HEADER ALKALINE PHOSPHATASE 03-FEB-96 1URB TITLE ALKALINE PHOSPHATASE (N51MG) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALKALINE PHOSPHATASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.1.3.1; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: EK1734; SOURCE 5 GENE: PHOA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SM547; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PEK247; SOURCE 10 EXPRESSION_SYSTEM_GENE: PHOA KEYWDS HYDROLASE, PHOSPHORIC MONOESTER, PHOSPHO TRANSFERASE, ALCOHOL KEYWDS 2 ACCEPTOR, ALKALINE PHOSPHATASE EXPDTA X-RAY DIFFRACTION AUTHOR T.T.TIBBITTS,J.E.MURPHY,E.R.KANTROWITZ REVDAT 4 23-OCT-24 1URB 1 REMARK REVDAT 3 03-NOV-21 1URB 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1URB 1 VERSN REVDAT 1 11-JUL-96 1URB 0 JRNL AUTH T.T.TIBBITTS,J.E.MURPHY,E.R.KANTROWITZ JRNL TITL KINETIC AND STRUCTURAL CONSEQUENCES OF REPLACING THE JRNL TITL 2 ASPARTATE BRIDGE BY ASPARAGINE IN THE CATALYTIC METAL TRIAD JRNL TITL 3 OF ESCHERICHIA COLI ALKALINE PHOSPHATASE. JRNL REF J.MOL.BIOL. V. 257 700 1996 JRNL REFN ISSN 0022-2836 JRNL PMID 8648634 JRNL DOI 10.1006/JMBI.1996.0195 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.E.MURPHY,T.T.TIBBITTS,E.R.KANTROWITZ REMARK 1 TITL MUTATIONS AT POSITIONS 153 AND 328 IN ESCHERICHIA COLI REMARK 1 TITL 2 ALKALINE PHOSPHATASE PROVIDE INSIGHT TOWARDS THE STRUCTURE REMARK 1 TITL 3 AND FUNCTION OF MAMMALIAN AND YEAST ALKALINE PHOSPHATASES REMARK 1 REF J.MOL.BIOL. V. 253 604 1995 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 2 REMARK 1 AUTH T.T.TIBBITTS,X.XU,E.R.KANTROWITZ REMARK 1 TITL KINETICS AND CRYSTAL STRUCTURE OF A MUTANT E. COLI ALKALINE REMARK 1 TITL 2 PHOSPHATASE (ASP-369->ASN): A MECHANISM INVOLVING ONE ZINC REMARK 1 TITL 3 PER ACTIVE SITE REMARK 1 REF PROTEIN SCI. V. 3 2005 1994 REMARK 1 REFN ISSN 0961-8368 REMARK 1 REFERENCE 3 REMARK 1 AUTH E.E.KIM,H.W.WYCKOFF REMARK 1 TITL REACTION MECHANISM OF ALKALINE PHOSPHATASE BASED ON CRYSTAL REMARK 1 TITL 2 STRUCTURES. TWO-METAL ION CATALYSIS REMARK 1 REF J.MOL.BIOL. V. 218 449 1991 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.14 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.14 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 8.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 59934 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6562 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 439 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 BOND ANGLES (DEGREES) : 1.740 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.550 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1URB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000176975. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-SEP-94 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 9.2 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 61905 REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 45% SATURATING (NH4)2SO4, 0.10 MM REMARK 280 CAPS, 20 MM MGCL2, 10 UM ZNCL2, 0.1 MM NAH2PO4 AT PH 9.2. