HEADER HYDROLASE 16-APR-13 4K7C TITLE CRYSTAL STRUCTURE OF PEPW FROM LACTOBACILLUS RHAMNOSIS HN001 (DR20) TITLE 2 DETERMINED AS THE SELENOMET DERIVATIVE COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOPEPTIDASE C; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.22.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOBACILLUS RHAMNOSUS; SOURCE 3 ORGANISM_TAXID: 486408; SOURCE 4 STRAIN: HN001 TAXON-486408; SOURCE 5 GENE: LRH 13711, LRH_13711; SOURCE 6 EXPRESSION_SYSTEM: LACTOCOCCUS LACTIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 746361; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: CREMORIS NZ9000; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET32A KEYWDS AMINOPEPTIDASE CYSTEINE PEPTIDASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.WEBBY,K.M.KNAPP,B.F.ANDERSON,G.E.NORRIS REVDAT 4 06-DEC-23 4K7C 1 REMARK REVDAT 3 20-SEP-23 4K7C 1 REMARK LINK REVDAT 2 15-NOV-17 4K7C 1 REMARK REVDAT 1 19-JUN-13 4K7C 0 JRNL AUTH C.WEBBY,K.M.KNAPP,B.F.ANDERSON,G.E.NORRIS JRNL TITL CRYSTAL STRUCTURE OF PEPW FROM LACTOBACILLUS RHAMNOSIS HN001 JRNL TITL 2 (DR20) DETERMINED AS THE SELENOMET DERIVATIVE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.66 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 1.66 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.76 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 65412 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3497 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) : 1.66 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.70 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4541 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.18 REMARK 3 BIN R VALUE (WORKING SET) : 0.3640 REMARK 3 BIN FREE R VALUE SET COUNT : 237 REMARK 3 BIN FREE R VALUE : 0.3980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3557 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 515 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.44 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) : -0.01000 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): 0.088 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.090 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.069 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.199 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 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): 3783 ; 0.021 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3567 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5123 ; 2.013 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8256 ; 0.932 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 473 ; 6.054 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 178 ;33.742 ;25.618 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 622 ;12.734 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;17.453 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 559 ; 0.123 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4306 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 848 ; 0.001 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4K7C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-APR-13. REMARK 100 THE DEPOSITION ID IS D_1000078982. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 5.4 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 MICROMAX-002+ REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : CAPILLIARY REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 84251 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.490 REMARK 200 RESOLUTION RANGE LOW (A) : 33.760 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.4 REMARK 200 DATA REDUNDANCY : 3.220 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.49 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 23.1 REMARK 200 DATA REDUNDANCY IN SHELL : 1.12 REMARK 200 R MERGE FOR SHELL (I) : 