HEADER TRANSFERASE 18-APR-17 5NPS TITLE THE HUMAN O-GLCNAC TRANSFERASE IN COMPLEX WITH A BISUBSTRATE INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-N-ACETYLGLUCOSAMINE--PEPTIDE N- COMPND 3 ACETYLGLUCOSAMINYLTRANSFERASE 110 KDA SUBUNIT; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: O-GLCNAC TRANSFERASE SUBUNIT P110,O-LINKED N- COMPND 6 ACETYLGLUCOSAMINE TRANSFERASE 110 KDA SUBUNIT,OGT; COMPND 7 EC: 2.4.1.255; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: 5,6-DIHYDRO-BENZO[H]CINNOLIN-3-YLAMINE; COMPND 11 CHAIN: D; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: OGT; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 12 ORGANISM_TAXID: 32630 KEYWDS O-GLCNAC TRANSFERASE, GT-B, GT41, ROSSMAN-FOLD, ACTIVE SITE, KEYWDS 2 INHIBITOR, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.RAFIE,D.VAN AALTEN REVDAT 3 15-MAR-23 5NPS 1 COMPND SOURCE SEQRES HET REVDAT 3 2 1 HETNAM FORMUL LINK ATOM REVDAT 2 27-JUN-18 5NPS 1 JRNL REVDAT 1 16-MAY-18 5NPS 0 JRNL AUTH K.RAFIE,A.GORELIK,R.TRAPANNONE,V.S.BORODKIN,D.M.F.VAN AALTEN JRNL TITL THIO-LINKED UDP-PEPTIDE CONJUGATES AS O-GLCNAC TRANSFERASE JRNL TITL 2 INHIBITORS. JRNL REF BIOCONJUG. CHEM. V. 29 1834 2018 JRNL REFN ISSN 1520-4812 JRNL PMID 29723473 JRNL DOI 10.1021/ACS.BIOCONJCHEM.8B00194 REMARK 2 REMARK 2 RESOLUTION. 1.68 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) : 1.68 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 111305 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 5933 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) : 1.68 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8185 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.3440 REMARK 3 BIN FREE R VALUE SET COUNT : 439 REMARK 3 BIN FREE R VALUE : 0.3330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5525 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 478 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.49000 REMARK 3 B22 (A**2) : 2.13000 REMARK 3 B33 (A**2) : -1.64000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.087 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.089 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.090 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.021 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5719 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5262 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7769 ; 1.244 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12253 ; 0.925 ; 3.005 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 699 ; 5.416 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 260 ;39.992 ;24.538 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 971 ;12.546 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;17.367 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 863 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6315 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1102 ; 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): 2796 ; 1.586 ; 3.494 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2797 ; 1.585 ; 3.494 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3495 ; 2.517 ; 5.228 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3496 ; 