HEADER HYDROLASE 31-OCT-01 1KA1 TITLE THE PAPASE HAL2P COMPLEXED WITH CALCIUM AND MAGNESIUM IONS AND TITLE 2 REACTION SUBSTRATE: PAP COMPND MOL_ID: 1; COMPND 2 MOLECULE: HALOTOLERANCE PROTEIN HAL2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HAL2P, 3'(2'),5'-BISPHOSPHATE NUCLEOTIDASE, PHOSPHOADENYLATE COMPND 5 3'-NUCLEOTIDASE, 3'-PHOSPHOADENYLYLSULFATE 3'-PHOSPHATASE; COMPND 6 EC: 3.1.3.7; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: HAL2; SOURCE 6 EXPRESSION_SYSTEM: SACCHAROMYCES CEREVISIAE; SOURCE 7 EXPRESSION_SYSTEM_COMMON: BAKER'S YEAST; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 4932; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: RS1051; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: MULTI-COPY PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PRS-421-HAL2 KEYWDS NUCLEOTIDASE, SALT TOLERANCE, INOSITOL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.PATEL,A.ALBERT,T.L.BLUNDELL REVDAT 4 16-AUG-23 1KA1 1 REMARK LINK REVDAT 3 24-FEB-09 1KA1 1 VERSN REVDAT 2 05-APR-05 1KA1 1 JRNL REMARK REVDAT 1 07-NOV-01 1KA1 0 JRNL AUTH S.PATEL,M.MARTINEZ-RIPOLL,T.L.BLUNDELL,A.ALBERT JRNL TITL STRUCTURAL ENZYMOLOGY OF LI(+)-SENSITIVE/MG(2+)-DEPENDENT JRNL TITL 2 PHOSPHATASES. JRNL REF J.MOL.BIOL. V. 320 1087 2002 JRNL REFN ISSN 0022-2836 JRNL PMID 12126627 JRNL DOI 10.1016/S0022-2836(02)00564-8 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.0 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) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.3 REMARK 3 NUMBER OF REFLECTIONS : 73179 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) : 0.134 REMARK 3 R VALUE (WORKING SET) : 0.133 REMARK 3 FREE R VALUE : 0.169 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3654 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) : 1.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.33 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4201 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2260 REMARK 3 BIN FREE R VALUE SET COUNT : 227 REMARK 3 BIN FREE R VALUE : 0.2840 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2718 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 446 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.13 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.04000 REMARK 3 B22 (A**2) : 0.22000 REMARK 3 B33 (A**2) : 0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.27000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.049 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.050 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.047 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.072 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.978 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.969 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2797 ; 0.016 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2504 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3789 ; 1.723 ; 1.953 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5838 ; 1.253 ; 2.995 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 353 ; 6.181 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 494 ;15.123 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 430 ; 0.113 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3124 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 547 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 596 ; 0.269 