0.41200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.200 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: 3ZUK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M NAAC, 11% PEG 4K, 30% GLYCEROL REMARK 280 PROTECTANT, PH 5.4, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 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 REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-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 -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 0.00000 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 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 48.58500 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 48.58500 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 48.58500 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 0.00000 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 0.00000 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 48.58500 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 48.58500 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 48.58500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 30860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 95360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -176.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 71.71600 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 124.21576 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -71.71600 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 124.21576 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.500000 -0.866025 0.000000 71.71600 REMARK 350 BIOMT2 4 -0.866025 -0.500000 0.000000 124.21576 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 48.58500 REMARK 350 BIOMT1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 48.58500 REMARK 350 BIOMT1 6 0.500000 0.866025 0.000000 -71.71600 REMARK 350 BIOMT2 6 0.866025 -0.500000 0.000000 124.21576 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 48.58500 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -45.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 48.58500 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 A1067 LIES ON A SPECIAL POSITION. 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 ASN A 170 OD1 ND2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 201 CG CD OE1 OE2 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 PRO A 441 O HOH A 1031 1.92 REMARK 500 OE1 GLN A 246 O HOH A 986 2.05 REMARK 500 O3 GOL A 504 O HOH A 925 2.07 REMARK 500 ND2 ASN A 236 O HOH A 1035 2.13 REMARK 500 NZ LYS A 206 O HOH A 1071 2.17 REMARK 500 NZ LYS A 157 O HOH A 1052 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 GOL A 506 O HOH A 1068 5555 1.86 REMARK 500 O HOH A 941 O HOH A 955 11555 2.02 REMARK 500 O HOH A 742 O HOH A 742 12565 2.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 171 CG GLU A 171 CD 0.145 REMARK 500 GLU A 201 CB GLU A 201 CG -0.132 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 138 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 181 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 327 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG A 327 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 ARG A 354 NE - CZ - NH2 ANGL. DEV. = -4.0 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 LYS A 65 -141.28 57.14 REMARK 500 LYS A 168 79.32 -157.50 REMARK 500 VAL A 253 -61.55 -108.67 REMARK 500 PRO A 267 49.91 -84.73 REMARK 500 MSE A 281 -2.47 69.24 REMARK 500 MSE A 281 19.44 57.26 REMARK 500 ASN A 284 -43.79 -134.12 REMARK 500 LYS A 338 69.88 -118.68 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 508 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ZUK RELATED DB: PDB DBREF 4K7C A 1 446 UNP B5QNU9 B5QNU9_LACRH 1 446 SEQRES 1 A 446 MSE SER ALA GLU ILE THR SER GLY ASP LEU ASP GLN PHE SEQRES 2 A 446 LYS GLN ASP LEU GLN ALA THR PRO ALA