2.518 ; 5.229 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2919 ; 2.006 ; 3.782 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2920 ; 2.006 ; 3.783 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4273 ; 3.371 ; 5.569 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6456 ; 5.377 ;41.858 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6353 ; 5.251 ;41.532 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 : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5NPS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-APR-17. REMARK 100 THE DEPOSITION ID IS D_1200004516. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-NOV-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.28 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 117257 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.680 REMARK 200 RESOLUTION RANGE LOW (A) : 46.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : 0.06000 REMARK 200 FOR THE DATA SET : 13.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.68 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.71 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 1.28500 REMARK 200 R SYM FOR SHELL (I) : 1.62400 REMARK 200 FOR SHELL : 1.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: MOLREP 11.4.06 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: TETRAGONAL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.3 M DL-MALIC ACID, 0.1 M BIS-TRIS REMARK 280 PROPANE PH 6.4 + SEEDS GENERATED OUT OF THIS CONDITION, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: F 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X,Y+1/2,Z+1/2 REMARK 290 6555 -X,-Y+1/2,Z+1/2 REMARK 290 7555 -X,Y+1/2,-Z+1/2 REMARK 290 8555 X,-Y+1/2,-Z+1/2 REMARK 290 9555 X+1/2,Y,Z+1/2 REMARK 290 10555 -X+1/2,-Y,Z+1/2 REMARK 290 11555 -X+1/2,Y,-Z+1/2 REMARK 290 12555 X+1/2,-Y,-Z+1/2 REMARK 290 13555 X+1/2,Y+1/2,Z REMARK 290 14555 -X+1/2,-Y+1/2,Z REMARK 290 15555 -X+1/2,Y+1/2,-Z REMARK 290 16555 X+1/2,-Y+1/2,-Z 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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 75.66650 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 100.23900 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 75.66650 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 100.23900 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 75.66650 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 100.23900 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 75.66650 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 100.23900 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 68.93450 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 100.23900 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 68.93450 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 100.23900 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 68.93450 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 100.23900 REMARK 290 SMTRY1 12 1.000000 0.000000 0.000000 68.93450 REMARK 290 SMTRY2 12 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 100.23900 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 68.93450 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 75.66650 