HEADER IMMUNE SYSTEM 06-JUL-18 6A89 TITLE CRYSTAL STRUCTURE OF THE TERNARY COMPLEX OF PEPTIDOGLYCAN RECOGNITION TITLE 2 PROTEIN (PGRP-S) WITH TARTARIC ACID, RIBOSE AND 2,6-DIAMINOPIMELIC TITLE 3 ACID AT 2.11 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDOGLYCAN RECOGNITION PROTEIN 1; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: PEPTIDOGLYCAN RECOGNITION PROTEIN SHORT,PGRP-S SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAMELUS DROMEDARIUS; SOURCE 3 ORGANISM_COMMON: DROMEDARY; SOURCE 4 ORGANISM_TAXID: 9838 KEYWDS IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR H.R.BAIRAGYA,A.SHOKEEN,P.SHARMA,P.K.SINGH,S.SHARMA,T.P.SINGH REVDAT 4 22-NOV-23 6A89 1 REMARK REVDAT 3 15-NOV-23 6A89 1 HETSYN ATOM REVDAT 2 29-JUL-20 6A89 1 COMPND REMARK HETNAM SITE REVDAT 2 2 1 ATOM REVDAT 1 25-JUL-18 6A89 0 JRNL AUTH H.R.BAIRAGYA,A.SHOKEEN,P.SHARMA,P.K.SINGH,S.SHARMA,T.P.SINGH JRNL TITL CRYSTAL STRUCTURE OF THE TERNARY COMPLEX OF PEPTIDOGLYCAN JRNL TITL 2 RECOGNITION PROTEIN (PGRP-S) WITH TARTARIC ACID, RIBOSE AND JRNL TITL 3 2,6-DIAMINOPIMELIC ACID AT 2.11 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.11 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.11 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 86.09 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 40430 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) : 0.194 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2161 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) : 2.12 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.17 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2902 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.77 REMARK 3 BIN R VALUE (WORKING SET) : 0.3480 REMARK 3 BIN FREE R VALUE SET COUNT : 157 REMARK 3 BIN FREE R VALUE : 0.3490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5223 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 293 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.65000 REMARK 3 B22 (A**2) : -4.09000 REMARK 3 B33 (A**2) : -1.57000 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): 0.227 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.199 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.189 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.829 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5414 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4832 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7366 ; 1.766 ; 1.929 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11134 ; 1.073 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 664 ; 7.304 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 260 ;37.263 ;21.846 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 804 ;13.937 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 64 ;15.170 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 769 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6108 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1216 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2668 ; 3.590 ; 4.585 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2667 ; 3.590 ; 4.584 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3328 ; 5.066 ; 6.860 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3329 ; 5.066 ; 6.862 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2746 ; 4.481 ; 5.037 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2743 ; 4.481 ; 5.033 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4037 ; 6.601 ; 7.378 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6295 ; 8.554 ;54.834 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6296 ; 8.553 ;54.844 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 6A89 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-JUL-18. REMARK 100 THE DEPOSITION ID IS D_1300008298. