HEADER HYDROLASE 15-OCT-09 3K93 TITLE CRYSTAL STRUCTURE OF PHAGE RELATED EXONUCLEASE (YP_719632.1) FROM TITLE 2 HAEMOPHILUS SOMNUS 129PT AT 2.15 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHAGE RELATED EXONUCLEASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HAEMOPHILUS SOMNUS 129PT; SOURCE 3 ORGANISM_COMMON: HISTOPHILUS SOMNI (STRAIN 129PT); SOURCE 4 ORGANISM_TAXID: 205914; SOURCE 5 STRAIN: 129PT; SOURCE 6 GENE: HS_1420; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS PHAGE RELATED EXONUCLEASE, STRUCTURAL GENOMICS, JOINT CENTER FOR KEYWDS 2 STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, KEYWDS 3 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 5 01-FEB-23 3K93 1 REMARK SEQADV REVDAT 4 17-JUL-19 3K93 1 REMARK LINK REVDAT 3 25-OCT-17 3K93 1 REMARK REVDAT 2 13-JUL-11 3K93 1 VERSN REVDAT 1 03-NOV-09 3K93 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PHAGE RELATED EXONUCLEASE (YP_719632.1) JRNL TITL 2 FROM HAEMOPHILUS SOMNUS 129PT AT 2.15 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0053 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.34 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 17249 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 874 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1213 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2550 REMARK 3 BIN FREE R VALUE SET COUNT : 63 REMARK 3 BIN FREE R VALUE : 0.3030 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1775 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 122 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 32.94 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.13000 REMARK 3 B22 (A**2) : -0.13000 REMARK 3 B33 (A**2) : 0.20000 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): 0.180 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.160 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.107 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.253 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 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): 1858 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1279 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2508 ; 1.459 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3132 ; 0.971 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 232 ; 5.373 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 90 ;33.597 ;25.222 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 338 ;14.765 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;15.013 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 275 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2058 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 364 ; 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): 1124 ; 0.753 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 456 ; 0.167 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1821 ; 1.445 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 734 ; 2.271 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 682 ; 3.765 ; 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 : 3 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 0 A 53 REMARK 3 ORIGIN FOR THE GROUP (A): 16.4930 50.1320 4.8850 REMARK 3 T TENSOR REMARK 3 T11: 0.0659 T22: 0.1047 REMARK 3 T33: 0.2220 T12: 0.0401 REMARK 3 T13: 0.0383 T23: 0.0102 REMARK 3 L TENSOR REMARK 3 L11: 1.8314 L22: 3.0234 REMARK 3 L33: 2.0676 L12: 1.6467 REMARK 3 L13: -0.0608 L23: 0.7650 REMARK 3 S TENSOR REMARK 3 S11: -0.0918 S12: 0.0755 S13: -0.0487 REMARK 3 S21: -0.1049 S22: 0.0200 S23: -0.0591 REMARK 3 S31: -0.0081 S32: -0.0102 S33: 0.0718 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 54 A 139 REMARK 3 ORIGIN FOR THE GROUP (A): -2.2360 39.6290 13.4440 REMARK 3 T TENSOR REMARK 3 T11: 0.0753 T22: 0.0911 REMARK 3 T33: 0.3179 T12: -0.0284 REMARK 3 T13: 0.0219 T23: 0.0030 REMARK 3 L TENSOR REMARK 3 L11: 2.6639 L22: 1.2936 REMARK 3 L33: 2.0191 L12: -0.9338 REMARK 3 L13: -1.8523 L23: 0.2489 REMARK 3 S TENSOR REMARK 3 S11: -0.0792 S12: -0.1395 S13: -0.3007 REMARK 3 S21: -0.0201 S22: -0.0553 S23: -0.1183 REMARK 3 S31: 0.2065 S32: 0.0717 S33: 0.1346 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 140 A 222 REMARK 3 ORIGIN FOR THE GROUP (A): 0.0250 43.6140 10.6700 REMARK 3 T TENSOR REMARK 3 T11: 0.0827 T22: 0.0478 REMARK 3 T33: 0.1792 T12: 0.0229 REMARK 3 T13: 0.0035 T23: 0.0263 REMARK 3 L TENSOR REMARK 3 L11: 3.1000 L22: 0.7296 REMARK 3 L33: 0.8363 L12: 0.2285 REMARK 3 L13: -0.7357 L23: 0.1834 REMARK 3 S TENSOR REMARK 3 S11: -0.0412 S12: 0.1124 S13: -0.4235 REMARK 3 S21: -0.0303 S22: -0.0753 S23: -0.0053 REMARK 3 S31: 0.1097 S32: -0.0780 S33: 0.1164 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2. ATOM RECORD CONTAINS RESIDUAL B FACTORS REMARK 3 ONLY. 