HEADER ISOMERASE 24-OCT-09 3KE7 TITLE CRYSTAL STRUCTURE OF PUTATIVE KETOSTEROID ISOMERASE (YP_001303366.1) TITLE 2 FROM PARABACTEROIDES DISTASONIS ATCC 8503 AT 1.45 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE KETOSTEROID ISOMERASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 22-154; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARABACTEROIDES DISTASONIS ATCC 8503; SOURCE 3 ORGANISM_TAXID: 435591; SOURCE 4 STRAIN: ATCC 8503 / DSM 20701 / NCTC 11152; SOURCE 5 GENE: BDI_2009; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS PUTATIVE KETOSTEROID ISOMERASE, STRUCTURAL GENOMICS, JOINT CENTER FOR KEYWDS 2 STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, KEYWDS 3 ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 4 17-JUL-19 3KE7 1 REMARK LINK REVDAT 3 25-OCT-17 3KE7 1 REMARK REVDAT 2 13-JUL-11 3KE7 1 VERSN REVDAT 1 03-NOV-09 3KE7 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE KETOSTEROID ISOMERASE JRNL TITL 2 (YP_001303366.1) FROM PARABACTEROIDES DISTASONIS ATCC 8503 JRNL TITL 3 AT 1.45 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.08 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 39881 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.182 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2004 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2717 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.2600 REMARK 3 BIN FREE R VALUE SET COUNT : 143 REMARK 3 BIN FREE R VALUE : 0.3110 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2129 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 39 REMARK 3 SOLVENT ATOMS : 247 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 13.88 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 13.29 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.37000 REMARK 3 B22 (A**2) : -0.47000 REMARK 3 B33 (A**2) : 0.36000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.61000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.069 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.070 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.043 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.513 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2391 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1626 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3285 ; 1.644 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4036 ; 0.917 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 314 ; 4.993 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 111 ;32.952 ;25.225 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 437 ;12.212 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;24.222 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 371 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2641 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 448 ; 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): 1420 ; 1.799 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 545 ; 0.474 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2353 ; 2.897 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 