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2337 ; 0.225 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 6 ; 0.383 ; 0.500 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 313 ; 0.267 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): 3 ; 0.296 ; 0.500 REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 7 ; 0.087 ; 0.500 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 14 ; 0.259 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 53 ; 0.274 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 28 ; 0.254 ; 0.500 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): 1748 ; 2.399 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2807 ; 3.214 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1049 ; 4.396 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 982 ; 6.143 ; 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): 2797 ; 2.631 ; 2.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 2 ; 6.221 ; 2.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2747 ; 5.360 ; 2.000 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 : BABINET MODEL WITH 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1KA1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-NOV-01. REMARK 100 THE DEPOSITION ID IS D_1000014747. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-NOV-99 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX9.6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8700 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : ADSC REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 73179 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.310 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 90.3 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.1 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.45000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1QGX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG5000 MME, 0.1 M SODIUM ACETATE, REMARK 280 5 MM BETA-MERCAPTOETHANOL, 0.1 M MES. (CRYSTALS WERE SOAKED IN REMARK 280 MOTHER LIQUOR CONTAINING 0.5 M CALCIUM CHLORIDE FOR 5 HOURS.) , REMARK 280 PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 22.48400 REMARK 290 SMTRY3 2 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: THE BIOLOGICAL ASSEMBLY IS A MONOMER 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 MET A 1 REMARK 465 ASN A 356 REMARK 465 ALA A 357 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 32 CB CG CD CE NZ REMARK 470 ASP A 33 CB CG OD1 OD2 REMARK 470 LYS A 189 CG CD CE NZ REMARK 470 LYS A 229 CD CE NZ 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 O HOH A 768 O HOH A 1031 1.70 REMARK 500 OH TYR A 183 O HOH A 1035 1.87 REMARK 500 O HOH A 779 O HOH A 1029 1.92 REMARK 500 O HOH A 797 O HOH A 1048 1.97 REMARK 500 O HOH A 986 O HOH A 989 2.00 REMARK 500 O HOH A 997 O HOH A 1035 2.02 REMARK 500 N LEU A 3 O HOH A 1026 2.05 REMARK 500 O HOH A 667 O HOH A 918 2.06 REMARK 500 O HOH A 755 O HOH A 989 2.07 REMARK 500 CE LYS A 329 O HOH A 854 2.09 REMARK 500 O HOH A 759 O HOH A 821 2.11 REMARK 500 O HOH A 657 O HOH A 1019 2.11 REMARK 500 O HOH A 916 O HOH A 1002 2.13 REMARK 500 NZ LYS A 258 O HOH A 910 2.14 REMARK 500 O HOH A 777 O HOH A 1032 2.14 REMARK 500 O HOH A 982 O HOH A 1023 2.16 REMARK 500 CG ARG A 5 O HOH A 933 2.19 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 O HOH A 744 O HOH A 1031 2555 2.02 REMARK 500 O HOH A 926 O HOH A 1033 2544 2.