HEADER TOXIN 27-MAY-04 1TFM TITLE CRYSTAL STRUCTURE OF A RIBOSOME INACTIVATING PROTEIN IN ITS NATURALLY TITLE 2 INHIBITED FORM CAVEAT 1TFM BMA D 3 HAS WRONG CHIRALITY AT ATOM C3 NAG A 241 HAS WRONG CAVEAT 2 1TFM CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIMALAYAN MISTLETOE RIBOSOME-INACTIVATING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 MOL_ID: 2; COMPND 5 MOLECULE: HIMALAYAN MISTLETOE RIBOSOME-INACTIVATING PROTEIN; COMPND 6 CHAIN: B SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VISCUM ALBUM; SOURCE 3 ORGANISM_COMMON: EUROPEAN MISTLETOE; SOURCE 4 ORGANISM_TAXID: 3972; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: VISCUM ALBUM; SOURCE 7 ORGANISM_COMMON: EUROPEAN MISTLETOE; SOURCE 8 ORGANISM_TAXID: 3972 KEYWDS PROTEIN-INHIBITOR COMPLEX, BETA TREFOIL, RIBOSOME INACTIVATING KEYWDS 2 PROTEIN, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR V.MISHRA,S.BILGRAMI,M.PARAMASIVAM,S.YADAV,R.S.SHARMA,P.KAUR, AUTHOR 2 A.SRINIVASAN,C.R.BABU,T.P.SINGH REVDAT 5 23-AUG-23 1TFM 1 HETSYN REVDAT 4 29-JUL-20 1TFM 1 CAVEAT COMPND REMARK HETNAM REVDAT 4 2 1 LINK SITE ATOM REVDAT 3 13-JUL-11 1TFM 1 VERSN REVDAT 2 24-FEB-09 1TFM 1 VERSN REVDAT 1 13-JUL-04 1TFM 0 JRNL AUTH V.MISHRA,S.BILGRAMI,M.PARAMASIVAM,S.YADAV,R.S.SHARMA,P.KAUR, JRNL AUTH 2 A.SRINIVASAN,C.R.BABU,T.P.SINGH JRNL TITL CRYSTAL STRUCTURE OF A RIBOSOME INACTIVATING PROTEIN IN ITS JRNL TITL 2 NATURALLY INHIBITED FORM JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.19 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 26570 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) : 0.240 REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.289 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1301 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1769 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2940 REMARK 3 BIN FREE R VALUE SET COUNT : 84 REMARK 3 BIN FREE R VALUE : 0.3450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3813 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 182 REMARK 3 SOLVENT ATOMS : 106 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 91.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.43000 REMARK 3 B22 (A**2) : 5.43000 REMARK 3 B33 (A**2) : -8.15000 REMARK 3 B12 (A**2) : 2.72000 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): 0.496 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.342 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.260 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.157 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.894 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4089 ; 0.010 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5589 ; 1.716 ; 1.990 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 493 ;10.107 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 658 ; 0.300 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3057 ; 0.023 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2019 ; 0.320 ; 0.200 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): 199 ; 0.269 ; 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): 23 ; 0.265 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 3 ; 0.558 ; 