971 ; 4.164 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 905 ; 5.784 ;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 : NULL 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 23 A 154 REMARK 3 ORIGIN FOR THE GROUP (A): 6.8910 48.9950 15.5000 REMARK 3 T TENSOR REMARK 3 T11: 0.0652 T22: 0.0526 REMARK 3 T33: 0.0169 T12: 0.0041 REMARK 3 T13: 0.0267 T23: -0.0044 REMARK 3 L TENSOR REMARK 3 L11: 0.5326 L22: 0.7109 REMARK 3 L33: 0.7858 L12: 0.1742 REMARK 3 L13: -0.0240 L23: 0.1643 REMARK 3 S TENSOR REMARK 3 S11: 0.0099 S12: -0.0395 S13: 0.0240 REMARK 3 S21: 0.0518 S22: -0.0502 S23: 0.0814 REMARK 3 S31: 0.0245 S32: -0.0742 S33: 0.0403 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 22 B 154 REMARK 3 ORIGIN FOR THE GROUP (A): 24.8080 56.5010 8.8570 REMARK 3 T TENSOR REMARK 3 T11: 0.0562 T22: 0.0692 REMARK 3 T33: 0.0290 T12: -0.0130 REMARK 3 T13: 0.0235 T23: -0.0009 REMARK 3 L TENSOR REMARK 3 L11: 0.7860 L22: 0.3559 REMARK 3 L33: 1.6837 L12: 0.0433 REMARK 3 L13: -0.6123 L23: -0.0912 REMARK 3 S TENSOR REMARK 3 S11: 0.0476 S12: -0.1029 S13: 0.0929 REMARK 3 S21: -0.0328 S22: -0.0266 S23: -0.0594 REMARK 3 S31: -0.0805 S32: 0.2587 S33: -0.0210 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 BICINE (BCN) AND GLYCEROL (GOL) FROM THE CRYSTALLIZATION/ REMARK 3 CRYOPROTECTANT SOLUTIONS HAVE BEEN MODELED INTO THE SOLVENT REMARK 3 STRUCTURE. 5. THE ELECTRON DENSITY FOR RESIDUES B119-B122 IS REMARK 3 POOR. 6. THE CONFORMATION OF THE N-TERMINAL RESIDUES PRECEDING REMARK 3 ASN-34 DIFFER CONSIDERABLY BETWEEN THE TWO NCS-RELATED PROTOMERS. REMARK 4 REMARK 4 3KE7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000055880. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.0 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) : 0.91837,0.97805,0.97862 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 : 39881 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 27.077 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 2.200 REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : 0.06500 REMARK 200 FOR THE DATA SET : 9.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : 0.35400 REMARK 200 R SYM FOR SHELL (I) : 0.35400 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 (%): 32.74 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.4000M (NH4)2SO4, 0.1M BICINE PH 9.0, REMARK 280 NANODROP, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 37.33000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.44850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 37.33000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.44850 REMARK 290 SMTRY3 4 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 CHROMATOGRAPHY REMARK 300 ANALYSES SUPPORT THE ASSIGNMENT OF A DIMER AS A SIGNIFICANT REMARK 300 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 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 GLY A 0 REMARK 465 GLN A 22 REMARK 465 GLY B 0 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 88 CG CD OE1 NE2 REMARK 470 LEU A 89 CG CD1 CD2 REMARK 470 LEU A 119 CD1 CD2 REMARK 470 SER A 120 OG REMARK 470 ASP