10 20 30 40 50 60 70 80 1N9K - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 25-NOV-02 1N9K
TITLE CRYSTAL STRUCTURE OF THE BROMIDE ADDUCT OF APHA CLASS B ACID TITLE 2 PHOSPHATASE/PHOSPHOTRANSFERASE FROM E. COLI AT 2.2 A RESOLUTION
COMPND MOL_ID: 1; COMPND 2 MOLECULE: CLASS B ACID PHOSPHATASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: APHA CLASS B ACID PHOSPHATASE/PHOSPHOTRANSFERASE; COMPND 5 EC: 3.1.3.2; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: APHA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562
KEYWDS CLASS B ACID PHOSPHATASE, DDDD ACID PHOSPHATASE, METALLO-ENZYME KEYWDS 2 BROMIDE MAD, HYDROLASE
EXPDTA X-RAY DIFFRACTION
AUTHOR V.CALDERONE,C.FORLEO,M.BENVENUTI,G.M.ROSSOLINI,M.C.THALLER,S.MANGANI
REVDAT 3 13-JUL-11 1N9K 1 VERSN REVDAT 2 24-FEB-09 1N9K 1 VERSN REVDAT 1 03-FEB-04 1N9K 0
JRNL AUTH V.CALDERONE,C.FORLEO,M.BENVENUTI,M.C.THALLER,G.M.ROSSOLINI, JRNL AUTH 2 S.MANGANI JRNL TITL THE FIRST STRUCTURE OF A BACTERIAL CLASS B ACID PHOSPHATASE JRNL TITL 2 REVEALS FURTHER STRUCTURAL HETEROGENEITY AMONG PHOSPHATASES JRNL TITL 3 OF THE HALOACID DEHALOGENASE FOLD. JRNL REF J.MOL.BIOL. V. 335 761 2004 JRNL REFN ISSN 0022-2836 JRNL PMID 14687572 JRNL DOI 10.1016/J.JMB.2003.10.050
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.C.THALLER,S.SCHIPPA,A.BONCI,S.CRESTI,G.M.ROSSOLINI REMARK 1 TITL IDENTIFICATION OF THE GENE (APHA) ENCODING THE CLASS B ACID REMARK 1 TITL 2 PHOSPHATASE/PHOSPHOTRANSFERASE OF ESCHERICHIA COLI MG1655 REMARK 1 TITL 3 AND CHARACTERIZATION OF ITS PRODUCT REMARK 1 REF FEMS MICROBIOL.LETT. V. 146 191 1997 REMARK 1 REFN ISSN 0378-1097 REMARK 1 DOI 10.1016/S0378-1097(96)00474-0
REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.32 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 30818 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) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.231 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1648 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2255 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.1980 REMARK 3 BIN FREE R VALUE SET COUNT : 121 REMARK 3 BIN FREE R VALUE : 0.2600 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3286 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 17 REMARK 3 SOLVENT ATOMS : 380 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.13 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.07 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.01000 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): 0.203 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.180 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.112 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.359 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 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): 3372 ; 0.027 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4584 ; 1.901 ; 1.929 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 416 ; 6.186 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 488 ; 0.131 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2640 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1629 ; 0.218 ; 0.200 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 ; 0.168 ; 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): 91 ; 0.203 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 25 ; 0.306 ; 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): 2088 ; 1.186 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3384 ; 2.031 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1284 ; 3.392 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1200 ; 5.264 ; 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1N9K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-DEC-02. REMARK 100 THE RCSB ID CODE IS RCSB017688.