HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 22-DEC-06 2ODK TITLE PUTATIVE PREVENT-HOST-DEATH PROTEIN FROM NITROSOMONAS EUROPAEA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL PROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NITROSOMONAS EUROPAEA; SOURCE 3 ORGANISM_TAXID: 915; SOURCE 4 ATCC: 19718; SOURCE 5 GENE: NE2111; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS PREVENT-HOST-DEATH PROTEIN, STRUCTURAL GENOMICS, APC7367, PSI-2, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, MIDWEST CENTER FOR STRUCTURAL KEYWDS 3 GENOMICS, MCSG, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR J.OSIPIUK,T.SKARINA,O.KAGAN,A.SAVCHENKO,A.EDWARDS,A.JOACHIMIAK, AUTHOR 2 MIDWEST CENTER FOR STRUCTURAL GENOMICS (MCSG) REVDAT 4 27-DEC-23 2ODK 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 2ODK 1 VERSN REVDAT 2 24-FEB-09 2ODK 1 VERSN REVDAT 1 23-JAN-07 2ODK 0 JRNL AUTH J.OSIPIUK,T.SKARINA,O.KAGAN,A.SAVCHENKO,A.EDWARDS, JRNL AUTH 2 A.JOACHIMIAK JRNL TITL CRSYTAL STRUCTURE OF PUTATIVE PREVENT-HOST-DEATH PROTEIN JRNL TITL 2 FROM NITROSOMONAS EUROPAEA. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.40 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 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 53222 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) : 0.135 REMARK 3 R VALUE (WORKING SET) : 0.134 REMARK 3 FREE R VALUE : 0.154 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2838 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2692 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 65.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.2400 REMARK 3 BIN FREE R VALUE SET COUNT : 141 REMARK 3 BIN FREE R VALUE : 0.3040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1606 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 312 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.24 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.40000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.41000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.02000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.048 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.044 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.024 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.341 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.976 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.971 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1885 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2607 ; 1.616 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 263 ; 5.322 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 103 ;29.389 ;23.107 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 329 ;11.910 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;16.121 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 283 ; 0.121 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1506 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 966 ; 0.227 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1289 ; 0.315 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 250 ; 0.186 ; 0.200 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): 59 ; 0.455 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 41 ; 0.256 ; 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): 1162 ; 1.792 