HEADER HYDROLASE 09-DEC-05 2FBB TITLE CRYSTAL STRUCTURE ANALYSIS OF HEXAGONAL LYSOZYME COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSOZYME C; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 1,4-BETA-N-ACETYLMURAMIDASE C, ALLERGEN GAL D 4, GAL D IV; COMPND 5 EC: 3.2.1.17 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 3 ORGANISM_COMMON: CHICKEN; SOURCE 4 ORGANISM_TAXID: 9031 KEYWDS HEXAGONAL LYSOZYME, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.BRINKMANN,M.S.WEISS,E.WECKERT REVDAT 4 30-AUG-23 2FBB 1 REMARK LINK REVDAT 3 13-JUL-11 2FBB 1 VERSN REVDAT 2 24-FEB-09 2FBB 1 VERSN REVDAT 1 28-MAR-06 2FBB 0 JRNL AUTH C.BRINKMANN,M.S.WEISS,E.WECKERT JRNL TITL THE STRUCTURE OF THE HEXAGONAL CRYSTAL FORM OF HEN EGG-WHITE JRNL TITL 2 LYSOZYME. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 62 349 2006 JRNL REFN ISSN 0907-4449 JRNL PMID 16552135 JRNL DOI 10.1107/S0907444906000825 REMARK 2 REMARK 2 RESOLUTION. 1.46 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.46 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 70.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 25016 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) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.100 REMARK 3 FREE R VALUE TEST SET COUNT : 528 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) : 1.46 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.50 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1844 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.10 REMARK 3 BIN R VALUE (WORKING SET) : 0.2040 REMARK 3 BIN FREE R VALUE SET COUNT : 26 REMARK 3 BIN FREE R VALUE : 0.2620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1001 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 69 REMARK 3 SOLVENT ATOMS : 165 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.14000 REMARK 3 B22 (A**2) : -0.14000 REMARK 3 B33 (A**2) : 0.21000 REMARK 3 B12 (A**2) : -0.07000 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): 0.068 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.065 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.049 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.474 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1088 ; 0.021 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 890 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1456 ; 1.980 ; 1.943 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2063 ; 1.027 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 128 ;11.106 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 52 ;34.347 ;23.269 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 169 ;13.550 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;17.941 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 146 ; 0.133 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1252 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 229 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 263 ; 0.249 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1014 ; 0.204 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 532 ; 0.189 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 600 ; 0.090 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 111 ; 0.303 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 12 ; 0.169 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 31 ; 0.527 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 79 ; 0.311 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 25 ; 0.344 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): 4 ; 0.211 ; 0.200 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): 691 ; 1.419 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 270 ; 0.389 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1014 ; 1.727 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 424 ; 2.622 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 442 ; 4.010 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 129 REMARK 3 ORIGIN FOR THE GROUP (A): 27.2153 2.6081 19.3633 REMARK 3 T TENSOR REMARK 3 T11: -0.2131 T22: -0.0624 REMARK 3 T33: -0.1188 T12: -0.0048 REMARK 3 T13: 0.0491 T23: -0.0898 REMARK 3 L TENSOR REMARK 3 L11: 4.0620 L22: 1.1078 REMARK 3 L33: 2.4550 L12: 0.5248 REMARK 3 L13: 1.0697 L23: 0.3321 REMARK 3 S TENSOR REMARK 3 S11: 0.0945 S12: 0.0195 S13: 0.1299 REMARK 3 S21: -0.1238 S22: -0.0127 S23: -0.0933 REMARK 3 S31: -0.0539 S32: 0.4063 S33: -0.0818 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2FBB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-DEC-05. REMARK 100 THE DEPOSITION ID IS D_1000035678. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUN-04 REMARK 200 TEMPERATURE (KELVIN) : 10 REMARK 200 PH : 8.40 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X13 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8043 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25570 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.460 REMARK 200 RESOLUTION RANGE LOW (A) : 70.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 23.00 REMARK 200 R MERGE (I) : 0.03800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 77.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.46 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.47 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.20 REMARK 200 R MERGE FOR SHELL (I) : 0.88400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 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: 1DPW.PDB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% AQU. ACETONE SOLUTION SATURATED REMARK 280 WITH SODIUM NITRATE, 25MG/ML LYSOZYME, PH 8.4, BATCH, REMARK 280 TEMPERATURE 293.0K, PH 8.40 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 22.64400 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 45.28800 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 33.96600 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 56.61000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 11.32200 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 22.64400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 45.28800 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 56.61000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 33.96600 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 11.32200 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: 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 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 NA NA A 132 LIES ON A SPECIAL POSITION. REMARK 375 NA NA A 133 LIES ON A SPECIAL POSITION. REMARK 375 N NO3 A 150 LIES ON A SPECIAL POSITION. REMARK 375 O3 NO3 A 150 LIES ON A SPECIAL POSITION. REMARK 375 O1 NO3 A 158 LIES ON A SPECIAL POSITION. REMARK 375 O3 NO3 A 158 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 HOH A 1037 O HOH A 1120 2.04 REMARK 500 O HOH A 1041 O HOH A 1124 2.06 REMARK 500 OD1 ASN A 19 O HOH A 1039 2.11 REMARK 500 ND2 ASN A 106 O HOH A 1091 2.11 REMARK 500 O HOH A 1045 O HOH A 1063 2.12 REMARK 500 O HOH A 1023 O HOH A 1071 2.13 REMARK 500 O HOH A 1032 O HOH A 1091 2.15 REMARK 500 O1 NO3 A 156 O HOH A 1038 2.16 REMARK 500 O PRO A 70 O HOH A 1144 2.16 REMARK 500 OH TYR A 20 O HOH A 1136 2.19 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 O1 NO3 A 150 O2 NO3 A 150 8556 0.07 REMARK 500 N NO3 A 150 O2 NO3 A 150 8556 1.33 REMARK 500 N NO3 A 158 O3 NO3 A 158 8556 1.34 REMARK 500 N NO3 A 158 O1 NO3 A 158 8556 1.37 REMARK 500 N NO3 A 150 O1 NO3 A 150 8556 1.40 REMARK 500 N NO3 A 158 N NO3 A 158 8556 1.43 REMARK 500 O HOH A 1140 O HOH A 1141 8556 1.98 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 68 11.43 -141.11 REMARK 500 ASP A 101 -156.96 -147.78 REMARK 500 CYS A 115 -45.74 -130.54 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 SER A 100 ASP A 101 103.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 135 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 14 NE REMARK 620 2 NO3 A 161 O3 145.