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): 2448 ; 2.272 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3951 ; 3.951 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1641 ; 7.449 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1638 ;10.549 ; 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 1 A 239 REMARK 3 ORIGIN FOR THE GROUP (A): 48.4720 57.1850 19.7780 REMARK 3 T TENSOR REMARK 3 T11: 0.2269 T22: 0.7291 REMARK 3 T33: 0.3089 T12: 0.0736 REMARK 3 T13: 0.0523 T23: -0.0849 REMARK 3 L TENSOR REMARK 3 L11: 2.7605 L22: 2.3752 REMARK 3 L33: 2.1314 L12: -1.6330 REMARK 3 L13: -1.5165 L23: 1.3158 REMARK 3 S TENSOR REMARK 3 S11: -0.2095 S12: -0.4028 S13: 0.2066 REMARK 3 S21: 0.1609 S22: 0.2941 S23: -0.0845 REMARK 3 S31: -0.1344 S32: 0.2592 S33: -0.0846 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 : B 1 B 255 REMARK 3 ORIGIN FOR THE GROUP (A): 59.0340 49.5400 -11.3920 REMARK 3 T TENSOR REMARK 3 T11: 0.0850 T22: 0.4648 REMARK 3 T33: 0.2150 T12: -0.1578 REMARK 3 T13: 0.0995 T23: -0.0544 REMARK 3 L TENSOR REMARK 3 L11: 2.8873 L22: 2.5901 REMARK 3 L33: 2.4341 L12: -1.4960 REMARK 3 L13: -0.8470 L23: 0.7699 REMARK 3 S TENSOR REMARK 3 S11: 0.0594 S12: -0.2306 S13: 0.0385 REMARK 3 S21: -0.0189 S22: 0.0664 S23: 0.2385 REMARK 3 S31: -0.2174 S32: -0.2845 S33: -0.1259 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 1TFM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAY-04. REMARK 100 THE DEPOSITION ID IS D_1000022607. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-APR-01 REMARK 200 TEMPERATURE (KELVIN) : 273 REMARK 200 PH : 4.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X11 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8453 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE 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 : 26570 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 200 DATA REDUNDANCY : 42.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.05700 REMARK 200 FOR THE DATA SET : 33.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.43300 REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MIR REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1PC8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NACL,AMMONIUM SULPHATE, DIOXANE, PH REMARK 280 4.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 206.53200 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 103.26600 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 154.89900 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 51.63300 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 258.16500 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 206.53200 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 103.26600 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 51.63300 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 154.89900 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 258.16500 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: 5660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 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 PHE A 18 C ARG A 19 N 0.166 REMARK 500 GLY A 92 C THR A 93 N 0.228 REMARK 500 LEU A 95 C LEU A 95 O 0.258 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 