HEADER IMMUNE SYSTEM 16-APR-19 6JVE OBSLTE 11-MAY-22 6JVE 7XFX TITLE CRYSTAL STRUCTURE OF THE TERNARY COMPLEX OF PEPTIDOGLYCAN RECOGNITION TITLE 2 PROTEIN, PGRP-S WITH TARTARIC ACID AND HEXANOIC ACID AT 2.28 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: DROMEDARY; SOURCE 4 ORGANISM_TAXID: 9838 KEYWDS IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR V.VISWANATHAN,P.SHARMA,S.SHARMA,T.P.SINGH REVDAT 2 11-MAY-22 6JVE 1 OBSLTE REVDAT 1 01-MAY-19 6JVE 0 JRNL AUTH V.VISWANATHAN,P.SHARMA,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 AND HEXANOIC JRNL TITL 3 ACID AT 2.28 A RESOLUTION. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 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) : 2.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.04 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 80.7 REMARK 3 NUMBER OF REFLECTIONS : 26140 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 (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1341 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) : 2.28 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.34 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1383 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 57.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2080 REMARK 3 BIN FREE R VALUE SET COUNT : 57 REMARK 3 BIN FREE R VALUE : 0.3080 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 : 76 REMARK 3 SOLVENT ATOMS : 405 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.23000 REMARK 3 B22 (A**2) : -0.26000 REMARK 3 B33 (A**2) : 0.03000 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): 0.617 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.290 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.203 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.371 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.893 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5425 ; 0.008 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4846 ; 0.002 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7375 ; 1.526 ; 1.652 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11165 ; 1.284 ; 1.572 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 660 ; 7.625 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 325 ;33.579 ;19.508 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 805 ;15.255 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 64 ;15.579 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 663 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6214 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1278 ; 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): 2656 ; 1.792 ; 2.656 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2654 ; 1.792 ; 2.655 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3309 ; 3.035 ; 3.966 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3310 ; 3.035 ; 3.966 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2769 ; 2.206 ; 2.975 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2770 ; 2.205 ; 2.975 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4067 ; 3.624 ; 4.341 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 25736 ; 7.804 ;50.859 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 25737 ; 7.804 ;50.859 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 1 REMARK 3 1 B 6 B 171 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 1 A (A**2): 1301 ; 8.58 ; 0.87 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : A C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 6 A 171 1 REMARK 3 1 C 6 C 171 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 2 A (A**2): 1301 ; 3.95 ; 0.87 REMARK 3 REMARK 3 NCS GROUP NUMBER : 3 REMARK 3 CHAIN NAMES : A D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 6 A 171 1 REMARK 3 1 D 6 D 171 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 3 