HEADER HYDROLASE 21-JUN-04 1WL6 TITLE MG-SUBSTITUTED FORM OF E. COLI AMINOPEPTIDASE P COMPND MOL_ID: 1; COMPND 2 MOLECULE: XAA-PRO AMINOPEPTIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: X-PRO AMINOPEPTIDASE, AMINOPEPTIDASE P II, APP-II, COMPND 5 AMINOACYLPROLINE AMINOPEPTIDASE; COMPND 6 EC: 3.4.11.9; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: PEPP; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: AN1459; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PPL670 KEYWDS PROLINE-SPECIFIC PEPTIDASE, METALLOENZYME, PITA-BREAD FOLD, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.C.GRAHAM,C.S.BOND,H.C.FREEMAN,J.M.GUSS REVDAT 7 03-APR-24 1WL6 1 REMARK REVDAT 6 13-MAR-24 1WL6 1 REMARK LINK REVDAT 5 13-JUL-11 1WL6 1 VERSN REVDAT 4 24-FEB-09 1WL6 1 VERSN REVDAT 3 24-JAN-06 1WL6 1 JRNL REVDAT 2 30-AUG-05 1WL6 1 JRNL REVDAT 1 16-AUG-05 1WL6 0 JRNL AUTH S.C.GRAHAM,C.S.BOND,H.C.FREEMAN,J.M.GUSS JRNL TITL STRUCTURAL AND FUNCTIONAL IMPLICATIONS OF METAL ION JRNL TITL 2 SELECTION IN AMINOPEPTIDASE P, A METALLOPROTEASE WITH A JRNL TITL 3 DINUCLEAR METAL CENTER JRNL REF BIOCHEMISTRY V. 44 13820 2005 JRNL REFN ISSN 0006-2960 JRNL PMID 16229471 JRNL DOI 10.1021/BI0512849 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.26 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.4 REMARK 3 NUMBER OF REFLECTIONS : 54464 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) : 0.148 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.173 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1708 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2599 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 60.77 REMARK 3 BIN R VALUE (WORKING SET) : 0.2010 REMARK 3 BIN FREE R VALUE SET COUNT : 79 REMARK 3 BIN FREE R VALUE : 0.2200 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3499 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 599 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.13000 REMARK 3 B22 (A**2) : -0.13000 REMARK 3 B33 (A**2) : 0.19000 REMARK 3 B12 (A**2) : -0.06000 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): 0.101 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.099 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.063 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.169 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.954 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3626 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3319 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4897 ; 1.296 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7631 ; 0.797 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 439 ; 6.003 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 187 ;37.765 ;23.636 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 615 ;12.207 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 34 ;15.015 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 529 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4046 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 752 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 760 ; 0.207 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3396 ; 0.181 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1745 ; 0.176 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2183 ; 0.081 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 451 ; 0.145 ; 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): 8 ; 0.282 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 92 ; 0.283 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 