HEADER HYDROLASE 17-APR-07 2PKE TITLE CRYSTAL STRUCTURE OF HALOACID DELAHOGENASE-LIKE FAMILY HYDROLASE TITLE 2 (NP_639141.1) FROM XANTHOMONAS CAMPESTRIS AT 1.81 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: HALOACID DELAHOGENASE-LIKE FAMILY HYDROLASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XANTHOMONAS CAMPESTRIS PV. CAMPESTRIS; SOURCE 3 ORGANISM_TAXID: 340; SOURCE 4 STRAIN: NCPPB 528, LMG 568; SOURCE 5 ATCC: 33913; SOURCE 6 GENE: NP_639141.1, XCC3796; 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 NP_639141.1, HALOACID DELAHOGENASE-LIKE FAMILY HYDROLASE, STRUCTURAL KEYWDS 2 GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN KEYWDS 3 STRUCTURE INITIATIVE, PSI-2, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 25-JAN-23 2PKE 1 REMARK SEQADV LINK REVDAT 5 25-OCT-17 2PKE 1 REMARK REVDAT 4 18-OCT-17 2PKE 1 REMARK REVDAT 3 13-JUL-11 2PKE 1 VERSN REVDAT 2 24-FEB-09 2PKE 1 VERSN REVDAT 1 08-MAY-07 2PKE 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF HALOACID DELAHOGENASE-LIKE FAMILY JRNL TITL 2 HYDROLASE (NP_639141.1) FROM XANTHOMONAS CAMPESTRIS AT 1.81 JRNL TITL 3 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.81 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.81 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.39 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.3 REMARK 3 NUMBER OF REFLECTIONS : 37314 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1871 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) : 1.81 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.86 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1824 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 66.04 REMARK 3 BIN R VALUE (WORKING SET) : 0.2630 REMARK 3 BIN FREE R VALUE SET COUNT : 109 REMARK 3 BIN FREE R VALUE : 0.3740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3524 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 255 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 29.73 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.53 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.52000 REMARK 3 B22 (A**2) : 0.91000 REMARK 3 B33 (A**2) : -0.44000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.14000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.147 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.142 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.110 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.243 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3654 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2438 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4967 ; 1.596 ; 1.965 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5936 ; 0.994 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 467 ; 6.484 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 169 ;35.071 ;24.260 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 589 ;15.045 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;16.283 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 557 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4154 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 731 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 