ALA ASN ALA LEU SEQRES 3 A 446 GLN LYS ALA VAL MSE ASN ASN GLY ILE ASN ALA THR ALA SEQRES 4 A 446 GLU ASN THR ASP SER LYS VAL ALA MSE THR PRO THR PHE SEQRES 5 A 446 SER ILE GLU LEU ASP THR GLY ALA VAL SER ASN GLN LYS SEQRES 6 A 446 GLN SER GLY ARG CYS TRP MSE PHE ALA ALA LEU ASN THR SEQRES 7 A 446 MSE ARG HIS GLY ILE GLN ALA GLN PHE LYS ILE LYS ASP SEQRES 8 A 446 PHE GLU LEU SER GLN ASN TYR THR PHE PHE TRP ASP LYS SEQRES 9 A 446 PHE GLU LYS SER ASN TYR PHE TYR GLU ASN VAL LEU LYS SEQRES 10 A 446 THR ALA ASP GLN PRO LEU ASP SER ARG LYS VAL ALA PHE SEQRES 11 A 446 LEU LEU ALA THR PRO GLN GLN ASP GLY GLY GLN TRP ASP SEQRES 12 A 446 MSE LEU SER ALA LEU ILE GLU LYS TYR GLY ILE VAL PRO SEQRES 13 A 446 LYS SER VAL MSE PRO GLU THR TYR SER SER SER LYS SER SEQRES 14 A 446 ASN GLU LEU ASN GLY LEU LEU ASN LEU LYS LEU ARG LYS SEQRES 15 A 446 ASP ALA VAL THR LEU ARG LYS LEU VAL ALA ASP LYS ALA SEQRES 16 A 446 SER ASP ALA ASP ILE GLU ALA ALA LYS GLN LYS MSE LEU SEQRES 17 A 446 ALA GLU ASP TYR ARG ILE LEU ALA TYR THR LEU GLY ASN SEQRES 18 A 446 PRO PRO THR LYS PHE ASP PHE GLU TYR ARG ASP ASP ASP SEQRES 19 A 446 LYS ASN TYR HIS ILE ASP ARG GLU LEU THR PRO GLN THR SEQRES 20 A 446 PHE PHE LYS LYS TYR VAL GLY TRP ASN LEU ASP ASP TYR SEQRES 21 A 446 GLN SER ILE ILE ASN ALA PRO THR ALA ASP LYS PRO TYR SEQRES 22 A 446 LYS HIS LEU TYR THR VAL GLU MSE LEU GLY ASN VAL VAL SEQRES 23 A 446 GLY GLY ARG GLU VAL ARG HIS LEU ASN LEU ASP ILE ASP SEQRES 24 A 446 THR PHE LYS ASP LEU ALA ILE LYS GLN LEU LYS ALA GLY SEQRES 25 A 446 GLU SER VAL TRP PHE GLY SER ASP VAL GLY GLN SER SER SEQRES 26 A 446 ASP ARG GLN LEU GLY ILE LEU ASP THR ASN ILE TYR LYS SEQRES 27 A 446 LYS ASP ASP LEU PHE ASN THR ASP PHE THR MSE THR LYS SEQRES 28 A 446 ALA GLU ARG LEU ASP TYR GLY GLU SER LEU MSE THR HIS SEQRES 29 A 446 ALA MSE VAL LEU THR GLY VAL ASP LEU VAL ASP GLY LYS SEQRES 30 A 446 PRO THR LYS TRP LYS VAL GLU ASN SER TRP GLY GLU LYS SEQRES 31 A 446 VAL GLY GLU LYS GLY TYR PHE VAL ALA SER ASP ALA TRP SEQRES 32 A 446 PHE ASP GLN PHE VAL TYR GLN VAL VAL ILE SER LYS LYS SEQRES 33 A 446 TYR LEU PRO ALA GLU LEU GLN ASP VAL ILE LYS ASN GLU SEQRES 34 A 446 TYR ASP LYS PRO THR VAL LEU ALA PRO TRP ASP PRO MSE SEQRES 35 A 446 GLY ALA LEU ALA MODRES 4K7C MSE A 1 MET SELENOMETHIONINE MODRES 4K7C MSE A 31 MET SELENOMETHIONINE MODRES 4K7C MSE A 48 MET SELENOMETHIONINE MODRES 4K7C MSE A 72 MET SELENOMETHIONINE MODRES 4K7C MSE A 79 MET SELENOMETHIONINE MODRES 4K7C MSE A 144 MET SELENOMETHIONINE MODRES 4K7C MSE A 160 MET SELENOMETHIONINE MODRES 4K7C MSE A 207 MET SELENOMETHIONINE MODRES 4K7C MSE A 281 MET SELENOMETHIONINE MODRES 4K7C MSE A 349 MET SELENOMETHIONINE MODRES 4K7C MSE A 362 MET SELENOMETHIONINE MODRES 4K7C MSE A 366 MET SELENOMETHIONINE MODRES 4K7C MSE A 442 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 31 8 HET MSE A 48 8 HET MSE A 72 8 HET MSE A 79 8 HET MSE A 144 8 HET MSE A 160 8 HET MSE A 207 8 HET MSE A 281 24 HET MSE A 349 8 HET MSE A 362 16 HET MSE A 366 8 HET MSE A 442 8 HET GOL A 501 6 HET GOL A 502 6 HET GOL A 503 12 HET GOL A 504 6 HET GOL A 505 6 HET GOL A 506 6 HET GOL A 507 6 HET GOL A 508 6 HETNAM MSE SELENOMETHIONINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 13(C5 H11 N O2 SE) FORMUL 2 GOL 8(C3 H8 O3) FORMUL 10 HOH *515(H2 O) HELIX 1 1 THR A 6 THR A 20 1 15 HELIX 2 2 ALA A 22 GLU A 40 1 19 HELIX 3 3 ASN A 41 MSE A 48 1 8 HELIX 4 4 ARG A 69 LYS A 88 1 20 HELIX 5 5 SER A 95 THR A 118 1 24 HELIX 6 6 SER A 125 THR A 134 1 10 HELIX 7 7 GLN A 141 GLY A 153 1 13 HELIX 8 8 PRO A 156 MSE A 160 5 5 HELIX 9 9 SER A 169 ASP A 193 1 25 HELIX 10 10 SER A 196 GLY A 220 1 25 HELIX 11 11 THR A 244 VAL A 253 1 10 HELIX 12 12 ASN A 256 ASP A 258 5 3 HELIX 13 13 ASP A 297 ALA A 311 1 15 HELIX 14 14 LYS A 338 ASN A 344 1 7 HELIX 15 15 THR A 350 TYR A 357 1 8 HELIX 16 16 ASP A 401 PHE A 407 1 7 HELIX 17 17 LYS A 416 LEU A 