PDB Short entry for 5O5E HEADER TRANSFERASE 01-JUN-17 5O5E TITLE CRYSTAL STRUCTURE OF HUMAN UDP-N-ACETYLGLUCOSAMINE-DOLICHYL-PHOSPHATE TITLE 2 N-ACETYLGLUCOSAMINEPHOSPHOTRANSFERASE (DPAGT1) (V264G MUTANT) IN TITLE 3 COMPLEX WITH TUNICAMYCIN 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_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 10 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 2 20-NOV-19 5O5E 1 JRNL REVDAT 1 28-FEB-18 5O5E 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. 3.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.87 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 10786 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) : 0.230 REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.120 REMARK 3 FREE R VALUE TEST SET COUNT : 552 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 5 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 3.40 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.80 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2973 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2118 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2826 REMARK 3 BIN R VALUE (WORKING SET) : 0.2095 REMARK 3 BIN FREE R VALUE : 0.2602 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.94 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 147 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2937 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 104 REMARK 3 SOLVENT ATOMS : 9 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 131.0 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 172.2 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.49200 REMARK 3 B22 (A**2) : -5.49200 REMARK 3 B33 (A**2) : 10.98390 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.439 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.428 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.908 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 3117 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 4238 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1399 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 43 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 451 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 3117 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 424 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 3888 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.00 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.22 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 3.10 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: {A|8 - 402} REMARK 3 ORIGIN FOR THE GROUP (A): 45.6838 49.8451 128.7280 REMARK 3 T TENSOR REMARK 3 T11: -0.6971 T22: 0.2511 REMARK 3 T33: -0.4151 T12: -0.1107 REMARK 3 T13: -0.0373 T23: 0.2447 REMARK 3 L TENSOR REMARK 3 L11: 4.2871 L22: 6.0762 REMARK 3 L33: 4.0734 L12: 0.9869 REMARK 3 L13: -0.6794 L23: -0.5503 REMARK 3 S TENSOR REMARK 3 S11: -0.2455 S12: 1.0588 S13: 0.6805 REMARK 3 S21: -0.2991 S22: 0.2782 S23: -0.4952 REMARK 3 S31: -0.3093 S32: 1.1035 S33: -0.0327 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE REFINED WITH BUSTER WITH A REMARK 3 SINGLE TLS GROUP. ELECTRON DENSITY MAPS WERE SHARPENED WITH - REMARK 3 100A**2 BFACTOR FOR REBUILDING IN COOT. REMARK 4 REMARK 4 5O5E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1200005196. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-APR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.25 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10832 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.400 REMARK 200 RESOLUTION RANGE LOW (A) : 59.