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAY-18 REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : 5-8 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) : 0.9537 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42613 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.110 REMARK 200 RESOLUTION RANGE LOW (A) : 86.090 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 3.0500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.11 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.17 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.74000 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: 4Q8S REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 3350, 0.2M SODIUM POTASSIUM REMARK 280 TARTARATE, PH 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 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 44.75000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.68500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 81.52000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 44.75000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.68500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 81.52000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 44.75000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 50.68500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 81.52000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 44.75000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 50.68500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 81.52000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4, 5, 6 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 APPLY THE FOLLOWING TO CHAINS: A, 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: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 350 REMARK 350 BIOMOLECULE: 3 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: 7890 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: 4 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: 7900 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: 5 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 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: 6 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8000 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 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 HOH A 375 O HOH A 379 1.92 REMARK 500 O HOH A 333 O HOH A 358 1.98 REMARK 500 O HOH C 265 O HOH C 275 2.07 REMARK 500 O HOH D 312 O HOH D 337 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH C 204 O HOH C 209 4556 1.99 REMARK 500 O HOH D 301 O HOH D 301 2565 2.01 REMARK 500 O CYS D 6 OD1 ASN D 126 2565 2.10 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 ASP B 68 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP B 157 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 MET C 112 CG - SD - CE ANGL. DEV. = 12.0 DEGREES REMARK 500 CYS D 6 N - CA - C ANGL. DEV. = 18.1 DEGREES REMARK 500 ASP D 44 CB - CG - OD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG D 119 NE - CZ - NH2 ANGL. DEV. = -3.5 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 47.15 70.64 REMARK 500 HIS A 93 -9.89 -148.37 REMARK 500 ALA A 94 16.83 -144.53 REMARK 500 ASN A 140 42.26 -96.74 REMARK 500 CYS B 6 -72.07 -63.69 REMARK 500 SER B 8 63.51 -102.46 REMARK 500 ASP B 44 25.91 -141.63 REMARK 500 VAL B 69 134.61 -38.33 REMARK 500 HIS B 93 -15.12 -148.64 REMARK 500 ALA B 94 28.92 -141.22 REMARK 