418 5 3 HELIX 18 18 PRO A 419 TYR A 430 1 12 HELIX 19 19 ASP A 440 ALA A 444 5 5 SHEET 1 A 6 ILE A 54 GLU A 55 0 SHEET 2 A 6 HIS A 364 VAL A 374 -1 O VAL A 371 N ILE A 54 SHEET 3 A 6 LYS A 377 GLU A 384 -1 O GLU A 384 N VAL A 367 SHEET 4 A 6 TYR A 396 SER A 400 -1 O PHE A 397 N VAL A 383 SHEET 5 A 6 ILE A 331 LEU A 332 1 N LEU A 332 O VAL A 398 SHEET 6 A 6 SER A 325 ASP A 326 -1 N ASP A 326 O ILE A 331 SHEET 1 B 8 ILE A 54 GLU A 55 0 SHEET 2 B 8 HIS A 364 VAL A 374 -1 O VAL A 371 N ILE A 54 SHEET 3 B 8 VAL A 315 SER A 319 -1 N VAL A 315 O LEU A 368 SHEET 4 B 8 VAL A 408 SER A 414 -1 O TYR A 409 N GLY A 318 SHEET 5 B 8 TYR A 260 ILE A 264 -1 N ILE A 263 O VAL A 411 SHEET 6 B 8 HIS A 293 ASN A 295 1 O LEU A 294 N ILE A 264 SHEET 7 B 8 HIS A 275 VAL A 279 -1 N TYR A 277 O HIS A 293 SHEET 8 B 8 THR A 434 LEU A 436 1 O LEU A 436 N THR A 278 SHEET 1 C 2 PHE A 226 ARG A 231 0 SHEET 2 C 2 TYR A 237 LEU A 243 -1 O ASP A 240 N PHE A 228 LINK C MSE A 1 N SER A 2 1555 1555 1.34 LINK C VAL A 30 N MSE A 31 1555 1555 1.36 LINK C MSE A 31 N ASN A 32 1555 1555 1.32 LINK C ALA A 47 N MSE A 48 1555 1555 1.32 LINK C MSE A 48 N THR A 49 1555 1555 1.32 LINK C TRP A 71 N MSE A 72 1555 1555 1.33 LINK C MSE A 72 N PHE A 73 1555 1555 1.33 LINK C THR A 78 N MSE A 79 1555 1555 1.31 LINK C MSE A 79 N ARG A 80 1555 1555 1.34 LINK C ASP A 143 N MSE A 144 1555 1555 1.33 LINK C MSE A 144 N LEU A 145 1555 1555 1.34 LINK C VAL A 159 N MSE A 160 1555 1555 1.32 LINK C MSE A 160 N PRO A 161 1555 1555 1.33 LINK C LYS A 206 N MSE A 207 1555 1555 1.33 LINK C MSE A 207 N LEU A 208 1555 1555 1.31 LINK C GLU A 280 N AMSE A 281 1555 1555 1.34 LINK C GLU A 280 N BMSE A 281 1555 1555 1.34 LINK C GLU A 280 N CMSE A 281 1555 1555 1.34 LINK C AMSE A 281 N LEU A 282 1555 1555 1.34 LINK C BMSE A 281 N LEU A 282 1555 1555 1.34 LINK C CMSE A 281 N LEU A 282 1555 1555 1.34 LINK C THR A 348 N MSE A 349 1555 1555 1.33 LINK C MSE A 349 N THR A 350 1555 1555 1.35 LINK C LEU A 361 N AMSE A 362 1555 1555 1.35 LINK C LEU A 361 N BMSE A 362 1555 1555 1.33 LINK C AMSE A 362 N THR A 363 1555 1555 1.33 LINK C BMSE A 362 N THR A 363 1555 1555 1.32 LINK C ALA A 365 N MSE A 366 1555 1555 1.31 LINK C MSE A 366 N VAL A 367 1555 1555 1.34 LINK C PRO A 441 N MSE A 442 1555 1555 1.31 LINK C MSE A 442 N GLY A 443 1555 1555 1.33 SITE 1 AC1 6 ALA A 37 GLU A 40 LYS A 45 GOL A 508 SITE 2 AC1 6 HOH A 638 HOH A 945 SITE 1 AC2 9 TRP A 255 TYR A 260 GLN A 308 VAL A 315 SITE 2 AC2 9 TRP A 316 VAL A 412 HOH A 730 HOH A 838 SITE 3 AC2 9 HOH A 916 SITE 1 AC3 11 ASN A 24 GLN A 27 LYS A 28 MSE A 31 SITE 2 AC3 11 ASN A 41 THR A 42 ASP A 43 ASN A 221 SITE 3 AC3 11 HOH A 673 HOH A 761 HOH A 937 SITE 1 AC4 6 THR A 49 SER A 158 PHE A 228 HOH A 618 SITE 2 AC4 6 HOH A 925 HOH A1069 SITE 1 AC5 6 ALA A 60 VAL A 61 ARG A 80 ASP A 91 SITE 2 AC5 6 GLU A 93 HOH A 842 SITE 1 AC6 9 TYR A 98 TRP A 102 TYR A 152 PRO A 222 SITE 2 AC6 9 PRO A 223 HOH A 810 HOH A 841 HOH A 976 SITE 3 AC6 9 HOH A1068 SITE 1 AC7 7 ALA A 352 GLU A 353 ASP A 356 HOH A 686 SITE 2 AC7 7 HOH A 702 HOH A1010 HOH A1046 SITE 1 AC8 10 GLU A 162 THR A 163 TYR A 164 SER A 167 SITE 2 AC8 10 GOL A 501 HOH A 615 HOH A 680 HOH A 755 SITE 3 AC8 10 HOH A1024 HOH A1075 CRYST1 143.432 143.432 97.170 90.00 90.00 120.00 P 63 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 0.006972 0.004025 0.000000 0.00000 SCALE2 0.000000 0.008051 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010291 0.00000 HETATM 1 N MSE A 1 -27.178 37.054 4.900 1.00 62.79 N HETATM 2 CA MSE A 1 -26.178 36.298 5.730 1.00 66.99 C HETATM 3 C MSE A 1 -26.015 36.941 7.107 1.00 57.38 C HETATM 4 O MSE A 1 -25.750 38.180 7.248 1.00 40.94 O HETATM 5 CB MSE A 1 -24.866 36.173 4.942 1.00 91.08 C HETATM 6 CG MSE A 1 -23.893 35.094 5.439 1.00109.31 C HETATM 7 SE MSE A 1 -22.090 35.906 5.641 1.00164.83 SE HETATM 8 CE MSE A 1 -20.956 35.050 4.268 1.00142.01 C