HEADER TRANSFERASE 19-SEP-16 5LWV TITLE HUMAN OGT IN COMPLEX WITH UDP AND FUSED SUBSTRATE PEPTIDE (HCF1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: HOST CELL FACTOR 1,UDP-N-ACETYLGLUCOSAMINE--PEPTIDE N- COMPND 3 ACETYLGLUCOSAMINYLTRANSFERASE 110 KDA SUBUNIT; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: HCF-1,C1 FACTOR,CFF,VCAF,VP16 ACCESSORY PROTEIN,O-GLCNAC COMPND 6 TRANSFERASE SUBUNIT P110,O-LINKED N-ACETYLGLUCOSAMINE TRANSFERASE 110 COMPND 7 KDA SUBUNIT,OGT; COMPND 8 EC: 2.4.1.255; COMPND 9 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: HCFC1, HCF1, HFC1, OGT; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID, PLASMID KEYWDS GLYCOSYLATION, SIGNALLING, O-GLCNAC, O-GLCNAC TRANSFERASE, SUBSTRATE KEYWDS 2 RECOGNITION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR O.RAIMI,K.RAFIE,V.KAPURIA,W.HERR,D.VAN AALTEN REVDAT 2 17-JAN-24 5LWV 1 REMARK REVDAT 1 12-JUL-17 5LWV 0 JRNL AUTH K.RAFIE,O.RAIMI,A.T.FERENBACH,V.S.BORODKIN,V.KAPURIA, JRNL AUTH 2 D.M.F.VAN AALTEN JRNL TITL RECOGNITION OF A GLYCOSYLATION SUBSTRATE BY THE O-GLCNAC JRNL TITL 2 TRANSFERASE TPR REPEATS. JRNL REF OPEN BIOL V. 7 2017 JRNL REFN ESSN 2046-2441 JRNL PMID 28659383 JRNL DOI 10.1098/RSOB.170078 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 95998 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) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5042 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) : 1.93 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.98 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6962 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.2970 REMARK 3 BIN FREE R VALUE SET COUNT : 391 REMARK 3 BIN FREE R VALUE : 0.3270 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5593 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 41 REMARK 3 SOLVENT ATOMS : 665 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.35000 REMARK 3 B22 (A**2) : -0.35000 REMARK 3 B33 (A**2) : 1.14000 REMARK 3 B12 (A**2) : -0.17000 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): 0.099 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.100 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.075 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.731 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5764 ; 0.021 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5484 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7826 ; 1.999 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12628 ; 1.069 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 710 ; 5.917 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 264 ;39.843 ;24.583 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 979 ;13.680 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;19.371 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 867 ; 0.127 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6518 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1314 ; 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): 2843 ; 2.803 ; 2.725 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2842 ; 2.800 ; 2.724 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3549 ; 