815 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2560 ; 0.202 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1805 ; 0.182 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1893 ; 0.087 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 226 ; 0.176 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.029 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 11 ; 0.278 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 65 ; 0.289 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.222 ; 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): 2376 ; 2.234 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 948 ; 0.628 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3716 ; 3.287 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1449 ; 5.440 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1251 ; 8.141 ;11.000 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 : 3 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 9 A 46 6 REMARK 3 1 B 9 B 46 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 1 A (A): 460 ; 0.310 ; 5.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 460 ; 3.330 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 67 A 207 6 REMARK 3 1 B 67 B 207 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 2 A (A): 1750 ; 0.670 ; 5.000 REMARK 3 LOOSE THERMAL 2 A (A**2): 1750 ; 2.820 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 3 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 222 A 249 6 REMARK 3 1 B 222 B 249 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 3 A (A): 345 ; 0.520 ; 5.000 REMARK 3 LOOSE THERMAL 3 A (A**2): 345 ; 4.050 ;10.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 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 250 REMARK 3 ORIGIN FOR THE GROUP (A): -4.2073 24.4004 54.1637 REMARK 3 T TENSOR REMARK 3 T11: -0.0584 T22: -0.0383 REMARK 3 T33: -0.0340 T12: -0.0001 REMARK 3 T13: 0.0046 T23: -0.0186 REMARK 3 L TENSOR REMARK 3 L11: 0.6842 L22: 0.6327 REMARK 3 L33: 1.5371 L12: -0.1613 REMARK 3 L13: 0.3156 L23: -0.7433 REMARK 3 S TENSOR REMARK 3 S11: 0.0228 S12: 0.0255 S13: -0.0627 REMARK 3 S21: -0.0825 S22: -0.0437 S23: 0.0169 REMARK 3 S31: 0.1165 S32: 0.0477 S33: 0.0209 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 : B 9 B 249 REMARK 3 ORIGIN FOR THE GROUP (A): -3.0849 31.2610 80.8451 REMARK 3 T TENSOR REMARK 3 T11: -0.0616 T22: -0.0224 REMARK 3 T33: -0.0666 T12: -0.0012 REMARK 3 T13: -0.0060 T23: 0.0236 REMARK 3 L TENSOR REMARK 3 L11: 0.6432 L22: 1.3401 REMARK 3 L33: 0.6637 L12: 0.0637 REMARK 3 L13: -0.0096 L23: 0.4354 REMARK 3 S TENSOR REMARK 3 S11: 0.0324 S12: -0.1023 S13: -0.0184 REMARK 3 S21: 0.0337 S22: -0.0666 S23: -0.0185 REMARK 3 S31: -0.0017 S32: -0.0187 S33: 0.0342 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: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN RIDING POSITIONS. REMARK 3 2. ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 3 3. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY REMARK 3 OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 REMARK 3 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL REMARK 3 S-MET INCORPORATION. REMARK 3 4. THE SIDE CHAIN OF THE RESIDUES 46-52, 208-222 IN THE REMARK 3 A SUBUNIT AND 60-67, 207-216 IN THE B SUBUNIT WERE REMARK 3 DISORDERED AND WERE NOT MODELED. REMARK 3 5. RAMACHANDRAN OUTLIER OF RESIDUE ARG 51 IN SUBUNIT A REMARK 3 IS LOCATED IN POOR DENSITY. REMARK 3 6. MAGNESIUM (MG) AND CL IONS FROM THE CRYSTALLIZATION REMARK 3 BUFFER WERE MODELED INTO THE STRUCTURE. REMARK 3 7. PEG8000 FRAGMENTS (PEG) FROM CRYSTALLIZATION REMARK 3 SOLUTION ARE MODELLED. REMARK 4 REMARK 4 2PKE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-APR-07. REMARK 100 THE DEPOSITION ID IS D_1000042472. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-APR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91162, 0.97936 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : FLAT COLLIMATING MIRROR, TOROID REMARK 200 FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37341 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.810 REMARK 200 RESOLUTION RANGE LOW (A) : 29.386 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 82.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.7400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.81 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.87 REMARK 200 COMPLETENESS FOR SHELL (%) : 45.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.35000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NANODROP, 0.2M MGCL2, 20.0% PEG 8000, REMARK 280 0.1M TRIS-HCL PH 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 53.55000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 2 CHAIN(S). SEE REMARK 350 FOR REMARK 300 INFORMATION ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 300 SIZE EXCLUSION CHROMATOGRAPHY SUPPORTS THE ASSIGNMENT REMARK 300 OF A DIMER AS A SIGNIFICANT OLIGOMERIZATION STATE. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -68.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 LEU A 47 REMARK 465 GLY A 48 REMARK 465 ASP A 49 REMARK 465 SER A 50 REMARK 465 ARG A 51 REMARK 465 VAL A 209 REMARK 465 THR A 210 REMARK 465 TRP A 211 REMARK 465 ALA A 212 REMARK 465 HIS A 213 REMARK 465 GLU A 214 REMARK 465 GLN A 215 REMARK 465 ASP A 216 REMARK 465 HIS A 217 REMARK 465 GLY A 218 REMARK 465 VAL A 219 REMARK 465 ALA A 220 REMARK 465 ALA A 221 REMARK 465 GLY B 0 REMARK 465 MSE B 1 REMARK 465 THR B 2 REMARK 465 PRO B 3 REMARK 465 ILE B 4 REMARK 465 ALA B 5 REMARK 465 GLN B 6 REMARK 465 ARG B 7 REMARK 465 ASP B 8 REMARK 465 ARG B 61 REMARK 465 ARG B 62 REMARK 465 ASN B 63 REMARK 465 LEU B 64 REMARK 465 LYS B 65 REMARK 465 ILE B 66 REMARK 465 ALA B 208 REMARK 465 VAL B 209 REMARK 465 THR B 210 REMARK 465 TRP B 211 REMARK 465 ALA B 212 REMARK 465 HIS B 213 REMARK 465 GLU B 214 REMARK 465 GLN B 250 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 LYS A 25 NZ REMARK 470 GLU A 38 CD OE1 OE2 REMARK 470 ASP A 46 CG OD1 OD2 REMARK 470 MSE A 52 CG SE CE REMARK 470 GLN A 54 CD OE1 NE2 REMARK 470 HIS A 55 ND1 CD2 CE1 NE2 REMARK 470 LEU A 57 CG CD1 CD2 REMARK 470 ARG A 61 NE CZ NH1 NH2 REMARK 470 LYS A 65 CD CE NZ REMARK 470 ARG A 93 CZ NH1 NH2 REMARK 470 ARG A 189 NE CZ NH1 NH2 REMARK 470 GLN A 250 CG CD OE1 NE2 REMARK 470 GLU B 34 CG CD OE1 OE2 REMARK 470 SER