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 132 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 41 OE1 REMARK 620 2 GLN A 41 OE1 120.9 REMARK 620 3 LEU A 84 O 94.7 87.2 REMARK 620 4 LEU A 84 O 87.3 94.9 175.8 REMARK 620 5 NO3 A 150 O1 90.4 148.1 84.1 92.2 REMARK 620 6 NO3 A 150 O2 146.8 91.8 92.1 84.2 58.0 REMARK 620 7 NO3 A 150 O1 148.1 90.5 92.0 84.3 59.4 1.4 REMARK 620 8 NO3 A 150 O2 91.8 146.7 84.0 92.2 1.4 56.6 58.0 REMARK 620 9 NO3 A 150 N 119.5 119.6 87.8 88.0 29.7 28.3 29.7 28.3 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 131 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 60 O REMARK 620 2 CYS A 64 O 87.4 REMARK 620 3 SER A 72 OG 93.3 166.8 REMARK 620 4 ARG A 73 O 107.7 89.5 102.8 REMARK 620 5 NO3 A 156 O3 94.1 87.3 79.4 157.8 REMARK 620 6 HOH A1038 O 174.7 97.6 81.4 74.2 84.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 134 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 114 O REMARK 620 2 NO3 A 152 O1 72.8 REMARK 620 3 NO3 A 152 O3 87.4 61.1 REMARK 620 4 NO3 A 152 N 77.4 30.8 30.4 REMARK 620 5 HOH A1015 O 96.2 131.4 167.5 162.0 REMARK 620 6 HOH A1128 O 119.6 66.5 108.3 88.2 80.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 133 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 NO3 A 153 O2 REMARK 620 2 NO3 A 153 O3 58.7 REMARK 620 3 NO3 A 153 O2 156.8 140.9 REMARK 620 4 NO3 A 153 O3 143.8 102.7 55.9 REMARK 620 5 NO3 A 153 N 29.6 29.6 169.5 123.2 REMARK 620 6 HOH A1095 O 85.8 131.8 71.1 123.8 112.4 REMARK 620 7 HOH A1095 O 73.8 128.7 83.1 127.9 102.9 18.3 REMARK 620 8 HOH A1126 O 65.9 94.8 114.1 87.2 75.6 99.2 81.6 REMARK 620 9 HOH A1126 O 116.9 88.1 62.8 90.8 107.5 79.9 97.7 176.9 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 131 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 132 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 133 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 134 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 135 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 150 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 151 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 152 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 153 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 154 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 155 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 156 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 157 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 158 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 159 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 160 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 161 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 162 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 163 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 164 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NO3 A 165 DBREF 2FBB A 1 129 UNP P00698 LYSC_CHICK 19 147 SEQRES 1 A 129 LYS VAL PHE GLY ARG CYS GLU LEU ALA ALA ALA MET LYS SEQRES 2 A 129 ARG HIS GLY LEU ASP ASN TYR ARG GLY TYR SER LEU GLY SEQRES 3 A 129 ASN TRP VAL CYS ALA ALA LYS PHE GLU SER ASN PHE ASN SEQRES 4 A 129 THR GLN ALA THR ASN ARG ASN THR ASP GLY SER THR ASP SEQRES 5 A 129 TYR GLY ILE LEU GLN ILE ASN SER ARG TRP TRP CYS ASN SEQRES 6 A 129 ASP GLY ARG THR PRO GLY SER ARG ASN LEU CYS ASN ILE SEQRES 7 A 129 PRO CYS SER ALA LEU LEU SER SER ASP ILE THR ALA SER SEQRES 8 A 129 VAL ASN CYS ALA LYS LYS ILE VAL SER ASP GLY ASN GLY SEQRES 9 A 129 MET ASN ALA TRP VAL ALA TRP ARG ASN ARG CYS LYS GLY SEQRES 10 A 129 THR ASP VAL GLN ALA TRP ILE ARG GLY CYS ARG LEU HET NA A 131 1 HET NA A 132 1 HET NA A 133 1 HET NA A 134 1 HET NA A 135 1 HET NO3 A 150 4 HET NO3 A 151 4 HET NO3 A 152 4 HET NO3 A 153 4 HET NO3 A 154 4 HET NO3 A 155 4 HET NO3 A 156 4 HET NO3 A 157 4 HET NO3 A 158 4 HET NO3 A 159 8 HET NO3 A 160 4 HET NO3 A 161 4 HET NO3 A 162 4 HET NO3 A 163 8 HET NO3 A 164 4 HET NO3 A 165 4 HETNAM NA SODIUM ION HETNAM NO3 NITRATE ION FORMUL 2 NA 5(NA 1+) FORMUL 7 NO3 16(N O3 1-) FORMUL 23 HOH *165(H2 O) HELIX 1 1 GLY A 4 HIS A 15 1 12 HELIX 2 2 ASN A 19 TYR A 23 5 5 HELIX 3 3 SER A 24 ASN A 37 1 14 