3.802 ; 4.058 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3550 ; 3.802 ; 4.059 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2921 ; 4.294 ; 3.149 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2913 ; 4.275 ; 3.144 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4265 ; 6.218 ; 4.536 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 7196 ; 7.894 ;23.183 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 7197 ; 7.894 ;23.185 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 5LWV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1200001451. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-SEP-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97625 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : TOROIDAL MIRROR 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 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 106157 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 48.530 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 20.00 REMARK 200 R MERGE (I) : 0.14700 REMARK 200 R SYM (I) : 0.12000 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) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 20.20 REMARK 200 R MERGE FOR SHELL (I) : 1.95000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3PE4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.3M AMMONIUM TARTRATE DIABASIC; 0.1M REMARK 280 TRIS PH8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 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 REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 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+2/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+1/3 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 108.17667 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 54.08833 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 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 108.17667 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 54.08833 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 108.17667 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 54.08833 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 108.17667 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 0.00000 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 54.08833 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 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 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 A1604 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1814 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 HIS A 288 REMARK 465 HIS A 289 REMARK 465 HIS A 290 REMARK 465 HIS A 291 REMARK 465 HIS A 292 REMARK 465 HIS A 293 REMARK 465 PRO A 294 REMARK 465 PRO A 295 REMARK 465 CYS A 296 REMARK 465 SER A 715 REMARK 465 ASN A 716 REMARK 465 GLY A 717 REMARK 465 HIS A 718 REMARK 465 LYS A 745 REMARK 465 MET A 746 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 LEU A 762 REMARK 465 VAL A 1030 REMARK 465 GLU A 1031 REMARK 465 VAL A 1032 REMARK 465 THR A 1033 REMARK 465 GLU A 1034 REMARK 465 SER A 1035 REMARK 465 ALA A 1036 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 