B 50 OG REMARK 470 ARG B 51 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 80 OE1 OE2 REMARK 470 ARG B 93 CD NE CZ NH1 NH2 REMARK 470 ARG B 155 CD NE CZ NH1 NH2 REMARK 470 ASP B 216 CG OD1 OD2 REMARK 470 GLN B 249 CG CD OE1 NE2 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 20 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 117 CG - CD - NE ANGL. DEV. = -13.1 DEGREES REMARK 500 ARG A 117 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 240 NE - CZ - NH2 ANGL. DEV. = -3.0 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 THR A 22 -59.61 -123.31 REMARK 500 SER A 26 -50.19 -141.66 REMARK 500 GLN A 54 36.42 -83.17 REMARK 500 SER B 26 -54.65 -145.19 REMARK 500 SER B 26 -54.65 -143.63 REMARK 500 SER B 50 99.00 -51.71 REMARK 500 ARG B 51 -34.16 166.69 REMARK 500 GLN B 53 34.30 86.45 REMARK 500 HIS B 55 -5.08 83.79 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 GLN A 54 HIS A 55 147.41 REMARK 500 HIS B 55 LEU B 56 148.91 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 MG A 300 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 18 OD2 REMARK 620 2 ASP A 20 O 91.2 REMARK 620 3 ASN A 186 OD1 84.0 90.4 REMARK 620 4 HOH A 302 O 86.6 173.7 83.5 REMARK 620 5 HOH A 303 O 82.8 96.7 165.1 88.9 REMARK 620 6 HOH A 304 O 175.9 88.6 91.9 93.1 101.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 300 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 18 OD2 REMARK 620 2 ASP B 20 O 90.9 REMARK 620 3 ASN B 186 OD1 85.2 90.6 REMARK 620 4 HOH B 304 O 171.6 84.9 87.5 REMARK 620 5 HOH B 305 O 90.8 175.0 84.9 92.8 REMARK 620 6 HOH B 306 O 89.8 96.2 171.7 97.9 88.5 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 MG A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG B 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 371319 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE REMARK 999 LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 2PKE A 1 250 UNP Q8P4B4 Q8P4B4_XANCP 1 250 DBREF 2PKE B 1 250 UNP Q8P4B4 Q8P4B4_XANCP 1 250 SEQADV 2PKE GLY A 0 UNP Q8P4B4 EXPRESSION TAG SEQADV 2PKE MSE A 1 UNP Q8P4B4 MET 1 MODIFIED RESIDUE SEQADV 2PKE MSE A 52 UNP Q8P4B4 MET 52 MODIFIED RESIDUE SEQADV 2PKE MSE A 74 UNP Q8P4B4 MET 74 MODIFIED RESIDUE SEQADV 2PKE MSE A 78 UNP Q8P4B4 MET 78 MODIFIED RESIDUE SEQADV 2PKE MSE A 183 UNP Q8P4B4 MET 183 MODIFIED RESIDUE SEQADV 2PKE GLY B 0 UNP Q8P4B4 EXPRESSION TAG SEQADV 2PKE MSE B 1 UNP Q8P4B4 MET 1 MODIFIED RESIDUE SEQADV 2PKE MSE B 52 UNP Q8P4B4 MET 52 MODIFIED RESIDUE SEQADV 2PKE MSE B 74 UNP Q8P4B4 MET 74 MODIFIED RESIDUE SEQADV 2PKE MSE B 78 UNP Q8P4B4 MET 78 MODIFIED RESIDUE SEQADV 2PKE MSE B 183 UNP Q8P4B4 MET 183 MODIFIED RESIDUE SEQRES 1 A 251 GLY MSE THR PRO ILE ALA GLN ARG ASP GLY GLN ALA ILE SEQRES 2 A 251 GLN LEU VAL GLY PHE ASP GLY ASP ASP THR LEU TRP LYS SEQRES 3 A 251 SER GLU ASP TYR TYR ARG THR ALA GLU ALA ASP PHE GLU SEQRES 4 A 251 ALA ILE LEU SER GLY TYR LEU ASP LEU GLY ASP SER ARG SEQRES 5 A 251 MSE GLN GLN HIS LEU LEU ALA VAL GLU ARG ARG ASN LEU SEQRES 6 A 251 LYS ILE PHE GLY TYR GLY ALA LYS GLY MSE THR LEU SER SEQRES 7 A 251 MSE ILE GLU THR ALA ILE GLU LEU THR GLU ALA ARG ILE SEQRES 8 A 251 GLU ALA ARG ASP ILE GLN ARG ILE