HEADER IMMUNE SYSTEM 22-SEP-15 5DWF TITLE CRYSTAL STRUCTURE OF THE COMPLEX OF PEPTIDOGLYCAN RECOGNITION PROTEIN, TITLE 2 PGRP-S FROM CAMEL WITH ETHYLENE GLYCOL AT 1.83 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDOGLYCAN RECOGNITION PROTEIN 1; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 28-193; COMPND 5 SYNONYM: PEPTIDOGLYCAN RECOGNITION PROTEIN SHORT,PGRP-S; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAMELUS DROMEDARIUS; SOURCE 3 ORGANISM_COMMON: CAMEL; SOURCE 4 ORGANISM_TAXID: 9838; SOURCE 5 GENE: PGLYRP1, PGLYRP, PGRP; SOURCE 6 EXPRESSION_SYSTEM: CAMELUS DROMEDARIUS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: CAMEL; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9838 KEYWDS PGRP, COMPLEX, ETHYLENE GLYCOL, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR P.K.SINGH,S.P.YADAV,P.SHARMA,P.KAUR,S.SHARMA,T.P.SINGH REVDAT 2 08-NOV-23 5DWF 1 REMARK REVDAT 1 14-OCT-15 5DWF 0 JRNL AUTH P.K.SINGH,S.P.YADAV,P.SHARMA,P.KAUR,S.SHARMA,T.P.SINGH JRNL TITL CRYSTAL STRUCTURE OF THE COMPLEX OF PEPTIDOGLYCAN JRNL TITL 2 RECOGNITION PROTEIN, PGRP-S FROM CAMEL WITH ETHYLENE GLYCOL JRNL TITL 3 AT 1.83 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.83 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 1.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 63338 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) : 0.274 REMARK 3 R VALUE (WORKING SET) : 0.273 REMARK 3 FREE R VALUE : 0.324 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1288 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) : 1.83 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.88 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4538 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.75 REMARK 3 BIN R VALUE (WORKING SET) : 0.4330 REMARK 3 BIN FREE R VALUE SET COUNT : 103 REMARK 3 BIN FREE R VALUE : 0.4680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5203 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 253 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.78 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.20000 REMARK 3 B22 (A**2) : -2.58000 REMARK 3 B33 (A**2) : 0.38000 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): 0.184 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.176 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.213 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.017 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.931 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.907 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5375 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4978 ; 0.008 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7311 ; 1.591 ; 1.926 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11350 ; 1.418 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 660 ; 7.155 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 260 ;37.728 ;21.846 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 804 ;13.752 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 64 ;14.699 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 759 ; 