PDB Short entry for 3A94 HEADER HYDROLASE 15-OCT-09 3A94 TITLE CRYSTAL STRUCTURE OF HEN EGG WHITE LYSOZYME SOAKED WITH 100MM RHCL3 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 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; SOURCE 5 TISSUE: EGG WHITE KEYWDS HYDROLASE, ALLERGEN, ANTIMICROBIAL, BACTERIOLYTIC ENZYME, GLYCOSIDASE EXPDTA X-RAY DIFFRACTION AUTHOR S.ABE,T.KOSHIYAMA,T.OHKI,T.HIKAGE,Y.WATANABE,T.UENO REVDAT 2 01-NOV-23 3A94 1 REMARK LINK REVDAT 1 09-MAR-10 3A94 0 JRNL AUTH T.UENO,S.ABE,T.KOSHIYAMA,T.OHKI,T.HIKAGE,Y.WATANABE JRNL TITL ELUCIDATION OF METAL-ION ACCUMULATION INDUCED BY HYDROGEN JRNL TITL 2 BONDS ON PROTEIN SURFACES BY USING POROUS LYSOZYME CRYSTALS JRNL TITL 3 CONTAINING RH(III) IONS AS THE MODEL SURFACES JRNL REF CHEMISTRY V. 16 2730 2010 JRNL REFN ISSN 0947-6539 JRNL PMID 20146274 JRNL DOI 10.1002/CHEM.200903269 REMARK 2 REMARK 2 RESOLUTION. 1.55 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) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 16.49 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 16354 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) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 871 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) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1176 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.2340 REMARK 3 BIN FREE R VALUE SET COUNT : 58 REMARK 3 BIN FREE R VALUE : 0.2610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 991 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 98 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.83 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.097 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.095 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.054 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.437 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1036 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1410 ; 1.193 ; 1.901 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 134 ; 5.757 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 51 ;34.278 ;23.137 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 166 ;11.794 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;13.890 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 147 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 810 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 502 ; 0.215 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 730 ; 0.300 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 62 ; 0.150 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.083 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 30 ; 0.243 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.224 ; 0.200 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): 644 ; 0.769 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1024 ; 1.426 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 425 ; 2.131 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 383 ; 3.390 ; 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): 11 ; 9.526 ; 3.000 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 : 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 3A94 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000028966. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-NOV-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : CONFOCAL MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS VII REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17274 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 80.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 23.10 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 23.20 REMARK 200 R MERGE FOR SHELL (I) : 0.26000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 193L REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM CHLORIDE, PH 4.