HEADER HYDROLASE 02-JUL-09 3I4Q TITLE STRUCTURE OF A PUTATIVE INORGANIC PYROPHOSPHATASE FROM THE OIL- TITLE 2 DEGRADING BACTERIUM OLEISPIRA ANTARCTICA COMPND MOL_ID: 1; COMPND 2 MOLECULE: APC40078; COMPND 3 CHAIN: A; COMPND 4 EC: 3.6.1.1; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: OLEISPIRA ANTARCTICA; SOURCE 3 ORGANISM_TAXID: 188908; SOURCE 4 GENE: OLEI03685; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-RIPL; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: P15TV LIC KEYWDS OLEISPIRA ANTARCTICA, INORGANIC PYROPHOSPHATASE, OIL-DEGRADING, KEYWDS 2 STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, MIDWEST KEYWDS 3 CENTER FOR STRUCTURAL GENOMICS, MCSG, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.U.SINGER,E.EVDOKIMOVA,O.KAGAN,A.M.EDWARDS,A.JOACHIMIAK,A.SAVCHENKO, AUTHOR 2 MIDWEST CENTER FOR STRUCTURAL GENOMICS (MCSG) REVDAT 6 06-NOV-24 3I4Q 1 REMARK REVDAT 5 22-NOV-23 3I4Q 1 REMARK REVDAT 4 06-SEP-23 3I4Q 1 REMARK DBREF LINK REVDAT 3 07-AUG-13 3I4Q 1 JRNL REVDAT 2 22-FEB-12 3I4Q 1 AUTHOR VERSN REVDAT 1 28-JUL-09 3I4Q 0 JRNL AUTH M.KUBE,T.N.CHERNIKOVA,Y.AL-RAMAHI,A.BELOQUI,N.LOPEZ-CORTEZ, JRNL AUTH 2 M.E.GUAZZARONI,H.J.HEIPIEPER,S.KLAGES,O.R.KOTSYURBENKO, JRNL AUTH 3 I.LANGER,T.Y.NECHITAYLO,H.LUNSDORF,M.FERNANDEZ,S.JUAREZ, JRNL AUTH 4 S.CIORDIA,A.SINGER,O.KAGAN,O.EGOROVA,P.ALAIN PETIT, JRNL AUTH 5 P.STOGIOS,Y.KIM,A.TCHIGVINTSEV,R.FLICK,R.DENARO,M.GENOVESE, JRNL AUTH 6 J.P.ALBAR,O.N.REVA,M.MARTINEZ-GOMARIZ,H.TRAN,M.FERRER, JRNL AUTH 7 A.SAVCHENKO,A.F.YAKUNIN,M.M.YAKIMOV,O.V.GOLYSHINA, JRNL AUTH 8 R.REINHARDT,P.N.GOLYSHIN JRNL TITL GENOME SEQUENCE AND FUNCTIONAL GENOMIC ANALYSIS OF THE JRNL TITL 2 OIL-DEGRADING BACTERIUM OLEISPIRA ANTARCTICA. JRNL REF NAT COMMUN V. 4 2156 2013 JRNL REFN ESSN 2041-1723 JRNL PMID 23877221 JRNL DOI 10.1038/NCOMMS3156 REMARK 2 REMARK 2 RESOLUTION. 1.63 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) : 1.63 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.56 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 20583 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) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 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 : 1111 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) : 1.63 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.68 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1484 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.56 REMARK 3 BIN R VALUE (WORKING SET) : 0.2700 REMARK 3 BIN FREE R VALUE SET COUNT : 91 REMARK 3 BIN FREE R VALUE : 0.3400 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1325 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 174 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.29 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.096 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.098 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.057 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.123 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1446 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1988 ; 1.527 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 188 ; 5.875 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 66 ;33.681 ;25.606 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 233 ;13.163 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ; 5.429 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 221 ; 0.113 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1138 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 727 ; 0.213 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1027 ; 0.311 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 129 ; 0.141 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 7 ; 0.101 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 38 ; 0.179 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 19 ; 0.099 ; 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): 906 ; 1.027 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1476 ; 1.756 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 560 ; 2.532 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 509 ; 3.878 ; 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 : 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 3I4Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000053961. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-FEB-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21698 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.630 REMARK 200 RESOLUTION RANGE LOW (A) : 32.560 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 10.50 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 38.7200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.63 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.4 REMARK 200 DATA REDUNDANCY IN SHELL : 10.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: SWISS-MODELLER MODEL BASED ON COORDINATES FROM REMARK 200 2EIP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M AMMONIUM SULFATE, 0.1M BIS-TRIS, REMARK 280 CRYOPROTECTED IN PARATONE-N OIL, PH 5.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 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 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 SMTRY1 7 1.000000 0.000000 0.000000 55.33300 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 31.94652 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 24.77467 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 55.33300 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 31.94652 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 24.77467 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 55.33300 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 31.94652 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 24.77467 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 55.33300 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 31.94652 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 24.77467 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 55.33300 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 31.94652 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 24.77467 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 55.33300 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 31.94652 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 24.77467 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 63.89304 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 49.54933 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 63.89304 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 49.54933 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 63.89304 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 49.54933 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 63.89304 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 49.54933 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 63.89304 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 49.54933 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 63.89304 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 49.54933 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 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 37710 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -247.0 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 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 5 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 6 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 330 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 0 REMARK 465 MSE A 1 REMARK 465 GLY A 2 REMARK 465 LYS A 35 REMARK 465 ASP A 36 REMARK 465 LYS A 147 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 ASP A 11 84.66 -160.79 REMARK 500 ASP A 65 -6.75 -57.65 REMARK 500 THR A 115 145.56 -171.27 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 176 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 66 OD2 REMARK 620 2 ASP A 71 OD2 169.6 REMARK 620 3 ASP A 103 OD1 80.2 105.8 REMARK 620 4 HOH A 206 O 102.6 86.1 89.1 REMARK 620 5 HOH A 245 O 80.5 92.9 160.5 97.9 REMARK 620 6 HOH A 268 O 88.9 83.0 87.8 167.4 89.0 REMARK 620 7 HOH A 331 O 117.2 52.6 135.9 121.8 53.5 55.