A (A**2): 1300 ; 3.81 ; 0.87 REMARK 3 REMARK 3 NCS GROUP NUMBER : 4 REMARK 3 CHAIN NAMES : B C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 6 B 171 1 REMARK 3 1 C 6 C 171 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 4 B (A**2): 1307 ; 9.61 ; 0.87 REMARK 3 REMARK 3 NCS GROUP NUMBER : 5 REMARK 3 CHAIN NAMES : B D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 6 B 171 1 REMARK 3 1 D 6 D 171 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 5 B (A**2): 1306 ; 9.64 ; 0.87 REMARK 3 REMARK 3 NCS GROUP NUMBER : 6 REMARK 3 CHAIN NAMES : C D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 C 6 C 171 1 REMARK 3 1 D 6 D 171 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT THERMAL 6 C (A**2): 1300 ; 3.14 ; 0.87 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 6JVE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-APR-19. REMARK 100 THE DEPOSITION ID IS D_1300011877. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-NOV-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.966 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27481 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.280 REMARK 200 RESOLUTION RANGE LOW (A) : 78.040 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 80.7 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.28 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.82800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 6J3W REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 3350 0.2M SODIUM POTASSIUM REMARK 280 TARTRATE 20% GLYCEROL, PH 8.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298.0K 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 44.33050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.82650 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 81.66400 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 44.33050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.82650 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 81.66400 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 44.33050 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 50.82650 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 81.66400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 44.33050 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 50.82650 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 81.66400 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 333 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 399 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 333 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLU A 1 REMARK 465 ASP A 2 REMARK 465 PRO A 3 REMARK 465 PRO A 4 REMARK 465 ALA A 5 REMARK 465 GLU B 1 REMARK 465 ASP B 2 REMARK 465 PRO B 3 REMARK 465 PRO B 4 REMARK 465 ALA B 5 REMARK 465 GLU C 1 REMARK 465 ASP C 2 REMARK 465 PRO C 3 REMARK 465 PRO C 4 REMARK 465 ALA C 5 REMARK 465 GLU D 1 REMARK 465 ASP D 2 REMARK 465 PRO D 3 REMARK 465 PRO D 4 REMARK 465 ALA D 5 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 OD2 ASP D 78 OH TYR D 82 2.06 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 HIS A 93 -21.15 -150.70 REMARK 500 ASN A 140 44.84 -99.55 REMARK 500 ALA B 92 80.92 -153.22 REMARK 500 HIS B 93 -34.20 -149.12 REMARK 500 SER B 139 -47.10 -9.24 REMARK 500 ALA C 39 15.35 57.94 REMARK 500 HIS C 93 -24.43 -141.44 REMARK 500 ALA C 94 22.19 -145.12 REMARK 500 ASN C 140 42.40 -102.77 REMARK 500 ALA D 39 -9.56 80.13 REMARK 500 HIS D 93 -16.58 -148.35 REMARK 500 PRO D 155 33.06 -94.02 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 417 DISTANCE = 7.47 ANGSTROMS REMARK 525 HOH A 418 DISTANCE = 7.56 ANGSTROMS REMARK 525 HOH B 389 DISTANCE = 5.95 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 A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TLA C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6NA C 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT C 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL D 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TLA D 203 DBREF 6JVE A 1 171 UNP Q9GK12 PGRP1_CAMDR 23 193 DBREF 6JVE B 1 171 UNP Q9GK12 PGRP1_CAMDR 23 193 DBREF 6JVE C 1 171 UNP Q9GK12 PGRP1_CAMDR 23 193 DBREF 6JVE D 1 171 UNP Q9GK12 PGRP1_CAMDR 23 193 SEQRES 1 A 171 GLU ASP PRO PRO ALA CYS GLY SER ILE VAL PRO ARG ARG SEQRES 2 A 171 GLU TRP ARG ALA LEU ALA SER GLU CYS ARG GLU ARG LEU SEQRES 3 A 171 THR ARG PRO VAL ARG TYR VAL VAL VAL SER HIS THR ALA SEQRES 4 A 171 GLY SER HIS CYS ASP THR PRO ALA SER CYS ALA GLN GLN SEQRES 5 A 171 ALA GLN ASN VAL GLN SER TYR HIS VAL ARG ASN LEU GLY SEQRES 6 A 171 TRP CYS ASP VAL GLY TYR ASN PHE LEU ILE GLY GLU ASP SEQRES 7 A 171 GLY LEU VAL TYR GLU GLY ARG GLY TRP ASN ILE LYS GLY SEQRES 8 A 171 ALA HIS ALA GLY PRO THR TRP ASN PRO ILE SER ILE GLY SEQRES 9 A 171 ILE SER PHE MET GLY ASN TYR MET ASN ARG VAL PRO PRO SEQRES 10 A 171 PRO ARG ALA LEU ARG ALA ALA GLN ASN LEU LEU ALA CYS SEQRES 11 A 171 GLY VAL ALA LEU GLY ALA LEU ARG SER ASN TYR GLU VAL SEQRES 12 A 171 LYS GLY HIS ARG ASP VAL GLN PRO THR LEU SER PRO GLY SEQRES 13 A 171 ASP ARG LEU TYR GLU ILE ILE GLN THR TRP SER HIS TYR SEQRES 14 A 171 ARG ALA SEQRES 1 B 171 GLU ASP PRO PRO ALA CYS GLY SER ILE VAL PRO ARG ARG SEQRES 2 B 171 GLU TRP ARG ALA LEU ALA SER GLU CYS ARG GLU ARG LEU SEQRES 3 B 171 THR ARG PRO VAL ARG TYR VAL VAL VAL SER HIS THR ALA SEQRES 4 B 171 GLY SER HIS CYS ASP THR PRO ALA SER CYS ALA GLN GLN SEQRES 5 B 171 ALA GLN ASN VAL GLN SER TYR HIS VAL ARG ASN LEU GLY SEQRES 6 B 171 TRP CYS ASP VAL GLY TYR ASN PHE LEU ILE GLY GLU ASP SEQRES 7 B 171 GLY LEU VAL TYR GLU GLY ARG GLY TRP ASN ILE LYS GLY SEQRES 8 B 171 ALA HIS ALA GLY PRO THR TRP ASN PRO ILE SER ILE GLY SEQRES 9 B 171 ILE SER PHE MET GLY ASN TYR MET ASN ARG VAL PRO PRO SEQRES 10 B 171 PRO ARG ALA LEU ARG ALA ALA GLN ASN LEU LEU ALA CYS SEQRES 11 B 171 GLY VAL ALA LEU GLY ALA LEU ARG SER ASN TYR GLU VAL SEQRES 12 B 171 LYS GLY HIS ARG ASP VAL GLN PRO THR LEU SER PRO GLY SEQRES 13 B 171 ASP ARG LEU TYR GLU ILE ILE GLN THR TRP SER HIS TYR SEQRES 14 B 171 ARG ALA SEQRES 1 C 171 GLU ASP PRO PRO ALA CYS GLY SER ILE VAL PRO ARG ARG SEQRES 2 C 171 GLU TRP ARG ALA LEU ALA SER GLU CYS ARG GLU ARG LEU SEQRES 3 C 171 THR ARG PRO VAL ARG TYR VAL VAL VAL SER HIS THR ALA SEQRES 4 C 171 GLY SER HIS CYS ASP THR PRO ALA SER CYS ALA GLN GLN SEQRES 5 C 171 ALA GLN ASN VAL GLN SER TYR HIS VAL ARG ASN LEU GLY SEQRES 6 C 171 TRP CYS ASP VAL GLY TYR ASN PHE LEU ILE GLY GLU ASP SEQRES 7 C 171 GLY LEU VAL TYR GLU GLY ARG GLY TRP ASN ILE LYS GLY SEQRES 8 C 171 ALA HIS ALA GLY PRO THR TRP ASN PRO ILE SER ILE GLY SEQRES 9 C 171 ILE SER PHE MET GLY ASN TYR MET ASN ARG VAL PRO PRO SEQRES 10 C 171 PRO ARG ALA LEU ARG ALA ALA GLN ASN LEU LEU ALA CYS SEQRES 11 C 171 GLY VAL ALA LEU GLY ALA LEU ARG SER ASN TYR GLU VAL SEQRES 12 C 171 LYS GLY HIS ARG ASP VAL GLN PRO THR LEU SER PRO GLY SEQRES 13 C 171 ASP ARG LEU TYR GLU ILE ILE GLN THR TRP SER HIS TYR SEQRES 14 C 171 ARG ALA SEQRES 1 D 171 GLU ASP PRO PRO ALA CYS GLY SER ILE VAL PRO ARG ARG SEQRES 2 D 171 GLU TRP ARG ALA LEU ALA SER GLU CYS ARG GLU ARG LEU SEQRES 3 D 171 THR ARG PRO VAL ARG TYR VAL VAL VAL SER HIS THR ALA SEQRES 4 D 171 GLY SER HIS CYS ASP THR PRO ALA SER CYS ALA GLN GLN SEQRES 5 D 171 ALA GLN ASN VAL GLN SER TYR HIS VAL ARG ASN LEU GLY SEQRES 6 D 171 TRP CYS ASP VAL GLY TYR ASN PHE LEU ILE GLY GLU ASP SEQRES 7 D 171 GLY LEU VAL TYR GLU GLY ARG GLY TRP ASN ILE LYS GLY SEQRES 8 D 171 ALA HIS ALA GLY PRO THR TRP ASN PRO ILE SER ILE GLY SEQRES 9 D 171 ILE SER PHE MET GLY ASN TYR MET ASN ARG VAL PRO PRO SEQRES 10 D 171 PRO ARG ALA LEU ARG ALA ALA GLN ASN LEU LEU ALA CYS SEQRES 11 D 171 GLY VAL ALA LEU GLY ALA LEU ARG SER ASN TYR GLU VAL SEQRES 12 D 171 LYS GLY HIS ARG ASP VAL GLN PRO THR LEU SER PRO GLY SEQRES 13 