HEADER HYDROLASE 24-AUG-16 5GU4 TITLE RRNA N-GLYCOSYLASE RTA COMPND MOL_ID: 1; COMPND 2 MOLECULE: RICIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 36-302; COMPND 5 EC: 3.2.2.22; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: GLY-PHE-GLY-LEU-PHE-ASP; COMPND 9 CHAIN: C, D; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RICINUS COMMUNIS; SOURCE 3 ORGANISM_COMMON: CASTOR BEAN; SOURCE 4 ORGANISM_TAXID: 3988; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_TAXID: 9606 KEYWDS RICIN, RIBOSOME-INACTIVATING PROTEIN, RIBOSOMAL P STALK PROTEIN, KEYWDS 2 RIBOSOME, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR W.W.SHI,Y.S.TANG,S.Y.SZE,Z.N.ZHU,K.B.WONG,P.C.SHAW REVDAT 2 08-NOV-23 5GU4 1 REMARK REVDAT 1 02-NOV-16 5GU4 0 JRNL AUTH W.W.SHI,Y.S.TANG,S.Y.SZE,Z.N.ZHU,K.B.WONG,P.C.SHAW JRNL TITL CRYSTAL STRUCTURE OF RIBOSOME-INACTIVATING PROTEIN RICIN A JRNL TITL 2 CHAIN IN COMPLEX WITH THE C-TERMINAL PEPTIDE OF THE JRNL TITL 3 RIBOSOMAL STALK PROTEIN P2 JRNL REF TOXINS V. 8 2016 JRNL REFN ESSN 2072-6651 JRNL PMID 27754366 JRNL DOI 10.3390/TOXINS8100296 REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 71323 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) : 0.220 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3754 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) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5128 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.13 REMARK 3 BIN R VALUE (WORKING SET) : 0.3610 REMARK 3 BIN FREE R VALUE SET COUNT : 260 REMARK 3 BIN FREE R VALUE : 0.4230 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4114 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 213 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.24000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.34000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.18000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.098 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.100 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.065 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.751 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.925 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4208 ; 0.027 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5718 ; 2.185 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 519 ; 5.817 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 212 ;37.645 ;22.925 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 652 ;13.908 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 42 ;21.847 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 639 ; 0.149 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3278 ; 0.014 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2595 ; 1.610 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4179 ; 2.500 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1613 ; 3.664 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1539 ; 5.664 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5GU4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1300001440. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-NOV-14 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 : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 75182 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.33900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: 3PX8 REMARK 200 REMARK 200 REMARK: THE ENTRY CONTAINS FRIEDEL PAIRS IN F_PLUS/MINUS COLUMNS. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.8 M SODIUM ACETATE, TETRAHYDRATE REMARK 280 PH7.0 30%-35% GLUCOSE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 29.94000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 REMARK 350 BIOMOLECULE: 2 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: 880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 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 MET A -33 REMARK 465 GLY A -32 REMARK 465 SER A -31 REMARK 465 SER A -30 REMARK 465 HIS A -29 REMARK 465 HIS A -28 REMARK 465 HIS A -27 REMARK 465 HIS A -26 REMARK 465 HIS A -25 REMARK 465 HIS A -24 REMARK 465 SER A -23 REMARK 465 SER A -22 REMARK 465 GLY A -21 REMARK 465 LEU A -20 REMARK 465 VAL A -19 REMARK 465 PRO A -18 REMARK 465 ARG A -17 REMARK 465 GLY A -16 REMARK 465 SER A -15 REMARK 465 HIS A -14 REMARK 465 MET A -13 REMARK 465 ALA A -12 REMARK 465 SER A -11 REMARK 465 MET A -10 REMARK 465 THR A -9 REMARK 465 GLY A -8 REMARK 465 GLY A -7 REMARK 465 GLN A -6 REMARK 465 GLN A -5 REMARK 465 MET A -4 REMARK 465 GLY A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 ILE A 1 REMARK 465 PHE A 2 REMARK 465 PRO A 3 REMARK 465 LYS A 4 REMARK 465 GLN A 5 REMARK 465 PRO A 261 REMARK 465 PRO A 262 REMARK 465 PRO A 263 REMARK 465 SER A 264 REMARK 465 SER A 265 REMARK 465 GLN A 266 REMARK 465 PHE A 267 REMARK 465 MET B -33 REMARK 465 GLY B -32 REMARK 465 SER B -31 REMARK 465 SER B -30 REMARK 465 HIS B -29 REMARK 465 HIS B -28 REMARK 465 HIS B -27 REMARK 465 HIS B -26 REMARK 465 HIS B -25 REMARK 465 HIS B -24 REMARK 465 SER B -23 REMARK 465 SER B -22 REMARK 465 GLY B -21 REMARK 465 LEU B -20 REMARK 465 VAL B -19 REMARK 465 PRO B -18 REMARK 465 ARG B -17 REMARK 465 GLY B -16 REMARK 465 SER B -15 REMARK 465 HIS B -14 REMARK 465 MET B -13 REMARK 465 ALA B -12 REMARK 465 SER B -11 REMARK 465 MET B -10 REMARK 465 THR B -9 REMARK 465 GLY B -8 REMARK 465 GLY B -7 REMARK 465 GLN B -6 REMARK 465 GLN B -5 REMARK 465 MET B -4 REMARK 465 GLY B -3 REMARK 465 ARG B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 ILE B 1 REMARK 465 PHE B 2 REMARK 465 PRO B 3 REMARK 465 LYS B 4 REMARK 465 GLN B 5 REMARK 465 PRO B 261 REMARK 465 PRO B 262 REMARK 465 PRO B 263 REMARK 465 SER B 264 REMARK 465 SER B 265 REMARK 465 GLN B 266 REMARK 465 PHE B 267 REMARK 465 ASP C -1 REMARK 465 ASP C 0 REMARK 465 MET C 1 REMARK 465 ASP D -1 REMARK 465 ASP D 0 REMARK 465 MET D 1 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 GLN B 98 CG CD OE1 NE2 REMARK 470 GLU B 135 CG CD OE1 OE2 REMARK 470 LYS B 239 CE NZ 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 CB VAL A 245 O HOH A 390 1.72 REMARK 500 NE2 GLN A 182 O HOH A 301 1.85 REMARK 500 OD2 ASP B 244 O HOH B 401 2.07 REMARK 500 O ILE A 249 O HOH A 301 2.18 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 ASP A 96 CB ASP A 96 CG 0.131 REMARK 500 GLN B 19 CG GLN B 19 CD 0.138 REMARK 500 GLU B 99 CG GLU B 99 CD 0.092 REMARK 500 SER B 210 CB SER B 210 OG 0.079 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 31 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG A 56 NE - CZ - NH1 ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG A 56 NE - CZ - NH2 ANGL. DEV. = 4.0 DEGREES REMARK 500 ASP A 96 CB - CG - OD1 ANGL. DEV. = 7.1 DEGREES REMARK 500 ARG A 189 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 193 