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 LYS A 16 CE LYS A 16 NZ 0.177 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 A 5 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ASP A 104 CB - CG - OD2 ANGL. DEV. = 6.8 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 32 43.74 -85.06 REMARK 500 GLU A 154 -142.12 -113.45 REMARK 500 PHE A 194 41.72 -154.99 REMARK 500 ASP A 213 -82.93 -92.24 REMARK 500 SER A 264 171.31 84.89 REMARK 500 HIS A 295 -13.34 -141.48 REMARK 500 MET A 313 -54.05 -128.06 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 CA A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 72 OE1 REMARK 620 2 ASP A 142 OD1 89.5 REMARK 620 3 ASP A 142 OD2 87.9 46.9 REMARK 620 4 ILE A 144 O 163.9 79.3 92.6 REMARK 620 5 A3P A 601 O1P 94.2 110.6 64.0 100.5 REMARK 620 6 HOH A 603 O 86.5 86.5 133.1 81.4 162.9 REMARK 620 7 HOH A 613 O 94.9 169.3 142.9 94.4 78.9 84.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 142 OD2 REMARK 620 2 ASP A 145 OD1 86.7 REMARK 620 3 ASP A 294 OD1 95.6 90.7 REMARK 620 4 A3P A 601 O1P 82.5 108.6 160.3 REMARK 620 5 A3P A 601 O3' 132.1 72.4 126.3 65.3 REMARK 620 6 HOH A 639 O 100.5 170.5 82.5 78.6 106.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE A3P A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 602 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QGX RELATED DB: PDB REMARK 900 1QGX IS COMPLEXED WITH TWO MAGNESIUM IONS AND A LITHIUM ION AND REMARK 900 REACTION PRODUCTS AMP AND INORGANIC PHOSPHATE REMARK 900 RELATED ID: 1K9Y RELATED DB: PDB REMARK 900 THE PAPASE HAL2P COMPLEXED WITH MAGNESIUM IONS AND REACTION REMARK 900 PRODUCTS: AMP AND INORGANIC PHOSPHATE REMARK 900 RELATED ID: 1K9Z RELATED DB: PDB REMARK 900 THE PAPASE HAL2P COMPLEXED WITH ZINC IONS REMARK 900 RELATED ID: 1KA0 RELATED DB: PDB REMARK 900 THE PAPASE HAL2P COMPLEXED WITH A SODIUM ION AND THE REACTION REMARK 900 PRODUCT AMP DBREF 1KA1 A 1 357 UNP P32179 HAL2_YEAST 1 357 SEQRES 1 A 357 MET ALA LEU GLU ARG GLU LEU LEU VAL ALA THR GLN ALA SEQRES 2 A 357 VAL ARG LYS ALA SER LEU LEU THR LYS ARG ILE GLN SER SEQRES 3 A 357 GLU VAL ILE SER HIS LYS ASP SER THR THR ILE THR LYS SEQRES 4 A 357 ASN ASP ASN SER PRO VAL THR THR GLY ASP TYR ALA ALA SEQRES 5 A 357 GLN THR ILE ILE ILE ASN ALA ILE LYS SER ASN PHE PRO SEQRES 6 A 357 ASP ASP LYS VAL VAL GLY GLU GLU SER SER SER GLY LEU SEQRES 7 A 357 SER ASP ALA PHE VAL SER GLY ILE LEU ASN GLU ILE LYS SEQRES 8 A 357 ALA ASN ASP GLU VAL TYR ASN LYS ASN TYR LYS LYS ASP SEQRES 9 A 357 ASP PHE LEU PHE THR ASN ASP GLN PHE PRO LEU LYS SER SEQRES 10 A 357 LEU GLU ASP VAL ARG GLN ILE ILE ASP PHE GLY ASN TYR SEQRES 11 A 357 GLU GLY GLY ARG LYS GLY ARG PHE TRP CYS LEU ASP PRO SEQRES 12 A 357 ILE ASP GLY THR LYS GLY PHE LEU ARG GLY GLU GLN PHE SEQRES 13 A 357 ALA VAL CYS LEU ALA LEU ILE VAL ASP GLY VAL VAL GLN SEQRES 14 A 357 LEU GLY CYS ILE GLY CYS PRO ASN LEU VAL LEU SER SER SEQRES 15 A 357 TYR GLY ALA GLN ASP LEU LYS GLY HIS GLU SER PHE GLY SEQRES 16 A 357 TYR ILE PHE ARG ALA VAL ARG GLY LEU GLY ALA PHE TYR SEQRES 17 A 357 SER PRO SER SER ASP ALA GLU SER TRP THR LYS ILE HIS SEQRES 18 A 357 VAL ARG HIS LEU LYS ASP THR LYS ASP MET ILE THR LEU SEQRES 19 A 357 GLU GLY VAL GLU LYS GLY HIS SER SER HIS ASP GLU GLN SEQRES 20 A 357 THR ALA ILE LYS ASN LYS LEU ASN ILE SER LYS SER LEU SEQRES 21 A 357 HIS LEU ASP SER GLN ALA LYS TYR CYS LEU LEU ALA LEU SEQRES 22 A 357 