HEADER HYDROLASE 18-SEP-07 2VC3 TITLE RICIN A-CHAIN (RECOMBINANT) E177D MUTANT WITH A BOUND ACETATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RICIN A CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 36-302; COMPND 5 SYNONYM: RICIN, RRNA N-GLYCOSIDASE; COMPND 6 EC: 3.2.2.22; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: 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 EXPRESSION_SYSTEM_STRAIN: JM101 KEYWDS GLYCOPROTEIN, PLANT DEFENSE, PROTEIN SYNTHESIS INHIBITOR, TOXIN, KEYWDS 2 LECTIN, HYDROLASE, GLYCOSIDASE EXPDTA X-RAY DIFFRACTION AUTHOR C.J.MARSDEN,V.FULOP REVDAT 5 13-DEC-23 2VC3 1 REMARK REVDAT 4 13-JUL-11 2VC3 1 VERSN REVDAT 3 24-FEB-09 2VC3 1 VERSN REVDAT 2 06-NOV-07 2VC3 1 JRNL REVDAT 1 16-OCT-07 2VC3 0 JRNL AUTH S.C.H.ALLEN,K.A.H.MOORE,C.J.MARSDEN,V.FULOP,K.G.MOFFAT, JRNL AUTH 2 J.M.LORD,G.LADDS,L.M.ROBERTS JRNL TITL THE ISOLATION AND CHARACTERISATION OF TEMPERATURE-DEPENDENT JRNL TITL 2 RICIN A CHAIN MOLECULES IN SACCHAROMYCES CEREVISIAE JRNL REF FEBS J. V. 274 5586 2007 JRNL REFN ISSN 1742-464X JRNL PMID 17916187 JRNL DOI 10.1111/J.1742-4658.2007.06080.X REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.62 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 42077 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) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1779 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2928 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3230 REMARK 3 BIN FREE R VALUE SET COUNT : 108 REMARK 3 BIN FREE R VALUE : 0.3720 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2078 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 14 REMARK 3 SOLVENT ATOMS : 467 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 18.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.27 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.42000 REMARK 3 B22 (A**2) : 0.42000 REMARK 3 B33 (A**2) : -0.83000 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): 0.081 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.084 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.050 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.779 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2135 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2907 ; 1.545 ; 1.955 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 262 ; 5.302 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 107 ;34.647 ;23.084 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 331 ;13.332 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;23.138 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 322 ; 0.110 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1670 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 991 ; 0.205 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1514 ; 0.310 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 270 ; 0.131 ; 0.200 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): 51 ; 0.204 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 33 ; 0.134 ; 0.200 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): 1341 ; 1.062 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2126 ; 1.665 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 884 ; 2.965 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 781 ; 4.682 ; 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 5 A 118 REMARK 3 ORIGIN FOR THE GROUP (A): 68.4260 -21.0770 97.5550 REMARK 3 T TENSOR REMARK 3 T11: -0.0139 T22: -0.0191 REMARK 3 T33: -0.0293 T12: 0.0116 REMARK 3 T13: -0.0005 T23: -0.0002 REMARK 3 L TENSOR REMARK 3 L11: 0.4585 L22: 0.5067 REMARK 3 L33: 0.4368 L12: -0.2199 REMARK 3 L13: -0.1144 L23: 0.1473 REMARK 3 S TENSOR REMARK 3 S11: -0.0451 S12: 0.0229 S13: 0.0041 REMARK 3 S21: 0.0853 S22: 0.0274 S23: -0.0649 REMARK 3 S31: 0.0260 S32: 0.0927 S33: 0.0177 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 119 A 267 REMARK 3 ORIGIN FOR THE GROUP (A): 53.2430 -17.2760 93.8670 REMARK 3 T TENSOR REMARK 3 T11: -0.0227 T22: -0.0290 REMARK 3 T33: -0.0114 T12: -0.0086 REMARK 3 T13: 0.0140 T23: 0.0013 REMARK 3 L TENSOR REMARK 3 L11: 0.2130 L22: 0.4496 REMARK 3 L33: 0.9472 L12: -0.1171 REMARK 3 L13: 0.1988 L23: 0.1299 REMARK 3 S TENSOR REMARK 3 S11: -0.0240 S12: -0.0053 S13: 0.0109 REMARK 3 S21: 0.0433 S22: -0.0097 S23: 0.0733 REMARK 3 S31: 0.0431 S32: -0.0667 S33: 0.0337 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. REMARK 4 REMARK 4 2VC3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-SEP-07. REMARK 100 THE DEPOSITION ID IS D_1290033843. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAY-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43856 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 28.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 42.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.08000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 9.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CCP4 REMARK 200 STARTING MODEL: PDB ENTRY 1IFT REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 4.2 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 70.60000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 33.85000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 33.85000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 35.30000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 33.85000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 33.85000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 105.90000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 33.85000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 33.85000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 35.30000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 33.85000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 33.85000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 105.90000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 70.60000 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: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 2150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29120 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 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 0.000000 1.000000 0.000000 67.70000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 -67.70000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 141.20000 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 A2012 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2225 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2435 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, GLU 212 TO ASP 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 ILE A 1 REMARK 465 PHE A 2 REMARK 465 PRO A 3 REMARK 465 LYS A 4 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 OG1 THR A 206 O HOH A 2383 2.15 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 41 -3.18 79.51 REMARK 500 ASN A 195 55.03 39.27 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 A2026 DISTANCE = 6.62 ANGSTROMS REMARK 525 HOH A2059 DISTANCE = 6.77 ANGSTROMS REMARK 525 HOH A2061 DISTANCE = 6.35 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A1268 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1269 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1270 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1APG RELATED DB: PDB REMARK 900 RICIN (A CHAIN) COMPLEX WITH ADENYL(3'-->5 ')GUANOSINE (APG) REMARK 900 RELATED ID: 1BR5 RELATED DB: PDB REMARK 900 RICIN A CHAIN (RECOMBINANT) COMPLEX WITH NEOPTERIN REMARK 900 RELATED ID: 1BR6 RELATED DB: PDB REMARK 900 RICIN A CHAIN (RECOMBINANT) COMPLEX WITH PTEROIC ACID REMARK 900 RELATED ID: 1J1M RELATED DB: PDB REMARK 900 RICIN A-CHAIN (RECOMBINANT) AT 100K REMARK 900 RELATED ID: 1OBS RELATED DB: PDB REMARK 900 STRUCTURE OF RICIN A CHAIN MUTANT REMARK 900 RELATED ID: 1OBT RELATED DB: PDB REMARK 900 STRUCTURE OF RICIN A CHAIN MUTANT, COMPLEX WITH AMP REMARK 900 RELATED ID: 1UQ4 RELATED DB: PDB REMARK 900 RICIN A-CHAIN (RECOMBINANT) R213D MUTANT REMARK 900 RELATED ID: 1ZAM RELATED DB: PDB REMARK 900 RICIN A-CHAIN (RECOMBINANT) COMPLEX WITH UREA REMARK 900 RELATED ID: 1ZB2 RELATED DB: PDB REMARK 900 RICIN A-CHAIN (RECOMBINANT) COMPLEX WITH ACETAMIDE REMARK 900 RELATED ID: 2AAI RELATED DB: PDB REMARK 900 RICIN REMARK 900 RELATED ID: 1FMP RELATED DB: PDB REMARK 900 RICIN COMPLEX WITH FORMYCIN-5'-MONOPHOSPHATE REMARK 900 RELATED ID: 1IFS RELATED DB: PDB REMARK 900 RICIN A-CHAIN (RECOMBINANT) COMPLEX WITH ADENOSINE (ADENOSINE REMARK 900 BECOMES ADENINE IN THE COMPLEX) REMARK 900 RELATED ID: 1IFT RELATED DB: PDB REMARK 900 RICIN A-CHAIN (RECOMBINANT) REMARK 900 RELATED ID: 1IFU RELATED DB: PDB REMARK 900 RICIN A-CHAIN (RECOMBINANT) COMPLEX WITH FORMYCIN REMARK 900 RELATED ID: 1IL3 RELATED DB: PDB REMARK 900 STRUCTURE OF RICIN A CHAIN BOUND WITH INHIBITOR 7-DEAZAGUANINE REMARK 900 RELATED ID: 1IL4 RELATED DB: PDB REMARK 900 STRUCTURE OF RICIN A CHAIN BOUND WITH INHIBITOR 9-DEAZAGUANINE REMARK 900 RELATED ID: 1IL5 RELATED DB: PDB REMARK 900 STRUCTURE OF RICIN A CHAIN BOUND WITH INHIBITOR 2,5-DIAMINO-4,6- REMARK 900 DIHYDROXYPYRIMIDINE (DDP) REMARK 900 RELATED ID: 1IL9 RELATED DB: PDB REMARK 900 STRUCTURE OF RICIN A CHAIN BOUND WITH INHIBITOR 8-METHYL-9- REMARK 900 OXOGUANINE REMARK 900 RELATED ID: 1RTC RELATED DB: PDB REMARK 900 RICIN A CHAIN REMARK 900 RELATED ID: 1UQ5 RELATED DB: PDB REMARK 900 RICIN A-CHAIN (RECOMBINANT) N122A MUTANT REMARK 900 RELATED ID: 1ZB0 RELATED DB: PDB REMARK 900 RICIN A-CHAIN (RECOMBINANT) COMPLEX WITH N- METHYLUREA REMARK 900 RELATED ID: 2VC4 RELATED DB: PDB REMARK 900 RICIN A-CHAIN (RECOMBINANT) E177D MUTANT DBREF 2VC3 A 1 267 UNP P02879 RICI_RICCO 36 302 SEQADV 2VC3 ASP A 177 UNP P02879 GLU 212 ENGINEERED MUTATION SEQRES 1 A 267 ILE PHE PRO LYS GLN TYR PRO ILE ILE ASN PHE THR THR SEQRES 2 A 267 ALA GLY ALA THR VAL GLN SER TYR THR ASN PHE ILE ARG SEQRES 3 A 267 ALA VAL ARG GLY ARG LEU THR THR GLY ALA ASP VAL ARG SEQRES 4 A 267 HIS GLU ILE PRO VAL LEU PRO ASN ARG VAL GLY LEU PRO SEQRES 5 A 267 ILE ASN GLN ARG PHE ILE LEU VAL GLU LEU SER ASN HIS SEQRES 6 A 267 ALA GLU LEU SER VAL THR LEU ALA LEU ASP VAL THR ASN SEQRES 7 A 267 ALA TYR VAL VAL GLY TYR ARG ALA GLY ASN SER ALA TYR SEQRES 8 A 267 PHE PHE HIS PRO ASP ASN GLN GLU ASP ALA GLU ALA ILE SEQRES 9 A 267 THR HIS LEU PHE THR ASP VAL GLN ASN ARG TYR THR PHE SEQRES 10 A 267 ALA PHE GLY GLY ASN TYR ASP ARG LEU GLU GLN LEU ALA SEQRES 11 A 267 GLY ASN LEU ARG GLU ASN ILE GLU LEU GLY ASN GLY PRO SEQRES 12 A 267 LEU GLU GLU ALA ILE SER ALA LEU TYR TYR TYR SER THR SEQRES 13 A 267 GLY GLY THR GLN LEU PRO THR LEU ALA ARG SER PHE ILE SEQRES 14 A 267 ILE CYS ILE GLN MET ILE SER ASP ALA ALA ARG PHE GLN SEQRES 15 A 267 TYR ILE GLU GLY GLU MET ARG THR ARG ILE ARG TYR ASN SEQRES 16 A 267 ARG ARG SER ALA PRO ASP PRO SER VAL ILE THR LEU GLU SEQRES 17 A 267 ASN SER TRP GLY ARG LEU SER THR ALA ILE GLN GLU SER SEQRES 18 A 267 ASN GLN GLY ALA PHE ALA SER PRO ILE GLN LEU GLN ARG SEQRES 19 A 267 ARG ASN GLY SER LYS PHE SER VAL TYR ASP VAL SER ILE SEQRES 20 A 267 LEU ILE PRO ILE ILE ALA LEU MET VAL TYR ARG CYS ALA SEQRES 21 A 267 PRO PRO PRO SER SER GLN PHE HET ACT A1268 4 HET SO4 A1269 5 HET SO4 A1270 5 HETNAM ACT ACETATE ION HETNAM SO4 SULFATE ION FORMUL 2 ACT C2 H3 O2 1- FORMUL 3 SO4 2(O4 S 2-) FORMUL 5 HOH *467(H2 O) HELIX 1 1 THR A 17 THR A 33 1 17 HELIX 2 2 PRO A 52 GLN A 55 5 4 HELIX 3 3 ASN A 97 THR A 105 1 9 HELIX 4 4 ASN A 122 GLY A 131 1 10 HELIX 5 5 LEU A 133 ILE A 137 5 5 HELIX 6 6 GLY A 140 TYR A 154 1 15 HELIX 7 7 SER A 155 GLY A 157 5 3 HELIX 8 8 GLN A 160 ASN A 195 1 36 HELIX 9 9 ASP A 201 SER A 221 1 21 HELIX 10 10 SER A 246 ILE A 249 5 4 SHEET 1 AA 6 ILE A 8 THR A 12 0 SHEET 2 AA 6 PHE A 57 SER A 63 1 O LEU A 59 N ILE A 9 SHEET 3 AA 6 SER A 69 ASP A 75 -1 O VAL A 70 N LEU A 62 SHEET 4 AA 6 VAL A 81 ALA A 86 -1 N VAL A 82 O ALA A 73 SHEET 5 AA 6 SER A 89 PHE A 92 -1 O SER A 89 N ALA A 86 SHEET 6 AA 6 ASN A 113 THR A 116 1 O ASN A 113 N ALA A 90 SHEET 1 AB 2 VAL A 38 ARG A 39 0 SHEET 2 AB 2 ILE A 42 PRO A 43 -1 O ILE A 42 N ARG A 39 SHEET 1 AC 2 ALA A 225 GLN A 233 0 SHEET 2 AC 2 LYS A 239 ASP A 244 -1 O PHE A 240 N LEU A 232 SITE 1 AC1 8 TYR A 80 GLY A 121 TYR A 123 ILE A 172 SITE 2 AC1 8 ARG A 180 HOH A2283 HOH A2459 HOH A2460 SITE 1 AC2 9 PHE A 119 GLY A 120 ASN A 122 ARG A 125 SITE 2 AC2 9 HOH A2230 HOH A2282 HOH A2461 HOH A2462 SITE 3 AC2 9 HOH A2463 SITE 1 AC3 6 THR A 17 GLN A 19 HIS A 65 HOH A2465 SITE 2 AC3 6 HOH A2466 HOH A2467 CRYST1 67.700 67.700 141.200 90.00 90.00 90.00 P 41 21 2 8 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 0.014771 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014771 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007082 0.00000