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 193 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG B 31 NE - CZ - NH2 ANGL. DEV. = -4.5 DEGREES REMARK 500 LEU B 74 CB - CG - CD2 ANGL. DEV. = -12.0 DEGREES REMARK 500 ARG B 180 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 MET B 188 CG - SD - CE ANGL. DEV. = -10.7 DEGREES REMARK 500 ARG B 193 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 ARG B 193 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG B 197 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG B 197 NE - CZ - NH2 ANGL. DEV. = -3.9 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 ILE A 175 -64.99 -120.64 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 GOL B 301 DBREF 5GU4 A 1 267 UNP P02879 RICI_RICCO 36 302 DBREF 5GU4 B 1 267 UNP P02879 RICI_RICCO 36 302 DBREF 5GU4 C -1 7 PDB 5GU4 5GU4 -1 7 DBREF 5GU4 D -1 7 PDB 5GU4 5GU4 -1 7 SEQADV 5GU4 MET A -33 UNP P02879 INITIATING METHIONINE SEQADV 5GU4 GLY A -32 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER A -31 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER A -30 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS A -29 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS A -28 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS A -27 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS A -26 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS A -25 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS A -24 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER A -23 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER A -22 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY A -21 UNP P02879 EXPRESSION TAG SEQADV 5GU4 LEU A -20 UNP P02879 EXPRESSION TAG SEQADV 5GU4 VAL A -19 UNP P02879 EXPRESSION TAG SEQADV 5GU4 PRO A -18 UNP P02879 EXPRESSION TAG SEQADV 5GU4 ARG A -17 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY A -16 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER A -15 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS A -14 UNP P02879 EXPRESSION TAG SEQADV 5GU4 MET A -13 UNP P02879 EXPRESSION TAG SEQADV 5GU4 ALA A -12 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER A -11 UNP P02879 EXPRESSION TAG SEQADV 5GU4 MET A -10 UNP P02879 EXPRESSION TAG SEQADV 5GU4 THR A -9 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY A -8 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY A -7 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLN A -6 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLN A -5 UNP P02879 EXPRESSION TAG SEQADV 5GU4 MET A -4 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY A -3 UNP P02879 EXPRESSION TAG SEQADV 5GU4 ARG A -2 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY A -1 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER A 0 UNP P02879 EXPRESSION TAG SEQADV 5GU4 MET B -33 UNP P02879 INITIATING METHIONINE SEQADV 5GU4 GLY B -32 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER B -31 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER B -30 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS B -29 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS B -28 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS B -27 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS B -26 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS B -25 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS B -24 