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE REMARK 3 ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 TO ACCOUNT FOR THE REMARK 3 REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 4. REMARK 3 SODIUM (NA) AND CHLORIDE (CL) IONS, GLYCEROL (GOL), AND REMARK 3 POLYETHYLENE GLYCOL (PEG) FROM THE CRYSTALLIZATION SOLUTION HAVE REMARK 3 BEEN MODELED INTO THE SOLVENT STRUCTURE. 5. TLS GROUPS WERE REMARK 3 ASSIGNED WITH THE AID OF THE TLSMD SERVER. REMARK 4 REMARK 4 3K93 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000055700. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837,0.97947 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.5 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17252 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 28.341 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.12900 REMARK 200 R SYM (I) : 0.12900 REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.50 REMARK 200 R MERGE FOR SHELL (I) : 0.83600 REMARK 200 R SYM FOR SHELL (I) : 0.83600 REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.03 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10.0000% GLYCEROL, 1.0000M NACL, REMARK 280 30.0000% PEG-600, 0.1M CACODYLATE PH 6.5, NANODROP, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 3 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z 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 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 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 0.00000 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 300 REMARK: CRYSTAL PACKING AND ANALYTICAL SIZE EXCLUSION REMARK 300 CHROMATOGRAPHY ANALYSIS SUPPORT THE ASSIGNMENT OF A TRIMER AS A REMARK 300 SIGNIFICANT OLIGOMERIZATION STATE IN SOLUTION. 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -107.0 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 56.68450 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 98.18043 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 -56.68450 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 98.18043 REMARK 350 BIOMT3 3 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 A 230 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 ARG A 10 NH1 NH2 REMARK 470 LYS A 24 CD CE NZ REMARK 470 LYS A 27 CD CE NZ REMARK 470 GLU A 68 CD OE1 OE2 REMARK 470 LYS A 72 CD CE NZ REMARK 470 LYS A 83 CD CE NZ REMARK 470 LYS A 132 CE NZ REMARK 470 LYS A 133 CD CE NZ REMARK 470 LYS A 202 CE NZ REMARK 470 LYS A 204 CE NZ 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 ARG A 88 NE - CZ - NH1 ANGL. DEV. = 3.6 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 ASN A 91 -154.64 -128.55 REMARK 500 ILE A 176 -65.29 -122.37 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 223 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 99 OD2 REMARK 620 2 ASP A 110 OD1 79.2 REMARK 620 3 THR A 111 O 94.0 84.0 REMARK 620 4 HOH A 282 O 96.4 74.5 153.8 REMARK 620 5 HOH A 292 O 174.0 106.1 89.5 82.4 REMARK 620 6 HOH A 339 O 77.4 156.5 95.6 110.1 97.4 REMARK 620 N 1 2 3 4 5 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 223 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 224 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 225 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 226 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 227 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 228 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 392534 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT (1-222) WAS EXPRESSED WITH THE PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE LEAVING REMARK 999 ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3K93 A 1 222 UNP Q0I4G3 Q0I4G3_HAES1 1 222 SEQADV 3K93 GLY A 0 UNP Q0I4G3 EXPRESSION TAG SEQRES 1 A 223 GLY MSE ASN ASN LEU TYR HIS LEU LYS VAL ARG CYS SER SEQRES 2 A 223 SER LEU HIS LYS ILE ILE GLY GLU PRO LYS SER LYS ALA SEQRES 3 A 223 ASP LYS GLU ALA GLY LYS LEU THR ASP THR ALA LYS SER SEQRES 4 A 223 ALA VAL ARG GLU MSE ALA LYS PHE ASP LEU PHE GLY TYR SEQRES 5 A 223 ASN ALA PHE GLU GLY ASN LYS TYR THR GLN LYS GLY ASN SEQRES 6 A 223 GLU LEU GLU GLU GLN ALA ILE LYS LEU SER GLY VAL THR SEQRES 7 A 223 ARG GLY LEU ALA LEU LYS LYS ASN THR GLU ARG ARG GLU SEQRES 8 A 223 ASN GLU PHE ILE THR GLY GLU CYS ASP ILE TYR VAL PRO SEQRES 9 A 223 SER ARG LYS LEU ILE ILE ASP THR LYS CYS SER TRP ASP SEQRES 10 A 223 ILE GLY SER HIS PRO PHE PHE THR ASP GLU ALA GLN GLU SEQRES 11 A 223 LYS ALA LYS LYS ALA GLY TYR ASP ILE GLN MSE GLN GLY SEQRES 12 A 223 TYR MSE TRP LEU TRP ASP CYS ASP GLN ALA GLN ILE ASP SEQRES 13 A 223 PHE VAL LEU PHE PRO THR PRO LEU ASN LEU ILE SER ALA SEQRES 14 A 223 TYR ASP SER ASP PHE LYS LEU ILE ASP LEU VAL GLU GLN SEQRES 15 A 223 ILE PRO GLN ILE ARG ARG ILE THR THR VAL ILE ILE GLN SEQRES 16 A 223 ARG ASP ASN GLU LEU ILE ASP LYS ILE LYS GLU ARG VAL SEQRES 17 A 223 SER ALA ALA GLN LYS TYR TYR ASP GLN LEU ILE SER GLU SEQRES 18 A 223 MSE SER MODRES 3K93 MSE A 1 MET SELENOMETHIONINE MODRES 3K93 MSE A 43 MET SELENOMETHIONINE MODRES 3K93 MSE A 140 MET SELENOMETHIONINE MODRES 3K93 MSE A 144 MET SELENOMETHIONINE MODRES 3K93 MSE A 221 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 43 8 HET MSE A 140 8 HET MSE A 144 8 HET MSE A 221 8 HET NA A 223 1 HET CL A 224 1 HET CL A 225 1 HET GOL A 226 6 HET PEG A 227 7 HET PEG A 228 7 HETNAM MSE SELENOMETHIONINE HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 5(C5 H11 N O2 SE) FORMUL 2 NA NA 1+ FORMUL 3 CL 2(CL 1-) FORMUL 5 GOL C3 H8 O3 FORMUL 6 PEG 2(C4 H10 O3) FORMUL 8 HOH *122(H2 O) HELIX 1 1 GLY A 0 TYR A 5 5 6 HELIX 2 2 SER A 13 GLY A 19 1 7 HELIX 3 3 SER A 23 ALA A 29 1 7 HELIX 4 4 THR A 33 GLY A 50 1 18 HELIX 5 5 ASN A 57 LEU A 66 1 10 HELIX 6 6 LEU A 66 GLY A 79 1 14 HELIX 7 7 PRO A 103 ARG A 105 5 3 HELIX 8 8 PHE A 123 ALA A 134 1 12 HELIX 9 9 GLY A 135 ASP A 148 1 14 HELIX 10 10 PRO A 162 ILE A 166 5 5 HELIX 11 11 SER A 171 ILE A 176 1 6 HELIX 12 12 ILE A 176 GLN A 181 1 6 HELIX 13 13 PRO A 183 ARG A 186 5 4 HELIX 14 14 ASP A 196 MSE A 221 1 26 SHEET 1 A 3 VAL A 9 ARG A 10 0 SHEET 2 A 3 ILE A 94 GLY A 96 1 O THR A 95 N VAL A 9 SHEET 3 A 3 ARG A 89 GLU A 90 -1 N ARG A 89 O GLY A 96 SHEET 1 B 4 ILE A 100 VAL A 102 0 SHEET 2 B 4 LEU A 107 CYS A 113 -1 O LEU A 107 N VAL A 102 SHEET 3 B 4 GLN A 151 VAL A 157 1 O ASP A 155 N ASP A 110 SHEET 4 B 4 ILE A 188 GLN A 194 -1 O ILE A 193 N ALA A 152 LINK C GLY A 0 N MSE A 1 1555 1555 1.36 LINK C MSE A 1 N ASN A 2 1555 1555 1.34 LINK C GLU A 42 N MSE A 43 1555 1555 1.33 LINK C MSE A 43 N ALA A 44 1555 1555 1.34 LINK C GLN A 139 N MSE A 140 1555 1555 1.34 LINK C MSE A 140 N GLN A 141 1555 1555 1.35 LINK C TYR A 143 N MSE A 144 1555 1555 1.33 LINK C MSE A 144 N TRP A 145 1555 1555 1.33 LINK C GLU A 220 N MSE A 221 1555 1555 1.32 LINK C MSE A 221 N SER A 222 1555 1555 1.32 LINK OD2 ASP A 99 NA NA A 223 1555 1555 2.44 LINK OD1 ASP A 110 NA NA A 223 1555 1555 2.55 LINK O THR A 111 NA NA A 223 1555 1555 2.41 LINK NA NA A 223 O HOH A 282 1555 1555 2.63 LINK NA NA A 223 O HOH A 292 1555 1555 2.32 LINK NA NA A 223 O HOH A 339 1555 1555 2.65 SITE 1 AC1 6 ASP A 99 ASP A 110 THR A 111 HOH A 282 SITE 2 AC1 6 HOH A 292 HOH A 339 SITE 1 AC2 2 ARG A 88 TYR A 143 SITE 1 AC3 5 SER A 114 TRP A 115 SER A 119 LYS A 130 SITE 2 AC3 5 GOL A 226 SITE 1 AC4 1 CL A 225 SITE 1 AC5 5 MSE A 1 PHE A 46 ASP A 47 GLY A 50 SITE 2 AC5 5 GLN A 181 SITE 1 AC6 10 SER A 12 HIS A 15 LYS A 112 ALA A 134 SITE 2 AC6 10 GLY A 135 TYR A 136 GLN A 139 HOH A 241 SITE 3 AC6 10 HOH A 292 HOH A 325 CRYST1 113.369 113.369 42.284 90.00 90.00 120.00 P 3 2 1 6 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 0.008821 0.005093 0.000000 0.00000 SCALE2 0.000000 0.010185 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023650 0.00000