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 14 -1.000000 0.000000 0.000000 68.93450 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 75.66650 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 15 -1.000000 0.000000 0.000000 68.93450 REMARK 290 SMTRY2 15 0.000000 1.000000 0.000000 75.66650 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 1.000000 0.000000 0.000000 68.93450 REMARK 290 SMTRY2 16 0.000000 -1.000000 0.000000 75.66650 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 0.00000 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1237 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1258 LIES ON A SPECIAL POSITION. 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 LYS A 714 REMARK 465 SER A 715 REMARK 465 ASN A 716 REMARK 465 GLY A 717 REMARK 465 HIS A 718 REMARK 465 LYS A 747 REMARK 465 CYS A 748 REMARK 465 PRO A 749 REMARK 465 ASP A 750 REMARK 465 GLY A 751 REMARK 465 GLY A 752 REMARK 465 ASP A 753 REMARK 465 ASN A 754 REMARK 465 ALA A 755 REMARK 465 ASP A 756 REMARK 465 SER A 757 REMARK 465 SER A 758 REMARK 465 ASN A 759 REMARK 465 THR A 760 REMARK 465 ALA A 761 REMARK 465 GLN A 887 REMARK 465 LYS A 1028 REMARK 465 PRO A 1029 REMARK 465 VAL A 1030 REMARK 465 GLU A 1031 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1495 O HOH A 1495 8545 1.30 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ALA D 8 C ALA D 8 O 0.128 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 991 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 GLU A 349 37.66 -87.65 REMARK 500 ASP A 400 79.74 -102.72 REMARK 500 ILE A 608 76.55 -115.16 REMARK 500 TYR A 632 50.79 -99.01 REMARK 500 LEU A 653 -51.63 77.53 REMARK 500 THR A 669 -153.79 -145.54 REMARK 500 HIS A 691 -90.10 -115.71 REMARK 500 ASN A 722 27.86 -144.63 REMARK 500 ASN A 860 -17.81 71.16 REMARK 500 HIS A 920 -85.32 -105.66 REMARK 500 ALA A1019 20.98 -79.61 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1567 DISTANCE = 6.08 ANGSTROMS REMARK 525 HOH A1568 DISTANCE = 6.58 ANGSTROMS REMARK 525 HOH A1569 DISTANCE = 6.62 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 94T D 101 DBREF 5NPS A 314 1031 UNP O15294 OGT1_HUMAN 324 1041 DBREF 5NPS D 1 9 PDB 5NPS 5NPS 1 9 SEQRES 1 A 718 PRO THR HIS ALA ASP SER LEU ASN ASN LEU ALA ASN ILE SEQRES 2 A 718 LYS ARG GLU GLN GLY ASN ILE GLU GLU ALA VAL ARG LEU SEQRES 3 A 718 TYR ARG LYS ALA LEU GLU VAL PHE PRO GLU PHE ALA ALA SEQRES 4 A 718 ALA HIS SER ASN LEU ALA SER VAL LEU GLN GLN GLN GLY SEQRES 5 A 718 LYS LEU GLN GLU ALA LEU MET HIS TYR LYS GLU ALA ILE SEQRES 6 A 718 ARG ILE SER PRO THR PHE ALA ASP ALA TYR SER ASN MET SEQRES 7 A 718 GLY ASN THR LEU LYS GLU MET GLN ASP VAL GLN GLY ALA SEQRES 8 A 718 LEU GLN CYS TYR THR ARG ALA ILE GLN ILE ASN PRO ALA SEQRES 9 A 718 PHE ALA ASP ALA HIS SER ASN LEU ALA SER ILE HIS LYS SEQRES 10 A 718 ASP SER GLY ASN ILE PRO GLU ALA ILE ALA SER TYR ARG SEQRES 11 A 718 THR ALA LEU LYS LEU LYS PRO ASP PHE PRO ASP ALA TYR SEQRES 12 A 718 CYS ASN LEU ALA HIS CYS LEU GLN ILE VAL CYS ASP TRP SEQRES 13 A 718 THR ASP TYR ASP GLU ARG MET LYS LYS LEU VAL SER ILE SEQRES 14 A 718 VAL ALA ASP GLN LEU GLU LYS ASN ARG LEU PRO SER VAL SEQRES 15 A 718 HIS PRO HIS HIS SER MET LEU TYR PRO LEU SER HIS