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER B -23 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER B -22 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY B -21 UNP P02879 EXPRESSION TAG SEQADV 5GU4 LEU B -20 UNP P02879 EXPRESSION TAG SEQADV 5GU4 VAL B -19 UNP P02879 EXPRESSION TAG SEQADV 5GU4 PRO B -18 UNP P02879 EXPRESSION TAG SEQADV 5GU4 ARG B -17 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY B -16 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER B -15 UNP P02879 EXPRESSION TAG SEQADV 5GU4 HIS B -14 UNP P02879 EXPRESSION TAG SEQADV 5GU4 MET B -13 UNP P02879 EXPRESSION TAG SEQADV 5GU4 ALA B -12 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER B -11 UNP P02879 EXPRESSION TAG SEQADV 5GU4 MET B -10 UNP P02879 EXPRESSION TAG SEQADV 5GU4 THR B -9 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY B -8 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY B -7 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLN B -6 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLN B -5 UNP P02879 EXPRESSION TAG SEQADV 5GU4 MET B -4 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY B -3 UNP P02879 EXPRESSION TAG SEQADV 5GU4 ARG B -2 UNP P02879 EXPRESSION TAG SEQADV 5GU4 GLY B -1 UNP P02879 EXPRESSION TAG SEQADV 5GU4 SER B 0 UNP P02879 EXPRESSION TAG SEQRES 1 A 301 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 301 LEU VAL PRO ARG GLY SER HIS MET ALA SER MET THR GLY SEQRES 3 A 301 GLY GLN GLN MET GLY ARG GLY SER ILE PHE PRO LYS GLN SEQRES 4 A 301 TYR PRO ILE ILE ASN PHE THR THR ALA GLY ALA THR VAL SEQRES 5 A 301 GLN SER TYR THR ASN PHE ILE ARG ALA VAL ARG GLY ARG SEQRES 6 A 301 LEU THR THR GLY ALA ASP VAL ARG HIS GLU ILE PRO VAL SEQRES 7 A 301 LEU PRO ASN ARG VAL GLY LEU PRO ILE ASN GLN ARG PHE SEQRES 8 A 301 ILE LEU VAL GLU LEU SER ASN HIS ALA GLU LEU SER VAL SEQRES 9 A 301 THR LEU ALA LEU ASP VAL THR ASN ALA TYR VAL VAL GLY SEQRES 10 A 301 TYR ARG ALA GLY ASN SER ALA TYR PHE PHE HIS PRO ASP SEQRES 11 A 301 ASN GLN GLU ASP ALA GLU ALA ILE THR HIS LEU PHE THR SEQRES 12 A 301 ASP VAL GLN ASN ARG TYR THR PHE ALA PHE GLY GLY ASN SEQRES 13 A 301 TYR ASP ARG LEU GLU GLN LEU ALA GLY ASN LEU ARG GLU SEQRES 14 A 301 ASN ILE GLU LEU GLY ASN GLY PRO LEU GLU GLU ALA ILE SEQRES 15 A 301 SER ALA LEU TYR TYR TYR SER THR GLY GLY THR GLN LEU SEQRES 16 A 301 PRO THR LEU ALA ARG SER PHE ILE ILE CYS ILE GLN MET SEQRES 17 A 301 ILE SER GLU ALA ALA ARG PHE GLN TYR ILE GLU GLY GLU SEQRES 18 A 301 MET ARG THR ARG ILE ARG TYR ASN ARG ARG SER ALA PRO SEQRES 19 A 301 ASP PRO SER VAL ILE THR LEU GLU ASN SER TRP GLY ARG SEQRES 20 A 301 LEU SER THR ALA ILE GLN GLU SER ASN GLN GLY ALA PHE SEQRES 21 A 301 ALA SER PRO ILE GLN LEU GLN ARG ARG ASN GLY SER LYS SEQRES 22 A 301 PHE SER VAL TYR ASP VAL SER ILE LEU ILE PRO ILE ILE SEQRES 23 A 301 ALA LEU MET VAL TYR ARG CYS ALA PRO PRO PRO SER SER SEQRES 24 A 301 GLN PHE SEQRES 1 B 301 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 301 LEU VAL PRO ARG GLY SER HIS MET ALA SER MET THR GLY SEQRES 3 B 301 GLY GLN GLN MET GLY ARG GLY SER ILE PHE PRO LYS GLN SEQRES 4 B 301 TYR PRO ILE ILE ASN PHE THR THR ALA GLY ALA THR VAL SEQRES 5 B 301 GLN SER TYR THR ASN PHE ILE ARG ALA VAL ARG GLY ARG SEQRES 6 B 301 LEU THR THR GLY ALA ASP VAL ARG HIS GLU ILE PRO VAL SEQRES 7 B 301 LEU PRO ASN ARG VAL GLY LEU PRO ILE ASN GLN ARG PHE SEQRES 8 B 301 ILE LEU VAL GLU LEU SER ASN HIS ALA GLU LEU SER VAL