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAY-02 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X31 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91957, 0.9204, 0.88561 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : TORODIAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32466 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 4.170 REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : 0.09200 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.33000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE/RESOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: APHA 6MG/ML, 50 MM NA ACETATE, 25% PEG REMARK 280 6000 , PH 7.2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 280 THE CRYSTALS OF THE NATIVE ENZYME (CONTAINING MG2+ OR ZN2+) HAVE REMARK 280 BEEN SOAKED IN 1 M SOLUTION OF NABR
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 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 -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 24.74950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.30800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.74950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.30800 REMARK 290 SMTRY3 4 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 TETRAMER
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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 16140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -111.0 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 A1406 LIES ON A SPECIAL POSITION. REMARK 375 HOH B1379 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 SER A 1 REMARK 465 SER A 2 REMARK 465 PRO A 3 REMARK 465 SER B 1 REMARK 465 SER B 2 REMARK 465 PRO B 3
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 CD ARG A 14 O HOH A 1372 2.11 REMARK 500 O HOH B 1296 O HOH B 1352 2.11 REMARK 500 O HOH B 1254 O HOH B 1382 2.14 REMARK 500 OD1 ASP A 177 O HOH A 1405 2.14 REMARK 500 O HOH A 1265 O HOH A 1416 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 NZ LYS A 118 O HOH A 1375 4555 2.18 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 GLU B 86 CD GLU B 86 OE1 0.084 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 103 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG A 176 NE - CZ - NH1 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 181 NE - CZ - NH1 ANGL. DEV. = 7.4 DEGREES REMARK 500 ARG A 181 NE - CZ - NH2 ANGL. DEV. = -6.9 DEGREES REMARK 500 ASP B 44 CB - CG - OD2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG B 58 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG B 58 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 103 NE - CZ - NH2 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG B 181 NE - CZ - NH1 ANGL. DEV. = 3.3 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 PRO B 38 135.98 -37.21 REMARK 500 SER B 64 65.69 -152.91 REMARK 500 ALA B 134 -38.84 -38.62 REMARK 500 REMARK 500 REMARK: NULL
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 A1400 DISTANCE = 5.14 ANGSTROMS REMARK 525 HOH B1314 DISTANCE = 5.21 ANGSTROMS
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 A1213 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 46 O REMARK 620 2 ASP A 44 OD2 90.3 REMARK 620 3 HOH A1296 O 85.0 174.5 REMARK 620 4 ASP A 167 OD1 92.9 94.0 89.0 REMARK 620 5 HOH A1277 O 97.1 88.2 89.7 169.7 REMARK 620 6 HOH A1395 O 176.2 86.5 98.3 85.3 84.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1214 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 44 OD2 REMARK 620 2 ASP B 167 OD1 87.5 REMARK 620 3 HOH B1293 O 87.4 169.7 REMARK 620 4 HOH B1380 O 84.2 85.5 85.1 REMARK 620 5 ASP B 46 O 91.4 89.9 99.1 173.8 REMARK 620 N 1 2 3 4