GLY SEQRES 16 A 718 PHE ARG LYS ALA ILE ALA GLU ARG HIS GLY ASN LEU CYS SEQRES 17 A 718 LEU ASP LYS ILE ASN VAL LEU HIS LYS PRO PRO TYR GLU SEQRES 18 A 718 HIS PRO LYS ASP LEU LYS LEU SER ASP GLY ARG LEU ARG SEQRES 19 A 718 VAL GLY TYR VAL SER SER ASP PHE GLY ASN HIS PRO THR SEQRES 20 A 718 SER HIS LEU MET GLN SER ILE PRO GLY MET HIS ASN PRO SEQRES 21 A 718 ASP LYS PHE GLU VAL PHE CYS TYR ALA LEU SER PRO ASP SEQRES 22 A 718 ASP GLY THR ASN PHE ARG VAL LYS VAL MET ALA GLU ALA SEQRES 23 A 718 ASN HIS PHE ILE ASP LEU SER GLN ILE PRO CYS ASN GLY SEQRES 24 A 718 LYS ALA ALA ASP ARG ILE HIS GLN ASP GLY ILE HIS ILE SEQRES 25 A 718 LEU VAL ASN MET ASN GLY TYR THR LYS GLY ALA ARG ASN SEQRES 26 A 718 GLU LEU PHE ALA LEU ARG PRO ALA PRO ILE GLN ALA MET SEQRES 27 A 718 TRP LEU GLY TYR PRO GLY THR SER GLY ALA LEU PHE MET SEQRES 28 A 718 ASP TYR ILE ILE THR ASP GLN GLU THR SER PRO ALA GLU SEQRES 29 A 718 VAL ALA GLU GLN TYR SER GLU LYS LEU ALA TYR MET PRO SEQRES 30 A 718 HIS THR PHE PHE ILE GLY ASP HIS ALA ASN MET PHE PRO SEQRES 31 A 718 HIS LEU LYS LYS LYS ALA VAL ILE ASP PHE LYS SER ASN SEQRES 32 A 718 GLY HIS ILE TYR ASP ASN ARG ILE VAL LEU ASN GLY ILE SEQRES 33 A 718 ASP LEU LYS ALA PHE LEU ASP SER LEU PRO ASP VAL LYS SEQRES 34 A 718 ILE VAL LYS MET LYS CYS PRO ASP GLY GLY ASP ASN ALA SEQRES 35 A 718 ASP SER SER ASN THR ALA LEU ASN MET PRO VAL ILE PRO SEQRES 36 A 718 MET ASN THR ILE ALA GLU ALA VAL ILE GLU MET ILE ASN SEQRES 37 A 718 ARG GLY GLN ILE GLN ILE THR ILE ASN GLY PHE SER ILE SEQRES 38 A 718 SER ASN GLY LEU ALA THR THR GLN ILE ASN ASN LYS ALA SEQRES 39 A 718 ALA THR GLY GLU GLU VAL PRO ARG THR ILE ILE VAL THR SEQRES 40 A 718 THR ARG SER GLN TYR GLY LEU PRO GLU ASP ALA ILE VAL SEQRES 41 A 718 TYR CYS ASN PHE ASN GLN LEU TYR LYS ILE ASP PRO SER SEQRES 42 A 718 THR LEU GLN MET TRP ALA ASN ILE LEU LYS ARG VAL PRO SEQRES 43 A 718 ASN SER VAL LEU TRP LEU LEU ARG PHE PRO ALA VAL GLY SEQRES 44 A 718 GLU PRO ASN ILE GLN GLN TYR ALA GLN ASN MET GLY LEU SEQRES 45 A 718 PRO GLN ASN ARG ILE ILE PHE SER PRO VAL ALA PRO LYS SEQRES 46 A 718 GLU GLU HIS VAL ARG ARG GLY GLN LEU ALA ASP VAL CYS SEQRES 47 A 718 LEU ASP THR PRO LEU CYS ASN GLY HIS THR THR GLY MET SEQRES 48 A 718 ASP VAL LEU TRP ALA GLY THR PRO MET VAL THR MET PRO SEQRES 49 A 718 GLY GLU THR LEU ALA SER ARG VAL ALA ALA SER GLN LEU SEQRES 50 A 718 THR CYS LEU GLY CYS LEU GLU LEU ILE ALA LYS ASN ARG SEQRES 51 A 718 GLN GLU TYR GLU ASP ILE ALA VAL LYS LEU GLY THR ASP SEQRES 52 A 718 LEU GLU TYR LEU LYS LYS VAL ARG GLY LYS VAL TRP LYS SEQRES 53 A 718 GLN ARG ILE SER SER PRO LEU PHE ASN THR LYS GLN TYR SEQRES 54 A 718 THR MET GLU LEU GLU ARG LEU TYR LEU GLN MET TRP GLU SEQRES 55 A 718 HIS TYR ALA ALA GLY ASN LYS PRO ASP HIS MET ILE LYS SEQRES 56 A 718 PRO VAL GLU SEQRES 1 D 9 ACE VAL THR PRO VAL SER THR ALA NH2 HET ACE D 1 3 HET NH2 D 9 1 HET 94T D 101 28 HETNAM ACE ACETYL GROUP HETNAM NH2 AMINO GROUP HETNAM 94T [[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-BIS(OXIDANYLIDENE) HETNAM 2 94T PYRIMIDIN-1-YL]-3,4-BIS(OXIDANYL)OXOLAN-2-YL]METHOXY- HETNAM 3 94T OXIDANYL-PHOSPHORYL] PROPYL HYDROGEN PHOSPHATE FORMUL 2 ACE C2 H4 O FORMUL 2 NH2 H2 N FORMUL 3 94T C12 H20 N2 O12 P2 FORMUL 4 HOH *478(H2 