D 171 ASP ARG LEU TYR GLU ILE ILE GLN THR TRP SER HIS TYR SEQRES 14 D 171 ARG ALA HET TLA A 201 10 HET EDO A 202 4 HET PEG A 203 7 HET EDO B 201 4 HET CL B 202 1 HET TLA C 201 10 HET EDO C 202 4 HET 6NA C 203 8 HET ACT C 204 4 HET EDO C 205 4 HET ACT D 201 4 HET GOL D 202 6 HET TLA D 203 10 HETNAM TLA L(+)-TARTARIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM CL CHLORIDE ION HETNAM 6NA HEXANOIC ACID HETNAM ACT ACETATE ION HETNAM GOL GLYCEROL HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 TLA 3(C4 H6 O6) FORMUL 6 EDO 4(C2 H6 O2) FORMUL 7 PEG C4 H10 O3 FORMUL 9 CL CL 1- FORMUL 12 6NA C6 H12 O2 FORMUL 13 ACT 2(C2 H3 O2 1-) FORMUL 16 GOL C3 H8 O3 FORMUL 18 HOH *405(H2 O) HELIX 1 AA1 PRO A 11 TRP A 15 5 5 HELIX 2 AA2 THR A 45 ASN A 63 1 19 HELIX 3 AA3 PRO A 117 LEU A 134 1 18 HELIX 4 AA4 GLY A 156 GLN A 164 1 9 HELIX 5 AA5 PRO B 11 ARG B 16 5 6 HELIX 6 AA6 THR B 45 ASN B 63 1 19 HELIX 7 AA7 PRO B 117 GLY B 135 1 19 HELIX 8 AA8 GLY B 156 GLN B 164 1 9 HELIX 9 AA9 PRO C 11 ARG C 16 1 6 HELIX 10 AB1 THR C 45 ASN C 63 1 19 HELIX 11 AB2 ALA C 94 ASN C 99 1 6 HELIX 12 AB3 PRO C 117 LEU C 134 1 18 HELIX 13 AB4 ARG C 147 VAL C 149 5 3 HELIX 14 AB5 GLY C 156 GLN C 164 1 9 HELIX 15 AB6 PRO D 11 ARG D 16 5 6 HELIX 16 AB7 THR D 45 ASN D 63 1 19 HELIX 17 AB8 ALA D 94 ASN D 99 1 6 HELIX 18 AB9 PRO D 117 LEU D 134 1 18 HELIX 19 AC1 ARG D 147 VAL D 149 5 3 HELIX 20 AC2 GLY D 156 GLN D 164 1 9 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 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 105 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 PHE D 73 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 LYS D 144 N VAL D 33 SSBOND 1 CYS A 6 CYS A 130 1555 1555 2.05 SSBOND 2 CYS A 22 CYS A 67 1555 1555 2.09 SSBOND 3 CYS A 43 CYS A 49 1555 1555 2.12 SSBOND 4 CYS B 6 CYS B 130 1555 1555 2.04 SSBOND 5 CYS B 22 CYS B 67 1555 1555 2.07 SSBOND 6 CYS B 43 CYS B 49 1555 1555 2.10 SSBOND 7 CYS C 6 CYS C 130 1555 1555 2.06 SSBOND 8 CYS C 22 CYS C 67 1555 1555 2.07 SSBOND 9 CYS C 43 CYS C 49 1555 1555 2.13 SSBOND 10 CYS D 6 CYS D 130 1555 1555 2.05 SSBOND 11 CYS D 22 CYS D 67 1555 1555 2.07 SSBOND 12 CYS D 43 CYS D 49 1555 1555 2.11 CISPEP 1 ARG A 28 PRO A 29 0 -0.01 CISPEP 2 SER A 154 PRO A 155 0 9.04 CISPEP 3 CYS B 6 GLY B 7 0 -13.61 CISPEP 4 ARG B 28 PRO B 29 0 3.62 CISPEP 5 SER B 154 PRO B 155 0 10.33 CISPEP 6 GLY C 7 SER C 8 0 -11.64 CISPEP 7 ARG C 28 PRO C 29 0 2.93 CISPEP 8 SER C 154 PRO C 155 0 5.10 CISPEP 9 ARG D 28 PRO D 29 0 2.95 CISPEP 10 SER D 154 PRO D 155 0 3.87 SITE 1 AC1 8 TRP A 66 CYS A 67 ARG A 85 HOH A 304 SITE 2 AC1 8 HOH A 330 HOH A 338 HOH A 369 HOH A 370 SITE 1 AC2 6 SER A 167 HIS A 168 ARG A 170 HOH A 323 SITE 2 AC2 6 THR D 97 PRO D 100 SITE 1 AC3 5 HIS A 37 ALA A 39 TYR A 71 LEU A 153 SITE 2 AC3 5 SER A 154 SITE 1 AC4 3 SER B 36 HIS B 37 TYR B 71 SITE 1 AC5 3 TRP B 66 CYS B 67 ARG B 85 SITE 1 AC6 12 HIS C 37 ALA C 39 THR C 152 LEU C 153 SITE 2 AC6 12 HOH C 323 HIS D 37 ALA D 39 THR D 152 SITE 3 AC6 12 LEU D 153 SER D 154 GOL D 202 HOH D 301 SITE 1 AC7 9 TRP C 66 LYS C 90 PRO C 96 ASN C 99 SITE 2 AC7 9 HOH C 303 HOH C 335 HOH C 358 PRO D 96 SITE 3 AC7 9 GLN D 150 SITE 1 AC8 1 TYR C 32 SITE 1 AC9 3 GLN C 150 HOH C 325 TLA D 203 SITE 1 AD1 1 THR D 97 SITE 1 AD2 10 PRO C 151 THR C 152 TLA C 201 HIS D 37 SITE 2 AD2 10 THR D 38 ALA D 39 TYR D 71 HIS D 146 SITE 3 AD2 10 HOH D 301 HOH D 312 SITE 1 AD3 6 EDO C 205 TRP D 66 CYS D 67 ARG D 85 SITE 2 AD3 6 ALA D 92 HOH D 334 CRYST1 88.661 101.653 163.328 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 0.011279 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009837 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006123 0.00000 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 0.064161 0.019008 0.997759 -1.69754 1 MTRIX2 2 0.010496 -0.999776 0.018371 51.49398 1 MTRIX3 2 0.997884 0.009294 -0.064346 1.42705 1