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 18.71300 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 38.95600 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 38.95600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 28.06950 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 38.95600 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 38.95600 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 9.35650 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 38.95600 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 38.95600 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 28.06950 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 38.95600 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 38.95600 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 9.35650 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 18.71300 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLN A 121 CG CD OE1 NE2 REMARK 470 ARG A 125 CG CD NE CZ NH1 NH2 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 OXT LEU A 129 OXT LEU A 129 7554 2.14 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 RH3 A 145 RH REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 14 NH1 REMARK 620 2 ARG A 14 NH2 61.5 REMARK 620 3 HIS A 15 NE2 100.9 95.0 REMARK 620 4 HOH A 212 O 83.4 140.8 74.0 REMARK 620 5 HOH A 214 O 92.3 91.4 166.8 107.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 RH3 A 136 RH REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 18 OD2 REMARK 620 2 HOH A 220 O 78.3 REMARK 620 3 HOH A 221 O 82.4 89.9 REMARK 620 4 HOH A 222 O 100.0 174.3 95.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 RH3 A 143 RH REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 19 OD1 REMARK 620 2 HOH A 219 O 136.0 REMARK 620 3 HOH A 220 O 150.6 73.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 RH3 A 140 RH REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 46 OD1 REMARK 620 2 ASP A 52 OD2 109.4 REMARK 620 3 HOH A 215 O 75.1 87.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 130 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 60 O REMARK 620 2 CYS A 64 O 89.0 REMARK 620 3 SER A 72 OG 89.6 165.9 REMARK 620 4 ARG A 73 O 95.1 91.3 102.7 REMARK 620 5 HOH A 150 O 101.2 87.4 79.2 163.6 REMARK 620 6 HOH A 163 O 174.2 96.6 84.6 86.3 77.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 RH3 A 138 RH REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 65 OD1 REMARK 620 2 HOH A 217 O 91.6 REMARK 620 3 HOH A 218 O 92.1 75.7 REMARK 620 4 HOH A 226 O 90.6 175.1 99.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 RH3 A 137 RH REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 87 OD2 REMARK 620 2 HOH A 211 O 79.5 REMARK 620 3 HOH A 214 O 116.6 155.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 RH3 A 139 RH REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 119 OD2 REMARK 620 2 HOH A 235 O 94.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 RH3 A 135 RH REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 212 O REMARK 620 2 HOH A 213 O 77.7 REMARK 620 3 HOH A 214 O 164.0 97.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 RH3 A 142 RH REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 170 O REMARK 620 2 HOH A 184 O 85.8 REMARK 620 3 HOH A 195 O 86.5 96.0 REMARK 620 4 HOH A 228 O 90.7 80.0 175.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 RH3 A 144 RH REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 159 O REMARK 620 2 HOH A 216 O 87.8 REMARK 620 3 HOH A 218 O 82.9 85.2 REMARK 620 4 HOH A 236 O 96.6 84.0 169.3 REMARK 620 5 HOH A 237 O 159.1 87.3 76.5 103.0 REMARK 620 N 1 2 3 4 REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR DETERMINED 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 130 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 131 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 132 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 133 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 134 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RH3 A 135 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RH3 A 136 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RH3 A 137 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RH3 A 138 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RH3 A 139 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RH3 A 140 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RH3 A 141 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RH3 A 142 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RH3 A 143 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RH3 A 144 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RH3 A 145 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3A8Z RELATED DB: PDB REMARK 900 RELATED ID: 3A90 RELATED DB: PDB