VAL GLU ILE GLY ARG SEQRES 9 A 251 ALA THR LEU GLN HIS PRO VAL GLU VAL ILE ALA GLY VAL SEQRES 10 A 251 ARG GLU ALA VAL ALA ALA ILE ALA ALA ASP TYR ALA VAL SEQRES 11 A 251 VAL LEU ILE THR LYS GLY ASP LEU PHE HIS GLN GLU GLN SEQRES 12 A 251 LYS ILE GLU GLN SER GLY LEU SER ASP LEU PHE PRO ARG SEQRES 13 A 251 ILE GLU VAL VAL SER GLU LYS ASP PRO GLN THR TYR ALA SEQRES 14 A 251 ARG VAL LEU SER GLU PHE ASP LEU PRO ALA GLU ARG PHE SEQRES 15 A 251 VAL MSE ILE GLY ASN SER LEU ARG SER ASP VAL GLU PRO SEQRES 16 A 251 VAL LEU ALA ILE GLY GLY TRP GLY ILE TYR THR PRO TYR SEQRES 17 A 251 ALA VAL THR TRP ALA HIS GLU GLN ASP HIS GLY VAL ALA SEQRES 18 A 251 ALA ASP GLU PRO ARG LEU ARG GLU VAL PRO ASP PRO SER SEQRES 19 A 251 GLY TRP PRO ALA ALA VAL ARG ALA LEU ASP ALA GLN ALA SEQRES 20 A 251 GLY ARG GLN GLN SEQRES 1 B 251 GLY MSE THR PRO ILE ALA GLN ARG ASP GLY GLN ALA ILE SEQRES 2 B 251 GLN LEU VAL GLY PHE ASP GLY ASP ASP THR LEU TRP LYS SEQRES 3 B 251 SER GLU ASP TYR TYR ARG THR ALA GLU ALA ASP PHE GLU SEQRES 4 B 251 ALA ILE LEU SER GLY TYR LEU ASP LEU GLY ASP SER ARG SEQRES 5 B 251 MSE GLN GLN HIS LEU LEU ALA VAL GLU ARG ARG ASN LEU SEQRES 6 B 251 LYS ILE PHE GLY TYR GLY ALA LYS GLY MSE THR LEU SER SEQRES 7 B 251 MSE ILE GLU THR ALA ILE GLU LEU THR GLU ALA ARG ILE SEQRES 8 B 251 GLU ALA ARG ASP ILE GLN ARG ILE VAL GLU ILE GLY ARG SEQRES 9 B 251 ALA THR LEU GLN HIS PRO VAL GLU VAL ILE ALA GLY VAL SEQRES 10 B 251 ARG GLU ALA VAL ALA ALA ILE ALA ALA ASP TYR ALA VAL SEQRES 11 B 251 VAL LEU ILE THR LYS GLY ASP LEU PHE HIS GLN GLU GLN SEQRES 12 B 251 LYS ILE GLU GLN SER GLY LEU SER ASP LEU PHE PRO ARG SEQRES 13 B 251 ILE GLU VAL VAL SER GLU LYS ASP PRO GLN THR TYR ALA SEQRES 14 B 251 ARG VAL LEU SER GLU PHE ASP LEU PRO ALA GLU ARG PHE SEQRES 15 B 251 VAL MSE ILE GLY ASN SER LEU ARG SER ASP VAL GLU PRO SEQRES 16 B 251 VAL LEU ALA ILE GLY GLY TRP GLY ILE TYR THR PRO TYR SEQRES 17 B 251 ALA VAL THR TRP ALA HIS GLU GLN ASP HIS GLY VAL ALA SEQRES 18 B 251 ALA ASP GLU PRO ARG LEU ARG GLU VAL PRO ASP PRO SER SEQRES 19 B 251 GLY TRP PRO ALA ALA VAL ARG ALA LEU ASP ALA GLN ALA SEQRES 20 B 251 GLY ARG GLN GLN MODRES 2PKE MSE A 1 MET SELENOMETHIONINE MODRES 2PKE MSE A 52 MET SELENOMETHIONINE MODRES 2PKE MSE A 74 MET SELENOMETHIONINE MODRES 2PKE MSE A 78 MET SELENOMETHIONINE MODRES 2PKE MSE A 183 MET SELENOMETHIONINE MODRES 2PKE MSE B 52 MET SELENOMETHIONINE MODRES 2PKE MSE B 74 MET SELENOMETHIONINE MODRES 2PKE MSE B 78 MET SELENOMETHIONINE MODRES 2PKE MSE B 183 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 52 5 HET MSE A 74 8 HET MSE A 78 8 HET MSE A 183 8 HET MSE B 52 8 HET MSE B 74 8 HET MSE B 78 8 HET MSE B 183 8 HET MG A 300 1 HET CL A 301 1 HET MG B 300 1 HET CL B 301 1 HET CL B 302 1 HET PEG B 303 7 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM PEG DI(HYDROXYETHYL)ETHER FORMUL 1 MSE 9(C5 H11 N O2 SE) FORMUL 3 MG 2(MG 2+) FORMUL 4 CL 3(CL 1-) FORMUL 8 PEG C4 H10 O3 FORMUL 9 HOH *255(H2 O) HELIX 1 1 SER A 26 SER A 42 1 17 HELIX 2 2 HIS A 55 GLY A 68 1 14 HELIX 3 3 GLY A 70 THR A 86 1 17 HELIX 4 4 GLU A 91 GLN A 107 1 17 HELIX 5 5 GLY A 115 ALA A 125 1 11 HELIX 6 6 ASP A 136 GLY A 148 1 13 HELIX 7 7 LEU A 149 LEU A 152 5 4 HELIX 