0.089 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6200 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1388 ; 0.008 ; 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): 2652 ; 2.940 ; 3.176 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2651 ; 2.939 ; 3.175 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3308 ; 4.256 ; 4.748 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 6 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 6 171 B 6 171 9826 0.090 0.050 REMARK 3 2 A 6 171 C 6 171 9890 0.080 0.050 REMARK 3 3 A 6 171 D 6 171 9811 0.080 0.050 REMARK 3 4 B 6 171 C 6 171 9826 0.090 0.050 REMARK 3 5 B 6 171 D 6 171 9682 0.100 0.050 REMARK 3 6 C 6 171 D 6 171 9940 0.080 0.050 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 : 1.20 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 U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 5DWF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000213927. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 7.0-7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.99 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 64628 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.830 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06000 REMARK 200 FOR THE DATA SET : 16.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.83 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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: 3O4K REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350 SODIUM POTASSIUM TARTARATE, REMARK 280 PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 44.38750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.76250 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 81.54350 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 44.38750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.76250 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 81.54350 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 44.38750 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 50.76250 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 81.54350 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 44.38750 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 50.76250 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 81.54350 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 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 REMARK 350 BIOMOLECULE: 2 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: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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: 3 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: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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: 4 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: 190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7950 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH C 352 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 345 LIES ON A SPECIAL POSITION. 