GLY LEU ALA ASP VAL TYR LEU ARG LEU PRO ILE LYS LEU SEQRES 23 A 357 SER TYR GLN GLU LYS ILE TRP ASP HIS ALA ALA GLY ASN SEQRES 24 A 357 VAL ILE VAL HIS GLU ALA GLY GLY ILE HIS THR ASP ALA SEQRES 25 A 357 MET GLU ASP VAL PRO LEU ASP PHE GLY ASN GLY ARG THR SEQRES 26 A 357 LEU ALA THR LYS GLY VAL ILE ALA SER SER GLY PRO ARG SEQRES 27 A 357 GLU LEU HIS ASP LEU VAL VAL SER THR SER CYS ASP VAL SEQRES 28 A 357 ILE GLN SER ARG ASN ALA HET CA A 401 1 HET MG A 501 1 HET A3P A 601 27 HET BME A 602 4 HETNAM CA CALCIUM ION HETNAM MG MAGNESIUM ION HETNAM A3P ADENOSINE-3'-5'-DIPHOSPHATE HETNAM BME BETA-MERCAPTOETHANOL FORMUL 2 CA CA 2+ FORMUL 3 MG MG 2+ FORMUL 4 A3P C10 H15 N5 O10 P2 FORMUL 5 BME C2 H6 O S FORMUL 6 HOH *446(H2 O) HELIX 1 1 LEU A 3 HIS A 31 1 29 HELIX 2 2 THR A 47 PHE A 64 1 18 HELIX 3 3 SER A 79 TYR A 101 1 23 HELIX 4 4 SER A 117 PHE A 127 1 11 HELIX 5 5 GLY A 146 ARG A 152 1 7 HELIX 6 6 VAL A 179 GLY A 184 5 6 HELIX 7 7 ASP A 227 ASP A 230 5 4 HELIX 8 8 SER A 243 LEU A 254 1 12 HELIX 9 9 GLN A 265 GLY A 274 1 10 HELIX 10 10 LYS A 291 ASP A 294 5 4 HELIX 11 11 HIS A 295 ALA A 305 1 11 HELIX 12 12 PRO A 337 SER A 354 1 18 SHEET 1 A 2 THR A 36 THR A 38 0 SHEET 2 A 2 PRO A 44 THR A 46 -1 O VAL A 45 N ILE A 37 SHEET 1 B 7 VAL A 69 GLY A 71 0 SHEET 2 B 7 ARG A 137 ASP A 145 1 O TRP A 139 N VAL A 70 SHEET 3 B 7 ALA A 157 VAL A 164 -1 O ALA A 157 N ASP A 145 SHEET 4 B 7 VAL A 167 CYS A 175 -1 O GLY A 174 N VAL A 158 SHEET 5 B 7 TYR A 196 VAL A 201 -1 O TYR A 196 N CYS A 175 SHEET 6 B 7 ALA A 206 PRO A 210 -1 O SER A 209 N ILE A 197 SHEET 7 B 7 THR A 218 LYS A 219 -1 O THR A 218 N TYR A 208 SHEET 1 C 5 LYS A 258 HIS A 261 0 SHEET 2 C 5 ILE A 232 GLU A 235 1 N GLU A 235 O LEU A 260 SHEET 3 C 5 VAL A 278 ARG A 281 1 O VAL A 278 N LEU A 234 SHEET 4 C 5 VAL A 331 SER A 334 -1 O ALA A 333 N TYR A 279 SHEET 5 C 5 ILE A 308 THR A 310 -1 N THR A 310 O ILE A 332 LINK SG CYS A 349 S2 BME A 602 1555 1555 1.82 LINK OE1 GLU A 72 CA CA A 401 1555 1555 2.27 LINK OD1 ASP A 142 CA CA A 401 1555 1555 2.30 LINK OD2 ASP A 142 CA CA A 401 1555 1555 2.94 LINK OD2 ASP A 142 MG MG A 501 1555 1555 2.32 LINK O ILE A 144 CA CA A 401 1555 1555 2.34 LINK OD1 ASP A 145 MG MG A 501 1555 1555 2.20 LINK OD1 ASP A 294 MG MG A 501 1555 1555 2.11 LINK CA CA A 401 O1P A3P A 601 1555 1555 2.35 LINK CA CA A 401 O HOH A 603 1555 1555 2.40 LINK CA CA A 401 O HOH A 613 1555 1555 2.37 LINK MG MG A 501 O1P A3P A 601 1555 1555 1.98 LINK MG MG A 501 O3' A3P A 601 1555 1555 2.26 LINK MG MG A 501 O HOH A 639 1555 1555 2.66 CISPEP 1 GLY A 336 PRO A 337 0 5.83 SITE 1 AC1 6 GLU A 72 ASP A 142 ILE A 144 A3P A 601 SITE 2 AC1 6 HOH A 603 HOH A 613 SITE 1 AC2 5 ASP A 142 ASP A 145 ASP A 294 A3P A 601 SITE 2 AC2 5 HOH A 639 SITE 1 AC3 27 GLU A 72 ASP A 142 ILE A 144 ASP A 145 SITE 2 AC3 27 GLY A 146 THR A 147 GLY A 240 HIS A 241 SITE 3 AC3 27 ASP A 263 SER A 264 LYS A 267 ARG A 281 SITE 4 AC3 27 TYR A 288 ASP A 294 CA A 401 MG A 501 SITE 5 AC3 27 HOH A 606 HOH A 613 HOH A 627 HOH A 632 SITE 6 AC3 27 HOH A 639 HOH A 640 HOH A 675 HOH A 797 SITE 7 AC3 27 HOH A 815 HOH A 998 HOH A1027 SITE 1 AC4 6 MET A 313 GLU A 314 CYS A 349 GLN A 353 SITE 2 AC4 6 HOH A 807 HOH A1005 CRYST1 54.875 44.968 72.110 90.00 110.72 90.00 P 1 21 1 2 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 0.018223 0.000000 0.006895 0.00000 SCALE2 0.000000 0.022238 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014827 0.00000