HEADER HYDROLASE 11-AUG-15 5AC3 TITLE CRYSTAL STRUCTURE OF PAM12A COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDE AMIDASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.5.1.4; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STENOTROPHOMONAS MALTOPHILIA; SOURCE 3 ORGANISM_TAXID: 40324; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI K-12; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 83333; SOURCE 6 EXPRESSION_SYSTEM_VARIANT: TOP10; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PBAD KEYWDS HYDROLASE, MUTAGENESIS EXPDTA X-RAY DIFFRACTION AUTHOR B.WU,H.J.WIJMA,L.SONG,H.J.ROZEBOOM,C.POLONI,Y.TIAN,M.I.ARIF, AUTHOR 2 T.NUIJENS,P.J.L.M.QUADFLIEG,W.SZYMANSKI,B.L.FERINGA,D.B.JANSSEN REVDAT 5 23-OCT-24 5AC3 1 REMARK REVDAT 4 10-JAN-24 5AC3 1 REMARK LINK REVDAT 3 30-JAN-19 5AC3 1 REMARK REVDAT 2 05-JUL-17 5AC3 1 REMARK REVDAT 1 20-JUL-16 5AC3 0 JRNL AUTH B.WU,H.J.WIJMA,L.SONG,H.J.ROZEBOOM,C.POLONI,Y.TIAN,M.I.ARIF, JRNL AUTH 2 T.NUIJENS,P.J.L.M.QUADFLIEG,W.SZYMANSKI,B.L.FERINGA, JRNL AUTH 3 D.B.JANSSEN JRNL TITL VERSATILE PEPTIDE C-TERMINAL FUNCTIONALIZATION VIA A JRNL TITL 2 COMPUTATIONALLY PEPTIDE AMIDASE JRNL REF ACS CATALYSIS 2016 JRNL REFN ESSN 2155-5435 JRNL DOI 10.1021/ACSCATAL.6B01062 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 71.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 40001 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) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2108 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2935 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.2530 REMARK 3 BIN FREE R VALUE SET COUNT : 146 REMARK 3 BIN FREE R VALUE : 0.2540 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3686 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 29 REMARK 3 SOLVENT ATOMS : 340 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.06000 REMARK 3 B22 (A**2) : -0.06000 REMARK 3 B33 (A**2) : 0.21000 REMARK 3 B12 (A**2) : -0.03000 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): 0.121 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.114 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.087 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.394 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3789 ; 0.009 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3632 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5161 ; 1.295 ; 1.980 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8325 ; 0.786 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 491 ; 5.924 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 161 ;29.791 ;22.547 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 575 ;12.808 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 41 ;17.783 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 577 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4368 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 847 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1969 ; 0.696 ; 1.239 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1963 ; 0.673 ; 1.232 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2455 ; 1.158 ; 1.844 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1820 ; 1.051 ; 1.435 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 3 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 42 A 107 REMARK 3 ORIGIN FOR THE GROUP (A): 15.8428 -43.5882 -24.4273 REMARK 3 T TENSOR REMARK 3 T11: 0.0602 T22: 0.0974 REMARK 3 T33: 0.0323 T12: -0.0174 REMARK 3 T13: -0.0047 T23: -0.0203 REMARK 3 L TENSOR REMARK 3 L11: 1.0526 L22: 2.7487 REMARK 3 L33: 0.7013 L12: -0.7488 REMARK 3 L13: -0.0714 L23: 0.3410 REMARK 3 S TENSOR REMARK 3 S11: -0.0366 S12: 0.1697 S13: -0.0350 REMARK 