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 O SER D 58 O VAL D 61 2.03 REMARK 500 O SER D 41 NE2 GLN D 52 2.11 REMARK 500 ND2 ASN D 113 O HOH D 301 2.15 REMARK 500 O SER D 8 O HOH D 302 2.15 REMARK 500 O GLY A 79 O HOH A 201 2.17 REMARK 500 O PRO A 46 O HOH A 202 2.18 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 28 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 LEU B 134 N - CA - C ANGL. DEV. = 17.1 DEGREES REMARK 500 ARG B 170 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 MET C 112 CG - SD - CE ANGL. DEV. = 16.3 DEGREES REMARK 500 ARG C 119 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ASP C 157 CB - CG - OD1 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 ARG A 16 42.10 73.58 REMARK 500 ARG A 23 -31.94 -131.53 REMARK 500 HIS A 93 -12.51 -150.15 REMARK 500 ASN A 140 35.49 -99.79 REMARK 500 SER B 8 61.66 31.65 REMARK 500 ARG B 16 40.67 75.70 REMARK 500 ALA B 39 18.32 58.60 REMARK 500 HIS B 93 -14.75 -149.39 REMARK 500 ALA B 94 15.99 -141.09 REMARK 500 LEU B 134 -49.82 52.71 REMARK 500 ASN B 140 35.50 -99.84 REMARK 500 ARG C 16 42.13 72.53 REMARK 500 ASP C 68 166.77 177.97 REMARK 500 HIS C 93 -13.38 -147.97 REMARK 500 ALA C 94 15.44 -142.03 REMARK 500 ASN C 140 35.00 -99.86 REMARK 500 ARG D 16 42.80 74.56 REMARK 500 ALA D 39 -0.85 70.83 REMARK 500 ARG D 62 -66.02 92.65 REMARK 500 ASP D 68 167.25 178.95 REMARK 500 HIS D 93 -12.99 -146.93 REMARK 500 ALA D 94 16.00 -142.79 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 VAL B 132 ALA B 133 149.56 REMARK 500 GLY C 7 SER C 8 -35.73 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 A 257 DISTANCE = 6.50 ANGSTROMS REMARK 525 HOH D 365 DISTANCE = 6.11 ANGSTROMS REMARK 525 HOH D 366 DISTANCE = 6.47 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TLA C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO D 202 DBREF 5DWF A 6 171 UNP Q9GK12 PGRP1_CAMDR 28 193 DBREF 5DWF B 6 171 UNP Q9GK12 PGRP1_CAMDR 28 193 DBREF 5DWF C 6 171 UNP Q9GK12 PGRP1_CAMDR 28 193 DBREF 5DWF D 6 171 UNP Q9GK12 PGRP1_CAMDR 28 193 SEQRES 1 A 166 CYS GLY SER ILE VAL PRO ARG ARG GLU TRP ARG ALA LEU SEQRES 2 A 166 ALA SER GLU CYS ARG GLU ARG LEU THR ARG PRO VAL ARG SEQRES 3 A 166 TYR VAL VAL VAL SER HIS THR ALA GLY SER HIS CYS ASP SEQRES 4 A 166 THR PRO ALA SER CYS ALA GLN GLN ALA GLN ASN VAL GLN SEQRES 5 A 166 SER TYR HIS VAL ARG ASN LEU GLY TRP CYS ASP VAL GLY SEQRES 6 A 166 TYR ASN PHE LEU ILE GLY GLU ASP GLY LEU VAL TYR GLU SEQRES 7 A 166 GLY ARG GLY TRP ASN ILE LYS GLY ALA HIS ALA GLY PRO SEQRES 8 A 166 THR TRP ASN PRO ILE SER ILE GLY ILE SER PHE MET GLY SEQRES 9 A 166 ASN TYR MET ASN ARG VAL PRO PRO PRO ARG ALA LEU ARG SEQRES 10 A 166 ALA ALA GLN ASN LEU LEU ALA CYS GLY VAL ALA LEU GLY SEQRES 11 A 166 ALA LEU ARG SER ASN TYR GLU VAL LYS GLY HIS ARG ASP SEQRES 12 A 166 VAL GLN PRO THR LEU SER PRO GLY ASP ARG LEU TYR GLU SEQRES 13 A 166 ILE ILE GLN THR TRP SER HIS TYR ARG ALA SEQRES 1 B 166 CYS GLY SER ILE VAL PRO ARG ARG GLU TRP ARG ALA LEU SEQRES 2 B 166 ALA SER GLU CYS ARG GLU ARG LEU THR ARG PRO VAL ARG SEQRES 3 B 166 TYR VAL VAL VAL SER HIS THR ALA GLY SER HIS CYS ASP SEQRES 4 B 166 THR PRO ALA SER CYS ALA GLN GLN ALA GLN ASN VAL GLN SEQRES 5 B 166 SER