HEADER HYDROLASE 08-OCT-08 3ETK OBSLTE 28-JUL-09 3ETK 3ICJ TITLE CRYSTAL STRUCTURE OF AN UNCHARACTERIZED METAL-DEPENDENT TITLE 2 HYDROLASE FROM PYROCOCCUS FURIOSUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED METAL-DEPENDENT HYDROLASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS; SOURCE 3 ORGANISM_TAXID: 2261; SOURCE 4 GENE: PF0846; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: MODIFIED PET26 KEYWDS STRUCTURAL GENOMICS, UNKNOWN FUNCTION, PSI-2, PROTEIN KEYWDS 2 STRUCTURE INITIATIVE, NEW YORK SGX RESEARCH CENTER FOR KEYWDS 3 STRUCTURAL GENOMICS, NYSGXRC, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR J.B.BONANNO,J.FREEMAN,K.T.BAIN,S.HU,S.OZYURT,S.WASSERMAN, AUTHOR 2 J.M.SAUDER,S.K.BURLEY,S.C.ALMO,NEW YORK SGX RESEARCH CENTER AUTHOR 3 FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 3 28-JUL-09 3ETK 1 OBSLTE REVDAT 2 24-FEB-09 3ETK 1 VERSN REVDAT 1 21-OCT-08 3ETK 0 JRNL AUTH J.B.BONANNO,J.FREEMAN,K.T.BAIN,S.HU,S.OZYURT, JRNL AUTH 2 S.WASSERMAN,J.M.SAUDER,S.K.BURLEY,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF AN UNCHARACTERIZED JRNL TITL 2 METAL-DEPENDENT HYDROLASE FROM PYROCOCCUS FURIOSUS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0069 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 33341 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) : 0.223 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.280 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1704 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2223 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.71 REMARK 3 BIN R VALUE (WORKING SET) : 0.3190 REMARK 3 BIN FREE R VALUE SET COUNT : 118 REMARK 3 BIN FREE R VALUE : 0.4500 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3677 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 185 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.75000 REMARK 3 B22 (A**2) : 0.65000 REMARK 3 B33 (A**2) : -3.40000 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): 0.232 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.211 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.145 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.469 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.918 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3749 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5071 ; 1.504 ; 1.973 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 471 ; 5.977 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 166 ;33.978 ;23.373 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 673 ;16.540 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;16.880 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 575 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2796 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2325 ; 0.815 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3735 ; 1.515 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1424 ; 2.734 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1333 ; 4.512 ; 4.500 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 : BABINET MODEL WITH 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 REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 3ETK COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-OCT-08. REMARK 100 THE RCSB ID CODE IS RCSB049749. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97958 REMARK 200 MONOCHROMATOR : DIAMOND REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33426 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 38.491 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 REMARK 200 DATA REDUNDANCY : 12.400 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : 0.08500 REMARK 200 FOR THE DATA SET : 15.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.9 REMARK 200 DATA REDUNDANCY IN SHELL : 12.70 REMARK 200 R MERGE FOR SHELL (I) : 0.38400 REMARK 200 R SYM FOR SHELL (I) : 0.38400 REMARK 200 FOR SHELL : 4.