A 121 CG OD1 OD2 REMARK 470 ASP A 154 O REMARK 470 GLN B 23 CG CD OE1 NE2 REMARK 470 LYS B 24 CG CD CE NZ REMARK 470 GLU B 27 CG CD OE1 OE2 REMARK 470 ASN B 28 CG OD1 ND2 REMARK 470 ASN B 32 CG OD1 ND2 REMARK 470 GLU B 37 CD OE1 OE2 REMARK 470 GLU B 57 CD OE1 OE2 REMARK 470 SER B 120 OG REMARK 470 ASP B 121 CG OD1 OD2 REMARK 470 LYS B 122 CG CD CE NZ REMARK 470 ASP B 137 CG OD1 OD2 REMARK 470 ASP B 154 O 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 MSE A 53 CG - SE - CE ANGL. DEV. = -15.9 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 30 -106.73 -118.32 REMARK 500 GLN A 106 -110.51 52.55 REMARK 500 GLN A 106 -108.80 50.09 REMARK 500 ASN B 32 47.45 -83.33 REMARK 500 GLN B 106 -111.89 58.36 REMARK 500 SER B 120 -92.34 41.82 REMARK 500 LEU B 153 48.55 -102.44 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 PEG A 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BCN A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BCN B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 385935 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT (22-154) 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 3KE7 A 22 154 UNP A6LDI0 A6LDI0_PARD8 22 154 DBREF 3KE7 B 22 154 UNP A6LDI0 A6LDI0_PARD8 22 154 SEQADV 3KE7 GLY A 0 UNP A6LDI0 LEADER SEQUENCE SEQADV 3KE7 GLY B 0 UNP A6LDI0 LEADER SEQUENCE SEQRES 1 A 134 GLY GLN GLN LYS ASN MSE GLU ASN LYS THR LEU ASN GLU SEQRES 2 A 134 ASN ILE PRO GLU MSE ILE ILE SER LEU GLU LYS GLU ALA SEQRES 3 A 134 LEU ALA SER THR ASP PRO MSE ALA PHE VAL GLU LEU SER SEQRES 4 A 134 ASP THR ASP VAL ILE TYR PHE ASP PRO SER LEU GLU THR SEQRES 5 A 134 LYS ILE GLU GLY LEU GLU GLN LEU ARG THR TYR TYR LYS SEQRES 6 A 134 GLY MSE GLN LEU PRO PRO ALA ASP HIS PHE ASP MSE ILE SEQRES 7 A 134 ARG PRO VAL VAL GLN VAL ALA GLN ASN ILE ALA VAL LEU SEQRES 8 A 134 THR PHE ASN LEU ASP SER TYR LEU SER ASP LYS VAL ILE SEQRES 9 A 134 LYS TRP ASN CYS THR GLU VAL TYR ARG ARG ASN PRO ASP SEQRES 10 A 134 ASN GLN TRP LYS ILE ILE GLN THR HIS TRP SER TYR VAL SEQRES 11 A 134 LYS PRO LEU ASP SEQRES 1 B 134 GLY GLN GLN LYS ASN MSE GLU ASN LYS THR LEU ASN GLU SEQRES 2 B 134 ASN ILE PRO GLU MSE ILE ILE SER LEU GLU LYS GLU ALA SEQRES 3 B 134 LEU ALA SER THR ASP PRO MSE ALA PHE VAL GLU LEU SER SEQRES 4 B 134 ASP THR ASP VAL ILE TYR PHE ASP PRO SER LEU GLU THR SEQRES 5 B 134 LYS ILE GLU GLY LEU GLU GLN LEU ARG THR TYR TYR LYS SEQRES 6 B 134 GLY MSE GLN LEU PRO PRO ALA ASP HIS PHE ASP MSE ILE SEQRES 7 B 134 ARG PRO VAL VAL GLN VAL ALA GLN ASN ILE ALA VAL LEU SEQRES 8 B 134 THR PHE ASN LEU ASP SER TYR LEU SER ASP LYS VAL ILE SEQRES 9 B 134 LYS TRP ASN CYS THR GLU VAL TYR ARG ARG ASN PRO ASP SEQRES 10 B 134 ASN GLN TRP LYS ILE ILE GLN THR HIS TRP SER TYR VAL SEQRES 11 B 134 LYS PRO LEU ASP MODRES 3KE7 MSE A 26 MET SELENOMETHIONINE MODRES 3KE7 MSE A 38 MET SELENOMETHIONINE MODRES 3KE7 MSE A 53 MET SELENOMETHIONINE MODRES 3KE7 MSE A 87 MET SELENOMETHIONINE MODRES 3KE7 MSE A 97 MET SELENOMETHIONINE MODRES 3KE7 MSE B 26 MET SELENOMETHIONINE MODRES 3KE7 MSE B 38 MET SELENOMETHIONINE MODRES 3KE7 MSE B 53 MET SELENOMETHIONINE MODRES 3KE7 MSE B 87 