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 97.86000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 84.24000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 38.16500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 97.86000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 84.24000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 38.16500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 97.86000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 84.24000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 38.16500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 97.86000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 84.24000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 38.16500 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: THERE IS A DIMER (IDENTICAL CHAINS OF 449 RESIDUES) PER REMARK 300 ASYMMETRIC UNIT. THESE SUBUNITS ARE DESIGNATED REMARK 300 "A" AND "B". 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: 8700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -137.0 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 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 575 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 587 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 THE STRUCTURE IS OF A MUTANT ALKALINE PHOSPHATE (D51N) REMARK 400 IN WHICH ASP-51 IS REPLACED BY ASN. REMARK 400 THERE ARE TWO ZINCS COMPLEXED WITH AN INORGANIC PHOSPHATE REMARK 400 BOUND IN EACH OF THE TWO ACTIVE SITES. THE THIRD METAL BIN REMARK 400 SITE IS UNOCCUPIED. 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 505 O HOH A 505 3656 2.13 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 ASN A 293 C ASN A 293 O 0.133 REMARK 500 GLU A 406 CA GLU A 406 C -0.165 REMARK 500 GLU A 406 C GLU A 407 N -0.180 REMARK 500 GLU A 407 CA GLU A 407 CB -0.153 REMARK 500 GLN B 291 CB GLN B 291 CG -0.243 REMARK 500 GLN B 291 CG GLN B 291 CD 0.217 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 GLN A 291 O - C - N ANGL. DEV. = 10.8 DEGREES REMARK 500 ASN A 293 O - C - N ANGL. DEV. = 12.6 DEGREES REMARK 500 GLU A 406 CA - C - O ANGL. DEV. = 19.8 DEGREES REMARK 500 GLU A 406 CA - C - N ANGL. DEV. = -13.3 DEGREES REMARK 500 GLU A 407 C - N - CA ANGL. DEV. = -16.3 DEGREES REMARK 500 GLU A 407 CB - CA - C ANGL. DEV. = 12.5 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 LEU A 7 98.79 -60.27 REMARK 500 ASN A 9 119.74 -165.22 REMARK 500 ALA A 88 -163.31 -106.74 REMARK 500 ASN A 293 156.03 93.05 REMARK 500 SER A 325 1.05 -68.68 REMARK 500 HIS A 372 -167.48 -114.04 REMARK 500 ASP A 408 -60.28 -28.86 REMARK 500 HIS A 425 7.07 82.94 REMARK 500 LEU B 7 100.47 -59.60 REMARK 500 ASN B 9 118.55 -160.88 REMARK 500 ALA B 88 -166.98 -107.93 REMARK 500 ASN B 293 134.92 59.57 REMARK 500 SER B 325 1.45 -68.29 REMARK 500 HIS B 372 -166.66 -116.61 REMARK 500 GLU B 407 -150.78 -61.83 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 451 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 51 OD1 REMARK 620 2 SER A 102 OG 109.0 REMARK 620 3 ASP A 369 OD2 83.3 97.9 REMARK 620 4 ASP A 369 OD1 77.3 144.8 47.5 REMARK 620 5 HIS A 370 CE1 129.9 99.7 132.9 101.7 REMARK 620 6 HIS A 370 NE2 102.1 121.0 135.2 89.8 28.7 REMARK 620 7 HIS A 370 ND1 144.8 104.1 103.8 82.6 29.3 48.