HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 07-APR-04 1T07 TITLE CRYSTAL STRUCTURE OF CONSERVED PROTEIN OF UNKNOWN FUNCTION TITLE 2 PA5148 FROM PSEUDOMONAS AERUGINOSA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL UPF0269 PROTEIN PA5148; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 GENE: PA5148; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21DE3; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS STRUCTURAL GENOMICS, APC5047, PA5148, CONSERVED KEYWDS 2 HYPOTHETICAL PROTEIN, PSEUDOMONAS AERUGINOSA, PSI, PROTEIN KEYWDS 3 STRUCTURE INITIATIVE, MIDWEST CENTER FOR STRUCTURAL KEYWDS 4 GENOMICS, MCSG, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR Y.KIM,A.JOACHIMIAK,T.SKARINA,A.SAVCHENKO,A.EDWARDS,MIDWEST AUTHOR 2 CENTER FOR STRUCTURAL GENOMICS (MCSG) REVDAT 3 24-FEB-09 1T07 1 VERSN REVDAT 2 18-JAN-05 1T07 1 AUTHOR KEYWDS REMARK REVDAT 1 03-AUG-04 1T07 0 JRNL AUTH Y.KIM,A.JOACHIMIAK,T.SKARINA,A.SAVCHENKO,A.EDWARDS JRNL TITL CRYSTAL STRUCTURE OF PA5148 FROM PSEUDOMONAS JRNL TITL 2 AERUGINOSA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.09 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 287466.870 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 9366 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 SET) : 0.192 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.400 REMARK 3 FREE R VALUE TEST SET COUNT : 976 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.80 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1306 REMARK 3 BIN R VALUE (WORKING SET) : 0.2160 REMARK 3 BIN FREE R VALUE : 0.2520 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.50 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 154 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.020 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 719 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 116 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.55000 REMARK 3 B22 (A**2) : -1.55000 REMARK 3 B33 (A**2) : 3.10000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.19 REMARK 3 ESD FROM SIGMAA (A) : 0.09 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.23 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.13 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.30 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 20.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.84 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.610 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.300 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.320 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.940 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 47.84 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1T07 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-APR-04. REMARK 100 THE RCSB ID CODE IS RCSB022148. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-MAR-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 3.5 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) : 0.9793 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-2 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SBCCOLLECT, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10400 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 17.700 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 13.80 REMARK 200 R MERGE FOR SHELL (I) : 0.57200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD 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 (%): 49.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, CITRIC ACID, PH 3.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 21 2 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 27.78700 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 27.78700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 31.20600 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 27.78700 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 27.78700 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 31.20600 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 27.78700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 27.78700 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 31.20600 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 27.78700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 27.78700 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 31.20600 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 1 CHAIN. THE BIOLOGICAL UNIT IS UNKNOWN. 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: MONOMERIC 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 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 ALA A 80 REMARK 465 LYS A 81 REMARK 465 ALA A 82 REMARK 465 ASP A 83 REMARK 465 GLY A 84 REMARK 465 TYR A 85 REMARK 465 VAL A 86 REMARK 465 PRO A 87 REMARK 465 PRO A 88 REMARK 465 SER A 89 REMARK 465 ALA A 90 REMARK 465 GLY A 91 REMARK 465 SER A 92 REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 117 DISTANCE = 6.61 ANGSTROMS REMARK 525 HOH A 152 DISTANCE = 25.06 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC5047 RELATED DB: TARGETDB DBREF 1T07 A 1 90 UNP Q9HU36 FETP_PSEAE 1 90 SEQADV 1T07 GLY A -1 UNP Q9HU36 CLONING ARTIFACT SEQADV 1T07 HIS A 0 UNP Q9HU36 CLONING ARTIFACT SEQADV 1T07 MSE A 1 UNP Q9HU36 MET 1 MODIFIED RESIDUE SEQADV 1T07 MSE A 6 UNP Q9HU36 MET 6 MODIFIED RESIDUE SEQADV 1T07 MSE A 48 UNP Q9HU36 MET 48 MODIFIED RESIDUE SEQADV 1T07 MSE A 57 UNP Q9HU36 MET 57 MODIFIED RESIDUE SEQADV 1T07 MSE A 58 UNP Q9HU36 MET 58 MODIFIED RESIDUE SEQADV 1T07 MSE A 70 UNP Q9HU36 MET 70 MODIFIED RESIDUE SEQADV 1T07 GLY A 91 UNP Q9HU36 CLONING ARTIFACT SEQADV 1T07 SER A 92 UNP Q9HU36 CLONING ARTIFACT SEQRES 1 A 94 GLY HIS MSE SER ARG THR VAL MSE CYS ARG LYS TYR HIS SEQRES 2 A 94 GLU GLU LEU PRO GLY LEU ASP ARG PRO PRO TYR PRO GLY SEQRES 3 A 94 ALA LYS GLY GLU ASP ILE TYR ASN ASN VAL SER ARG LYS SEQRES 4 A 94 ALA TRP ASP GLU TRP GLN LYS HIS GLN THR MSE LEU ILE SEQRES 5 A 94 ASN GLU ARG ARG LEU ASN MSE MSE ASN ALA GLU ASP ARG SEQRES 6 A 94 LYS PHE LEU GLN GLN GLU MSE ASP LYS PHE LEU SER GLY SEQRES 7 A 94 GLU ASP TYR ALA LYS ALA ASP GLY TYR VAL PRO PRO SER SEQRES 8 A 94 ALA GLY SER MODRES 1T07 MSE A 1 MET SELENOMETHIONINE MODRES 1T07 MSE A 6 MET SELENOMETHIONINE MODRES 1T07 MSE A 48 MET SELENOMETHIONINE MODRES 1T07 MSE A 57 MET SELENOMETHIONINE MODRES 1T07 MSE A 58 MET SELENOMETHIONINE MODRES 1T07 MSE A 70 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 6 8 HET MSE A 48 16 HET MSE A 57 8 HET MSE A 58 8 HET MSE A 70 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 2 HOH *116(H2 O) HELIX 1 1 GLY A 24 VAL A 34 1 11 HELIX 2 2 SER A 35 ARG A 54 1 20 HELIX 3 3 ASN A 59 LEU A 74 1 16 SHEET 1 A 2 THR A 4 CYS A 7 0 SHEET 2 A 2 GLU A 12 PRO A 15 -1 O GLU A 12 N CYS A 7 LINK C HIS A 0 N MSE A 1 1555 1555 1.32 LINK C MSE A 1 N SER A 2 1555 1555 1.32 LINK C VAL A 5 N MSE A 6 1555 1555 1.33 LINK C MSE A 6 N CYS A 7 1555 1555 1.33 LINK C THR A 47 N AMSE A 48 1555 1555 1.33 LINK C THR A 47 N BMSE A 48 1555 1555 1.33 LINK C AMSE A 48 N LEU A 49 1555 1555 1.33 LINK C BMSE A 48 N LEU A 49 1555 1555 1.33 LINK C ASN A 56 N MSE A 57 1555 1555 1.33 LINK C MSE A 57 N MSE A 58 1555 1555 1.33 LINK C MSE A 58 N ASN A 59 1555 1555 1.33 LINK C GLU A 69 N MSE A 70 1555 1555 1.33 LINK C MSE A 70 N ASP A 71 1555 1555 1.34 CRYST1 55.574 55.574 62.412 90.00 90.00 90.00 P 42 21 2 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 0.017994 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017994 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016023 0.00000