LEU A 6 CA - CB - CG ANGL. DEV. = 13.9 DEGREES REMARK 500 TYR A 17 O - C - N ANGL. DEV. = -12.3 DEGREES REMARK 500 LEU A 88 CA - CB - CG ANGL. DEV. = 14.2 DEGREES REMARK 500 LEU A 95 O - C - N ANGL. DEV. = -10.6 DEGREES REMARK 500 ILE A 131 CB - CG1 - CD1 ANGL. DEV. = 54.6 DEGREES REMARK 500 ASN A 142 CA - C - N ANGL. DEV. = -17.8 DEGREES REMARK 500 ASN A 142 O - C - N ANGL. DEV. = 10.3 DEGREES REMARK 500 ASP B 51 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 GLN B 165 CA - C - N ANGL. DEV. = 13.5 DEGREES REMARK 500 ASP B 167 CB - CG - OD2 ANGL. DEV. = 5.5 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 2 27.25 -144.72 REMARK 500 ARG A 3 95.92 72.02 REMARK 500 SER A 10 -136.63 -135.77 REMARK 500 GLU A 36 -5.09 86.44 REMARK 500 GLU A 48 -130.35 -104.64 REMARK 500 ASP A 70 105.16 -54.88 REMARK 500 ASN A 73 12.96 -151.79 REMARK 500 LEU A 74 11.72 59.41 REMARK 500 ALA A 81 -96.07 -109.93 REMARK 500 LEU A 88 -167.72 -76.55 REMARK 500 PRO A 91 -103.57 -54.38 REMARK 500 THR A 93 -156.31 71.38 REMARK 500 HIS A 94 -146.21 67.44 REMARK 500 LEU A 95 -26.86 84.46 REMARK 500 PHE A 96 58.03 -141.71 REMARK 500 THR A 97 158.90 -40.24 REMARK 500 TYR A 110 -91.89 -34.28 REMARK 500 GLN A 122 27.64 -148.94 REMARK 500 PHE A 139 -165.98 -120.18 REMARK 500 PRO A 140 150.79 -35.38 REMARK 500 THR A 143 -79.98 7.02 REMARK 500 ILE A 157 -67.46 -127.38 REMARK 500 THR A 204 -113.76 -69.24 REMARK 500 GLU A 205 45.96 -82.12 REMARK 500 PRO A 217 73.50 16.63 REMARK 500 VAL A 221 104.48 -178.70 REMARK 500 ILE A 235 121.99 174.95 REMARK 500 ARG B 13 129.80 -28.22 REMARK 500 ASN B 14 11.16 53.71 REMARK 500 ASN B 39 -153.65 -179.72 REMARK 500 ASN B 57 37.00 34.59 REMARK 500 LYS B 111 126.06 -36.60 REMARK 500 ASP B 121 -4.39 -141.09 REMARK 500 PHE B 144 123.11 -13.90 REMARK 500 GLN B 165 -52.64 24.35 REMARK 500 GLN B 183 21.52 -79.68 REMARK 500 SER B 193 -94.89 -104.61 REMARK 500 VAL B 194 32.94 -159.74 REMARK 500 ILE B 197 119.19 61.42 REMARK 500 SER B 207 -47.19 -24.90 REMARK 500 GLU B 216 31.56 -87.52 REMARK 500 ASN B 232 175.09 176.95 REMARK 500 PRO B 233 11.93 -56.55 REMARK 500 LEU B 235 -71.83 -123.02 REMARK 500 ALA B 243 101.83 -55.34 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 90 PRO A 91 -142.10 REMARK 500 ASN B 232 PRO B 233 147.14 REMARK 500 LEU B 235 GLY B 236 137.23 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 PHE A 18 0.09 SIDE CHAIN REMARK 500 TYR B 66 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LEU A 95 -26.37 REMARK 500 ASN A 142 -11.97 REMARK 500 PRO A 217 -10.08 REMARK 500 ALA B 80 -11.45 REMARK 500 LEU B 129 11.47 REMARK 500 GLN B 164 -12.93 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 GAL B 267 DBREF 1TFM A 1 240 GB 47716663 AAT37532 1 240 DBREF 1TFM B 1 255 GB 47716663 AAT37532 266 520 SEQRES 1 A 240 TYR GLU ARG LEU ASP LEU ASP VAL THR SER GLN THR THR SEQRES 2 A 240 GLY GLU GLU TYR PHE ARG PHE ILE THR LEU LEU ARG ASP SEQRES 3 A 240 TYR VAL SER SER GLY SER PHE SER ASN GLU ILE PRO LEU SEQRES 4 A 240 LEU ARG GLN SER GLY GLY GLY VAL GLU ALA ALA ARG PHE SEQRES 5 A 240 VAL LEU VAL GLU LEU THR ASN GLU GLY GLY ASP SER ILE SEQRES 6 A 240 THR ALA ALA ILE ASP VAL THR ASN LEU TYR VAL