 465 ILE A 158 REMARK 465 LEU A 159 REMARK 465 GLY A 160 REMARK 465 LEU A 161 REMARK 465 LEU A 401 REMARK 465 VAL A 402 REMARK 465 ARG A 403 REMARK 465 LEU A 404 REMARK 465 PHE A 405 REMARK 465 TYR A 406 REMARK 465 ASP A 407 REMARK 465 VAL A 408 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LEU A 7 CG CD1 CD2 REMARK 470 MET A 9 SD CE REMARK 470 ARG A 40 NE CZ NH1 NH2 REMARK 470 ARG A 121 NE CZ NH1 NH2 REMARK 470 ILE A 149 CG1 CG2 CD1 REMARK 470 VAL A 150 CG1 CG2 REMARK 470 HIS A 162 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 214 CG CD OE1 OE2 REMARK 470 LYS A 273 CG CD CE NZ REMARK 470 ARG A 306 CD NE CZ NH1 NH2 REMARK 470 LYS A 310 CD CE NZ REMARK 470 LYS A 320 CG CD CE NZ REMARK 470 LYS A 322 CG CD CE NZ REMARK 470 LYS A 324 CG CD CE NZ REMARK 470 SER A 325 OG REMARK 470 LYS A 335 CG CD CE NZ REMARK 470 ASP A 352 CG OD1 OD2 REMARK 470 ILE A 397 CG1 CG2 CD1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ILE A 74 -56.09 -25.93 REMARK 500 ASN A 119 70.93 50.54 REMARK 500 PHE A 144 76.02 57.46 REMARK 500 LEU A 187 73.43 -102.75 REMARK 500 ASP A 216 -128.33 60.31 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 P6L A 504 REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 185 OD1 REMARK 620 2 ASP A 252 OD1 78.6 REMARK 620 3 UD1 A 502 O1A 163.6 92.3 REMARK 620 4 UD1 A 502 O1B 79.8 89.6 86.5 REMARK 620 5 HOH A 608 O 81.8 159.1 108.4 94.2 REMARK 620 6 HOH A 610 O 95.9 81.6 96.4 170.9 93.1 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UD1 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue P6L A 504 DBREF 6FWZ A 1 408 UNP Q9H3H5 GPT_HUMAN 1 408 SEQADV 6FWZ SER A 0 UNP Q9H3H5 EXPRESSION TAG SEQADV 6FWZ GLY A 264 UNP Q9H3H5 VAL 264 ENGINEERED MUTATION SEQRES 1 A 409 SER MET TRP ALA PHE SER GLU LEU PRO MET PRO LEU LEU SEQRES 2 A 409 ILE ASN LEU ILE VAL SER LEU LEU GLY PHE VAL ALA THR SEQRES 3 A 409 VAL THR LEU ILE PRO ALA PHE ARG GLY HIS PHE ILE ALA SEQRES 4 A 409 ALA ARG LEU CYS GLY GLN ASP LEU ASN LYS THR SER ARG SEQRES 5 A 409 GLN GLN ILE PRO GLU SER GLN GLY VAL ILE SER GLY ALA SEQRES 6 A 409 VAL PHE LEU ILE ILE LEU PHE CYS PHE ILE PRO PHE PRO SEQRES 7 A 409 PHE LEU ASN CYS PHE VAL LYS GLU GLN CYS LYS ALA PHE SEQRES 8 A 409 PRO HIS HIS GLU PHE VAL ALA LEU ILE GLY ALA LEU LEU SEQRES 9 A 409 ALA ILE CYS CYS MET ILE PHE LEU GLY PHE ALA ASP ASP SEQRES 10 A 409 VAL LEU ASN LEU ARG TRP ARG HIS LYS LEU LEU LEU PRO SEQRES 11 A 409 THR ALA ALA SER LEU PRO LEU LEU MET VAL TYR PHE THR SEQRES 12 A 409 ASN PHE GLY ASN THR THR ILE VAL VAL PRO LYS PRO PHE SEQRES 13 A 409 ARG PRO ILE LEU GLY LEU HIS LEU ASP LEU GLY ILE LEU SEQRES 14 A 409 TYR TYR VAL TYR MET GLY LEU LEU ALA VAL PHE CYS THR SEQRES 15 A 409 ASN ALA ILE ASN ILE LEU ALA GLY ILE ASN GLY LEU GLU SEQRES 16 A 409 ALA GLY GLN SER LEU VAL ILE SER ALA SER ILE ILE VAL SEQRES 17 A 409 PHE ASN LEU VAL GLU LEU GLU GLY ASP CYS ARG ASP ASP SEQRES 18 A 409 HIS VAL PHE SER LEU TYR PHE MET ILE PRO PHE PHE PHE SEQRES 19 A 409 THR THR LEU GLY LEU LEU TYR HIS ASN TRP TYR PRO SER SEQRES 20 A 409 ARG VAL PHE VAL GLY ASP THR PHE CYS TYR PHE ALA GLY SEQRES 21 A 409 MET THR PHE ALA GLY VAL GLY ILE LEU GLY HIS PHE SER SEQRES 22 A 409 LYS THR MET LEU