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1837 ; 2.535 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 830 ; 3.452 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 737 ; 4.845 ; 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): 1992 ; 2.168 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 313 ; 7.048 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 1817 ; 4.829 ; 3.000 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 2ODK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-DEC-06. REMARK 100 THE DEPOSITION ID IS D_1000041000. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-DEC-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97900 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56074 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 37.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 40.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 62.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.37700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.030 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD, MLPHARE, DM, SOLVE, RESOLVE, HKL-3000 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 33.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.86 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M AMMONIUM SULFATE, 25% PEG 3350, REMARK 280 0.1 M HEPES BUFFER, PH 7.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K 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 38.57300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.43650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 38.57300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 39.43650 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 4 CHAIN(S). SEE REMARK 350 FOR REMARK 300 INFORMATION ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 300 AUTHORS STATE THAT THE DIMER IS A PUTATIVE BIOLOGICAL REMARK 300 UNIT BASED ON ANALYSIS OF THE PROTEIN INTERFACES. 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: 2750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 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 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: 2650 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 15410 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -137.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 -24.07021 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 49.43880 REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D REMARK 350 BIOMT1 3 1.000000 0.000000 0.000000 -38.57300 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 -39.43650 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 14.50279 REMARK 350 BIOMT2 4 0.000000 1.000000 0.000000 -39.43650 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 49.43880 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 B 426 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 464 LIES ON A SPECIAL POSITION. 