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 450 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 327 OD1 REMARK 620 2 ASP A 327 OD2 53.3 REMARK 620 3 HIS A 331 NE2 93.7 92.5 REMARK 620 4 HIS A 412 NE2 115.1 167.8 84.3 REMARK 620 5 PO4 A 453 O1 138.7 85.7 92.8 106.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 451 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 51 OD1 REMARK 620 2 SER B 102 OG 135.4 REMARK 620 3 ASP B 369 OD2 75.9 100.4 REMARK 620 4 HIS B 370 CE1 125.5 98.6 105.9 REMARK 620 5 HIS B 370 NE2 102.8 118.9 112.3 24.7 REMARK 620 6 HIS B 370 ND1 125.3 97.7 83.5 23.0 41.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 450 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 327 OD1 REMARK 620 2 ASP B 327 OD2 54.3 REMARK 620 3 HIS B 331 NE2 102.7 101.9 REMARK 620 4 HIS B 412 NE2 114.6 165.0 90.1 REMARK 620 5 PO4 B 453 O1 137.6 85.6 98.1 101.7 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: A REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: CATALYTICALLY ACTIVE SITE ON A SUBUNIT. REMARK 800 REMARK 800 SITE_IDENTIFIER: B REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: CATALYTICALLY ACTIVE SITE ON B SUBUNIT. REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 450 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 451 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 453 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 457 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 450 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 451 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 453 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 457 DBREF 1URB A 4 449 UNP P00634 PPB_ECOLI 26 471 DBREF 1URB B 4 449 UNP P00634 PPB_ECOLI 26 471 SEQADV 1URB ASN A 51 UNP P00634 ASP 73 ENGINEERED MUTATION SEQADV 1URB ASN B 51 UNP P00634 ASP 73 ENGINEERED MUTATION SEQRES 1 A 446 MET PRO VAL LEU GLU ASN ARG ALA ALA GLN GLY ASP ILE SEQRES 2 A 446 THR ALA PRO GLY GLY ALA ARG ARG LEU THR GLY ASP GLN SEQRES 3 A 446 THR ALA ALA LEU ARG ASP SER LEU SER ASP LYS PRO ALA SEQRES 4 A 446 LYS ASN ILE ILE LEU LEU ILE GLY ASN GLY MET GLY ASP SEQRES 5 A 446 SER GLU ILE THR ALA ALA ARG ASN TYR ALA GLU GLY ALA SEQRES 6 A 446 GLY GLY PHE PHE LYS GLY ILE ASP ALA LEU PRO LEU THR SEQRES 7 A 446 GLY GLN TYR THR HIS TYR ALA LEU ASN LYS LYS THR GLY SEQRES 8 A 446 LYS PRO ASP TYR VAL THR ASP SER ALA ALA SER ALA THR SEQRES 9 A 446 ALA TRP SER THR GLY VAL LYS THR TYR ASN GLY ALA LEU SEQRES 10 A 446 GLY VAL ASP ILE HIS GLU LYS ASP HIS PRO THR ILE LEU SEQRES 11 A 446 GLU MET ALA LYS ALA ALA GLY LEU ALA THR GLY ASN VAL SEQRES 12 A 446 SER THR ALA GLU LEU GLN ASP ALA THR PRO ALA ALA LEU SEQRES 13 A 446 VAL ALA HIS VAL THR SER ARG LYS CYS TYR GLY PRO SER SEQRES 14 A 446 ALA THR SER GLU LYS CYS PRO GLY ASN ALA LEU