TYR HIS VAL ARG ASN LEU GLY TRP CYS ASP VAL GLY SEQRES 6 B 166 TYR ASN PHE LEU ILE GLY GLU ASP GLY LEU VAL TYR GLU SEQRES 7 B 166 GLY ARG GLY TRP ASN ILE LYS GLY ALA HIS ALA GLY PRO SEQRES 8 B 166 THR TRP ASN PRO ILE SER ILE GLY ILE SER PHE MET GLY SEQRES 9 B 166 ASN TYR MET ASN ARG VAL PRO PRO PRO ARG ALA LEU ARG SEQRES 10 B 166 ALA ALA GLN ASN LEU LEU ALA CYS GLY VAL ALA LEU GLY SEQRES 11 B 166 ALA LEU ARG SER ASN TYR GLU VAL LYS GLY HIS ARG ASP SEQRES 12 B 166 VAL GLN PRO THR LEU SER PRO GLY ASP ARG LEU TYR GLU SEQRES 13 B 166 ILE ILE GLN THR TRP SER HIS TYR ARG ALA SEQRES 1 C 166 CYS GLY SER ILE VAL PRO ARG ARG GLU TRP ARG ALA LEU SEQRES 2 C 166 ALA SER GLU CYS ARG GLU ARG LEU THR ARG PRO VAL ARG SEQRES 3 C 166 TYR VAL VAL VAL SER HIS THR ALA GLY SER HIS CYS ASP SEQRES 4 C 166 THR PRO ALA SER CYS ALA GLN GLN ALA GLN ASN VAL GLN SEQRES 5 C 166 SER TYR HIS VAL ARG ASN LEU GLY TRP CYS ASP VAL GLY SEQRES 6 C 166 TYR ASN PHE LEU ILE GLY GLU ASP GLY LEU VAL TYR GLU SEQRES 7 C 166 GLY ARG GLY TRP ASN ILE LYS GLY ALA HIS ALA GLY PRO SEQRES 8 C 166 THR TRP ASN PRO ILE SER ILE GLY ILE SER PHE MET GLY SEQRES 9 C 166 ASN TYR MET ASN ARG VAL PRO PRO PRO ARG ALA LEU ARG SEQRES 10 C 166 ALA ALA GLN ASN LEU LEU ALA CYS GLY VAL ALA LEU GLY SEQRES 11 C 166 ALA LEU ARG SER ASN TYR GLU VAL LYS GLY HIS ARG ASP SEQRES 12 C 166 VAL GLN PRO THR LEU SER PRO GLY ASP ARG LEU TYR GLU SEQRES 13 C 166 ILE ILE GLN THR TRP SER HIS TYR ARG ALA SEQRES 1 D 166 CYS GLY SER ILE VAL PRO ARG ARG GLU TRP ARG ALA LEU SEQRES 2 D 166 ALA SER GLU CYS ARG GLU ARG LEU THR ARG PRO VAL ARG SEQRES 3 D 166 TYR VAL VAL VAL SER HIS THR ALA GLY SER HIS CYS ASP SEQRES 4 D 166 THR PRO ALA SER CYS ALA GLN GLN ALA GLN ASN VAL GLN SEQRES 5 D 166 SER TYR HIS VAL ARG ASN LEU GLY TRP CYS ASP VAL GLY SEQRES 6 D 166 TYR ASN PHE LEU ILE GLY GLU ASP GLY LEU VAL TYR GLU SEQRES 7 D 166 GLY ARG GLY TRP ASN ILE LYS GLY ALA HIS ALA GLY PRO SEQRES 8 D 166 THR TRP ASN PRO ILE SER ILE GLY ILE SER PHE MET GLY SEQRES 9 D 166 ASN TYR MET ASN ARG VAL PRO PRO PRO ARG ALA LEU ARG SEQRES 10 D 166 ALA ALA GLN ASN LEU LEU ALA CYS GLY VAL ALA LEU GLY SEQRES 11 D 166 ALA LEU ARG SER ASN TYR GLU VAL LYS GLY HIS ARG ASP SEQRES 12 D 166 VAL GLN PRO THR LEU SER PRO GLY ASP ARG LEU TYR GLU SEQRES 13 D 166 ILE ILE GLN THR TRP SER HIS TYR ARG ALA HET TLA C 201 10 HET EDO C 202 4 HET GOL D 201 6 HET EDO D 202 4 HETNAM TLA L(+)-TARTARIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM GOL GLYCEROL HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 TLA C4 H6 O6 FORMUL 6 EDO 2(C2 H6 O2) FORMUL 7 GOL C3 H8 O3 FORMUL 9 HOH *253(H2 O) HELIX 1 AA1 PRO A 11 ARG A 16 1 6 HELIX 2 AA2 THR A 45 ASN A 63 1 19 HELIX 3 AA3 ALA A 94 ASN A 99 1 6 HELIX 4 AA4 PRO A 117 LEU A 134 1 18 HELIX 5 AA5 HIS A 146 GLN A 150 1 5 HELIX 6 AA6 GLY A 156 THR A 165 1 10 HELIX 7 AA7 PRO B 11 ARG B 16 1 6 HELIX 8 AA8 THR B 45 ASN B 63 1 19 HELIX 9 AA9 ALA B 94 ASN B 99 1 6 HELIX 10 AB1 PRO B 117 ALA B 133 1 17 HELIX 11 AB2 HIS B 146 GLN B 150 1 5 HELIX 12 AB3 GLY B 156 THR B 165 1 10 HELIX 13 AB4 PRO C 11 ARG C 16 5 6 HELIX 14 AB5 THR C 45 ASN C 63 1 19 HELIX 15 