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXC/D/E REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 200MM MAGNESIUM REMARK 280 FORMATE, PH 7.0, VAPOR DIFFUSION, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 84.83000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 84.83000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 29.43450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 58.21900 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 29.43450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 58.21900 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 84.83000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 29.43450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 58.21900 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 84.83000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 29.43450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 58.21900 REMARK 290 SMTRY3 8 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: PROBABLE DIMER 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: 3790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -59.0 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 84.83000 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 670 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 MET A -1 REMARK 465 SER A 0 REMARK 465 LEU A 1 REMARK 465 ALA A 2 REMARK 465 SER A 3 REMARK 465 LEU A 4 REMARK 465 PRO A 5 REMARK 465 ILE A 6 REMARK 465 SER A 7 REMARK 465 ASN A 8 REMARK 465 PHE A 9 REMARK 465 PHE A 10 REMARK 465 THR A 11 REMARK 465 PHE A 12 REMARK 465 ASN A 13 REMARK 465 HIS A 14 REMARK 465 GLN A 15 REMARK 465 SER A 16 REMARK 465 THR A 17 REMARK 465 LEU A 18 REMARK 465 PHE A 19 REMARK 465 THR A 20 REMARK 465 LYS A 21 REMARK 465 VAL A 22 REMARK 465 LYS A 23 REMARK 465 ASN A 24 REMARK 465 PHE A 25 REMARK 465 MET A 26 REMARK 465 GLY A 27 REMARK 465 VAL A 28 REMARK 465 LYS A 29 REMARK 465 HIS A 30 REMARK 465 ILE A 31 REMARK 465 GLY A 32 REMARK 465 ASP A 33 REMARK 465 CYS A 34 REMARK 465 GLU A 502 REMARK 465 MET A 503 REMARK 465 LYS A 504 REMARK 465 GLY A 505 REMARK 465 ILE A 506 REMARK 465 ILE A 507 REMARK 465 THR A 508 REMARK 465 ILE A 509 REMARK 465 THR A 510 REMARK 465 THR A 511 REMARK 465 ASP A 512 REMARK 465 PRO A 513 REMARK 465 ASN A 514 REMARK 465 SER A 515 REMARK 465 SER A 516 REMARK 465 SER A 517 REMARK 465 VAL A 518 REMARK 465 ASP A 519 REMARK 465 LYS A 520 REMARK 465 LEU A 521 REMARK 465 ALA A 522 REMARK 465 ALA A 523 REMARK 465 ALA A 524 REMARK 465 LEU A 525 REMARK 465 GLU A 526 REMARK 465 HIS A 527 REMARK 465 HIS A 528 REMARK 465 HIS A 529 REMARK 465 HIS A 530 REMARK 465 HIS A 531 REMARK 465 HIS A 532 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 118 CG CD CE NZ REMARK 470 GLU A 125 CG CD OE1 OE2 REMARK 470 LYS A 129 CG CD CE NZ REMARK 470 ARG A 131 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 144 CG CD OE1 OE2 REMARK 470 LYS A 184 CG CD CE NZ REMARK 470 ARG A 199 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 202 CG CD OE1 OE2 REMARK 470 GLU A 270 CG CD OE1 OE2 REMARK 470 GLU A 385 CG CD OE1 OE2 REMARK 470 GLU A 479 CG CD OE1 OE2 REMARK 470 ARG A 497 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 501 CG CD CE NZ 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 MET A 240 CG - SD - CE ANGL. DEV. = -12.4 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 LYS A 129 50.59 -97.04 REMARK 500 ARG A 166 -53.82 -20.89 REMARK 500 GLU A 198 -113.73 40.51 REMARK 500 ASN A 315 85.30 -159.59 REMARK 500 HIS A 371 -66.10 84.47 REMARK 500 THR A 469 -86.75 -125.75 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 533 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 99 NE2 REMARK 620 2 HIS A 101 NE2 102.1 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 534 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 346 ND1 REMARK 620 2 HIS A 371 NE2 103.5 REMARK 620 N 1 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 533 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 534 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-9564B