GLU LYS SEQRES 15 A 446 GLY GLY LYS GLY SER ILE THR GLU GLN LEU LEU ASN ALA SEQRES 16 A 446 ARG ALA ASP VAL THR LEU GLY GLY GLY ALA LYS THR PHE SEQRES 17 A 446 ALA GLU THR ALA THR ALA GLY GLU TRP GLN GLY LYS THR SEQRES 18 A 446 LEU ARG GLU GLN ALA GLN ALA ARG GLY TYR GLN LEU VAL SEQRES 19 A 446 SER ASP ALA ALA SER LEU ASN SER VAL THR GLU ALA ASN SEQRES 20 A 446 GLN GLN LYS PRO LEU LEU GLY LEU PHE ALA ASP GLY ASN SEQRES 21 A 446 MET PRO VAL ARG TRP LEU GLY PRO LYS ALA THR TYR HIS SEQRES 22 A 446 GLY ASN ILE ASP LYS PRO ALA VAL THR CYS THR PRO ASN SEQRES 23 A 446 PRO GLN ARG ASN ASP SER VAL PRO THR LEU ALA GLN MET SEQRES 24 A 446 THR ASP LYS ALA ILE GLU LEU LEU SER LYS ASN GLU LYS SEQRES 25 A 446 GLY PHE PHE LEU GLN VAL GLU GLY ALA SER ILE ASP LYS SEQRES 26 A 446 GLN ASP HIS ALA ALA ASN PRO CYS GLY GLN ILE GLY GLU SEQRES 27 A 446 THR VAL ASP LEU ASP GLU ALA VAL GLN ARG ALA LEU GLU SEQRES 28 A 446 PHE ALA LYS LYS GLU GLY ASN THR LEU VAL ILE VAL THR SEQRES 29 A 446 ALA ASP HIS ALA HIS ALA SER GLN ILE VAL ALA PRO ASP SEQRES 30 A 446 THR LYS ALA PRO GLY LEU THR GLN ALA LEU ASN THR LYS SEQRES 31 A 446 ASP GLY ALA VAL MET VAL MET SER TYR GLY ASN SER GLU SEQRES 32 A 446 GLU ASP SER GLN GLU HIS THR GLY SER GLN LEU ARG ILE SEQRES 33 A 446 ALA ALA TYR GLY PRO HIS ALA ALA ASN VAL VAL GLY LEU SEQRES 34 A 446 THR ASP GLN THR ASP LEU PHE TYR THR MET LYS ALA ALA SEQRES 35 A 446 LEU GLY LEU LYS SEQRES 1 B 446 MET PRO VAL LEU GLU ASN ARG ALA ALA GLN GLY ASP ILE SEQRES 2 B 446 THR ALA PRO GLY GLY ALA ARG ARG LEU THR GLY ASP GLN SEQRES 3 B 446 THR ALA ALA LEU ARG ASP SER LEU SER ASP LYS PRO ALA SEQRES 4 B 446 LYS ASN ILE ILE LEU LEU ILE GLY ASN GLY MET GLY ASP SEQRES 5 B 446 SER GLU ILE THR ALA ALA ARG ASN TYR ALA GLU GLY ALA SEQRES 6 B 446 GLY GLY PHE PHE LYS GLY ILE ASP ALA LEU PRO LEU THR SEQRES 7 B 446 GLY GLN TYR THR HIS TYR ALA LEU ASN LYS LYS THR GLY SEQRES 8 B 446 LYS PRO ASP TYR VAL THR ASP SER ALA ALA SER ALA THR SEQRES 9 B 446 ALA TRP SER THR GLY VAL LYS THR TYR ASN GLY ALA LEU SEQRES 10 B 446 GLY VAL ASP ILE HIS GLU LYS ASP HIS PRO THR ILE LEU SEQRES 11 B 446 GLU MET ALA LYS ALA ALA GLY LEU ALA THR GLY ASN VAL SEQRES 12 B 446 SER THR ALA GLU LEU GLN ASP ALA THR PRO ALA ALA LEU SEQRES 13 B 446 VAL ALA HIS VAL THR SER ARG LYS CYS TYR GLY PRO SER SEQRES 14 B 446 ALA THR SER GLU LYS CYS PRO GLY ASN ALA LEU GLU LYS SEQRES 15 B 446 GLY GLY LYS GLY SER ILE THR GLU GLN LEU LEU ASN ALA SEQRES 16 B 446 ARG ALA ASP VAL THR LEU GLY GLY GLY ALA LYS THR PHE SEQRES 17 B 446 ALA GLU THR ALA THR ALA GLY GLU TRP GLN GLY LYS THR SEQRES 18 B 446 LEU ARG GLU GLN ALA GLN ALA ARG GLY TYR GLN LEU VAL SEQRES 19 B 446 SER ASP ALA ALA SER LEU ASN SER VAL THR GLU ALA ASN SEQRES 20 B 446 GLN GLN LYS PRO LEU LEU GLY LEU PHE ALA ASP GLY ASN SEQRES 21 B 446 MET PRO VAL ARG TRP LEU GLY PRO LYS ALA THR TYR HIS SEQRES 22 B 446 GLY ASN ILE ASP LYS PRO ALA VAL THR CYS THR PRO ASN SEQRES 23 B 446 PRO GLN ARG ASN ASP SER VAL PRO THR LEU ALA GLN MET SEQRES 24 B 446 THR ASP LYS ALA ILE GLU LEU LEU SER LYS ASN GLU LYS