GLU A 345 OE2 REMARK 470 MET A 398 CE REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 N ASN A 860 O HOH A 1301 1.72 REMARK 500 OE2 GLU A 680 O HOH A 1302 1.79 REMARK 500 O HOH A 1785 O HOH A 1801 1.95 REMARK 500 O PRO A 859 O HOH A 1303 2.00 REMARK 500 O HOH A 1753 O HOH A 1795 2.09 REMARK 500 NE2 GLN A 681 O HOH A 1304 2.09 REMARK 500 O HOH A 1791 O HOH A 1848 2.16 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 GLU A 376 CD GLU A 376 OE2 0.071 REMARK 500 SER A 795 CB SER A 795 OG -0.087 REMARK 500 GLU A 965 CD GLU A 965 OE1 -0.077 REMARK 500 GLU A1005 CD GLU A1005 OE2 0.066 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 410 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 410 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 443 CD - NE - CZ ANGL. DEV. = 8.7 DEGREES REMARK 500 ARG A 443 NE - CZ - NH1 ANGL. DEV. = -6.8 DEGREES REMARK 500 ARG A 443 NE - CZ - NH2 ANGL. DEV. = 8.4 DEGREES REMARK 500 ARG A 516 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 516 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG A 545 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 545 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ASP A 616 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP A 616 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 CYS A 835 CA - CB - SG ANGL. DEV. = 8.2 DEGREES REMARK 500 MET A 850 CG - SD - CE ANGL. DEV. = -14.9 DEGREES REMARK 500 ARG A 867 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG A 991 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 991 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 GLU A1005 OE1 - CD - OE2 ANGL. DEV. = 9.6 DEGREES REMARK 500 ARG A1008 NE - CZ - NH2 ANGL. DEV. = 3.4 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 43.86 -95.70 REMARK 500 ASP A 400 78.96 -106.71 REMARK 500 PHE A 452 80.12 -153.34 REMARK 500 LEU A 653 -45.27 74.95 REMARK 500 THR A 669 -154.15 -152.17 REMARK 500 HIS A 691 -89.93 -115.30 REMARK 500 ASN A 722 28.99 -149.46 REMARK 500 PRO A 859 -71.30 -32.41 REMARK 500 ASN A 888 -8.57 -58.01 REMARK 500 HIS A 920 -88.88 -113.84 REMARK 500 MET A1026 79.40 -118.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UDP A 1201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 1203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 1204 DBREF 5LWV A 294 311 UNP P51610 HCFC1_HUMAN 1078 1095 DBREF 5LWV A 315 1036 UNP O15294 OGT1_HUMAN 315 1036 SEQADV 5LWV HIS A 288 UNP P51610 EXPRESSION TAG SEQADV 5LWV HIS A 289 UNP P51610 EXPRESSION TAG SEQADV 5LWV HIS A 290 UNP P51610 EXPRESSION TAG SEQADV 5LWV HIS A 291 UNP P51610 EXPRESSION TAG SEQADV 5LWV HIS A 292 UNP P51610 EXPRESSION TAG SEQADV 5LWV HIS A 293 UNP P51610 EXPRESSION TAG SEQADV 5LWV GLY A 312 UNP P51610 LINKER SEQADV 5LWV GLY A 313 UNP P51610 LINKER SEQADV 5LWV GLY A 314 UNP P51610 LINKER SEQRES 1 A 749 HIS HIS HIS HIS HIS HIS PRO PRO CYS GLU THR HIS GLU SEQRES 2 A 749 THR GLY THR THR ASN THR ALA THR THR ALA THR GLY GLY SEQRES 3 A 749 GLY THR HIS ALA ASP SER LEU ASN ASN LEU ALA ASN ILE SEQRES 4 A 749 LYS ARG GLU GLN GLY ASN ILE GLU GLU ALA VAL ARG LEU SEQRES 5 A 749 TYR ARG LYS ALA LEU GLU VAL PHE PRO GLU PHE ALA