RELATED DB: TARGETDB DBREF 3ETK A 2 502 UNP Q8U2I8 Q8U2I8_PYRFU 2 502 SEQADV 3ETK MET A -1 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK SER A 0 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK LEU A 1 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK MET A 503 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK LYS A 504 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK GLY A 505 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK ILE A 506 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK ILE A 507 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK THR A 508 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK ILE A 509 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK THR A 510 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK THR A 511 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK ASP A 512 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK PRO A 513 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK ASN A 514 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK SER A 515 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK SER A 516 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK SER A 517 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK VAL A 518 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK ASP A 519 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK LYS A 520 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK LEU A 521 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK ALA A 522 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK ALA A 523 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK ALA A 524 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK LEU A 525 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK GLU A 526 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK HIS A 527 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK HIS A 528 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK HIS A 529 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK HIS A 530 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK HIS A 531 UNP Q8U2I8 EXPRESSION TAG SEQADV 3ETK HIS A 532 UNP Q8U2I8 EXPRESSION TAG SEQRES 1 A 534 MET SER LEU ALA SER LEU PRO ILE SER ASN PHE PHE THR SEQRES 2 A 534 PHE ASN HIS GLN SER THR LEU PHE THR LYS VAL LYS ASN SEQRES 3 A 534 PHE MET GLY VAL LYS HIS ILE GLY ASP CYS MET LYS ALA SEQRES 4 A 534 LEU ILE ASN GLY THR ILE TYR THR SER PHE SER PRO VAL SEQRES 5 A 534 LYS LYS VAL SER GLY LEU VAL ILE SER ASN GLU ARG VAL SEQRES 6 A 534 LEU TYR ALA GLY ASP SER SER THR ALA LEU ARG ILE ALA SEQRES 7 A 534 GLU LEU ALA GLY GLY GLU ILE ILE ASP LEU LYS GLY LYS SEQRES 8 A 534 PHE VAL MET PRO ALA PHE PHE ASP SER HIS LEU HIS LEU SEQRES 9 A 534 ASP GLU LEU GLY MET SER LEU GLU MET VAL ASP LEU ARG SEQRES 10 A 534 GLY VAL LYS SER MET GLU GLU LEU VAL GLU ARG VAL LYS SEQRES 11 A 534 LYS GLY ARG GLY ARG ILE ILE PHE GLY PHE GLY TRP ASP SEQRES 12 A 534 GLN ASP GLU LEU GLY ARG TRP PRO THR ARG GLU ASP LEU SEQRES 13 A 534 ASP VAL ILE ASP ARG PRO VAL PHE LEU TYR ARG ARG CYS SEQRES 14 A 534 PHE HIS VAL ALA VAL MET ASN SER LYS MET ILE ASP LEU SEQRES 15 A 534 LEU ASN LEU LYS PRO SER LYS ASP PHE ASP GLU SER THR SEQRES 16 A 534 GLY ILE VAL ARG GLU ARG ALA LEU GLU GLU SER ARG LYS SEQRES 17 A 534 ILE ILE ASN GLU LYS ILE LEU THR VAL LYS ASP TYR LYS SEQRES 18 A 534 HIS TYR ILE GLU SER ALA GLN GLU HIS LEU LEU SER LEU SEQRES 19 A 534 GLY VAL HIS SER VAL GLY PHE MET SER VAL GLY GLU LYS SEQRES 20 A 534 ALA LEU LYS ALA LEU PHE GLU LEU GLU ARG GLU GLY ARG SEQRES 21 A 534 LEU LYS MET ASN VAL PHE ALA TYR LEU SER PRO GLU LEU SEQRES 22 A 534 LEU ASP LYS LEU GLU GLU LEU ASN LEU GLY LYS PHE GLU SEQRES 23 A 534 GLY ARG ARG LEU ARG ILE TRP GLY VAL LYS LEU PHE VAL SEQRES 24 A 534 ASP GLY SER LEU GLY ALA ARG THR ALA LEU LEU SER GLU SEQRES 25 A 534 PRO TYR THR ASP ASN PRO THR THR SER GLY GLU LEU VAL SEQRES 26 A 534 MET ASN LYS ASP GLU ILE VAL GLU VAL ILE GLU ARG ALA SEQRES 27 