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 -1 REMARK 465 HIS A 0 REMARK 465 ARG A 52 REMARK 465 PRO A 53 REMARK 465 SER A 54 REMARK 465 LEU A 55 REMARK 465 LYS A 56 REMARK 465 GLN A 57 REMARK 465 LEU A 58 REMARK 465 LEU A 59 REMARK 465 LEU A 60 REMARK 465 SER A 61 REMARK 465 ASP A 62 REMARK 465 SER A 63 REMARK 465 ALA A 64 REMARK 465 ARG A 65 REMARK 465 THR A 66 REMARK 465 GLU A 67 REMARK 465 MSE A 68 REMARK 465 LEU A 69 REMARK 465 VAL A 70 REMARK 465 PRO A 71 REMARK 465 GLU A 72 REMARK 465 ARG A 73 REMARK 465 GLY A 74 REMARK 465 LYS A 75 REMARK 465 ALA A 76 REMARK 465 ARG A 77 REMARK 465 ARG A 78 REMARK 465 ARG A 79 REMARK 465 GLN A 80 REMARK 465 VAL A 81 REMARK 465 GLU A 82 REMARK 465 PRO A 83 REMARK 465 LEU A 84 REMARK 465 ARG A 85 REMARK 465 GLY A 86 REMARK 465 SER A 87 REMARK 465 GLY B -1 REMARK 465 HIS B 0 REMARK 465 MSE B 1 REMARK 465 ARG B 52 REMARK 465 PRO B 53 REMARK 465 SER B 54 REMARK 465 LEU B 55 REMARK 465 LYS B 56 REMARK 465 GLN B 57 REMARK 465 LEU B 58 REMARK 465 LEU B 59 REMARK 465 LEU B 60 REMARK 465 SER B 61 REMARK 465 ASP B 62 REMARK 465 SER B 63 REMARK 465 ALA B 64 REMARK 465 ARG B 65 REMARK 465 THR B 66 REMARK 465 GLU B 67 REMARK 465 MSE B 68 REMARK 465 LEU B 69 REMARK 465 VAL B 70 REMARK 465 PRO B 71 REMARK 465 GLU B 72 REMARK 465 ARG B 73 REMARK 465 GLY B 74 REMARK 465 LYS B 75 REMARK 465 ALA B 76 REMARK 465 ARG B 77 REMARK 465 ARG B 78 REMARK 465 ARG B 79 REMARK 465 GLN B 80 REMARK 465 VAL B 81 REMARK 465 GLU B 82 REMARK 465 PRO B 83 REMARK 465 LEU B 84 REMARK 465 ARG B 85 REMARK 465 GLY B 86 REMARK 465 SER B 87 REMARK 465 GLY C -1 REMARK 465 HIS C 0 REMARK 465 ARG C 52 REMARK 465 PRO C 53 REMARK 465 SER C 54 REMARK 465 LEU C 55 REMARK 465 LYS C 56 REMARK 465 GLN C 57 REMARK 465 LEU C 58 REMARK 465 LEU C 59 REMARK 465 LEU C 60 REMARK 465 SER C 61 REMARK 465 ASP C 62 REMARK 465 SER C 63 REMARK 465 ALA C 64 REMARK 465 ARG C 65 REMARK 465 THR C 66 REMARK 465 GLU C 67 REMARK 465 MSE C 68 REMARK 465 LEU C 69 REMARK 465 VAL C 70 REMARK 465 PRO C 71 REMARK 465 GLU C 72 REMARK 465 ARG C 73 REMARK 465 GLY C 74 REMARK 465 LYS C 75 REMARK 465 ALA C 76 REMARK 465 ARG C 77 REMARK 465 ARG C 78 REMARK 465 ARG C 79 REMARK 465 GLN C 80 REMARK 465 VAL C 81 REMARK 465 GLU C 82 REMARK 465 PRO C 83 REMARK 465 LEU C 84 REMARK 465 ARG C 85 REMARK 465 GLY C 86 REMARK 465 SER C 87 REMARK 465 GLY D -1 REMARK 465 ARG D 52 REMARK 465 PRO D 53 REMARK 465 SER D 54 REMARK 465 LEU D 55 REMARK 465 LYS D 56 REMARK 465 GLN D 57 REMARK 465 LEU D 58 REMARK 465 LEU D 59 REMARK 465 LEU D 60 REMARK 465 SER D 61 REMARK 465 ASP D 62 REMARK 465 SER D 63 REMARK 465 ALA D 64 REMARK 465 ARG D 65 REMARK 465 THR D 66 REMARK 465 GLU D 67 REMARK 465 MSE D 68 REMARK 465 LEU D 69 REMARK 465 VAL D 70 REMARK 465 PRO D 71 REMARK 465 GLU D 72 REMARK 465 ARG D 73 REMARK 465 GLY D 74 REMARK 465 LYS D 75 REMARK 465 ALA D 76 REMARK 465 ARG D 77 REMARK 465 ARG D 78 REMARK 465 ARG D 79 REMARK 465 GLN D 80 REMARK 465 VAL D 81 REMARK 465 GLU D 82 REMARK 465 PRO D 83 REMARK 465 LEU D 84 REMARK 465 ARG D 85 REMARK 465 GLY D 86 REMARK 465 SER D 87 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 ARG D 30 NH1 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 N MSE C 1 O HOH C 422 2.15 REMARK 500 O HOH B 441 O HOH B 457 2.16 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 C2 GOL D 400 C2 GOL D 400 2655 1.89 REMARK 500 O HOH C 476 O HOH C 476 2656 1.98 REMARK 500 O HOH B 408 O HOH D 470 3445 2.12 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 ARG D 30 NH1 - CZ - NH2 ANGL. DEV. = 9.2 DEGREES REMARK 500 ARG D 30 NE - CZ - NH1 ANGL. DEV. = -10.7 DEGREES 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 SO4 C 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL D 400 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC7367 