ALA SEQRES 6 A 749 ALA HIS SER ASN LEU ALA SER VAL LEU GLN GLN GLN GLY SEQRES 7 A 749 LYS LEU GLN GLU ALA LEU MET HIS TYR LYS GLU ALA ILE SEQRES 8 A 749 ARG ILE SER PRO THR PHE ALA ASP ALA TYR SER ASN MET SEQRES 9 A 749 GLY ASN THR LEU LYS GLU MET GLN ASP VAL GLN GLY ALA SEQRES 10 A 749 LEU GLN CYS TYR THR ARG ALA ILE GLN ILE ASN PRO ALA SEQRES 11 A 749 PHE ALA ASP ALA HIS SER ASN LEU ALA SER ILE HIS LYS SEQRES 12 A 749 ASP SER GLY ASN ILE PRO GLU ALA ILE ALA SER TYR ARG SEQRES 13 A 749 THR ALA LEU LYS LEU LYS PRO ASP PHE PRO ASP ALA TYR SEQRES 14 A 749 CYS ASN LEU ALA HIS CYS LEU GLN ILE VAL CYS ASP TRP SEQRES 15 A 749 THR ASP TYR ASP GLU ARG MET LYS LYS LEU VAL SER ILE SEQRES 16 A 749 VAL ALA ASP GLN LEU GLU LYS ASN ARG LEU PRO SER VAL SEQRES 17 A 749 HIS PRO HIS HIS SER MET LEU TYR PRO LEU SER HIS GLY SEQRES 18 A 749 PHE ARG LYS ALA ILE ALA GLU ARG HIS GLY ASN LEU CYS SEQRES 19 A 749 LEU ASP LYS ILE ASN VAL LEU HIS LYS PRO PRO TYR GLU SEQRES 20 A 749 HIS PRO LYS ASP LEU LYS LEU SER ASP GLY ARG LEU ARG SEQRES 21 A 749 VAL GLY TYR VAL SER SER ASP PHE GLY ASN HIS PRO THR SEQRES 22 A 749 SER HIS LEU MET GLN SER ILE PRO GLY MET HIS ASN PRO SEQRES 23 A 749 ASP LYS PHE GLU VAL PHE CYS TYR ALA LEU SER PRO ASP SEQRES 24 A 749 ASP GLY THR ASN PHE ARG VAL LYS VAL MET ALA GLU ALA SEQRES 25 A 749 ASN HIS PHE ILE ASP LEU SER GLN ILE PRO CYS ASN GLY SEQRES 26 A 749 LYS ALA ALA ASP ARG ILE HIS GLN ASP GLY ILE HIS ILE SEQRES 27 A 749 LEU VAL ASN MET ASN GLY TYR THR LYS GLY ALA ARG ASN SEQRES 28 A 749 GLU LEU PHE ALA LEU ARG PRO ALA PRO ILE GLN ALA MET SEQRES 29 A 749 TRP LEU GLY TYR PRO GLY THR SER GLY ALA LEU PHE MET SEQRES 30 A 749 ASP TYR ILE ILE THR ASP GLN GLU THR SER PRO ALA GLU SEQRES 31 A 749 VAL ALA GLU GLN TYR SER GLU LYS LEU ALA TYR MET PRO SEQRES 32 A 749 HIS THR PHE PHE ILE GLY ASP HIS ALA ASN MET PHE PRO SEQRES 33 A 749 HIS LEU LYS LYS LYS ALA VAL ILE ASP PHE LYS SER ASN SEQRES 34 A 749 GLY HIS ILE TYR ASP ASN ARG ILE VAL LEU ASN GLY ILE SEQRES 35 A 749 ASP LEU LYS ALA PHE LEU ASP SER LEU PRO ASP VAL LYS SEQRES 36 A 749 ILE VAL LYS MET LYS CYS PRO ASP GLY GLY ASP ASN ALA SEQRES 37 A 749 ASP SER SER ASN THR ALA LEU ASN MET PRO VAL ILE PRO SEQRES 38 A 749 MET ASN THR ILE ALA GLU ALA VAL ILE GLU MET ILE ASN SEQRES 39 A 749 ARG GLY GLN ILE GLN ILE THR ILE ASN GLY PHE SER ILE SEQRES 40 A 749 SER ASN GLY LEU ALA THR THR GLN ILE ASN ASN LYS ALA SEQRES 41 A 749 ALA THR GLY GLU GLU VAL PRO ARG THR ILE ILE VAL THR SEQRES 42 A 749 THR ARG SER GLN TYR GLY LEU PRO GLU ASP ALA ILE VAL SEQRES 43 A 749 TYR CYS ASN PHE ASN GLN LEU TYR LYS ILE ASP PRO SER SEQRES 44 A 749 THR LEU GLN MET TRP ALA ASN ILE LEU LYS ARG VAL PRO SEQRES 45 A 749 ASN SER VAL LEU TRP LEU LEU ARG PHE PRO ALA VAL GLY SEQRES 46 A 749 GLU PRO ASN ILE GLN GLN TYR ALA GLN ASN MET GLY LEU SEQRES 47 A 749 PRO GLN ASN ARG ILE ILE PHE SER PRO VAL ALA PRO LYS SEQRES 48 A 749 GLU GLU HIS VAL ARG ARG GLY GLN LEU ALA ASP VAL CYS SEQRES 49 A 749 LEU ASP THR PRO LEU CYS ASN GLY HIS THR THR GLY MET SEQRES 50 A 749 ASP VAL LEU TRP ALA GLY THR PRO MET VAL THR MET PRO SEQRES 51 A 749 GLY GLU THR LEU ALA SER ARG VAL ALA ALA SER GLN LEU SEQRES 52 A 749 THR CYS