VAL ALA SEQRES 7 A 240 TYR GLN ALA GLY SER GLN SER TYR PHE LEU SER GLY PRO SEQRES 8 A 240 GLY THR HIS LEU PHE THR GLY THR THR ARG SER SER LEU SEQRES 9 A 240 PRO PHE ASN GLY SER TYR PRO ASP LEU GLU GLN TYR ALA SEQRES 10 A 240 GLY HIS ARG LYS GLN ILE PRO LEU GLY ILE ASP GLN LEU SEQRES 11 A 240 ILE GLN SER VAL THR ALA LEU ARG PHE PRO GLY ASN THR SEQRES 12 A 240 ARG THR GLN ALA ARG SER ILE LEU ILE LEU ILE GLN MET SEQRES 13 A 240 ILE SER GLU ALA ALA ARG PHE ASN PRO ILE LEU TRP ARG SEQRES 14 A 240 ALA ARG GLN TYR ILE ASN SER GLY ALA SER PHE LEU PRO SEQRES 15 A 240 ASP VAL TYR MET LEU GLU LEU GLU THR SER TRP GLY GLN SEQRES 16 A 240 GLN SER THR GLN VAL GLN GLN SER THR GLU GLY VAL PHE SEQRES 17 A 240 ASN ASN PRO ILE ARG LEU ALA ILE PRO GLY ASN PHE VAL SEQRES 18 A 240 THR LEU THR ASN VAL ARG ASP VAL ILE ALA SER LEU ALA SEQRES 19 A 240 ILE MET LEU PHE VAL CYS SEQRES 1 B 255 CYS SER ALA SER GLU PRO THR VAL ARG ILE VAL GLY ARG SEQRES 2 B 255 ASN GLY MET ASN VAL ASP VAL ARG ASP ASP ASP PHE HIS SEQRES 3 B 255 ASP GLY ASN GLN ILE GLN LEU TRP PRO SER LYS SER ASN SEQRES 4 B 255 ASN ASP PRO ASN GLN LEU TRP THR ILE LYS ARG ASP GLY SEQRES 5 B 255 THR ILE ARG SER ASN GLY SER CYS LEU THR THR TYR GLY SEQRES 6 B 255 TYR THR ALA GLY VAL TYR VAL MET ILE PHE ASP CYS ASN SEQRES 7 B 255 THR ALA VAL ARG GLU ALA THR ILE TRP GLN ILE TRP GLY SEQRES 8 B 255 ASN GLY THR ILE ILE ASN PRO ARG SER ASN LEU ALA LEU SEQRES 9 B 255 ALA ALA SER SER GLY ILE LYS GLY THR THR LEU THR VAL SEQRES 10 B 255 GLN THR LEU ASP TYR THR LEU GLY GLN GLY TRP LEU ALA SEQRES 11 B 255 GLY ASN ASP THR ALA PRO ARG GLU VAL THR ILE TYR GLY SEQRES 12 B 255 PHE ASN ASP LEU CYS MET GLU SER ASN GLY GLY SER VAL SEQRES 13 B 255 TRP VAL GLU THR CYS VAL SER GLN GLN ASN ASP ARG TRP SEQRES 14 B 255 ALA LEU TYR GLY ASP GLY SER ILE ARG PRO GLU GLN ASN SEQRES 15 B 255 GLN ASP GLN CYS LEU THR SER GLY ARG ASP SER VAL ALA SEQRES 16 B 255 GLY ILE ASN ILE VAL SER CYS SER GLY GLY SER SER GLY SEQRES 17 B 255 GLN ARG TRP VAL PHE THR ASN GLU GLY ALA ILE LEU ASN SEQRES 18 B 255 LEU LYS ASN GLY LEU ALA MET ASP VAL ALA ASN PRO GLY SEQRES 19 B 255 LEU GLY GLN ILE ILE ILE TYR PRO ALA THR GLY LYS PRO SEQRES 20 B 255 ASN GLN MET TRP LEU PRO VAL PRO MODRES 1TFM ASN A 107 ASN GLYCOSYLATION SITE MODRES 1TFM ASN B 57 ASN GLYCOSYLATION SITE MODRES 1TFM ASN B 92 ASN GLYCOSYLATION SITE MODRES 1TFM ASN B 132 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET NAG D 1 14 HET NAG D 2 14 HET BMA D 3 11 HET BMA D 4 11 HET NAG E 1 14 HET NAG E 2 14 HET BMA E 3 11 HET BGC F 1 12 HET GAL F 2 11 HET NAG A 241 14 HET P6C A 242 17 HET GAL B 267 11 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM BGC BETA-D-GLUCOPYRANOSE HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM P6C 2-AMINO-4-ISOPROPYL-PTERIDINE-6-CARBOXYLIC ACID HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN BGC BETA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE FORMUL 3 NAG 7(C8 H15 N O6) FORMUL 4 BMA 3(C6 H12 O6) FORMUL 6 BGC C6 H12 O6 FORMUL 6 GAL 2(C6 H12 O6) FORMUL 8 P6C C10 H11 N5 O2 FORMUL 10 HOH *106(H2 O) HELIX 1 1 THR A 13 VAL A 28 1 16 HELIX 2 2 SER A 109 GLY A 118 1 10 HELIX 3 3 HIS A 119 ILE A 123 5 5 HELIX 4 4 GLY A 126 PHE A 139 1 14 HELIX 5 