HEADER IMMUNE SYSTEM 22-MAY-26 27AA TITLE CRYSTAL STRUCTURE OF THE COMPLEX OF SHORT PEPTIDOGLYCAN RECOGNITION TITLE 2 PROTEIN FROM CAMELUS DROMEDARIUS WITH NONANOIC ACID AT 1.83 A TITLE 3 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: ARABIAN CAMEL; SOURCE 4 ORGANISM_TAXID: 9838 KEYWDS SHORT PEPTIDOGLYCAN RECOGNITION PROTEIN, PGRP-S, IMMUNE SYSTEM, KEYWDS 2 CAMELUS DROMEDARIUS EXPDTA X-RAY DIFFRACTION AUTHOR D.BARIK,N.AHMAD,P.K.SINGH,S.P.YADAV,P.SHARMA,P.KAUR,S.SHARMA, AUTHOR 2 T.P.SINGH REVDAT 1 17-JUN-26 27AA 0 SPRSDE 17-JUN-26 27AA 5DWF JRNL AUTH D.BARIK,N.AHMAD,P.K.SINGH,S.P.YADAV,P.SHARMA,P.KAUR, JRNL AUTH 2 S.SHARMA,T.P.SINGH JRNL TITL CRYSTAL STRUCTURE OF THE COMPLEX OF SHORT PEPTIDOGLYCAN JRNL TITL 2 RECOGNITION PROTEIN FROM CAMELUS DROMEDARIUS WITH NONANOIC JRNL TITL 3 ACID 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 5.8.0430 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) : 1.83 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.26 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 64627 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.272 REMARK 3 FREE R VALUE : 0.321 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.993 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) : 4515 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.26 REMARK 3 BIN R VALUE (WORKING SET) : 0.4350 REMARK 3 BIN FREE R VALUE SET COUNT : 102 REMARK 3 BIN FREE R VALUE : 0.4700 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 : 53 REMARK 3 SOLVENT ATOMS : 293 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.33 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.21800 REMARK 3 B22 (A**2) : -2.61600 REMARK 3 B33 (A**2) : 0.39700 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): 0.185 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.176 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.216 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.476 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.933 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.908 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5410 ; 0.007 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 4953 ; 0.002 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7363 ; 1.436 ; 1.802 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11315 ; 0.515 ; 1.754 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 662 ; 6.820 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 64 ; 8.059 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 805 ;12.237 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 764 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6737 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1399 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1201 ; 0.214 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 87 ; 0.238 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2688 ; 0.180 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 287 ; 0.220 ; 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): 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): 2654 ; 2.847 ; 3.218 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2654 ; 2.847 ; 3.218 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3311 ; 4.275 ; 5.765 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3312 ; 4.275 ; 5.766 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2756 ; 3.334 ; 3.583 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2757 ; 3.334 ; 3.583 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4051 ; 5.165 ; 6.422 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4052 ; 5.165 ; 6.422 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 : 6 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 6 A 171 NULL REMARK 3 1 B 6 B 171 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : A C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 2 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 2 A 6 A 171 NULL REMARK 3 2 C 6 C 171 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 REMARK 3 NCS GROUP NUMBER : 3 REMARK 3 CHAIN NAMES : A D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 3 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 3 A 6 A 171 NULL REMARK 3 3 D 6 D 171 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 REMARK 3 NCS GROUP NUMBER : 4 REMARK 3 CHAIN NAMES : B C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 4 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 4 B 6 B 171 NULL REMARK 3 4 C 6 C 171 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 REMARK 3 NCS GROUP NUMBER : 5 REMARK 3 CHAIN NAMES : B D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 5 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 5 B 6 B 171 NULL REMARK 3 5 D 6 D 171 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 REMARK 3 NCS GROUP NUMBER : 6 REMARK 3 CHAIN NAMES : C D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 6 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 6 C 6 C 171 NULL REMARK 3 6 D 6 D 171 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT 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 BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 27AA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-MAY-26. REMARK 100 THE DEPOSITION ID IS D_1300074570. 