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHORS STATE THAT THE C-TERMINUS OF THIS PROTEIN IS REMARK 999 FLEXIBLE AND THEREFORE THE RESIDUES 52-87 ARE MISSING REMARK 999 IN COORDINATES DUE TO LACK OF ELECTRON DENSITY. DBREF 2ODK A 1 85 UNP Q82T22 Q82T22_NITEU 1 85 DBREF 2ODK B 1 85 UNP Q82T22 Q82T22_NITEU 1 85 DBREF 2ODK C 1 85 UNP Q82T22 Q82T22_NITEU 1 85 DBREF 2ODK D 1 85 UNP Q82T22 Q82T22_NITEU 1 85 SEQADV 2ODK GLY A -1 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK HIS A 0 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK MSE A 1 UNP Q82T22 MET 1 MODIFIED RESIDUE SEQADV 2ODK MSE A 68 UNP Q82T22 MET 68 MODIFIED RESIDUE SEQADV 2ODK GLY A 86 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK SER A 87 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK GLY B -1 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK HIS B 0 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK MSE B 1 UNP Q82T22 MET 1 MODIFIED RESIDUE SEQADV 2ODK MSE B 68 UNP Q82T22 MET 68 MODIFIED RESIDUE SEQADV 2ODK GLY B 86 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK SER B 87 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK GLY C -1 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK HIS C 0 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK MSE C 1 UNP Q82T22 MET 1 MODIFIED RESIDUE SEQADV 2ODK MSE C 68 UNP Q82T22 MET 68 MODIFIED RESIDUE SEQADV 2ODK GLY C 86 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK SER C 87 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK GLY D -1 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK HIS D 0 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK MSE D 1 UNP Q82T22 MET 1 MODIFIED RESIDUE SEQADV 2ODK MSE D 68 UNP Q82T22 MET 68 MODIFIED RESIDUE SEQADV 2ODK GLY D 86 UNP Q82T22 CLONING ARTIFACT SEQADV 2ODK SER D 87 UNP Q82T22 CLONING ARTIFACT SEQRES 1 A 89 GLY HIS MSE HIS VAL TRP PRO VAL GLN ASP ALA LYS ALA SEQRES 2 A 89 ARG PHE SER GLU PHE LEU ASP ALA CYS ILE THR GLU GLY SEQRES 3 A 89 PRO GLN ILE VAL SER ARG ARG GLY ALA GLU GLU ALA VAL SEQRES 4 A 89 LEU VAL PRO ILE GLY GLU TRP ARG ARG LEU GLN ALA ALA SEQRES 5 A 89 ALA ARG PRO SER LEU LYS GLN LEU LEU LEU SER ASP SER SEQRES 6 A 89 ALA ARG THR GLU MSE LEU VAL PRO GLU ARG GLY LYS ALA SEQRES 7 A 89 ARG ARG ARG GLN VAL GLU PRO LEU ARG GLY SER SEQRES 1 B 89 GLY HIS MSE HIS VAL TRP PRO VAL GLN ASP ALA LYS ALA SEQRES 2 B 89 ARG PHE SER GLU PHE LEU ASP ALA CYS ILE THR GLU GLY SEQRES 3 B 89 PRO GLN ILE VAL SER ARG ARG GLY ALA GLU GLU ALA VAL SEQRES 4 B 89 LEU VAL PRO ILE GLY GLU TRP ARG ARG LEU GLN ALA ALA SEQRES 5 B 89 ALA ARG PRO SER LEU LYS GLN LEU LEU LEU SER ASP SER SEQRES 6 B 89 ALA ARG THR GLU MSE LEU VAL PRO GLU ARG GLY LYS ALA SEQRES 7 B 89 ARG ARG ARG GLN VAL GLU PRO LEU ARG GLY SER SEQRES 1 C 89 GLY HIS MSE HIS VAL TRP PRO VAL GLN ASP ALA LYS ALA SEQRES 2 C 89 ARG PHE SER GLU PHE LEU ASP ALA CYS ILE THR GLU GLY SEQRES 3 C 89 PRO GLN ILE VAL SER ARG ARG GLY ALA GLU GLU ALA VAL SEQRES 4 C 89 LEU VAL PRO ILE GLY GLU TRP ARG ARG LEU GLN ALA ALA SEQRES 5 C 89 ALA ARG PRO SER LEU LYS GLN LEU LEU LEU SER ASP SER SEQRES 6 C 89 ALA ARG THR GLU MSE LEU VAL PRO GLU ARG GLY LYS ALA SEQRES 7 C 89 ARG ARG ARG GLN VAL GLU PRO LEU ARG GLY SER SEQRES 1 D 89 GLY HIS MSE HIS VAL TRP PRO VAL GLN ASP ALA LYS ALA SEQRES 2 D 89 ARG PHE SER GLU PHE LEU ASP