O) HELIX 1 AA1 PRO A 314 GLY A 331 1 18 HELIX 2 AA2 ASN A 332 PHE A 347 1 16 HELIX 3 AA3 PHE A 350 GLN A 364 1 15 HELIX 4 AA4 LYS A 366 SER A 381 1 16 HELIX 5 AA5 PHE A 384 MET A 398 1 15 HELIX 6 AA6 ASP A 400 ASN A 415 1 16 HELIX 7 AA7 PHE A 418 GLY A 433 1 16 HELIX 8 AA8 ASN A 434 LYS A 449 1 16 HELIX 9 AA9 PHE A 452 VAL A 466 1 15 HELIX 10 AB1 ASP A 471 LYS A 489 1 19 HELIX 11 AB2 HIS A 499 TYR A 503 5 5 HELIX 12 AB3 SER A 506 ASN A 526 1 21 HELIX 13 AB4 HIS A 558 GLN A 565 1 8 HELIX 14 AB5 SER A 566 HIS A 571 1 6 HELIX 15 AB6 THR A 589 ALA A 599 1 11 HELIX 16 AB7 SER A 606 ILE A 608 5 3 HELIX 17 AB8 CYS A 610 GLY A 622 1 13 HELIX 18 AB9 ASN A 638 LEU A 643 1 6 HELIX 19 AC1 PRO A 675 TYR A 682 5 8 HELIX 20 AC2 ASP A 697 PHE A 702 1 6 HELIX 21 AC3 PRO A 703 LYS A 706 5 4 HELIX 22 AC4 ASP A 730 SER A 737 1 8 HELIX 23 AC5 ASN A 770 GLY A 783 1 14 HELIX 24 AC6 ALA A 799 ASN A 804 1 6 HELIX 25 AC7 ASN A 804 THR A 809 1 6 HELIX 26 AC8 SER A 823 GLY A 826 5 4 HELIX 27 AC9 GLN A 839 ILE A 843 5 5 HELIX 28 AD1 ASP A 844 VAL A 858 1 15 HELIX 29 AD2 PRO A 869 VAL A 871 5 3 HELIX 30 AD3 GLY A 872 MET A 883 1 12 HELIX 31 AD4 PRO A 897 GLY A 905 1 9 HELIX 32 AD5 GLN A 906 ALA A 908 5 3 HELIX 33 AD6 HIS A 920 ALA A 929 1 10 HELIX 34 AD7 THR A 940 SER A 943 5 4 HELIX 35 AD8 ARG A 944 GLY A 954 1 11 HELIX 36 AD9 CYS A 955 ILE A 959 5 5 HELIX 37 AE1 ASN A 962 ASP A 976 1 15 HELIX 38 AE2 ASP A 976 SER A 994 1 19 HELIX 39 AE3 ASN A 998 ALA A 1019 1 22 SHEET 1 AA1 7 HIS A 601 ASP A 604 0 SHEET 2 AA1 7 PHE A 576 ALA A 582 1 N CYS A 580 O ILE A 603 SHEET 3 AA1 7 LEU A 546 SER A 552 1 N TYR A 550 O TYR A 581 SHEET 4 AA1 7 ILE A 625 ASN A 628 1 O VAL A 627 N GLY A 549 SHEET 5 AA1 7 ILE A 648 TRP A 652 1 O ALA A 650 N ASN A 628 SHEET 6 AA1 7 TYR A 666 THR A 669 1 O ILE A 668 N MET A 651 SHEET 7 AA1 7 LYS A 685 TYR A 688 1 O ALA A 687 N ILE A 667 SHEET 1 AA2 7 LYS A 742 VAL A 744 0 SHEET 2 AA2 7 MET A 764 PRO A 768 -1 O VAL A 766 N LYS A 742 SHEET 3 AA2 7 ALA A 709 ASP A 712 1 N VAL A 710 O ILE A 767 SHEET 4 AA2 7 ILE A 724 ASN A 727 -1 O LEU A 726 N ALA A 709 SHEET 5 AA2 7 ILE A 817 THR A 821 -1 O THR A 820 N VAL A 725 SHEET 6 AA2 7 PHE A 792 ASN A 796 1 N SER A 795 O ILE A 817 SHEET 7 AA2 7 GLN A 786 ILE A 789 -1 N ILE A 787 O ILE A 794 SHEET 1 AA3 5 ILE A 890 PRO A 894 0 SHEET 2 AA3 5 VAL A 862 ARG A 867 1 N LEU A 863 O ILE A 891 SHEET 3 AA3 5 VAL A 833 CYS A 835 1 N TYR A 834 O TRP A 864 SHEET 4 AA3 5 VAL A 910 LEU A 912 1 O LEU A 912 N CYS A 835 SHEET 5 AA3 5 MET A 933 VAL A 934 1 O VAL A 934 N CYS A 911 LINK C ACE D 1 N VAL D 2 1555 1555 1.34 LINK OG SER D 6 CBH 94T D 101 1555 1555 1.44 LINK C ALA D 8 N NH2 D 9 1555 1555 1.34 CISPEP 1 PHE A 868 PRO A 869 0 6.70 SITE 1 AC1 20 PRO A 559 GLN A 839 LYS A 842 LEU A 866 SITE 2 AC1 20 VAL A 895 ALA A 896 LYS A 898 HIS A 901 SITE 3 AC1 20 ARG A 904 HIS A 920 THR A 921 THR A 922 SITE 4 AC1 20 ASP A 925 HOH A1182 THR D 3 PRO D 4 SITE 5 AC1 20 VAL D 5 SER D 6 HOH D 201 HOH D 203 CRYST1 137.869 151.333 200.478 90.00 90.00 90.00 F 2 2 2 16 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 0.007253 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006608 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004988 0.00000