SEQRES 25 B 446 GLY PHE PHE LEU GLN VAL GLU GLY ALA SER ILE ASP LYS SEQRES 26 B 446 GLN ASP HIS ALA ALA ASN PRO CYS GLY GLN ILE GLY GLU SEQRES 27 B 446 THR VAL ASP LEU ASP GLU ALA VAL GLN ARG ALA LEU GLU SEQRES 28 B 446 PHE ALA LYS LYS GLU GLY ASN THR LEU VAL ILE VAL THR SEQRES 29 B 446 ALA ASP HIS ALA HIS ALA SER GLN ILE VAL ALA PRO ASP SEQRES 30 B 446 THR LYS ALA PRO GLY LEU THR GLN ALA LEU ASN THR LYS SEQRES 31 B 446 ASP GLY ALA VAL MET VAL MET SER TYR GLY ASN SER GLU SEQRES 32 B 446 GLU ASP SER GLN GLU HIS THR GLY SER GLN LEU ARG ILE SEQRES 33 B 446 ALA ALA TYR GLY PRO HIS ALA ALA ASN VAL VAL GLY LEU SEQRES 34 B 446 THR ASP GLN THR ASP LEU PHE TYR THR MET LYS ALA ALA SEQRES 35 B 446 LEU GLY LEU LYS HET ZN A 450 1 HET MG A 451 1 HET PO4 A 453 5 HET PO4 A 457 5 HET ZN B 450 1 HET MG B 451 1 HET PO4 B 453 5 HET PO4 B 457 5 HETNAM ZN ZINC ION HETNAM MG MAGNESIUM ION HETNAM PO4 PHOSPHATE ION FORMUL 3 ZN 2(ZN 2+) FORMUL 4 MG 2(MG 2+) FORMUL 5 PO4 4(O4 P 3-) FORMUL 11 HOH *439(H2 O) HELIX 1 1 THR A 30 SER A 36 1 7 HELIX 2 2 ASP A 55 GLU A 66 1 12 HELIX 3 3 SER A 102 THR A 111 1 10 HELIX 4 4 ILE A 132 ALA A 138 1 7 HELIX 5 5 ALA A 154 LEU A 159 1 6 HELIX 6 6 PRO A 171 LYS A 177 1 7 HELIX 7 7 LEU A 183 LYS A 185 5 3 HELIX 8 8 ILE A 191 ALA A 198 1 8 HELIX 9 9 LYS A 209 ALA A 212 5 4 HELIX 10 10 LEU A 225 ALA A 231 1 7 HELIX 11 11 ALA A 240 SER A 245 1 6 HELIX 12 12 GLY A 277 ASP A 280 1 4 HELIX 13 13 LEU A 299 LYS A 312 1 14 HELIX 14 14 ALA A 324 HIS A 331 5 8 HELIX 15 15 PRO A 335 GLU A 359 1 25 HELIX 16 16 ALA A 426 VAL A 429 5 4 HELIX 17 17 GLN A 435 LEU A 446 1 12 HELIX 18 18 THR B 30 SER B 36 1 7 HELIX 19 19 ASP B 55 GLU B 66 1 12 HELIX 20 20 SER B 102 THR B 111 1 10 HELIX 21 21 ILE B 132 ALA B 138 1 7 HELIX 22 22 ALA B 154 LEU B 159 1 6 HELIX 23 23 PRO B 171 LYS B 177 1 7 HELIX 24 24 LEU B 183 LYS B 185 5 3 HELIX 25 25 ILE B 191 ALA B 198 1 8 HELIX 26 26 LYS B 209 ALA B 212 5 4 HELIX 27 27 LEU B 225 ALA B 231 1 7 HELIX 28 28 ALA B 240 SER B 245 1 6 HELIX 29 29 GLY B 277 ASP B 280 1 4 HELIX 30 30 LEU B 299 LYS B 312 1 14 HELIX 31 31 ALA B 324 HIS B 331 5 8 HELIX 32 32 PRO B 335 GLU B 359 1 25 HELIX 33 33 ALA B 426 VAL B 429 5 4 HELIX 34 34 GLN B 435 LEU B 446 1 12 SHEET 1 A10 GLY A 431 ASP A 434 0 SHEET 2 A10 LEU A 80 THR A 85 1 N GLN A 83 O GLY A 431 SHEET 3 A10 LEU A 417 TYR A 422 -1 N ALA A 421 O LEU A 80 SHEET 4 A10 THR A 362 THR A 367 -1 N VAL A 366 O ALA A 420 SHEET 5 A10 ASN A 44 GLY A 50 1 N ASN A 44 O LEU A 363 SHEET 6 A10 PHE A 317 GLY A 323 1 N PHE A 317 O ILE A 45 SHEET 7 A10 ALA A 142 SER A 147 1 N ALA A 142 O PHE A 318 SHEET 8 A10 VAL A 202 GLY A 205 1 N VAL A 202 O ASN A 145 SHEET 9 A10 LEU A 255 LEU A 258 1 N LEU A 255 O THR A 203 SHEET 10 A10 GLN A 235 VAL A 237 1 N GLN A 235 O LEU A 256 SHEET 1 B 3 GLN A 375 VAL A 377 0 SHEET 2 B 3 VAL A 397 TYR A 402 -1 N SER A 401 O GLN A 375 SHEET 3 B 3 LEU A 386 ASN A 391 -1 N LEU A 390 O MET A 398 SHEET 1 C10 GLY B 431 ASP B 434 0 SHEET 2 C10 LEU B 80 THR B 85 1 N GLN B 83 O GLY B 431 SHEET 3 C10 LEU B 417 TYR B 