48 ; 0.160 ; 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): 2854 ; 2.371 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 898 ; 0.570 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3525 ; 2.695 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1644 ; 2.530 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1372 ; 3.878 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 440 REMARK 3 ORIGIN FOR THE GROUP (A): 64.9050 58.4880 49.7750 REMARK 3 T TENSOR REMARK 3 T11: 0.0097 T22: 0.0350 REMARK 3 T33: 0.0292 T12: 0.0092 REMARK 3 T13: 0.0066 T23: -0.0023 REMARK 3 L TENSOR REMARK 3 L11: 0.2427 L22: 0.4484 REMARK 3 L33: 0.4160 L12: -0.1656 REMARK 3 L13: 0.0548 L23: -0.1019 REMARK 3 S TENSOR REMARK 3 S11: -0.0216 S12: 0.0329 S13: -0.0046 REMARK 3 S21: 0.0076 S22: -0.0245 S23: 0.0199 REMARK 3 S31: 0.0512 S32: 0.0011 S33: 0.0460 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 RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 1WL6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JUN-04. REMARK 100 THE DEPOSITION ID IS D_1000023698. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-AUG-98 REMARK 200 TEMPERATURE (KELVIN) : 113 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : YALE MIRRORS REMARK 200 OPTICS : YALE MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IIC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56174 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 42.260 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.5300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 64.2 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 : 5.390 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NATIVE AMINOPEPTIDASE P WITHOUT HETATOMS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 72.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRIS, PEG 4000, VAPOR DIFFUSION, REMARK 280 HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 64 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+1/3 REMARK 290 6555 X-Y,X,Z+2/3 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+1/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 32.16133 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 64.32267 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 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 32.16133 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 64.32267 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 32.16133 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 64.32267 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 32.16133 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 64.32267 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 HOMOTETRAMER GENERATED BY THE REMARK 300 OPERATORS: (X,Y,Z), (1-X,1-Y,Z), (Y,X,4/3-Z), (1-Y,1-X,4/3-Z) 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: PQS 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 88.86650 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 153.92129 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 128.64533 REMARK 350 BIOMT1 4 0.500000 -0.866025 0.000000 88.86650 REMARK 350 BIOMT2 4 -0.866025 -0.500000 0.000000 153.92129 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 128.64533 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -70.