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 177 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 143 O REMARK 620 2 GLU A 146 O 89.7 REMARK 620 3 LYS A 149 O 75.9 101.3 REMARK 620 4 HOH A 346 O 77.0 163.9 66.9 REMARK 620 N 1 2 3 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 176 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 177 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC40078 RELATED DB: TARGETDB DBREF 3I4Q A 0 175 PDB 3I4Q 3I4Q 0 175 SEQRES 1 A 176 GLY MSE GLY TYR ASN THR ILE PRO ALA GLY LYS ASP LEU SEQRES 2 A 176 PRO ASN ASP ILE TYR VAL ALA ILE GLU ILE PRO ALA ASN SEQRES 3 A 176 ALA SER PRO ILE LYS TYR GLU ILE ASP LYS ASP MSE ASP SEQRES 4 A 176 ALA LEU LEU VAL ASP ARG PHE MSE ALA THR PRO MSE PHE SEQRES 5 A 176 TYR PRO ALA ASN TYR GLY TYR ILE ASN ASN THR LEU ALA SEQRES 6 A 176 ASP ASP GLY ASP ALA LEU ASP VAL LEU VAL ILE THR PRO SEQRES 7 A 176 TYR PRO VAL ALA PRO GLY SER VAL ILE ARG ALA ARG PRO SEQRES 8 A 176 VAL GLY VAL LEU LYS MSE SER ASP GLU ALA GLY GLY ASP SEQRES 9 A 176 GLU LYS LEU LEU ALA VAL PRO HIS GLU LYS LEU THR GLN SEQRES 10 A 176 LEU TYR ASN ASP ILE HIS ASP ILE ASP ASP VAL PRO GLN SEQRES 11 A 176 LEU LEU LYS ASP GLN ILE VAL HIS PHE PHE GLU HIS TYR SEQRES 12 A 176 LYS ASP LEU GLU LYS GLY LYS TRP VAL LYS VAL GLU GLY SEQRES 13 A 176 TRP GLU ASN ALA ASP ALA ALA ARG ALA ALA ILE VAL LYS SEQRES 14 A 176 SER ALA ALA ALA TYR LYS GLY MODRES 3I4Q MSE A 37 MET SELENOMETHIONINE MODRES 3I4Q MSE A 46 MET SELENOMETHIONINE MODRES 3I4Q MSE A 50 MET SELENOMETHIONINE MODRES 3I4Q MSE A 96 MET SELENOMETHIONINE HET MSE A 37 8 HET MSE A 46 16 HET MSE A 50 8 HET MSE A 96 8 HET NA A 176 1 HET NA A 177 1 HETNAM MSE SELENOMETHIONINE HETNAM NA SODIUM ION FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 2 NA 2(NA 1+) FORMUL 4 HOH *174(H2 O) HELIX 1 1 ASP A 123 VAL A 127 5 5 HELIX 2 2 PRO A 128 TYR A 142 1 15 HELIX 3 3 ASN A 158 TYR A 173 1 16 SHEET 1 A 7 VAL A 151 GLU A 157 0 SHEET 2 A 7 VAL A 85 ASP A 98 -1 N SER A 97 O LYS A 152 SHEET 3 A 7 GLY A 101 PRO A 110 -1 O LEU A 107 N VAL A 91 SHEET 4 A 7 ASP A 71 VAL A 74 1 N LEU A 73 O LEU A 106 SHEET 5 A 7 ASN A 55 TYR A 58 -1 N GLY A 57 O VAL A 72 SHEET 6 A 7 ILE A 16 ILE A 22 -1 N ILE A 22 O TYR A 56 SHEET 7 A 7 VAL A 85 ASP A 98 -1 O ALA A 88 N ILE A 16 SHEET 1 B 2 ILE A 29 ASP A 34 0 SHEET 2 B 2 ALA A 39 PHE A 45 -1 O ARG A 44 N LYS A 30 LINK C MSE A 37 N ASP A 38 1555 1555 1.34 LINK C PHE A 45 N AMSE A 46 1555 1555 1.34 LINK C PHE A 45 N BMSE A 46 1555 1555 1.33 LINK C AMSE A 46 N ALA A 47 1555 1555 1.34 LINK C BMSE A 46 N ALA A 47 1555 1555 1.33 LINK C PRO A 49 N MSE A 50 1555 1555 1.34 LINK C MSE A 50 N PHE A 51 1555 1555 1.33 LINK C LYS A 95 N MSE A 96 1555 1555 1.34 LINK C MSE A 96 N SER A 97 1555 1555 1.34 LINK OD2 ASP A 66 NA NA A 176 1555 1555 2.36 LINK OD2 ASP A 71 NA NA A 176 1555 1555 2.39 LINK OD1 ASP A 103 NA NA A 176 1555 1555 2.27 LINK O LYS A 143 NA NA A 177 1555 1555 2.80 LINK O GLU A 146 NA NA A 177 1555 1555 2.28 LINK O LYS A 149 NA NA A 177 1555 1555 2.37 LINK NA NA A 176 O HOH A 206 1555 1555 2.49 LINK NA NA A 176 O HOH A 245 1555 1555 2.25 LINK NA NA A 176 O HOH A 268 1555 1555 2.43 LINK NA NA A 176 O HOH A 331 1555 1555 3.20 LINK NA NA A 177 O HOH A 346 1555 1555 2.39 CISPEP 1 LEU A 12 PRO A 13 0 -1.84 SITE 1 AC1 6 ASP A 66 ASP A 71 ASP A 103 HOH A 206 SITE 2 AC1 6 HOH A 245 HOH A 268 SITE 1 AC2 5 LYS A 143 ASP A 144 GLU A 146 LYS A 149 SITE 2 AC2 5 HOH A 346 CRYST1 110.666 110.666 74.324 90.00 90.00 120.00 H 3 2 18 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 0.009036 0.005217 0.000000 0.00000 SCALE2 0.000000 0.010434 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013455 0.00000