422 -1 N ALA B 421 O LEU B 80 SHEET 4 C10 THR B 362 ALA B 368 -1 N VAL B 366 O ALA B 420 SHEET 5 C10 ASN B 44 GLY B 50 1 N ASN B 44 O LEU B 363 SHEET 6 C10 PHE B 317 GLY B 323 1 N PHE B 317 O ILE B 45 SHEET 7 C10 ALA B 142 SER B 147 1 N ALA B 142 O PHE B 318 SHEET 8 C10 VAL B 202 GLY B 205 1 N VAL B 202 O ASN B 145 SHEET 9 C10 LEU B 255 LEU B 258 1 N LEU B 255 O THR B 203 SHEET 10 C10 GLN B 235 VAL B 237 1 N GLN B 235 O LEU B 256 SHEET 1 D 3 GLN B 375 VAL B 377 0 SHEET 2 D 3 VAL B 397 TYR B 402 -1 N SER B 401 O GLN B 375 SHEET 3 D 3 LEU B 386 ASN B 391 -1 N LEU B 390 O MET B 398 SSBOND 1 CYS A 168 CYS A 178 1555 1555 2.02 SSBOND 2 CYS A 286 CYS A 336 1555 1555 2.04 SSBOND 3 CYS B 168 CYS B 178 1555 1555 2.04 SSBOND 4 CYS B 286 CYS B 336 1555 1555 2.05 LINK OD1 ASN A 51 MG MG A 451 1555 1555 2.35 LINK OG SER A 102 MG MG A 451 1555 1555 2.39 LINK OD1 ASP A 327 ZN ZN A 450 1555 1555 2.13 LINK OD2 ASP A 327 ZN ZN A 450 1555 1555 2.64 LINK NE2 HIS A 331 ZN ZN A 450 1555 1555 2.28 LINK OD2 ASP A 369 MG MG A 451 1555 1555 2.25 LINK OD1 ASP A 369 MG MG A 451 1555 1555 2.97 LINK CE1 HIS A 370 MG MG A 451 1555 1555 1.94 LINK NE2 HIS A 370 MG MG A 451 1555 1555 2.62 LINK ND1 HIS A 370 MG MG A 451 1555 1555 2.63 LINK NE2 HIS A 412 ZN ZN A 450 1555 1555 1.83 LINK ZN ZN A 450 O1 PO4 A 453 1555 1555 1.87 LINK OD1 ASN B 51 MG MG B 451 1555 1555 2.20 LINK OG SER B 102 MG MG B 451 1555 1555 2.20 LINK OD1 ASP B 327 ZN ZN B 450 1555 1555 1.97 LINK OD2 ASP B 327 ZN ZN B 450 1555 1555 2.66 LINK NE2 HIS B 331 ZN ZN B 450 1555 1555 2.05 LINK OD2 ASP B 369 MG MG B 451 1555 1555 2.39 LINK CE1 HIS B 370 MG MG B 451 1555 1555 2.32 LINK NE2 HIS B 370 MG MG B 451 1555 1555 2.99 LINK ND1 HIS B 370 MG MG B 451 1555 1555 3.12 LINK NE2 HIS B 412 ZN ZN B 450 1555 1555 1.94 LINK ZN ZN B 450 O1 PO4 B 453 1555 1555 1.87 SITE 1 A 15 ASP A 327 HIS A 331 HIS A 412 ZN A 450 SITE 2 A 15 MG A 451 PO4 A 453 ASN A 51 ASP A 369 SITE 3 A 15 HIS A 370 THR A 155 GLU A 322 ASP A 153 SITE 4 A 15 LYS A 328 ARG A 166 SER A 102 SITE 1 B 15 ASP B 327 HIS B 331 HIS B 412 ZN B 450 SITE 2 B 15 MG B 451 PO4 B 453 ASN B 51 ASP B 369 SITE 3 B 15 HIS B 370 THR B 155 GLU B 322 ASP B 153 SITE 4 B 15 LYS B 328 ARG B 166 SER B 102 SITE 1 AC1 6 ASP A 327 HIS A 331 HIS A 370 HIS A 372 SITE 2 AC1 6 HIS A 412 PO4 A 453 SITE 1 AC2 4 ASN A 51 SER A 102 ASP A 369 HIS A 370 SITE 1 AC3 8 ASP A 101 SER A 102 ARG A 166 ASP A 327 SITE 2 AC3 8 HIS A 331 HIS A 412 ZN A 450 HOH A 628 SITE 1 AC4 3 ARG A 267 TRP A 268 ARG A 292 SITE 1 AC5 6 ASP B 327 HIS B 331 HIS B 370 HIS B 372 SITE 2 AC5 6 HIS B 412 PO4 B 453 SITE 1 AC6 4 ASN B 51 SER B 102 ASP B 369 HIS B 370 SITE 1 AC7 8 ASP B 101 SER B 102 ARG B 166 ASP B 327 SITE 2 AC7 8 HIS B 331 HIS B 412 ZN B 450 HOH B 477 SITE 1 AC8 3 ARG B 267 TRP B 268 ARG B 292 CRYST1 195.720 168.480 76.330 90.00 90.00 90.00 I 2 2 2 16 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 0.005109 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005935 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013101 0.00000