LEU PHE PHE MET PRO GLN VAL PHE ASN SEQRES 23 A 409 PHE LEU TYR SER LEU PRO GLN LEU LEU HIS ILE ILE PRO SEQRES 24 A 409 CYS PRO ARG HIS ARG ILE PRO ARG LEU ASN ILE LYS THR SEQRES 25 A 409 GLY LYS LEU GLU MET SER TYR SER LYS PHE LYS THR LYS SEQRES 26 A 409 SER LEU SER PHE LEU GLY THR PHE ILE LEU LYS VAL ALA SEQRES 27 A 409 GLU SER LEU GLN LEU VAL THR VAL HIS GLN SER GLU THR SEQRES 28 A 409 GLU ASP GLY GLU PHE THR GLU CYS ASN ASN MET THR LEU SEQRES 29 A 409 ILE ASN LEU LEU LEU LYS VAL LEU GLY PRO ILE HIS GLU SEQRES 30 A 409 ARG ASN LEU THR LEU LEU LEU LEU LEU LEU GLN ILE LEU SEQRES 31 A 409 GLY SER ALA ILE THR PHE SER ILE ARG TYR GLN LEU VAL SEQRES 32 A 409 ARG LEU PHE TYR ASP VAL HET MG A 501 1 HET UD1 A 502 39 HET UNL A 503 18 HET P6L A 504 29 HETNAM MG MAGNESIUM ION HETNAM UD1 URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE HETNAM UNL UNKNOWN LIGAND HETNAM P6L (2S)-3-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY) HETNAM 2 P6L PHOSPHORYL]OXY}-2-[(6E)-HEXADEC-6-ENOYLOXY]PROPYL HETNAM 3 P6L (8E)-OCTADEC-8-ENOATE FORMUL 2 MG MG 2+ FORMUL 3 UD1 C17 H27 N3 O17 P2 FORMUL 5 P6L C40 H75 O10 P FORMUL 6 HOH *19(H2 O) HELIX 1 AA1 PRO A 8 PHE A 32 1 25 HELIX 2 AA2 PHE A 32 ALA A 39 1 8 HELIX 3 AA3 GLN A 58 ILE A 74 1 17 HELIX 4 AA4 ILE A 74 LEU A 79 1 6 HELIX 5 AA5 HIS A 92 ASN A 119 1 28 HELIX 6 AA6 ARG A 123 SER A 133 1 11 HELIX 7 AA7 SER A 133 ASN A 143 1 11 HELIX 8 AA8 GLY A 166 ILE A 186 1 21 HELIX 9 AA9 GLY A 192 LEU A 213 1 22 HELIX 10 AB1 ARG A 218 TRP A 243 1 26 HELIX 11 AB2 VAL A 250 GLY A 269 1 20 HELIX 12 AB3 PHE A 271 PHE A 278 1 8 HELIX 13 AB4 PHE A 279 LEU A 294 1 16 HELIX 14 AB5 SER A 327 LEU A 340 1 14 HELIX 15 AB6 THR A 362 LEU A 371 1 10 HELIX 16 AB7 HIS A 375 GLN A 400 1 26 SHEET 1 AA1 2 CYS A 42 GLN A 44 0 SHEET 2 AA1 2 GLN A 53 PRO A 55 -1 O ILE A 54 N GLY A 43 SHEET 1 AA2 2 THR A 148 ILE A 149 0 SHEET 2 AA2 2 LEU A 163 ASP A 164 -1 O LEU A 163 N ILE A 149 SHEET 1 AA3 2 ARG A 306 LEU A 307 0 SHEET 2 AA3 2 LEU A 314 GLU A 315 -1 O GLU A 315 N ARG A 306 SHEET 1 AA4 3 TYR A 318 LYS A 322 0 SHEET 2 AA4 3 GLU A 354 ASN A 359 -1 O CYS A 358 N SER A 319 SHEET 3 AA4 3 GLN A 347 GLU A 349 -1 N SER A 348 O PHE A 355 LINK OD1 ASN A 185 MG MG A 501 1555 1555 2.18 LINK OD1 ASP A 252 MG MG A 501 1555 1555 2.23 LINK MG MG A 501 O1A UD1 A 502 1555 1555 2.05 LINK MG MG A 501 O1B UD1 A 502 1555 1555 1.97 LINK MG MG A 501 O HOH A 608 1555 1555 2.01 LINK MG MG A 501 O HOH A 610 1555 1555 2.02 CISPEP 1 TYR A 244 PRO A 245 0 0.05 SITE 1 AC1 5 ASN A 185 ASP A 252 UD1 A 502 HOH A 608 SITE 2 AC1 5 HOH A 610 SITE 1 AC2 24 GLN A 44 ASP A 45 LEU A 46 GLU A 56 SITE 2 AC2 24 ASN A 185 ILE A 186 GLY A 189 ILE A 190 SITE 3 AC2 24 ASN A 191 GLU A 194 PHE A 249 ASP A 252 SITE 4 AC2 24 LEU A 293 ARG A 301 HIS A 302 ARG A 303 SITE 5 AC2 24 ILE A 304 MG A 501 HOH A 604 HOH A 608 SITE 6 AC2 24 HOH A 610 HOH A 613 HOH A 614 HOH A 615 SITE 1 AC3 4 ALA A 203 TRP A 243 ARG A 377 LEU A 381 CRYST1 102.459 102.459 238.209 90.00 90.00 120.00 P 65 2 2 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009760 0.005635 0.000000 0.00000 SCALE2 0.000000 0.011270 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004198 0.00000