3 S21: 0.0403 S22: 0.0445 S23: -0.0370 REMARK 3 S31: 0.1308 S32: 0.0105 S33: -0.0079 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 108 A 305 REMARK 3 ORIGIN FOR THE GROUP (A): 19.9508 -29.5216 -14.8687 REMARK 3 T TENSOR REMARK 3 T11: 0.0513 T22: 0.0807 REMARK 3 T33: 0.0710 T12: -0.0128 REMARK 3 T13: 0.0093 T23: 0.0018 REMARK 3 L TENSOR REMARK 3 L11: 0.6192 L22: 0.5637 REMARK 3 L33: 0.5634 L12: 0.0947 REMARK 3 L13: 0.1952 L23: 0.0761 REMARK 3 S TENSOR REMARK 3 S11: -0.0084 S12: 0.0693 S13: 0.0309 REMARK 3 S21: 0.0129 S22: 0.0218 S23: -0.0466 REMARK 3 S31: 0.0009 S32: 0.0343 S33: -0.0134 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 306 A 531 REMARK 3 ORIGIN FOR THE GROUP (A): 12.1453 -19.6143 -7.5615 REMARK 3 T TENSOR REMARK 3 T11: 0.0565 T22: 0.0352 REMARK 3 T33: 0.0754 T12: 0.0016 REMARK 3 T13: 0.0012 T23: -0.0015 REMARK 3 L TENSOR REMARK 3 L11: 0.8194 L22: 0.4008 REMARK 3 L33: 0.4912 L12: 0.2498 REMARK 3 L13: -0.1172 L23: -0.0365 REMARK 3 S TENSOR REMARK 3 S11: 0.0068 S12: -0.0060 S13: 0.1311 REMARK 3 S21: 0.0466 S22: 0.0017 S23: 0.0374 REMARK 3 S31: -0.0880 S32: -0.0279 S33: -0.0085 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 5AC3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1290064654. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 7.0 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 : BRUKER AXS MICROSTAR-H REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : HELIOSMX REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42172 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 41.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.20 REMARK 200 R MERGE (I) : 0.14000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : 0.76000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1M22 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: VAPOR DIFFUSION, HANGING DROP, 1.0 M REMARK 280 SODIUM ACETATE, 0.1 M HEPES PH 7.0, 0.02M CADMIUM SULFATE REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 37.63033 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 75.26067 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 75.26067 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 37.63033 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 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 CD CD A1537 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2143 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2338 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 ALA A 33 REMARK 465 ALA A 34 REMARK 465 GLU A 35 REMARK 465 PRO A 36 REMARK 465 ALA A 37 REMARK 465 SER A 38 REMARK 465 ARG A 39 REMARK 465 ASN A 40 REMARK 465 VAL A 41 REMARK 465 ASP A 532 REMARK 465 ALA A 533 REMARK 465 LEU A 534 REMARK 465 ILE A 535 REMARK 465 ASP A 536 REMARK 465 ALA A 537 REMARK 465 GLY A 538 REMARK 465 GLU A 539 REMARK 465 PRO A 540 REMARK 465 HIS A 541 REMARK 465 HIS A 542 REMARK 465 HIS A 543 REMARK 465 HIS A 544 REMARK 465 HIS A 545 REMARK 465 HIS A 546 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 135 19.74 56.55 REMARK 500 ARG A 194 92.00 -165.62 REMARK 500 CYS A 200 -157.20 55.17 REMARK 500 SER A 203 49.92 -79.17 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 CD A1534 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 86 NE2 REMARK 620 2 ACY A1545 O 89.1 REMARK 620 3 ACY A1545 OXT 91.1 50.1 REMARK 620 4 HOH A2052 O 74.1 141.7 95.3 REMARK 620 5 HOH A2053 O 91.5 147.3 162.5 68.9 REMARK 620 6 HOH A2055 O 102.8 88.4 136.3 128.4 59.6 REMARK 620 7 HOH A2338 O 166.4 102.8 91.7 92.4 82.0 84.3 REMARK 620 8 HOH A2338 O 166.4 102.8 91.7 92.4 82.0 84.3 0.0 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1538 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 98 OE2 REMARK 620 2 GLU A 98 OE1 55.1 REMARK 620 3 GLU A 101 OE1 93.2 103.3 REMARK 620 4 ACY A1542 O 118.9 80.5 140.5 REMARK 620 5 ACY A1542 OXT 146.2 91.1 93.9 46.6 REMARK 620 6 HOH A2069 O 98.8 141.6 106.1 92.0 110.