REMARK 900 RELATED ID: 3A91 RELATED DB: PDB REMARK 900 RELATED ID: 3A92 RELATED DB: PDB REMARK 900 RELATED ID: 3A93 RELATED DB: PDB REMARK 900 RELATED ID: 3A95 RELATED DB: PDB REMARK 900 RELATED ID: 3A96 RELATED DB: PDB DBREF 3A94 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 130 1 HET CL A 131 1 HET CL A 132 1 HET CL A 133 1 HET CL A 134 1 HET RH3 A 135 1 HET RH3 A 136 1 HET RH3 A 137 1 HET RH3 A 138 1 HET RH3 A 139 1 HET RH3 A 140 1 HET RH3 A 141 1 HET RH3 A 142 1 HET RH3 A 143 1 HET RH3 A 144 1 HET RH3 A 145 1 HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM RH3 RHODIUM(III) ION FORMUL 2 NA NA 1+ FORMUL 3 CL 4(CL 1-) FORMUL 7 RH3 11(RH 3+) FORMUL 18 HOH *98(H2 O) HELIX 1 1 ARG A 5 ARG A 14 1 10 HELIX 2 2 TYR A 20 GLY A 22 5 3 HELIX 3 3 LEU A 25 SER A 36 1 12 HELIX 4 4 CYS A 80 LEU A 84 5 5 HELIX 5 5 THR A 89 VAL A 99 1 11 HELIX 6 6 GLY A 104 ALA A 107 5 4 HELIX 7 7 VAL A 109 ARG A 114 1 6 HELIX 8 8 VAL A 120 ILE A 124 5 5 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 2.03 SSBOND 2 CYS A 30 CYS A 115 1555 1555 2.04 SSBOND 3 CYS A 64 CYS A 80 1555 1555 2.06 SSBOND 4 CYS A 76 CYS A 94 1555 1555 2.04 LINK NH1 ARG A 14 RH RH3 A 145 1555 1555 2.36 LINK NH2 ARG A 14 RH RH3 A 145 1555 1555 2.12 LINK NE2 HIS A 15 RH RH3 A 145 1555 1555 2.35 LINK OD2 ASP A 18 RH RH3 A 136 1555 1555 2.13 LINK OD1 ASN A 19 RH RH3 A 143 1555 1555 2.06 LINK OD1 ASN A 46 RH RH3 A 140 1555 1555 2.00 LINK OD2 ASP A 52 RH RH3 A 140 1555 1555 2.19 LINK O SER A 60 NA NA A 130 1555 1555 2.31 LINK O CYS A 64 NA NA A 130 1555 1555 2.44 LINK OD1 ASN A 65 RH RH3 A 138 1555 1555 2.15 LINK ND2 ASN A 65 RH RH3 A 141 1555 1555 2.12 LINK OG SER A 72 NA NA A 130 1555 1555 2.47 LINK O ARG A 73 NA NA A 130 1555 1555 2.41 LINK OD2 ASP A 87 RH RH3 A 137 1555 1555 2.01 LINK OD2 ASP A 119 RH RH3 A 139 1555 1555 1.98 LINK NA NA A 130 O HOH A 150 1555 1555 2.48 LINK NA NA A 130 O HOH A 163 1555 1555 2.47 LINK RH RH3 A 135 O HOH A 212 1555 1555 2.03 LINK RH RH3 A 135 O HOH A 213 1555 1555 2.23 LINK RH RH3 A 135 O HOH A 214 1555 1555 1.87 LINK RH RH3 A 136 O HOH A 220 1555 1555 2.22 LINK RH RH3 A 136 O HOH A 221 1555 1555 2.54 LINK RH RH3 A 136 O HOH A 222 1555 1555 2.35 LINK RH RH3 A 137 O HOH A 211 1555 1555 2.20 LINK RH RH3 A 137 O HOH A 214 1555 1555 2.48 LINK RH RH3 A 138 O HOH A 217 1555 1555 2.13 LINK RH RH3 A 138 O HOH A 218 1555 1555 2.26 LINK RH RH3 A 138 O HOH A 226 1555 1555 2.14 LINK RH RH3 A 139 O HOH A 235 1555 1555 2.28 LINK RH RH3 A 140 O HOH A 215 1555 1555 2.35 LINK RH RH3 A 142 O HOH A 170 1555 1555 2.41 LINK RH RH3 A 142 O HOH A 184 1555 1555 2.46 LINK RH RH3 A 142 O HOH A 195 1555 1555 2.68 LINK RH RH3 A 142 O HOH A 228 1555 1555 2.29 LINK RH RH3 A 143 O HOH A 219 1555 1555 2.17 LINK RH RH3 A 143 O HOH A 220 1555 1555 2.17 LINK RH RH3 A 144 O HOH A 159 1555 1555 2.34 LINK RH RH3 A 144 O HOH A 216 1555 1555 2.07 LINK RH RH3 A 144 O HOH A 218 1555 1555 2.69 LINK RH RH3 A 144 O HOH A 236 1555 1555 2.31 LINK RH RH3 A 144 O HOH A 237 1555 1555 2.48 LINK RH RH3 A 145 O HOH A 212 1555 1555 2.66 LINK RH RH3 A 145 O HOH A 214 1555 1555 2.10 SITE 1 AC1 6 SER A 60 CYS A 64 SER A 72 ARG A 73 SITE 2 AC1 6 HOH A 150 HOH A 163 SITE 1 AC2 2 TYR A 23 ASN A 113 SITE 1 AC3 7 ASN A 65 GLY A 67 ARG A 68 THR A 69 SITE 2 AC3 7 RH3 A 141 HOH A 150 HOH A 181 SITE 1 AC4 3 SER A 24 GLY A 26 GLN A 121 SITE 1 AC5 1 PHE A 38 SITE 1 AC6 8 ARG A 14 HIS A 15 ASP A 87 RH3 A 137 SITE 2 AC6 8 RH3 A 145 HOH A 212 HOH A 213 HOH A 214 SITE 1 AC7 6 ASP A 18 RH3 A 143 HOH A 219 HOH A 220 SITE 2 AC7 6 HOH A 221 HOH A 222 SITE 1 AC8 5 ASP A 87 RH3 A 135 RH3 A 145 HOH A 211 SITE 2 AC8 5 HOH A 214 SITE 1 AC9 5 ASN A 65 RH3 A 141 HOH A 217 HOH A 218 SITE 2 AC9 5 HOH A 226 SITE 1 BC1 2 ASP A 119 HOH A 235 SITE 1 BC2 3 ASN A 46 ASP A 52 HOH A 215 SITE 1 BC3 3 ASN A 65 CL A 132 RH3 A 138 SITE 1 BC4 4 HOH A 170 HOH A 184 HOH A 195 HOH A 228 SITE 1 BC5 5 ASP A 18 ASN A 19 RH3 A 136 HOH A 219 SITE 2 BC5 5 HOH A 220 SITE 1 BC6 5 HOH A 159 HOH A 216 HOH A 218 HOH A 236 SITE 2 BC6 5 HOH A 237 SITE 1 BC7 6 ARG A 14 HIS A 15 RH3 A 135 RH3 A 137 SITE 2 BC7 6 HOH A 212 HOH A 214 CRYST1 77.912 77.912 37.426 90.00 90.00 90.00 P 43 21 2 8 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 0.012835 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012835 0.000000 0.00000 SCALE3 0.000000 0.000000 0.026719 0.00000