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) : 100 REMARK 200 PH : 7 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 : M 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 : 2.0000 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 (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.43000 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: NULL 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, 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 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 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 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 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 357 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 349 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 356 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 OE2 GLU B 14 O HOH B 301 1.83 REMARK 500 O HOH D 342 O HOH D 355 1.90 REMARK 500 O SER D 41 NE2 GLN D 52 2.17 REMARK 500 O HOH A 313 O HOH A 337 2.18 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 D 311 O HOH D 311 2545 2.06 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 CYS A 130 CB - CA - C ANGL. DEV. = -13.7 DEGREES REMARK 500 CYS B 6 CB - CA - C ANGL. DEV. = 9.6 DEGREES REMARK 500 MET C 112 CG - SD - CE ANGL. DEV. = 16.9 DEGREES REMARK 500 ASN D 63 CB - CA - C ANGL. DEV. = 16.5 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 23 -33.43 -130.61 REMARK 500 HIS A 93 -15.60 -149.71 REMARK 500 ALA A 94 20.09 -143.28 REMARK 500 SER B 8 57.72 36.05 REMARK 500 ARG B 16 47.11 71.09 REMARK 500 HIS B 93 -15.62 -148.92 REMARK 500 ALA B 94 19.83 -144.44 REMARK 500 HIS C 93 -15.85 -148.83 REMARK 500 ALA C 94 17.67 -142.99 REMARK 500 ARG D 16 75.40 67.68 REMARK 500 ASP D 44 14.69 -141.17 REMARK 500 HIS D 93 -15.43 -147.92 REMARK 500 ALA D 94 19.21 -143.89 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 ARG D 62 ASN D 63 -144.08 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 ARG A 16 0.08 SIDE CHAIN REMARK 500 ARG A 158 0.09 SIDE CHAIN REMARK 500 ARG C 119 0.11 SIDE CHAIN REMARK 500 ARG D 119 0.10 SIDE CHAIN 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 373 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH A 374 DISTANCE = 6.60 ANGSTROMS REMARK 525 HOH D 373 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH D 374 DISTANCE = 6.32 ANGSTROMS DBREF 27AA A 6 171 UNP Q9GK12 PGRP1_CAMDR 28 193 DBREF 27AA B 6 171 UNP Q9GK12 PGRP1_CAMDR 28 193 DBREF 27AA C 6 171 UNP Q9GK12 PGRP1_CAMDR 28 193 DBREF 27AA 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 A 201 10 HET KNA A 202 11 HET EDO B 201 4 HET GOL C 201 6 HET GOL C 202 6 HET TLA C 203 10 HET GOL D 201 6 HETNAM TLA L(+)-TARTARIC ACID HETNAM KNA NONANOIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM GOL GLYCEROL HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 TLA 2(C4 H6 O6) FORMUL 6 KNA C9 H18 O2 FORMUL 7 EDO C2 H6 O2 FORMUL 8 GOL 3(C3 H8 O3) FORMUL 12 HOH *293(H2 O) HELIX 1 AA1 PRO A 11 ARG A 16 5 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 ARG A 147 VAL A 149 5 3 HELIX 6 AA6 GLY A 156 THR A 165 1 10 HELIX 7 AA7 PRO B 11 ARG B 16 5 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 LEU B 134 1 18 HELIX 11 AB2 ARG B 147 VAL B 149 5 3 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 TRP C 166 1 11 HELIX 19 AC1 PRO D 11 ARG D 16 1 6 HELIX 20 AC2 THR D 45 ASN D 63 1 19 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 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 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 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 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 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 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 2.04 SSBOND 2 CYS A 22 CYS A 67 1555 1555 2.11 SSBOND 3 CYS A 43 CYS A 49 1555 1555 2.11 SSBOND 4 CYS B 6 CYS B 130 1555 1555 2.05 SSBOND 5 CYS B 22 CYS B 67 1555 1555 2.09 SSBOND 6 CYS B 43 CYS B 49 1555 1555 2.17 SSBOND 7 CYS C 6 CYS C 130 1555 1555 2.09 SSBOND 8 CYS C 22 CYS C 67 1555 1555 2.09 SSBOND 9 CYS C 43 CYS C 49 1555 1555 2.12 SSBOND 10 CYS D 6 CYS D 130 1555 1555 2.10 SSBOND 11 CYS D 22 CYS D 67 1555 1555 2.08 SSBOND 12 CYS D 43 CYS D 49 1555 1555 2.09 CISPEP 1 ARG A 28 PRO A 29 0 -6.03 CISPEP 2 SER A 154 PRO A 155 0 10.41 CISPEP 3 ARG B 28 PRO B 29 0 -0.43 CISPEP 4 SER B 154 PRO B 155 0 11.96 CISPEP 5 ARG C 28 PRO C 29 0 -0.42 CISPEP 6 SER C 154 PRO C 155 0 10.42 CISPEP 7 ARG D 28 PRO D 29 0 -1.55 CISPEP 8 SER D 154 PRO D 155 0 10.20 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 CONECT 6 978 CONECT 133 495 CONECT 309 348 CONECT 348 309 CONECT 495 133 CONECT 978 6 CONECT 1315 2280 CONECT 1442 1797 CONECT 1611 1650 CONECT 1650 1611 CONECT 1797 1442 CONECT 2280 1315 CONECT 2617 3582 CONECT 2744 3099 CONECT 2913 2952 CONECT 2952 2913 CONECT 3099 2744 CONECT 3582 2617 CONECT 3919 4884 CONECT 4046 4401 CONECT 4215 4254 CONECT 4254 4215 CONECT 4401 4046 CONECT 4884 3919 CONECT 5215 5217 CONECT 5216 5217 CONECT 5217 5215 5216 5218 CONECT 5218 5217 5219 5220 CONECT 5219 5218 CONECT 5220 5218 5221 5222 CONECT 5221 5220 CONECT 5222 5220 5223 5224 CONECT 5223 5222 CONECT 5224 5222 CONECT 5225 5226 5227 5228 CONECT 5226 5225 CONECT 5227 5225 5229 CONECT 5228 5225 CONECT 5229 5227 5230 CONECT 5230 5229 5231 CONECT 5231 5230 5232 CONECT 5232 5231 5233 CONECT 5233 5232 5234 CONECT 5234 5233 5235 CONECT 5235 5234 CONECT 5236 5237 5238 CONECT 5237 5236 CONECT 5238 5236 5239 CONECT 5239 5238 CONECT 5240 5241 5242 CONECT 5241 5240 CONECT 5242 5240 5243 5244 CONECT 5243 5242 CONECT 5244 5242 5245 CONECT 5245 5244 CONECT 5246 5247 5248 CONECT 5247 5246 CONECT 5248 5246 5249 5250 CONECT 5249 5248 CONECT 5250 5248 5251 CONECT 5251 5250 CONECT 5252 5254 CONECT 5253 5254 CONECT 5254 5252 5253 5255 CONECT 5255 5254 5256 5257 CONECT 5256 5255 CONECT 5257 5255 5258 5259 CONECT 5258 5257 CONECT 5259 5257 5260 5261 CONECT 5260 5259 CONECT 5261 5259 CONECT 5262 5263 5264 CONECT 5263 5262 CONECT 5264 5262 5265 5266 CONECT 5265 5264 CONECT 5266 5264 5267 CONECT 5267 5266 MASTER 460 0 7 24 23 0 0 6 5549 4 77 52 END