LEU GLY CYS LEU GLU LEU ILE ALA LYS ASN ARG SEQRES 53 A 749 GLN GLU TYR GLU ASP ILE ALA VAL LYS LEU GLY THR ASP SEQRES 54 A 749 LEU GLU TYR LEU LYS LYS VAL ARG GLY LYS VAL TRP LYS SEQRES 55 A 749 GLN ARG ILE SER SER PRO LEU PHE ASN THR LYS GLN TYR SEQRES 56 A 749 THR MET GLU LEU GLU ARG LEU TYR LEU GLN MET TRP GLU SEQRES 57 A 749 HIS TYR ALA ALA GLY ASN LYS PRO ASP HIS MET ILE LYS SEQRES 58 A 749 PRO VAL GLU VAL THR GLU SER ALA HET UDP A1201 25 HET GOL A1202 6 HET PO4 A1203 5 HET PO4 A1204 5 HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM GOL GLYCEROL HETNAM PO4 PHOSPHATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 UDP C9 H14 N2 O12 P2 FORMUL 3 GOL C3 H8 O3 FORMUL 4 PO4 2(O4 P 3-) FORMUL 6 HOH *665(H2 O) HELIX 1 AA1 GLY A 314 GLN A 330 1 17 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 496 MET A 501 1 6 HELIX 12 AB3 SER A 506 VAL A 527 1 22 HELIX 13 AB4 LEU A 539 ASP A 543 5 5 HELIX 14 AB5 HIS A 558 GLN A 565 1 8 HELIX 15 AB6 SER A 566 HIS A 571 1 6 HELIX 16 AB7 THR A 589 ALA A 599 1 11 HELIX 17 AB8 SER A 606 ILE A 608 5 3 HELIX 18 AB9 CYS A 610 ASP A 621 1 12 HELIX 19 AC1 ASN A 638 LEU A 643 1 6 HELIX 20 AC2 PRO A 675 TYR A 682 5 8 HELIX 21 AC3 ASP A 697 PHE A 702 1 6 HELIX 22 AC4 PRO A 703 LYS A 706 5 4 HELIX 23 AC5 ASP A 730 SER A 737 1 8 HELIX 24 AC6 ASN A 770 ARG A 782 1 13 HELIX 25 AC7 ALA A 799 ASN A 804 1 6 HELIX 26 AC8 ASN A 804 THR A 809 1 6 HELIX 27 AC9 SER A 823 GLY A 826 5 4 HELIX 28 AD1 GLN A 839 ILE A 843 5 5 HELIX 29 AD2 ASP A 844 VAL A 858 1 15 HELIX 30 AD3 PRO A 869 VAL A 871 5 3 HELIX 31 AD4 GLY A 872 MET A 883 1 12 HELIX 32 AD5 PRO A 886 ASN A 888 5 3 HELIX 33 AD6 PRO A 897 GLY A 905 1 9 HELIX 34 AD7 GLN A 906 ALA A 908 5 3 HELIX 35 AD8 HIS A 920 ALA A 929 1 10 HELIX 36 AD9 THR A 940 SER A 943 5 4 HELIX 37 AE1 ARG A 944 GLY A 954 1 11 HELIX 38 AE2 CYS A 955 ILE A 959 5 5 HELIX 39 AE3 ASN A 962 ASP A 976 1 15 HELIX 40 AE4 ASP A 976 SER A 994 1 19 HELIX 41 AE5 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 MET A 651 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 THR A 669 SHEET 1 AA2 7 LYS A 742 ILE A 743 0 SHEET 2 AA2 7 PRO A 765 ILE A 767 -1 O VAL A 766 N LYS A 742 SHEET 3 AA2 7 ALA A 709 ILE A 711 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 ASN A 836 1 N TYR A 834 O VAL A 862 SHEET 4 AA3 5 VAL A 910 LEU A 912 1 O VAL A 910 N CYS A 835 SHEET 5 AA3 5 MET A 933 VAL A 934 1 O VAL A 934 N CYS A 911 CISPEP 1 PHE A 868 PRO A 869 0 8.69 SITE 1 AC1 19 PRO A 559 ASN A 838 GLN A 839 LYS A 842 SITE 2 AC1 19 LEU A 866 VAL A 895 ALA A 896 LYS A 898 SITE 3 AC1 19 HIS A 901 ARG A 904 HIS A 920 THR A 921 SITE 4 AC1 19 THR A 922 ASP A 925 HOH A1322 HOH A1399 SITE 5 AC1 19 HOH A1469 HOH A1505 HOH A1630 SITE 1 AC2 7 GLY A 365 LYS A 366 LEU A 367 GLN A 368 SITE 2 AC2 7 GLU A 369 HOH A1306 HOH A1449 SITE 1 AC3 5 ARG A 328 ARG A 491 LEU A 492 HOH A1431 SITE 2 AC3 5 HOH A1689 SITE 1 AC4 3 ASN A 962 ARG A 963 HOH A1309 CRYST1 168.024 168.024 162.265 90.00 90.00 120.00 P 62 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 0.005952 0.003436 0.000000 0.00000 SCALE2 0.000000 0.006872 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006163 0.00000