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 0.500000 -0.866025 0.000000 88.86650 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 153.92129 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 128.64533 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 1176 O HOH A 1497 2.18 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 ALA A 37 -120.60 50.39 REMARK 500 THR A 53 -36.32 -137.95 REMARK 500 ASP A 68 -167.97 -165.02 REMARK 500 LYS A 425 -21.10 -140.54 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 802 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 260 OD1 REMARK 620 2 ASP A 260 OD2 60.4 REMARK 620 3 ASP A 271 OD1 89.9 150.3 REMARK 620 4 GLU A 406 OE1 103.0 99.1 87.0 REMARK 620 5 HOH A 904 O 153.0 93.7 115.6 87.8 REMARK 620 6 HOH A1245 O 86.7 87.2 91.2 170.1 84.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 801 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 271 OD2 REMARK 620 2 HIS A 354 NE2 88.6 REMARK 620 3 GLU A 383 OE1 142.1 128.6 REMARK 620 4 GLU A 383 OE2 160.7 84.9 44.8 REMARK 620 5 GLU A 406 OE2 86.8 122.0 68.5 81.4 REMARK 620 6 HOH A 904 O 102.7 148.1 50.7 92.2 88.7 REMARK 620 7 HOH A1083 O 101.7 77.9 94.0 94.7 158.9 70.6 REMARK 620 N 1 2 3 4 5 6 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 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE XPE A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 903 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AZ9 RELATED DB: PDB REMARK 900 NATIVE (MN-SUBSTITUTED) STRUCTURE. DBREF 1WL6 A 1 440 UNP P15034 AMPP_ECOLI 1 440 SEQRES 1 A 440 SER GLU ILE SER ARG GLN GLU PHE GLN ARG ARG ARG GLN SEQRES 2 A 440 ALA LEU VAL GLU GLN MET GLN PRO GLY SER ALA ALA LEU SEQRES 3 A 440 ILE PHE ALA ALA PRO GLU VAL THR ARG SER ALA ASP SER SEQRES 4 A 440 GLU TYR PRO TYR ARG GLN ASN SER ASP PHE TRP TYR PHE SEQRES 5 A 440 THR GLY PHE ASN GLU PRO GLU ALA VAL LEU VAL LEU ILE SEQRES 6 A 440 LYS SER ASP ASP THR HIS ASN HIS SER VAL LEU PHE ASN SEQRES 7 A 440 ARG VAL ARG ASP LEU THR ALA GLU ILE TRP PHE GLY ARG SEQRES 8 A 440 ARG LEU GLY GLN ASP ALA ALA PRO GLU LYS LEU GLY VAL SEQRES 9 A 440 ASP ARG ALA LEU ALA PHE SER GLU ILE ASN GLN GLN LEU SEQRES 10 A 440 TYR GLN LEU LEU ASN GLY LEU ASP VAL VAL TYR HIS ALA SEQRES 11 A 440 GLN GLY GLU TYR ALA TYR ALA ASP VAL ILE VAL ASN SER SEQRES 12 A 440 ALA LEU GLU LYS LEU ARG LYS GLY SER ARG GLN ASN LEU SEQRES 13 A 440 THR ALA PRO ALA THR MET ILE ASP TRP ARG PRO VAL VAL SEQRES 14 A 440 HIS GLU MET ARG LEU PHE LYS SER PRO GLU GLU ILE ALA SEQRES 15 A 440 VAL LEU ARG ARG ALA GLY GLU ILE THR ALA MET ALA HIS SEQRES 16 A 440 THR ARG ALA MET GLU LYS CYS ARG PRO GLY MET PHE GLU SEQRES 17 A 440 TYR HIS LEU GLU GLY GLU ILE HIS HIS GLU PHE ASN ARG SEQRES 18 A 440 HIS GLY ALA ARG TYR PRO SER TYR ASN THR ILE VAL GLY SEQRES 19 A 440 SER GLY GLU ASN GLY CYS ILE LEU HIS TYR THR GLU ASN SEQRES 20 A 440 GLU CYS GLU MET ARG ASP GLY ASP LEU VAL LEU ILE ASP SEQRES 21 A 440 ALA GLY CYS GLU TYR LYS GLY TYR ALA GLY ASP ILE THR SEQRES 22 A 440 ARG THR PHE PRO VAL ASN GLY LYS PHE THR GLN ALA GLN SEQRES 23 A 440 ARG GLU ILE TYR ASP ILE VAL LEU GLU SER LEU GLU THR SEQRES 24 A 440 SER LEU ARG LEU TYR ARG PRO GLY THR SER ILE LEU GLU SEQRES 25 A 440 VAL THR GLY GLU VAL VAL ARG ILE MET VAL SER GLY LEU SEQRES 26 A 440 VAL LYS LEU GLY ILE LEU LYS GLY ASP VAL ASP GLU LEU SEQRES 27 A 440 ILE ALA GLN ASN ALA HIS ARG PRO PHE PHE MET HIS GLY SEQRES 28 A 440 LEU SER HIS TRP LEU GLY LEU ASP VAL HIS ASP VAL GLY SEQRES 29 A 440 VAL TYR GLY GLN ASP ARG SER ARG ILE LEU GLU PRO GLY SEQRES 30 A 440 MET VAL LEU THR VAL GLU PRO GLY LEU TYR ILE ALA PRO SEQRES 31 A 440 ASP ALA GLU VAL PRO GLU GLN TYR ARG GLY ILE GLY ILE SEQRES 32 A 440 ARG ILE GLU ASP ASP ILE VAL ILE THR GLU THR GLY ASN SEQRES 33 A 