ALA CYS ILE THR GLU GLY SEQRES 3 D 89 PRO GLN ILE VAL SER ARG ARG GLY ALA GLU GLU ALA VAL SEQRES 4 D 89 LEU VAL PRO ILE GLY GLU TRP ARG ARG LEU GLN ALA ALA SEQRES 5 D 89 ALA ARG PRO SER LEU LYS GLN LEU LEU LEU SER ASP SER SEQRES 6 D 89 ALA ARG THR GLU MSE LEU VAL PRO GLU ARG GLY LYS ALA SEQRES 7 D 89 ARG ARG ARG GLN VAL GLU PRO LEU ARG GLY SER MODRES 2ODK MSE A 1 MET SELENOMETHIONINE MODRES 2ODK MSE C 1 MET SELENOMETHIONINE MODRES 2ODK MSE D 1 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE C 1 8 HET MSE D 1 8 HET SO4 B 402 5 HET SO4 C 401 5 HET GOL D 400 6 HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 3(C5 H11 N O2 SE) FORMUL 5 SO4 2(O4 S 2-) FORMUL 7 GOL C3 H8 O3 FORMUL 8 HOH *312(H2 O) HELIX 1 1 VAL A 6 ARG A 12 1 7 HELIX 2 2 ARG A 12 GLU A 23 1 12 HELIX 3 3 ILE A 41 ALA A 51 1 11 HELIX 4 4 VAL B 6 ARG B 12 1 7 HELIX 5 5 ARG B 12 GLY B 24 1 13 HELIX 6 6 ILE B 41 ALA B 51 1 11 HELIX 7 7 VAL C 6 ARG C 12 1 7 HELIX 8 8 ARG C 12 GLU C 23 1 12 HELIX 9 9 ILE C 41 ALA C 51 1 11 HELIX 10 10 VAL D 6 ARG D 12 1 7 HELIX 11 11 ARG D 12 GLU D 23 1 12 HELIX 12 12 ILE D 41 ALA D 51 1 11 SHEET 1 A 6 VAL A 3 PRO A 5 0 SHEET 2 A 6 GLN A 26 ARG A 30 1 O ILE A 27 N TRP A 4 SHEET 3 A 6 ALA A 33 PRO A 40 -1 O LEU A 38 N GLN A 26 SHEET 4 A 6 ALA B 33 PRO B 40 -1 O VAL B 37 N VAL A 39 SHEET 5 A 6 GLN B 26 ARG B 30 -1 N GLN B 26 O LEU B 38 SHEET 6 A 6 VAL B 3 PRO B 5 1 N TRP B 4 O ILE B 27 SHEET 1 B 6 VAL C 3 PRO C 5 0 SHEET 2 B 6 GLN C 26 ARG C 30 1 O ILE C 27 N TRP C 4 SHEET 3 B 6 ALA C 33 PRO C 40 -1 O LEU C 38 N GLN C 26 SHEET 4 B 6 ALA D 33 PRO D 40 -1 O VAL D 39 N VAL C 37 SHEET 5 B 6 GLN D 26 ARG D 30 -1 N GLN D 26 O LEU D 38 SHEET 6 B 6 VAL D 3 PRO D 5 1 N TRP D 4 O ILE D 27 LINK C MSE A 1 N HIS A 2 1555 1555 1.34 LINK NH1 ARG A 31 O1 GOL D 400 4555 1555 1.89 LINK C MSE C 1 N HIS C 2 1555 1555 1.33 LINK C HIS D 0 N MSE D 1 1555 1555 1.34 LINK C MSE D 1 N HIS D 2 1555 1555 1.33 SITE 1 AC1 11 GLY A 42 ARG A 46 PRO C 40 ILE C 41 SITE 2 AC1 11 GLY C 42 GLU C 43 ARG C 46 HOH C 404 SITE 3 AC1 11 HOH C 428 HOH C 441 ARG D 31 SITE 1 AC2 9 PRO B 40 ILE B 41 GLY B 42 GLU B 43 SITE 2 AC2 9 ARG B 46 HOH B 420 HOH B 445 HOH B 452 SITE 3 AC2 9 ARG C 31 SITE 1 AC3 8 ARG A 31 HOH A 100 ILE D 21 PRO D 40 SITE 2 AC3 8 ILE D 41 GLY D 42 GLU D 43 ARG D 46 CRYST1 77.146 78.873 54.987 90.00 115.96 90.00 C 1 2 1 16 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 0.012962 0.000000 0.006311 0.00000 SCALE2 0.000000 0.012679 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020227 0.00000 HETATM 1 N MSE A 1 19.497 33.704 2.717 1.00 33.73 N ANISOU 1 N MSE A 1 4166 4306 4342 -188 -102 -122 N HETATM 2 CA MSE A 1 18.157 33.337 2.174 1.00 32.21 C ANISOU 2 CA MSE A 1 4081 3956 4200 -200 -95 -65 C HETATM 3 C MSE A 1 18.190 31.907 1.599 1.00 31.17 C ANISOU 3 C MSE A 1 3952 3840 4052 -178 -85 -50 C HETATM 4 O MSE A 1 17.374 31.571 0.742 1.00 33.15 O ANISOU 4 O MSE A 1 4294 4090 4211 -244 -154 -59 O HETATM 5 CB MSE A 1 17.666 34.343 1.116 1.00 33.19 C ANISOU 5 CB MSE A 1 4192 4108 4308 -141 -100 -48 C HETATM 6 CG MSE A 1 17.352 35.772 1.627 1.00 33.61 C ANISOU 6 CG MSE A 1 4324 3978 4467 -243 -79 0 C HETATM 7 SE MSE A 1 15.910 35.932 2.937 0.40 32.51 SE ANISOU 7 SE MSE A 1 4288 3734 4328 -742 -277 -68 SE HETATM 8 CE MSE A 1 15.710 37.883 2.883 1.00 34.70 C ANISOU 8 CE MSE A 1 4652 4077 4454 -150 -5 42 C