8 8 ASP A 163 ASP A 175 1 13 HELIX 9 9 PRO A 177 GLU A 179 5 3 HELIX 10 10 VAL A 192 ILE A 198 1 7 HELIX 11 11 ASP A 231 SER A 233 5 3 HELIX 12 12 GLY A 234 GLN A 250 1 17 HELIX 13 13 SER B 26 SER B 42 1 17 HELIX 14 14 GLY B 70 THR B 86 1 17 HELIX 15 15 GLU B 91 GLN B 107 1 17 HELIX 16 16 GLY B 115 ALA B 125 1 11 HELIX 17 17 ASP B 136 SER B 147 1 12 HELIX 18 18 GLY B 148 PHE B 153 5 6 HELIX 19 19 ASP B 163 PHE B 174 1 12 HELIX 20 20 PRO B 177 GLU B 179 5 3 HELIX 21 21 VAL B 192 ILE B 198 1 7 HELIX 22 22 ASP B 231 SER B 233 5 3 HELIX 23 23 GLY B 234 GLN B 249 1 16 SHEET 1 A 6 ILE A 156 VAL A 159 0 SHEET 2 A 6 ALA A 128 LYS A 134 1 N LEU A 131 O GLU A 157 SHEET 3 A 6 LEU A 14 PHE A 17 1 N PHE A 17 O ILE A 132 SHEET 4 A 6 PHE A 181 GLY A 185 1 O VAL A 182 N GLY A 16 SHEET 5 A 6 TRP A 201 TYR A 204 1 O ILE A 203 N MSE A 183 SHEET 6 A 6 LEU A 226 GLU A 228 1 O ARG A 227 N TYR A 204 SHEET 1 B 6 ARG B 155 VAL B 159 0 SHEET 2 B 6 ALA B 128 LYS B 134 1 N LEU B 131 O GLU B 157 SHEET 3 B 6 LEU B 14 PHE B 17 1 N PHE B 17 O ILE B 132 SHEET 4 B 6 PHE B 181 GLY B 185 1 O VAL B 182 N GLY B 16 SHEET 5 B 6 TRP B 201 TYR B 204 1 O ILE B 203 N MSE B 183 SHEET 6 B 6 LEU B 226 GLU B 228 1 O ARG B 227 N TYR B 204 LINK C GLY A 0 N MSE A 1 1555 1555 1.33 LINK C MSE A 1 N THR A 2 1555 1555 1.33 LINK C MSE A 52 N GLN A 53 1555 1555 1.33 LINK C GLY A 73 N MSE A 74 1555 1555 1.33 LINK C MSE A 74 N THR A 75 1555 1555 1.34 LINK C SER A 77 N MSE A 78 1555 1555 1.33 LINK C MSE A 78 N ILE A 79 1555 1555 1.32 LINK C VAL A 182 N MSE A 183 1555 1555 1.32 LINK C MSE A 183 N ILE A 184 1555 1555 1.35 LINK C ARG B 51 N MSE B 52 1555 1555 1.33 LINK C MSE B 52 N GLN B 53 1555 1555 1.35 LINK C GLY B 73 N MSE B 74 1555 1555 1.32 LINK C MSE B 74 N THR B 75 1555 1555 1.32 LINK C SER B 77 N MSE B 78 1555 1555 1.33 LINK C MSE B 78 N ILE B 79 1555 1555 1.31 LINK C VAL B 182 N MSE B 183 1555 1555 1.31 LINK C MSE B 183 N ILE B 184 1555 1555 1.34 LINK OD2 ASP A 18 MG MG A 300 1555 1555 1.99 LINK O ASP A 20 MG MG A 300 1555 1555 2.06 LINK OD1 ASN A 186 MG MG A 300 1555 1555 2.08 LINK MG MG A 300 O HOH A 302 1555 1555 2.18 LINK MG MG A 300 O HOH A 303 1555 1555 2.14 LINK MG MG A 300 O HOH A 304 1555 1555 2.07 LINK OD2 ASP B 18 MG MG B 300 1555 1555 1.95 LINK O ASP B 20 MG MG B 300 1555 1555 2.11 LINK OD1 ASN B 186 MG MG B 300 1555 1555 2.08 LINK MG MG B 300 O HOH B 304 1555 1555 2.14 LINK MG MG B 300 O HOH B 305 1555 1555 2.21 LINK MG MG B 300 O HOH B 306 1555 1555 2.08 CISPEP 1 MSE A 52 GLN A 53 0 27.95 CISPEP 2 MSE B 52 GLN B 53 0 23.76 CISPEP 3 GLN B 54 HIS B 55 0 3.73 SITE 1 AC1 6 ASP A 18 ASP A 20 ASN A 186 HOH A 302 SITE 2 AC1 6 HOH A 303 HOH A 304 SITE 1 AC2 6 ASP B 18 ASP B 20 ASN B 186 HOH B 304 SITE 2 AC2 6 HOH B 305 HOH B 306 SITE 1 AC3 3 ASP A 136 GLN A 140 HOH A 365 SITE 1 AC4 5 GLY B 135 ASP B 136 GLN B 140 HOH B 336 SITE 2 AC4 5 HOH B 342 SITE 1 AC5 3 LYS A 72 GLY B 70 GLY B 73 SITE 1 AC6 3 TYR B 29 ASP B 36 HIS B 108 CRYST1 34.160 107.100 62.560 90.00 102.29 90.00 P 1 21 1 4 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 0.029270 0.000000 0.006380 0.00000 SCALE2 0.000000 0.009340 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016360 0.00000