A 534 LYS PRO LEU GLY LEU ASP VAL ALA VAL HIS ALA ILE GLY SEQRES 28 A 534 ASP LYS ALA VAL ASP VAL ALA LEU ASP ALA PHE GLU GLU SEQRES 29 A 534 ALA GLU PHE SER GLY ARG ILE GLU HIS ALA SER LEU VAL SEQRES 30 A 534 ARG ASP ASP GLN LEU GLU ARG ILE LYS GLU LEU LYS VAL SEQRES 31 A 534 ARG ILE SER ALA GLN PRO HIS PHE ILE VAL SER ASP TRP SEQRES 32 A 534 TRP ILE VAL ASN ARG VAL GLY GLU GLU ARG ALA LYS TRP SEQRES 33 A 534 ALA TYR ARG LEU LYS THR LEU SER SER ILE THR LYS LEU SEQRES 34 A 534 GLY PHE SER THR ASP SER PRO ILE GLU PRO ALA ASP PRO SEQRES 35 A 534 TRP VAL SER ILE ASP ALA ALA VAL ASN ARG TYR VAL VAL SEQRES 36 A 534 ASP PRO GLY GLU ARG VAL SER ARG GLU GLU ALA LEU HIS SEQRES 37 A 534 LEU TYR THR HIS GLY SER ALA GLN VAL THR LEU ALA GLU SEQRES 38 A 534 ASP LEU GLY LYS LEU GLU ARG GLY PHE ARG ALA GLU TYR SEQRES 39 A 534 ILE ILE LEU ASP ARG ASP PRO LEU LYS GLU MET LYS GLY SEQRES 40 A 534 ILE ILE THR ILE THR THR ASP PRO ASN SER SER SER VAL SEQRES 41 A 534 ASP LYS LEU ALA ALA ALA LEU GLU HIS HIS HIS HIS HIS SEQRES 42 A 534 HIS HET MG A 533 1 HET MG A 534 1 HETNAM MG MAGNESIUM ION FORMUL 2 MG 2(MG 2+) FORMUL 4 HOH *185(H2 O) HELIX 1 1 ASP A 68 GLY A 80 1 13 HELIX 2 2 HIS A 101 GLU A 110 1 10 HELIX 3 3 SER A 119 LYS A 129 1 11 HELIX 4 4 ASP A 141 GLY A 146 1 6 HELIX 5 5 THR A 150 ASP A 155 1 6 HELIX 6 6 ASN A 174 ASN A 182 1 9 HELIX 7 7 GLU A 198 LYS A 211 1 14 HELIX 8 8 THR A 214 LEU A 232 1 19 HELIX 9 9 GLY A 243 GLU A 256 1 14 HELIX 10 10 LEU A 271 LEU A 278 1 8 HELIX 11 11 ASN A 325 LYS A 337 1 13 HELIX 12 12 PRO A 338 GLY A 340 5 3 HELIX 13 13 GLY A 349 ALA A 363 1 15 HELIX 14 14 ARG A 376 ASP A 378 5 3 HELIX 15 15 GLN A 379 LYS A 387 1 9 HELIX 16 16 PRO A 394 ASP A 400 1 7 HELIX 17 17 TRP A 402 ALA A 412 1 11 HELIX 18 18 LYS A 413 ALA A 415 5 3 HELIX 19 19 ARG A 417 THR A 425 1 9 HELIX 20 20 ASP A 439 ARG A 450 1 12 HELIX 21 21 ASP A 454 ARG A 458 5 5 HELIX 22 22 SER A 460 TYR A 468 1 9 HELIX 23 23 THR A 469 THR A 476 1 8 SHEET 1 A 4 ARG A 62 GLY A 67 0 SHEET 2 A 4 GLY A 55 SER A 59 -1 N VAL A 57 O LEU A 64 SHEET 3 A 4 LYS A 36 ILE A 39 -1 N LYS A 36 O ILE A 58 SHEET 4 A 4 GLU A 82 ASP A 85 1 O ILE A 84 N ALA A 37 SHEET 1 B 4 LYS A 51 VAL A 53 0 SHEET 2 B 4 THR A 42 SER A 46 -1 N ILE A 43 O VAL A 53 SHEET 3 B 4 PHE A 90 PRO A 93 1 O VAL A 91 N TYR A 44 SHEET 4 B 4 TYR A 492 LEU A 495 -1 O LEU A 495 N PHE A 90 SHEET 1 C 5 PHE A 95 LEU A 100 0 SHEET 2 C 5 VAL A 234 VAL A 242 1 O GLY A 238 N LEU A 100 SHEET 3 C 5 ASN A 262 LEU A 267 1 O TYR A 266 N PHE A 239 SHEET 4 C 5 LEU A 288 PHE A 296 1 O ARG A 289 N ALA A 265 SHEET 5 C 5 PHE A 283 GLU A 284 -1 N PHE A 283 O ILE A 290 SHEET 1 D 8 PHE A 95 LEU A 100 0 SHEET 2 D 8 VAL A 234 VAL A 242 1 O GLY A 238 N LEU A 100 SHEET 3 D 8 ASN A 262 LEU A 267 1 O TYR A 266 N PHE A 239 SHEET 4 D 8 LEU A 288 PHE A 296 1 O ARG A 289 N ALA A 265 SHEET 5 D 8 ASP A 342 ALA A 347 1 O ALA A 344 N LEU A 295 SHEET 6 D 8 ARG A 368 HIS A 371 1 O ARG A 368 N VAL A 345 SHEET 7 D 8 ARG A 389 ALA A 392 1 O SER A 391 N HIS A 371 SHEET 8 D 8 LEU A 427 PHE A 429 1 O GLY A 428 N ALA A 392 SHEET 1 E 6 VAL A 112 ASP A 113 0 SHEET 2 E 6 ILE A 135 TRP A 140 1 O PHE A 136 N VAL A 112 SHEET 3 E 6 VAL A 161 ARG A 165 1 O TYR A 164 N GLY A 137 SHEET 4 E 6 VAL A 170 MET A 173 -1 O VAL A 170 N ARG A 165 SHEET 5 E 6 ILE A 195 ARG A 197 -1 O VAL A 196 N ALA A 171 SHEET 6 E 6 PHE A 189 ASP A 190 -1 N ASP A 190 O ILE A 195 LINK NE2 HIS A 99 MG MG A 533 1555 1555 2.21 LINK NE2 HIS A 101 MG MG A 533 1555 1555 2.34 LINK ND1 HIS A 346 MG MG A 534 1555 1555 2.19 LINK NE2 HIS A 371 MG MG A 534 1555 1555 2.42 CISPEP 1 SER A 48 PRO A 49 0 -7.33 CISPEP 2 SER A 433 PRO A 434 0 11.71 SITE 1 AC1 4 HIS A 99 HIS A 101 ASP A 432 MG A 534 SITE 1 AC2 3 HIS A 346 HIS A 371 MG A 533 CRYST1 58.869 116.438 169.660 90.00 90.00 90.00 C 2 2 21 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 0.016987 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008588 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005894 0.00000