HELIX 4 4 PRO A 79 SER A 85 5 7 HELIX 5 5 ILE A 88 VAL A 99 1 12 HELIX 6 6 ASN A 103 ALA A 107 5 5 HELIX 7 7 TRP A 108 CYS A 115 1 8 HELIX 8 8 ASP A 119 ARG A 125 5 7 SHEET 1 A 3 THR A 43 ARG A 45 0 SHEET 2 A 3 THR A 51 TYR A 53 -1 O ASP A 52 N ASN A 44 SHEET 3 A 3 ILE A 58 ASN A 59 -1 O ILE A 58 N TYR A 53 SSBOND 1 CYS A 6 CYS A 127 1555 1555 2.01 SSBOND 2 CYS A 30 CYS A 115 1555 1555 2.00 SSBOND 3 CYS A 64 CYS A 80 1555 1555 2.02 SSBOND 4 CYS A 76 CYS A 94 1555 1555 2.03 LINK NE ARG A 14 NA NA A 135 1555 1555 2.96 LINK OE1 GLN A 41 NA NA A 132 1555 1555 2.25 LINK OE1 GLN A 41 NA NA A 132 8556 1555 2.25 LINK O SER A 60 NA NA A 131 1555 1555 2.30 LINK O CYS A 64 NA NA A 131 1555 1555 2.31 LINK OG SER A 72 NA NA A 131 1555 1555 2.17 LINK O ARG A 73 NA NA A 131 1555 1555 2.21 LINK O LEU A 84 NA NA A 132 1555 1555 2.47 LINK O LEU A 84 NA NA A 132 8556 1555 2.46 LINK O ARG A 114 NA NA A 134 1555 1555 2.35 LINK NA NA A 131 O3 NO3 A 156 1555 1555 2.55 LINK NA NA A 131 O HOH A1038 1555 1555 2.65 LINK NA NA A 132 O1 NO3 A 150 1555 1555 2.55 LINK NA NA A 132 O2 NO3 A 150 1555 1555 2.51 LINK NA NA A 132 O1 NO3 A 150 1555 8556 2.55 LINK NA NA A 132 O2 NO3 A 150 1555 8556 2.51 LINK NA NA A 132 N NO3 A 150 1555 1555 2.81 LINK NA NA A 133 O2 NO3 A 153 1555 1555 2.15 LINK NA NA A 133 O3 NO3 A 153 1555 1555 2.42 LINK NA NA A 133 O2 NO3 A 153 1555 8556 2.28 LINK NA NA A 133 O3 NO3 A 153 1555 8556 2.50 LINK NA NA A 133 N NO3 A 153 1555 1555 2.77 LINK NA NA A 133 O HOH A1095 1555 1555 2.23 LINK NA NA A 133 O HOH A1095 1555 8556 2.21 LINK NA NA A 133 O HOH A1126 1555 1555 2.12 LINK NA NA A 133 O HOH A1126 1555 8556 2.19 LINK NA NA A 134 O1 NO3 A 152 1555 1555 2.57 LINK NA NA A 134 O3 NO3 A 152 1555 1555 2.25 LINK NA NA A 134 N NO3 A 152 1555 1555 2.73 LINK NA NA A 134 O HOH A1015 1555 1555 2.48 LINK NA NA A 134 O HOH A1128 1555 1555 2.41 LINK NA NA A 135 O3 NO3 A 161 1555 1555 2.29 SITE 1 AC1 6 SER A 60 CYS A 64 SER A 72 ARG A 73 SITE 2 AC1 6 NO3 A 156 HOH A1038 SITE 1 AC2 3 GLN A 41 LEU A 84 NO3 A 150 SITE 1 AC3 3 NO3 A 153 HOH A1095 HOH A1126 SITE 1 AC4 5 ARG A 14 ARG A 114 NO3 A 152 HOH A1015 SITE 2 AC4 5 HOH A1128 SITE 1 AC5 4 ARG A 14 HIS A 15 NO3 A 155 NO3 A 161 SITE 1 AC6 8 LYS A 1 THR A 40 GLN A 41 LEU A 84 SITE 2 AC6 8 SER A 85 SER A 86 NA A 132 NO3 A 158 SITE 1 AC7 7 GLY A 4 ARG A 5 CYS A 6 GLU A 7 SITE 2 AC7 7 NO3 A 160 HOH A1117 HOH A1139 SITE 1 AC8 9 ARG A 14 HIS A 15 GLY A 16 LYS A 96 SITE 2 AC8 9 ARG A 114 THR A 118 NA A 134 HOH A1119 SITE 3 AC8 9 HOH A1128 SITE 1 AC9 12 TYR A 53 ASN A 65 ASP A 66 ARG A 68 SITE 2 AC9 12 PRO A 79 CYS A 80 SER A 81 NA A 133 SITE 3 AC9 12 NO3 A 162 HOH A1070 HOH A1095 HOH A1126 SITE 1 BC1 7 SER A 24 LEU A 25 GLY A 26 VAL A 120 SITE 2 BC1 7 GLN A 121 ILE A 124 HOH A1020 SITE 1 BC2 8 ARG A 5 LYS A 33 PHE A 38 TRP A 123 SITE 2 BC2 8 NA A 135 HOH A1023 HOH A1033 HOH A1083 SITE 1 BC3 11 SER A 60 CYS A 64 ASN A 65 ASP A 66 SITE 2 BC3 11 GLY A 67 ARG A 68 THR A 69 SER A 72 SITE 3 BC3 11 NA A 131 HOH A1038 HOH A1096 SITE 1 BC4 4 ALA A 110 ASN A 113 ARG A 114 HOH A1008 SITE 1 BC5 5 LYS A 1 SER A 86 NO3 A 150 HOH A1031 SITE 2 BC5 5 HOH A1105 SITE 1 BC6 10 LYS A 13 ASP A 119 GLN A 121 ALA A 122 SITE 2 BC6 10 ARG A 125 ARG A 128 LEU A 129 HOH A1075 SITE 3 BC6 10 HOH A1081 HOH A1137 SITE 1 BC7 6 CYS A 6 GLU A 7 ARG A 125 NO3 A 151 SITE 2 BC7 6 NO3 A 164 HOH A1079 SITE 1 BC8 6 HIS A 15 SER A 86 ASP A 87 ILE A 88 SITE 2 BC8 6 NA A 135 HOH A1030 SITE 1 BC9 8 THR A 43 ARG A 45 THR A 51 ARG A 68 SITE 2 BC9 8 PRO A 79 SER A 81 NO3 A 153 HOH A1126 SITE 1 CC1 6 ARG A 45 ASN A 65 ASN A 74 ASN A 77 SITE 2 CC1 6 ILE A 78 PRO A 79 SITE 1 CC2 8 ARG A 5 ALA A 10 ARG A 14 ARG A 125 SITE 2 CC2 8 GLY A 126 NO3 A 160 HOH A1069 HOH A1106 SITE 1 CC3 5 ILE A 58 ASN A 59 ALA A 107 TRP A 108 SITE 2 CC3 5 HOH A1159 CRYST1 85.637 85.637 67.932 90.00 90.00 120.00 P 61 2 2 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011677 0.006742 0.000000 0.00000 SCALE2 0.000000 0.013484 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014721 0.00000