AB6 ALA C 94 ASN C 99 1 6 HELIX 16 AB7 PRO C 117 LEU C 134 1 18 HELIX 17 AB8 ARG C 147 VAL C 149 5 3 HELIX 18 AB9 GLY C 156 THR C 165 1 10 HELIX 19 AC1 PRO D 11 ARG D 16 5 6 HELIX 20 AC2 THR D 45 VAL D 61 1 17 HELIX 21 AC3 ALA D 94 ASN D 99 1 6 HELIX 22 AC4 PRO D 117 LEU D 134 1 18 HELIX 23 AC5 ARG D 147 VAL D 149 5 3 HELIX 24 AC6 GLY D 156 THR D 165 1 10 SHEET 1 AA1 6 ILE A 9 VAL A 10 0 SHEET 2 AA1 6 VAL A 81 GLU A 83 1 O VAL A 81 N VAL A 10 SHEET 3 AA1 6 PHE A 73 ILE A 75 -1 N LEU A 74 O TYR A 82 SHEET 4 AA1 6 SER A 102 PHE A 107 1 O SER A 106 N ILE A 75 SHEET 5 AA1 6 VAL A 30 HIS A 37 1 N VAL A 34 O ILE A 103 SHEET 6 AA1 6 LEU A 137 GLY A 145 1 O LYS A 144 N VAL A 35 SHEET 1 AA2 6 ILE B 9 VAL B 10 0 SHEET 2 AA2 6 VAL B 81 GLU B 83 1 O VAL B 81 N VAL B 10 SHEET 3 AA2 6 PHE B 73 ILE B 75 -1 N LEU B 74 O TYR B 82 SHEET 4 AA2 6 SER B 102 PHE B 107 1 O SER B 106 N ILE B 75 SHEET 5 AA2 6 VAL B 30 HIS B 37 1 N VAL B 34 O ILE B 103 SHEET 6 AA2 6 LEU B 137 GLY B 145 1 O LYS B 144 N VAL B 35 SHEET 1 AA3 6 ILE C 9 VAL C 10 0 SHEET 2 AA3 6 VAL C 81 GLU C 83 1 O VAL C 81 N VAL C 10 SHEET 3 AA3 6 PHE C 73 ILE C 75 -1 N LEU C 74 O TYR C 82 SHEET 4 AA3 6 SER C 102 PHE C 107 1 O SER C 106 N ILE C 75 SHEET 5 AA3 6 VAL C 30 HIS C 37 1 N VAL C 34 O ILE C 103 SHEET 6 AA3 6 LEU C 137 GLY C 145 1 O LYS C 144 N VAL C 35 SHEET 1 AA4 6 ILE D 9 VAL D 10 0 SHEET 2 AA4 6 VAL D 81 GLU D 83 1 O VAL D 81 N VAL D 10 SHEET 3 AA4 6 PHE D 73 ILE D 75 -1 N LEU D 74 O TYR D 82 SHEET 4 AA4 6 SER D 102 PHE D 107 1 O SER D 106 N ILE D 75 SHEET 5 AA4 6 VAL D 30 HIS D 37 1 N VAL D 34 O ILE D 103 SHEET 6 AA4 6 LEU D 137 GLY D 145 1 O LYS D 144 N VAL D 33 SSBOND 1 CYS A 6 CYS A 130 1555 1555 2.07 SSBOND 2 CYS A 22 CYS A 67 1555 1555 2.11 SSBOND 3 CYS A 43 CYS A 49 1555 1555 2.13 SSBOND 4 CYS B 6 CYS B 130 1555 1555 2.06 SSBOND 5 CYS B 22 CYS B 67 1555 1555 2.10 SSBOND 6 CYS B 43 CYS B 49 1555 1555 2.17 SSBOND 7 CYS C 6 CYS C 130 1555 1555 2.10 SSBOND 8 CYS C 22 CYS C 67 1555 1555 2.07 SSBOND 9 CYS C 43 CYS C 49 1555 1555 2.14 SSBOND 10 CYS D 6 CYS D 130 1555 1555 2.08 SSBOND 11 CYS D 22 CYS D 67 1555 1555 2.07 SSBOND 12 CYS D 43 CYS D 49 1555 1555 2.12 CISPEP 1 ARG A 28 PRO A 29 0 -3.33 CISPEP 2 SER A 154 PRO A 155 0 15.44 CISPEP 3 CYS B 6 GLY B 7 0 -22.75 CISPEP 4 ARG B 28 PRO B 29 0 -2.50 CISPEP 5 ALA B 133 LEU B 134 0 -19.79 CISPEP 6 SER B 154 PRO B 155 0 17.39 CISPEP 7 ARG C 28 PRO C 29 0 -3.11 CISPEP 8 SER C 154 PRO C 155 0 16.54 CISPEP 9 ARG D 28 PRO D 29 0 -4.30 CISPEP 10 SER D 154 PRO D 155 0 17.28 SITE 1 AC1 10 HIS C 37 THR C 152 LEU C 153 SER C 154 SITE 2 AC1 10 HIS D 37 ALA D 39 THR D 152 LEU D 153 SITE 3 AC1 10 SER D 154 GOL D 201 SITE 1 AC2 2 ALA C 50 HOH C 335 SITE 1 AC3 9 PRO C 151 THR C 152 TLA C 201 HIS D 37 SITE 2 AC3 9 THR D 38 ALA D 39 TYR D 71 HIS D 146 SITE 3 AC3 9 HOH D 309 SITE 1 AC4 4 HOH A 250 TYR D 32 HOH D 333 HOH D 348 CRYST1 88.775 101.525 163.087 90.00 90.00 90.00 I 2 2 2 32 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 0.011264 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009850 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006132 0.00000