MET SELENOMETHIONINE MODRES 3KE7 MSE B 97 MET SELENOMETHIONINE HET MSE A 26 8 HET MSE A 38 13 HET MSE A 53 13 HET MSE A 87 13 HET MSE A 97 8 HET MSE B 26 8 HET MSE B 38 18 HET MSE B 53 8 HET MSE B 87 8 HET MSE B 97 8 HET BCN A 2 11 HET GOL A 3 6 HET PEG A 4 6 HET BCN B 1 11 HET SO4 B 5 5 HETNAM MSE SELENOMETHIONINE HETNAM BCN BICINE HETNAM GOL GLYCEROL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM SO4 SULFATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 10(C5 H11 N O2 SE) FORMUL 3 BCN 2(C6 H13 N O4) FORMUL 4 GOL C3 H8 O3 FORMUL 5 PEG C4 H10 O3 FORMUL 7 SO4 O4 S 2- FORMUL 8 HOH *247(H2 O) HELIX 1 1 ASN A 34 SER A 49 1 16 HELIX 2 2 MSE A 53 LEU A 58 1 6 HELIX 3 3 GLY A 76 GLN A 88 1 13 HELIX 4 4 GLN B 22 ASN B 28 1 7 HELIX 5 5 ASN B 34 SER B 49 1 16 HELIX 6 6 MSE B 53 LEU B 58 1 6 HELIX 7 7 GLY B 76 GLY B 86 1 11 SHEET 1 A 6 ILE A 74 GLU A 75 0 SHEET 2 A 6 SER A 59 PHE A 66 -1 N TYR A 65 O ILE A 74 SHEET 3 A 6 TRP A 140 TYR A 149 1 O ILE A 142 N ASP A 60 SHEET 4 A 6 LYS A 122 ARG A 134 -1 N VAL A 131 O ILE A 143 SHEET 5 A 6 ILE A 108 LEU A 119 -1 N LEU A 111 O GLU A 130 SHEET 6 A 6 HIS A 94 ALA A 105 -1 N ILE A 98 O ASN A 114 SHEET 1 B 6 ILE B 74 GLU B 75 0 SHEET 2 B 6 SER B 59 PHE B 66 -1 N TYR B 65 O ILE B 74 SHEET 3 B 6 TRP B 140 TYR B 149 1 O ILE B 142 N ASP B 60 SHEET 4 B 6 LYS B 122 ARG B 134 -1 N ASN B 127 O SER B 148 SHEET 5 B 6 ILE B 108 LEU B 119 -1 N LEU B 119 O LYS B 122 SHEET 6 B 6 HIS B 94 ALA B 105 -1 N ILE B 98 O ASN B 114 LINK C ASN A 25 N MSE A 26 1555 1555 1.32 LINK C MSE A 26 N GLU A 27 1555 1555 1.32 LINK C GLU A 37 N MSE A 38 1555 1555 1.32 LINK C MSE A 38 N ILE A 39 1555 1555 1.33 LINK C PRO A 52 N MSE A 53 1555 1555 1.32 LINK C MSE A 53 N ALA A 54 1555 1555 1.34 LINK C GLY A 86 N MSE A 87 1555 1555 1.32 LINK C MSE A 87 N GLN A 88 1555 1555 1.32 LINK C ASP A 96 N MSE A 97 1555 1555 1.33 LINK C MSE A 97 N ILE A 98 1555 1555 1.33 LINK C ASN B 25 N MSE B 26 1555 1555 1.32 LINK C MSE B 26 N GLU B 27 1555 1555 1.33 LINK C GLU B 37 N MSE B 38 1555 1555 1.32 LINK C MSE B 38 N ILE B 39 1555 1555 1.33 LINK C PRO B 52 N MSE B 53 1555 1555 1.34 LINK C MSE B 53 N ALA B 54 1555 1555 1.33 LINK C GLY B 86 N MSE B 87 1555 1555 1.34 LINK C MSE B 87 N GLN B 88 1555 1555 1.31 LINK C ASP B 96 N MSE B 97 1555 1555 1.34 LINK C MSE B 97 N ILE B 98 1555 1555 1.34 CISPEP 1 LEU B 89 PRO B 90 0 -0.32 SITE 1 AC1 6 LEU A 47 TYR A 65 TYR A 84 LEU A 115 SITE 2 AC1 6 TRP A 147 HOH A 198 SITE 1 AC2 6 PEG A 4 PRO A 52 LYS A 85 GLN A 88 SITE 2 AC2 6 LEU A 89 PRO A 90 SITE 1 AC3 6 GOL A 3 THR A 50 PRO A 52 MSE A 53 SITE 2 AC3 6 LYS A 85 PRO A 91 SITE 1 AC4 11 LEU B 89 PRO B 91 TRP B 126 TRP B 147 SITE 2 AC4 11 HOH B 201 HOH B 202 HOH B 222 HOH B 227 SITE 3 AC4 11 HOH B 235 HOH B 240 HOH B 254 SITE 1 AC5 5 GLY A 86 MSE A 87 GLN B 22 GLN B 23 SITE 2 AC5 5 LYS B 24 CRYST1 74.660 60.897 52.280 90.00 102.30 90.00 C 1 2 1 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 0.013394 0.000000 0.002920 0.00000 SCALE2 0.000000 0.016421 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019577 0.00000 MASTER 403 0 15 7 12 0 11 6 0 0 0 22 END