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.300 REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 9.80 REMARK 200 R MERGE FOR SHELL (I) : 2.29500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL 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 8.5 -- 0.05M SODIUM REMARK 280 CHLORIDE -- 36% PEG200, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K 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 160.04067 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 80.02033 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 120.03050 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 40.01017 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 200.05083 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 160.04067 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 80.02033 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 40.01017 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 120.03050 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 200.05083 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: 6450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -79.0 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 51.04550 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 88.41340 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 280.07117 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 LEU A 7 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 GLY A 160 REMARK 465 LEU A 161 REMARK 465 HIS A 162 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 ARG A 40 NE CZ NH1 NH2 REMARK 470 LEU A 79 CG CD1 CD2 REMARK 470 ILE A 149 CG1 CG2 CD1 REMARK 470 LYS A 153 CD CE NZ REMARK 470 PHE A 155 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 156 CG CD NE CZ NH1 NH2 REMARK 470 LEU A 159 CG CD1 CD2 REMARK 470 LYS A 273 CG CD CE NZ REMARK 470 ARG A 306 CD NE CZ NH1 NH2 REMARK 470 ASN A 308 CG OD1 ND2 REMARK 470 LYS A 310 CD CE NZ REMARK 470 LYS A 320 CG CD CE NZ REMARK 470 LYS A 322 CE NZ REMARK 470 LYS A 324 CG CD CE NZ REMARK 470 SER A 325 OG REMARK 470 PHE A 328 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LYS A 335 CE NZ REMARK 470 GLN A 341 CG CD OE1 NE2 REMARK 470 GLU A 351 CG CD OE1 OE2 REMARK 470 ASP A 352 CG OD1 OD2 REMARK 470 GLU A 357 CG CD OE1 OE2 REMARK 470 LYS A 369 CE NZ REMARK 470 LEU A 401 CG CD1 CD2 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 -53.51 -26.05 REMARK 500 PRO A 77 2.07 -68.82 REMARK 500 ASN A 119 72.65 52.28 REMARK 500 PHE A 144 70.84 48.82 REMARK 500 PRO A 154 -172.65 -67.17 REMARK 500 LEU A 187 71.19 -102.49 REMARK 500 ASP A 216 -107.51 56.33 REMARK 500 PHE A 271 34.10 -147.37 REMARK 500 THR A 350 -164.95 -120.61 REMARK 500 MET A 361 87.56 -67.44 REMARK 500 GLN A 400 80.33 58.00 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 501 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue P6L A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 9LH A 502 DBREF 5O5E A 1 408 UNP Q9H3H5 GPT_HUMAN 1 408 SEQADV 5O5E SER A 0 UNP Q9H3H5 EXPRESSION TAG SEQADV 5O5E 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 P6L A 501 26 HET 9LH A 502 58 HET UNL A 503 20 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 HETNAM 9LH TUNICAMYCIN HETNAM UNL UNKNOWN LIGAND FORMUL 2 P6L C40 H75 O10 P FORMUL 3 9LH C38 H62 N4 O16 FORMUL 5 HOH *9(H2 O) HELIX 1 AA1 PRO A 8 ALA A 39 1 32 HELIX 2 AA2 GLN A 58 ILE A 74 1 17 HELIX 3 AA3 HIS A 92 ASN A 119 1 28 HELIX 4 AA4 ARG A 121 SER A 133 1 13 HELIX 5 AA5 SER A 133 ASN A 143 1 11 HELIX 6 AA6 GLY A 166 LEU A 187 1 22 HELIX 7 AA7 GLY A 192 LEU A 213 1 22 HELIX 8 AA8 ARG A 218 TRP A 243 1 26 HELIX 9 AA9 VAL A 250 GLY A 269 1 20 HELIX 10 AB1 PHE A 271 PHE A 279 1 9 HELIX 11 AB2 PHE A 279 LEU A 294 1 16 HELIX 12 AB3 SER A 327 LEU A 340 1 14 HELIX 13 AB4 THR A 362 GLY A 372 1 11 HELIX 14 AB5 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 ARG A 306 LEU A 307 0 SHEET 2 AA2 2 LEU A 314 GLU A 315 -1 O GLU A 315 N ARG A 306 SHEET 1 AA3 3 TYR A 318 LYS A 322 0 SHEET 2 AA3 3 GLU A 354 ASN A 359 -1 O CYS A 358 N SER A 319 SHEET 3 AA3 3 HIS A 346 GLU A 349 -1 N HIS A 346 O GLU A 357 CISPEP 1 TYR A 244 PRO A 245 0 -3.22 SITE 1 AC1 2 TRP A 243 ARG A 377 SITE 1 AC2 23 GLN A 44 LEU A 46 GLU A 56 TRP A 122 SITE 2 AC2 23 LYS A 125 LEU A 126 ASN A 182 ASN A 185 SITE 3 AC2 23 ILE A 186 ALA A 188 GLY A 189 ILE A 190 SITE 4 AC2 23 ASN A 191 PHE A 249 ASP A 252 PHE A 286 SITE 5 AC2 23 ARG A 301 HIS A 302 ARG A 303 ILE A 304 SITE 6 AC2 23 HOH A 601 HOH A 603 HOH A 604 CRYST1 102.091 102.091 240.061 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 0.009795 0.005655 0.000000 0.00000 SCALE2 0.000000 0.011311 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004166 0.00000