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 1213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 213 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 216 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 217 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 218 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR A 219 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR B 220 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR B 221 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR B 222 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR B 223 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR B 224 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR B 225 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR B 226 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BR B 227
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1N8N RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE AU3+ COMPLEX OF APHA CLASS B ACID REMARK 900 PHOSPHATASE/PHOSPHOTRANSFERASE FROM E. COLI AT 1.7 A REMARK 900 RESOLUTION
DBREF 1N9K A 1 212 UNP P32697 APHA_ECOLI 26 237 DBREF 1N9K B 1 212 UNP P32697 APHA_ECOLI 26 237
SEQRES 1 A 212 SER SER PRO SER PRO LEU ASN PRO GLY THR ASN VAL ALA SEQRES 2 A 212 ARG LEU ALA GLU GLN ALA PRO ILE HIS TRP VAL SER VAL SEQRES 3 A 212 ALA GLN ILE GLU ASN SER LEU ALA GLY ARG PRO PRO MET SEQRES 4 A 212 ALA VAL GLY PHE ASP ILE ASP ASP THR VAL LEU PHE SER SEQRES 5 A 212 SER PRO GLY PHE TRP ARG GLY LYS LYS THR PHE SER PRO SEQRES 6 A 212 GLU SER GLU ASP TYR LEU LYS ASN PRO VAL PHE TRP GLU SEQRES 7 A 212 LYS MET ASN ASN GLY TRP ASP GLU PHE SER ILE PRO LYS SEQRES 8 A 212 GLU VAL ALA ARG GLN LEU ILE ASP MET HIS VAL ARG ARG SEQRES 9 A 212 GLY ASP ALA ILE PHE PHE VAL THR GLY ARG SER PRO THR SEQRES 10 A 212 LYS THR GLU THR VAL SER LYS THR LEU ALA ASP ASN PHE SEQRES 11 A 212 HIS ILE PRO ALA THR ASN MET ASN PRO VAL ILE PHE ALA SEQRES 12 A 212 GLY ASP LYS PRO GLY GLN ASN THR LYS SER GLN TRP LEU SEQRES 13 A 212 GLN ASP LYS ASN ILE ARG ILE PHE TYR GLY ASP SER ASP SEQRES 14 A 212 ASN ASP ILE THR ALA ALA ARG ASP VAL GLY ALA ARG GLY SEQRES 15 A 212 ILE ARG ILE LEU ARG ALA SER ASN SER THR TYR LYS PRO SEQRES 16 A 212 LEU PRO GLN ALA GLY ALA PHE GLY GLU GLU VAL ILE VAL SEQRES 17 A 212 ASN SER GLU TYR SEQRES 1 B 212 SER SER PRO SER PRO LEU ASN PRO GLY THR ASN VAL ALA SEQRES 2 B 212 ARG LEU ALA GLU GLN ALA PRO ILE HIS TRP VAL SER VAL SEQRES 3 B 212 ALA GLN ILE GLU ASN SER LEU ALA GLY ARG PRO PRO MET SEQRES 4 B 212 ALA VAL GLY PHE ASP ILE ASP ASP THR VAL LEU PHE SER SEQRES 5 B 212 SER PRO GLY PHE TRP ARG GLY LYS LYS THR PHE SER PRO SEQRES 6 B 212 GLU SER GLU ASP TYR LEU LYS ASN PRO VAL PHE TRP GLU SEQRES 7 B 212 LYS MET ASN ASN GLY TRP ASP GLU PHE SER ILE PRO LYS SEQRES 8 B 212 GLU VAL ALA ARG GLN LEU ILE ASP MET HIS VAL ARG ARG SEQRES 9 B 212 GLY ASP ALA ILE PHE PHE VAL THR GLY ARG SER PRO THR SEQRES 10 B 212 LYS THR GLU THR VAL SER LYS THR LEU ALA ASP ASN PHE SEQRES 11 B 212 HIS ILE PRO ALA THR ASN MET ASN PRO VAL ILE PHE ALA SEQRES 12 B 212 GLY ASP LYS PRO GLY GLN ASN THR LYS SER GLN TRP LEU SEQRES 13 B 212 GLN ASP LYS ASN ILE ARG ILE PHE TYR GLY ASP SER ASP SEQRES 14 B 212 ASN ASP ILE THR ALA ALA ARG ASP VAL GLY ALA ARG GLY SEQRES 15 B 212 ILE ARG ILE LEU ARG ALA SER ASN SER THR TYR LYS PRO SEQRES 16 B 212 LEU PRO GLN ALA GLY ALA PHE GLY GLU GLU VAL ILE VAL SEQRES 17 B 212 ASN SER GLU TYR