SEQRES 9 B 301 THR LEU ALA LEU ASP VAL THR ASN ALA TYR VAL VAL GLY SEQRES 10 B 301 TYR ARG ALA GLY ASN SER ALA TYR PHE PHE HIS PRO ASP SEQRES 11 B 301 ASN GLN GLU ASP ALA GLU ALA ILE THR HIS LEU PHE THR SEQRES 12 B 301 ASP VAL GLN ASN ARG TYR THR PHE ALA PHE GLY GLY ASN SEQRES 13 B 301 TYR ASP ARG LEU GLU GLN LEU ALA GLY ASN LEU ARG GLU SEQRES 14 B 301 ASN ILE GLU LEU GLY ASN GLY PRO LEU GLU GLU ALA ILE SEQRES 15 B 301 SER ALA LEU TYR TYR TYR SER THR GLY GLY THR GLN LEU SEQRES 16 B 301 PRO THR LEU ALA ARG SER PHE ILE ILE CYS ILE GLN MET SEQRES 17 B 301 ILE SER GLU ALA ALA ARG PHE GLN TYR ILE GLU GLY GLU SEQRES 18 B 301 MET ARG THR ARG ILE ARG TYR ASN ARG ARG SER ALA PRO SEQRES 19 B 301 ASP PRO SER VAL ILE THR LEU GLU ASN SER TRP GLY ARG SEQRES 20 B 301 LEU SER THR ALA ILE GLN GLU SER ASN GLN GLY ALA PHE SEQRES 21 B 301 ALA SER PRO ILE GLN LEU GLN ARG ARG ASN GLY SER LYS SEQRES 22 B 301 PHE SER VAL TYR ASP VAL SER ILE LEU ILE PRO ILE ILE SEQRES 23 B 301 ALA LEU MET VAL TYR ARG CYS ALA PRO PRO PRO SER SER SEQRES 24 B 301 GLN PHE SEQRES 1 C 9 ASP ASP MET GLY PHE GLY LEU PHE ASP SEQRES 1 D 9 ASP ASP MET GLY PHE GLY LEU PHE ASP HET GOL B 301 6 HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 GOL C3 H8 O3 FORMUL 6 HOH *213(H2 O) HELIX 1 AA1 THR A 17 THR A 33 1 17 HELIX 2 AA2 PRO A 52 GLN A 55 5 4 HELIX 3 AA3 ASN A 97 ILE A 104 1 8 HELIX 4 AA4 THR A 105 LEU A 107 5 3 HELIX 5 AA5 ASN A 122 GLY A 131 1 10 HELIX 6 AA6 LEU A 133 ILE A 137 5 5 HELIX 7 AA7 GLY A 140 SER A 155 1 16 HELIX 8 AA8 GLN A 160 ILE A 175 1 16 HELIX 9 AA9 ILE A 175 PHE A 181 1 7 HELIX 10 AB1 PHE A 181 TYR A 194 1 14 HELIX 11 AB2 ASP A 201 GLU A 220 1 20 HELIX 12 AB3 SER A 246 ILE A 249 5 4 HELIX 13 AB4 THR B 17 THR B 33 1 17 HELIX 14 AB5 PRO B 52 GLN B 55 5 4 HELIX 15 AB6 ASN B 97 THR B 105 1 9 HELIX 16 AB7 ASN B 122 GLY B 131 1 10 HELIX 17 AB8 LEU B 133 ILE B 137 5 5 HELIX 18 AB9 GLY B 140 SER B 155 1 16 HELIX 19 AC1 GLN B 160 PHE B 181 1 22 HELIX 20 AC2 PHE B 181 TYR B 194 1 14 HELIX 21 AC3 ASP B 201 GLU B 220 1 20 HELIX 22 AC4 SER B 246 ILE B 249 5 4 HELIX 23 AC5 GLY C 2 ASP C 7 5 6 HELIX 24 AC6 GLY D 2 ASP D 7 5 6 SHEET 1 AA1 6 ILE A 8 THR A 12 0 SHEET 2 AA1 6 PHE A 57 SER A 63 1 O LEU A 59 N ILE A 9 SHEET 3 AA1 6 SER A 69 ASP A 75 -1 O VAL A 70 N LEU A 62 SHEET 4 AA1 6 VAL A 81 ALA A 86 -1 O VAL A 82 N ALA A 73 SHEET 5 AA1 6 SER A 89 PHE A 92 -1 O TYR A 91 N TYR A 84 SHEET 6 AA1 6 ASN A 113 THR A 116 1 O ASN A 113 N ALA A 90 SHEET 1 AA2 2 VAL A 38 ARG A 39 0 SHEET 2 AA2 2 ILE A 42 PRO A 43 -1 O ILE A 42 N ARG A 39 SHEET 1 AA3 2 ALA A 225 GLN A 233 0 SHEET 2 AA3 2 LYS A 239 ASP A 244 -1 O PHE A 240 N LEU A 232 SHEET 1 AA4 6 ILE B 8 THR B 12 0 SHEET 2 AA4 6 PHE B 57 SER B 63 1 O LEU B 59 N ILE B 9 SHEET 3 AA4 6 SER B 69 ASP B 75 -1 O LEU B 72 N VAL B 60 SHEET 4 AA4 6 VAL B 81 ALA B 86 -1 O VAL B 82 N ALA B 73 SHEET 5 AA4 6 SER B 89 PHE B 92 -1 O TYR B 91 N TYR B 84 SHEET 6 AA4 6 ASN B 113 THR B 116 1 O ASN B 113 N ALA B 90 SHEET 1 AA5 2 VAL B 38 ARG B 39 0 SHEET 2 AA5 2 ILE B 42 PRO B 43 -1 O ILE B 42 N ARG B 39 SHEET 1 AA6 2 ALA B 225 GLN B 233 0 SHEET 2 AA6 2 LYS B 239 ASP B 244 -1 O PHE B 240 N LEU B 232 SITE 1 AC1 1 ASN B 195 CRYST1 67.450 59.880 67.495 90.00 99.89 90.00 P 1 21 1 4 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 0.014826 0.000000 0.002585 0.00000 SCALE2 0.000000 0.016700 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015039 0.00000