500 ASN B 140 40.92 -99.32 REMARK 500 SER C 8 40.61 -102.56 REMARK 500 ARG C 16 50.54 75.33 REMARK 500 HIS C 93 -16.61 -147.18 REMARK 500 ALA C 94 22.69 -144.05 REMARK 500 ASN C 140 41.05 -94.58 REMARK 500 CYS D 6 -64.38 -149.84 REMARK 500 SER D 8 73.77 -102.71 REMARK 500 ARG D 16 27.54 81.50 REMARK 500 ALA D 39 -12.15 70.02 REMARK 500 HIS D 93 -17.84 -144.94 REMARK 500 ALA D 94 16.05 -141.01 REMARK 500 ASN D 140 39.70 -99.75 REMARK 500 REMARK 500 REMARK: NULL DBREF 6A89 A 5 171 UNP Q9GK12 PGRP1_CAMDR 27 193 DBREF 6A89 B 5 171 UNP Q9GK12 PGRP1_CAMDR 27 193 DBREF 6A89 C 5 171 UNP Q9GK12 PGRP1_CAMDR 27 193 DBREF 6A89 D 5 171 UNP Q9GK12 PGRP1_CAMDR 27 193 SEQRES 1 A 167 ALA CYS GLY SER ILE VAL PRO ARG ARG GLU TRP ARG ALA SEQRES 2 A 167 LEU ALA SER GLU CYS ARG GLU ARG LEU THR ARG PRO VAL SEQRES 3 A 167 ARG TYR VAL VAL VAL SER HIS THR ALA GLY SER HIS CYS SEQRES 4 A 167 ASP THR PRO ALA SER CYS ALA GLN GLN ALA GLN ASN VAL SEQRES 5 A 167 GLN SER TYR HIS VAL ARG ASN LEU GLY TRP CYS ASP VAL SEQRES 6 A 167 GLY TYR ASN PHE LEU ILE GLY GLU ASP GLY LEU VAL TYR SEQRES 7 A 167 GLU GLY ARG GLY TRP ASN ILE LYS GLY ALA HIS ALA GLY SEQRES 8 A 167 PRO THR TRP ASN PRO ILE SER ILE GLY ILE SER PHE MET SEQRES 9 A 167 GLY ASN TYR MET ASN ARG VAL PRO PRO PRO ARG ALA LEU SEQRES 10 A 167 ARG ALA ALA GLN ASN LEU LEU ALA CYS GLY VAL ALA LEU SEQRES 11 A 167 GLY ALA LEU ARG SER ASN TYR GLU VAL LYS GLY HIS ARG SEQRES 12 A 167 ASP VAL GLN PRO THR LEU SER PRO GLY ASP ARG LEU TYR SEQRES 13 A 167 GLU ILE ILE GLN THR TRP SER HIS TYR ARG ALA SEQRES 1 B 167 ALA CYS GLY SER ILE VAL PRO ARG ARG GLU TRP ARG ALA SEQRES 2 B 167 LEU ALA SER GLU CYS ARG GLU ARG LEU THR ARG PRO VAL SEQRES 3 B 167 ARG TYR VAL VAL VAL SER HIS THR ALA GLY SER HIS CYS SEQRES 4 B 167 ASP THR PRO ALA SER CYS ALA GLN GLN ALA GLN ASN VAL SEQRES 5 B 167 GLN SER TYR HIS VAL ARG ASN LEU GLY TRP CYS ASP VAL SEQRES 6 B 167 GLY TYR ASN PHE LEU ILE GLY GLU ASP GLY LEU VAL TYR SEQRES 7 B 167 GLU GLY ARG GLY TRP ASN ILE LYS GLY ALA HIS ALA GLY SEQRES 8 B 167 PRO THR TRP ASN PRO ILE SER ILE GLY ILE SER PHE MET SEQRES 9 B 167 GLY ASN TYR MET ASN ARG VAL PRO PRO PRO ARG ALA LEU SEQRES 10 B 167 ARG ALA ALA GLN ASN LEU LEU ALA CYS GLY VAL ALA LEU SEQRES 11 B 167 GLY ALA LEU ARG SER ASN TYR GLU VAL LYS GLY HIS ARG SEQRES 12 B 167 ASP VAL GLN PRO THR LEU SER PRO GLY ASP ARG LEU TYR SEQRES 13 B 167 GLU ILE ILE GLN THR TRP SER HIS TYR ARG ALA SEQRES 1 C 167 ALA CYS GLY SER ILE VAL PRO ARG ARG GLU TRP ARG ALA SEQRES 2 C 167 LEU ALA SER GLU CYS ARG GLU ARG LEU THR ARG PRO VAL SEQRES 3 C 167 ARG TYR VAL VAL VAL SER HIS THR ALA GLY SER HIS CYS SEQRES 4 C 167 ASP THR PRO ALA SER CYS ALA GLN GLN ALA GLN ASN VAL SEQRES 5 C 167 GLN SER TYR HIS VAL ARG ASN LEU GLY TRP CYS ASP VAL SEQRES 6 C 167 GLY TYR ASN PHE LEU ILE GLY GLU ASP GLY LEU VAL TYR SEQRES 7 C 167 GLU GLY ARG GLY TRP ASN ILE LYS GLY ALA HIS ALA GLY SEQRES 8 C 167 PRO THR TRP ASN PRO ILE SER ILE GLY ILE SER PHE MET SEQRES 9 C 167 GLY ASN TYR MET ASN ARG VAL PRO PRO PRO ARG ALA LEU SEQRES 10 C 167 ARG ALA ALA GLN ASN LEU LEU ALA CYS GLY VAL ALA LEU SEQRES 11 C 167 GLY ALA LEU ARG SER ASN TYR GLU VAL LYS GLY HIS ARG SEQRES 12 C 167 ASP VAL GLN PRO THR LEU SER PRO GLY ASP ARG LEU TYR SEQRES 13 C 167 GLU ILE ILE GLN THR TRP SER HIS TYR ARG ALA SEQRES 1 D 167 ALA CYS GLY SER ILE VAL PRO ARG ARG GLU TRP ARG ALA SEQRES 2 D 167 LEU ALA SER GLU CYS ARG GLU ARG LEU THR ARG PRO VAL SEQRES 3 D 167 ARG TYR VAL VAL VAL SER HIS THR ALA GLY SER HIS CYS SEQRES 4 D 167 ASP THR PRO ALA SER CYS ALA GLN GLN ALA GLN ASN VAL SEQRES 5 D 167 GLN SER TYR HIS VAL ARG ASN LEU GLY TRP CYS ASP VAL SEQRES 6 D 167 GLY