440 GLU ASN LEU THR ALA SER VAL VAL LYS LYS PRO GLU GLU SEQRES 34 A 440 ILE GLU ALA LEU MET VAL ALA ALA ARG LYS GLN HET MG A 801 1 HET MG A 802 1 HET CL A 803 1 HET CL A 804 1 HET XPE A 901 31 HET IPA A 902 4 HET IPA A 903 4 HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM XPE 3,6,9,12,15,18,21,24,27-NONAOXANONACOSANE-1,29-DIOL HETNAM IPA ISOPROPYL ALCOHOL HETSYN XPE DECAETHYLENE GLYCOL HETSYN IPA 2-PROPANOL FORMUL 2 MG 2(MG 2+) FORMUL 4 CL 2(CL 1-) FORMUL 6 XPE C20 H42 O11 FORMUL 7 IPA 2(C3 H8 O) FORMUL 9 HOH *599(H2 O) HELIX 1 1 SER A 4 MET A 19 1 16 HELIX 2 2 ASN A 46 GLY A 54 1 9 HELIX 3 3 ASP A 82 GLY A 90 1 9 HELIX 4 4 LEU A 93 GLY A 103 1 11 HELIX 5 5 GLU A 112 ASN A 122 1 11 HELIX 6 6 TYR A 134 LYS A 150 1 17 HELIX 7 7 GLY A 151 ASN A 155 5 5 HELIX 8 8 TRP A 165 PHE A 175 1 11 HELIX 9 9 SER A 177 CYS A 202 1 26 HELIX 10 10 PHE A 207 HIS A 222 1 16 HELIX 11 11 GLU A 237 ILE A 241 5 5 HELIX 12 12 THR A 283 TYR A 304 1 22 HELIX 13 13 SER A 309 LEU A 328 1 20 HELIX 14 14 ASP A 334 GLN A 341 1 8 HELIX 15 15 GLY A 367 SER A 371 5 5 HELIX 16 16 PRO A 395 ARG A 399 5 5 HELIX 17 17 LYS A 426 LYS A 439 1 14 SHEET 1 A 6 ARG A 106 ALA A 109 0 SHEET 2 A 6 ASN A 72 ASN A 78 1 N LEU A 76 O LEU A 108 SHEET 3 A 6 VAL A 61 LYS A 66 -1 N ILE A 65 O HIS A 73 SHEET 4 A 6 SER A 23 PHE A 28 -1 N SER A 23 O LYS A 66 SHEET 5 A 6 VAL A 126 TYR A 128 1 O TYR A 128 N ALA A 24 SHEET 6 A 6 THR A 161 ILE A 163 1 O THR A 161 N VAL A 127 SHEET 1 B 2 THR A 34 SER A 36 0 SHEET 2 B 2 SER A 39 GLU A 40 -1 O SER A 39 N SER A 36 SHEET 1 C 3 TYR A 226 PRO A 227 0 SHEET 2 C 3 CYS A 263 TYR A 265 -1 O GLU A 264 N TYR A 226 SHEET 3 C 3 TYR A 268 ALA A 269 -1 O TYR A 268 N TYR A 265 SHEET 1 D 3 ILE A 232 SER A 235 0 SHEET 2 D 3 LEU A 256 ALA A 261 -1 O LEU A 258 N GLY A 234 SHEET 3 D 3 ILE A 272 PRO A 277 -1 O ARG A 274 N ILE A 259 SHEET 1 E 3 VAL A 379 VAL A 382 0 SHEET 2 E 3 ASP A 407 THR A 412 -1 O ILE A 409 N LEU A 380 SHEET 3 E 3 GLY A 415 ASN A 418 -1 O GLU A 417 N VAL A 410 SHEET 1 F 2 GLY A 385 ILE A 388 0 SHEET 2 F 2 ILE A 401 ARG A 404 -1 O ILE A 401 N ILE A 388 LINK OD1 ASP A 260 MG MG A 802 1555 1555 2.13 LINK OD2 ASP A 260 MG MG A 802 1555 1555 2.27 LINK OD2 ASP A 271 MG MG A 801 1555 1555 2.15 LINK OD1 ASP A 271 MG MG A 802 1555 1555 2.01 LINK NE2 HIS A 354 MG MG A 801 1555 1555 2.18 LINK OE1 GLU A 383 MG MG A 801 1555 1555 3.12 LINK OE2 GLU A 383 MG MG A 801 1555 1555 2.22 LINK OE2 GLU A 406 MG MG A 801 1555 1555 2.07 LINK OE1 GLU A 406 MG MG A 802 1555 1555 2.13 LINK MG MG A 801 O HOH A 904 1555 1555 2.10 LINK MG MG A 801 O HOH A1083 1555 1555 2.34 LINK MG MG A 802 O HOH A 904 1555 1555 2.04 LINK MG MG A 802 O HOH A1245 1555 1555 2.15 SITE 1 AC1 7 ASP A 271 HIS A 354 GLU A 383 GLU A 406 SITE 2 AC1 7 MG A 802 HOH A 904 HOH A1083 SITE 1 AC2 7 ASP A 260 ASP A 271 THR A 273 GLU A 406 SITE 2 AC2 7 MG A 801 HOH A 904 HOH A1245 SITE 1 AC3 4 ARG A 79 VAL A 80 SER A 111 HOH A1210 SITE 1 AC4 4 ARG A 153 GLY A 351 ARG A 370 HOH A1200 SITE 1 AC5 11 ASP A 38 TRP A 88 SER A 152 ARG A 153 SITE 2 AC5 11 HIS A 243 HIS A 361 TYR A 366 ARG A 370 SITE 3 AC5 11 HOH A1230 HOH A1294 HOH A1451 SITE 1 AC6 5 HIS A 243 GLU A 383 ARG A 404 HOH A 904 SITE 2 AC6 5 HOH A1083 SITE 1 AC7 6 ARG A 149 PRO A 159 ALA A 160 MET A 162 SITE 2 AC7 6 HOH A1023 HOH A1386 CRYST1 177.733 177.733 96.484 90.00 90.00 120.00 P 64 2 2 12 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 0.005626 0.003248 0.000000 0.00000 SCALE2 0.000000 0.006497 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010364 0.00000