HET MG A1213 1 HET MG B1214 1 HET BR A 213 1 HET BR A 214 1 HET BR A 215 1 HET BR A 216 1 HET BR A 217 1 HET BR A 218 1 HET BR A 219 1 HET BR B 220 1 HET BR B 221 1 HET BR B 222 1 HET BR B 223 1 HET BR B 224 1 HET BR B 225 1 HET BR B 226 1 HET BR B 227 1
HETNAM MG MAGNESIUM ION HETNAM BR BROMIDE ION
FORMUL 3 MG 2(MG 2+) FORMUL 5 BR 15(BR 1-) FORMUL 20 HOH *380(H2 O)
HELIX 1 1 ASN A 11 GLU A 17 1 7 HELIX 2 2 SER A 25 LEU A 33 1 9 HELIX 3 3 SER A 52 SER A 64 1 13 HELIX 4 4 GLU A 68 LYS A 72 5 5 HELIX 5 5 ASN A 73 ASN A 82 1 10 HELIX 6 6 GLY A 83 SER A 88 5 6 HELIX 7 7 LYS A 91 ARG A 104 1 14 HELIX 8 8 THR A 121 PHE A 130 1 10 HELIX 9 9 THR A 151 LYS A 159 1 9 HELIX 10 10 SER A 168 VAL A 178 1 11 HELIX 11 11 ASN B 11 GLU B 17 1 7 HELIX 12 12 SER B 25 LEU B 33 1 9 HELIX 13 13 SER B 52 SER B 64 1 13 HELIX 14 14 GLU B 68 LYS B 72 5 5 HELIX 15 15 ASN B 73 ASN B 82 1 10 HELIX 16 16 GLY B 83 SER B 88 5 6 HELIX 17 17 LYS B 91 ARG B 104 1 14 HELIX 18 18 THR B 121 PHE B 130 1 10 HELIX 19 19 THR B 151 ASN B 160 1 10 HELIX 20 20 SER B 168 VAL B 178 1 11
SHEET 1 A 7 HIS A 22 VAL A 24 0 SHEET 2 A 7 GLU A 205 ILE A 207 1 O VAL A 206 N HIS A 22 SHEET 3 A 7 ARG A 181 ARG A 184 1 N ARG A 184 O ILE A 207 SHEET 4 A 7 ILE A 161 GLY A 166 1 N PHE A 164 O ILE A 183 SHEET 5 A 7 ALA A 40 PHE A 43 1 N GLY A 42 O ILE A 163 SHEET 6 A 7 ALA A 107 THR A 112 1 O ALA A 107 N VAL A 41 SHEET 7 A 7 ILE A 141 PHE A 142 1 O ILE A 141 N THR A 112 SHEET 1 B 2 LEU A 50 PHE A 51 0 SHEET 2 B 2 ILE A 89 PRO A 90 -1 O ILE A 89 N PHE A 51 SHEET 1 C 7 HIS B 22 VAL B 24 0 SHEET 2 C 7 GLU B 205 ILE B 207 1 O VAL B 206 N HIS B 22 SHEET 3 C 7 ARG B 181 ARG B 184 1 N ARG B 184 O GLU B 205 SHEET 4 C 7 ILE B 161 GLY B 166 1 N PHE B 164 O ILE B 183 SHEET 5 C 7 ALA B 40 PHE B 43 1 N ALA B 40 O ARG B 162 SHEET 6 C 7 ALA B 107 THR B 112 1 O ALA B 107 N VAL B 41 SHEET 7 C 7 ILE B 141 PHE B 142 1 O ILE B 141 N THR B 112 SHEET 1 D 2 LEU B 50 PHE B 51 0 SHEET 2 D 2 ILE B 89 PRO B 90 -1 O ILE B 89 N PHE B 51
LINK MG MG A1213 O ASP A 46 1555 1555 2.09 LINK MG MG A1213 OD2 ASP A 44 1555 1555 2.06 LINK MG MG A1213 O HOH A1296 1555 1555 2.03 LINK MG MG A1213 OD1 ASP A 167 1555 1555 1.95 LINK MG MG A1213 O HOH A1277 1555 1555 2.03 LINK MG MG A1213 O HOH A1395 1555 1555 2.05 LINK MG MG B1214 OD2 ASP B 44 1555 1555 1.97 LINK MG MG B1214 OD1 ASP B 167 1555 1555 2.07 LINK MG MG B1214 O HOH B1293 1555 1555 2.04 LINK MG MG B1214 O HOH B1380 1555 1555 2.04 LINK MG MG B1214 O ASP B 46 1555 1555 2.12
CISPEP 1 LYS A 194 PRO A 195 0 -2.25 CISPEP 2 LYS B 194 PRO B 195 0 -0.47
SITE 1 AC1 6 ASP A 44 ASP A 46 ASP A 167 HOH A1277 SITE 2 AC1 6 HOH A1296 HOH A1395 SITE 1 AC2 5 ASP B 44 ASP B 46 ASP B 167 HOH B1293 SITE 2 AC2 5 HOH B1380 SITE 1 AC3 3 LEU A 196 HOH A1254 HOH B1281 SITE 1 AC4 2 THR A 151 LYS A 152 SITE 1 AC5 3 PHE A 63 TYR A 70 ASN A 73 SITE 1 AC6 2 ASP A 169 HOH A1269 SITE 1 AC7 3 SER A 64 PRO A 65 GLU A 66 SITE 1 AC8 3 GLN A 28 ASN A 31 HOH A1324 SITE 1 AC9 1 GLN A 96 SITE 1 BC1 1 GLN B 96 SITE 1 BC2 2 LEU B 196 HOH B1243 SITE 1 BC3 4 GLY B 144 THR B 151 LYS B 152 HOH B1283 SITE 1 BC4 3 ASP B 169 PRO B 197 HOH B1278 SITE 1 BC5 3 PHE B 63 TYR B 70 ASN B 73 SITE 1 BC6 3 SER B 64 PRO B 65 GLU B 66 SITE 1 BC7 4 PRO B 116 ALA B 134 PHE B 142 GLN B 149 SITE 1 BC8 3 GLY B 83 TRP B 84 HOH B1332
CRYST1 49.499 92.616 138.247 90.00 90.00 90.00 P 21 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 0.020202 0.000000 0.000000 0.00000
SCALE2 0.000000 0.010797 0.000000 0.00000
SCALE3 0.000000 0.000000 0.007233 0.00000