TYR ASN PHE LEU ILE GLY GLU ASP GLY LEU VAL TYR SEQRES 7 D 167 GLU GLY ARG GLY TRP ASN ILE LYS GLY ALA HIS ALA GLY SEQRES 8 D 167 PRO THR TRP ASN PRO ILE SER ILE GLY ILE SER PHE MET SEQRES 9 D 167 GLY ASN TYR MET ASN ARG VAL PRO PRO PRO ARG ALA LEU SEQRES 10 D 167 ARG ALA ALA GLN ASN LEU LEU ALA CYS GLY VAL ALA LEU SEQRES 11 D 167 GLY ALA LEU ARG SER ASN TYR GLU VAL LYS GLY HIS ARG SEQRES 12 D 167 ASP VAL GLN PRO THR LEU SER PRO GLY ASP ARG LEU TYR SEQRES 13 D 167 GLU ILE ILE GLN THR TRP SER HIS TYR ARG ALA HET EDO A 201 4 HET API B 201 13 HET GOL D 201 6 HET TLA D 202 10 HET RIB D 203 10 HETNAM EDO 1,2-ETHANEDIOL HETNAM API 2,6-DIAMINOPIMELIC ACID HETNAM GOL GLYCEROL HETNAM TLA L(+)-TARTARIC ACID HETNAM RIB ALPHA-D-RIBOFURANOSE HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN RIB ALPHA-D-RIBOSE; D-RIBOSE; RIBOSE FORMUL 5 EDO C2 H6 O2 FORMUL 6 API C7 H14 N2 O4 FORMUL 7 GOL C3 H8 O3 FORMUL 8 TLA C4 H6 O6 FORMUL 9 RIB C5 H10 O5 FORMUL 10 HOH *293(H2 O) HELIX 1 AA1 THR A 45 ASN A 63 1 19 HELIX 2 AA2 TRP A 98 PRO A 100 5 3 HELIX 3 AA3 PRO A 117 LEU A 134 1 18 HELIX 4 AA4 HIS A 146 GLN A 150 1 5 HELIX 5 AA5 GLY A 156 GLN A 164 1 9 HELIX 6 AA6 PRO B 11 ARG B 16 5 6 HELIX 7 AA7 THR B 45 ASN B 63 1 19 HELIX 8 AA8 ALA B 94 ASN B 99 1 6 HELIX 9 AA9 PRO B 117 LEU B 134 1 18 HELIX 10 AB1 ARG B 147 VAL B 149 5 3 HELIX 11 AB2 GLY B 156 THR B 165 1 10 HELIX 12 AB3 PRO C 11 ARG C 16 1 6 HELIX 13 AB4 THR C 45 ASN C 63 1 19 HELIX 14 AB5 ALA C 94 ASN C 99 1 6 HELIX 15 AB6 PRO C 117 LEU C 134 1 18 HELIX 16 AB7 ARG C 147 VAL C 149 5 3 HELIX 17 AB8 GLY C 156 THR C 165 1 10 HELIX 18 AB9 ARG D 12 ARG D 16 5 5 HELIX 19 AC1 THR D 45 ARG D 62 1 18 HELIX 20 AC2 ALA D 94 ASN D 99 1 6 HELIX 21 AC3 PRO D 117 LEU D 134 1 18 HELIX 22 AC4 ARG D 147 VAL D 149 5 3 HELIX 23 AC5 GLY D 156 GLN D 164 1 9 SHEET 1 AA1 5 VAL A 81 GLU A 83 0 SHEET 2 AA1 5 PHE A 73 ILE A 75 -1 N LEU A 74 O TYR A 82 SHEET 3 AA1 5 SER A 102 PHE A 107 1 O SER A 106 N ILE A 75 SHEET 4 AA1 5 VAL A 30 HIS A 37 1 N VAL A 34 O ILE A 103 SHEET 5 AA1 5 LEU A 137 GLY A 145 1 O LYS A 144 N VAL A 33 SHEET 1 AA2 5 VAL B 81 GLU B 83 0 SHEET 2 AA2 5 PHE B 73 ILE B 75 -1 N LEU B 74 O TYR B 82 SHEET 3 AA2 5 SER B 102 PHE B 107 1 O SER B 106 N ILE B 75 SHEET 4 AA2 5 VAL B 30 HIS B 37 1 N SER B 36 O ILE B 105 SHEET 5 AA2 5 LEU B 137 GLY B 145 1 O LYS B 144 N VAL B 33 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 SER C 36 O PHE C 107 SHEET 6 AA3 6 LEU C 137 GLY C 145 1 O LYS C 144 N VAL C 33 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 SER D 36 O ILE D 105 SHEET 6 AA4 6 LEU D 137 GLY D 145 1 O ARG D 138 N VAL D 30 SSBOND 1 CYS A 6 CYS A 130 1555 1555 2.07 SSBOND 2 CYS A 22 CYS A 67 1555 1555 2.09 SSBOND 3 CYS A 43 CYS A 49 1555 1555 2.14 SSBOND 4 CYS B 6 CYS B 130 1555 1555 2.05 SSBOND 5 CYS B 22 CYS B 67 1555 1555 2.10 SSBOND 6 CYS B 43 CYS B 49 1555 1555 2.14 SSBOND 7 CYS C 6 CYS C 130 1555 1555 2.05 SSBOND 8 CYS C 22 CYS C 67 1555 1555 2.05 SSBOND 9 CYS C 43 CYS C 49 1555 1555 2.15 SSBOND 10 CYS D 6 CYS D 130 1555 1555 2.02 SSBOND 11 CYS D 22 CYS D 67 1555 1555 2.07 SSBOND 12 CYS D 43 CYS D 49 1555 1555 2.13 CISPEP 1 ARG A 28 PRO A 29 0 -10.85 CISPEP 2 SER A 154 PRO A 155 0 6.86 CISPEP 3 ARG B 28 PRO B 29 0 -24.83 CISPEP 4 SER B 154 PRO B 155 0 14.23 CISPEP 5 ARG C 28 PRO C 29 0 1.99 CISPEP 6 SER C 154 PRO C 155 0 13.88 CISPEP 7 ARG D 28 PRO D 29 0 -7.06 CISPEP 8 SER D 154 PRO D 155 0 10.40 CRYST1 89.500 101.370 163.040 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 0.011173 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009865 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006133 0.00000