5 THR A 143 ILE A 157 1 15 HELIX 6 6 ILE A 157 PHE A 163 1 7 HELIX 7 7 PHE A 163 GLY A 177 1 15 HELIX 8 8 ASP A 183 THR A 191 1 9 HELIX 9 9 SER A 192 SER A 203 1 12 HELIX 10 10 ARG A 227 VAL A 229 5 3 HELIX 11 11 GLY B 12 MET B 16 5 5 HELIX 12 12 ASP B 22 ASP B 24 5 3 HELIX 13 13 ASP B 41 LEU B 45 5 5 HELIX 14 14 VAL B 81 ILE B 86 5 6 HELIX 15 15 THR B 123 GLY B 127 5 5 HELIX 16 16 SER B 206 GLN B 209 5 4 HELIX 17 17 LYS B 246 GLN B 249 5 4 SHEET 1 A 5 LEU A 4 THR A 9 0 SHEET 2 A 5 PHE A 52 ASN A 59 1 O GLU A 56 N ASP A 5 SHEET 3 A 5 SER A 64 ASP A 70 -1 O ALA A 67 N VAL A 55 SHEET 4 A 5 VAL A 76 GLN A 80 -1 O VAL A 77 N ALA A 68 SHEET 5 A 5 SER A 85 PHE A 87 -1 O TYR A 86 N TYR A 79 SHEET 1 B 2 SER A 29 SER A 34 0 SHEET 2 B 2 ILE A 37 LEU A 40 -1 O ILE A 37 N SER A 34 SHEET 1 C 2 VAL A 207 ARG A 213 0 SHEET 2 C 2 THR A 222 ASN A 225 -1 O LEU A 223 N ILE A 212 SHEET 1 D 5 THR B 7 VAL B 8 0 SHEET 2 D 5 TRP B 46 ILE B 48 -1 O TRP B 46 N VAL B 8 SHEET 3 D 5 ILE B 54 SER B 56 -1 O ARG B 55 N THR B 47 SHEET 4 D 5 SER B 59 THR B 63 -1 O LEU B 61 N ILE B 54 SHEET 5 D 5 VAL B 72 PHE B 75 -1 O MET B 73 N THR B 62 SHEET 1 E 2 ILE B 10 VAL B 11 0 SHEET 2 E 2 LEU B 129 ALA B 130 -1 O LEU B 129 N VAL B 11 SHEET 1 F 2 ASN B 17 VAL B 20 0 SHEET 2 F 2 ILE B 31 TRP B 34 -1 O GLN B 32 N ASP B 19 SHEET 1 G 4 GLN B 88 ILE B 89 0 SHEET 2 G 4 ILE B 95 ASN B 97 -1 O ILE B 96 N GLN B 88 SHEET 3 G 4 LEU B 102 ALA B 105 -1 O LEU B 102 N ASN B 97 SHEET 4 G 4 THR B 116 GLN B 118 -1 O GLN B 118 N ALA B 103 SHEET 1 H 5 SER B 155 THR B 160 0 SHEET 2 H 5 LEU B 147 ASN B 152 -1 N CYS B 148 O GLU B 159 SHEET 3 H 5 ARG B 137 GLY B 143 -1 N GLY B 143 O LEU B 147 SHEET 4 H 5 ARG B 168 LEU B 171 -1 O LEU B 171 N ARG B 137 SHEET 5 H 5 ILE B 177 PRO B 179 -1 O ARG B 178 N ALA B 170 SHEET 1 I 4 SER B 155 THR B 160 0 SHEET 2 I 4 LEU B 147 ASN B 152 -1 N CYS B 148 O GLU B 159 SHEET 3 I 4 ARG B 137 GLY B 143 -1 N GLY B 143 O LEU B 147 SHEET 4 I 4 TRP B 251 VAL B 254 -1 O LEU B 252 N TYR B 142 SHEET 1 J 2 GLN B 185 THR B 188 0 SHEET 2 J 2 ASN B 198 SER B 201 -1 O ASN B 198 N THR B 188 SHEET 1 K 2 TRP B 211 PHE B 213 0 SHEET 2 K 2 ILE B 219 ASN B 221 -1 O LEU B 220 N VAL B 212 SHEET 1 L 2 ALA B 227 VAL B 230 0 SHEET 2 L 2 ILE B 238 TYR B 241 -1 O ILE B 239 N ASP B 229 SSBOND 1 CYS A 240 CYS B 1 1555 1555 2.05 SSBOND 2 CYS B 60 CYS B 77 1555 1555 2.05 SSBOND 3 CYS B 148 CYS B 161 1555 1555 2.06 SSBOND 4 CYS B 186 CYS B 202 1555 1555 2.04 LINK ND2 ASN A 107 C1 NAG A 241 1555 1555 1.42 LINK ND2 ASN B 57 C1 NAG E 1 1555 1555 1.46 LINK ND2 ASN B 92 C1 NAG C 1 1555 1555 1.45 LINK ND2 ASN B 132 C1 NAG D 1 1555 1555 1.44 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.46 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.44 LINK O4 NAG D 2 C1 BMA D 3 1555 1555 1.45 LINK O3 BMA D 3 C1 BMA D 4 1555 1555 1.45 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.45 LINK O4 NAG E 2 C1 BMA E 3 1555 1555 1.46 LINK O4 BGC F 1 C1 GAL F 2 1555 1555 1.45 CRYST1 109.422 109.422 309.798 90.00 90.00 120.00 P 65 2 2 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009139 0.005276 0.000000 0.00000 SCALE2 0.000000 0.010553 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003228 0.00000