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1532 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 156 OD1 REMARK 620 2 ASP A 156 OD2 53.2 REMARK 620 3 HIS A 528 NE2 164.0 112.7 REMARK 620 4 ASP A 530 OD1 92.2 79.5 92.0 REMARK 620 5 ASP A 530 OD2 97.9 124.0 96.8 52.0 REMARK 620 6 HOH A2114 O 81.3 73.5 87.5 150.4 157.4 REMARK 620 7 HOH A2124 O 97.2 140.9 91.4 132.1 80.2 77.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1535 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 197 NE2 REMARK 620 2 HOH A2307 O 94.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1537 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 331 OE1 REMARK 620 2 GLU A 331 OE2 123.9 REMARK 620 3 GLU A 331 OE2 49.1 172.1 REMARK 620 4 GLU A 331 OE1 90.3 49.1 123.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1540 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 378 ND1 REMARK 620 2 HOH A2107 O 97.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1539 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 395 NE2 REMARK 620 2 HOH A2261 O 73.4 REMARK 620 3 HOH A2262 O 85.7 59.1 REMARK 620 4 HOH A2263 O 80.8 69.5 128.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1533 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 445 NE2 REMARK 620 2 ACY A1544 OXT 68.8 REMARK 620 3 ACY A1544 O 87.1 47.7 REMARK 620 4 HOH A2230 O 97.0 138.5 94.6 REMARK 620 5 HOH A2302 O 82.6 82.1 128.7 136.4 REMARK 620 6 HOH A2337 O 167.9 99.1 84.3 92.1 96.3 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 CD A 1532 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1533 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1534 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1535 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1536 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1537 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1538 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1539 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1540 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 1541 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 1542 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 1543 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 1544 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 1545 DBREF 5AC3 A 33 540 UNP Q8RJN5 Q8RJN5_STEMA 33 540 SEQADV 5AC3 HIS A 86 UNP Q8RJN5 ARG 86 ENGINEERED MUTATION SEQADV 5AC3 ASP A 142 UNP Q8RJN5 GLY 142 ENGINEERED MUTATION SEQADV 5AC3 MET A 171 UNP Q8RJN5 ALA 171 ENGINEERED MUTATION SEQADV 5AC3 SER A 175 UNP Q8RJN5 GLY 175 ENGINEERED MUTATION SEQADV 5AC3 ASN A 177 UNP Q8RJN5 ASP 177 ENGINEERED MUTATION SEQADV 5AC3 PRO A 195 UNP Q8RJN5 ILE 195 ENGINEERED MUTATION SEQADV 5AC3 PRO A 261 UNP Q8RJN5 ALA 261 ENGINEERED MUTATION SEQADV 5AC3 PRO A 283 UNP Q8RJN5 ASP 283 ENGINEERED MUTATION SEQADV 5AC3 VAL A 318 UNP Q8RJN5 THR 318 ENGINEERED MUTATION SEQADV 5AC3 TYR A 352 UNP Q8RJN5 GLN 352 ENGINEERED MUTATION SEQADV 5AC3 ALA A 401 UNP Q8RJN5 GLY 401 ENGINEERED MUTATION SEQADV 5AC3 PRO A 463 UNP Q8RJN5 SER 463 ENGINEERED MUTATION SEQADV 5AC3 HIS A 541 UNP Q8RJN5 EXPRESSION TAG SEQADV 5AC3 HIS A 542 UNP Q8RJN5 EXPRESSION TAG SEQADV 5AC3 HIS A 543 UNP Q8RJN5 EXPRESSION TAG SEQADV 5AC3 HIS A 544 UNP Q8RJN5 EXPRESSION TAG SEQADV 5AC3 HIS A 545 UNP Q8RJN5 EXPRESSION TAG SEQADV 5AC3 HIS A 546 UNP Q8RJN5 EXPRESSION TAG SEQRES 1 A 514 ALA ALA GLU PRO ALA SER ARG ASN VAL PRO PHE PRO TYR SEQRES 2 A 514 ALA GLU THR ASP VAL ALA ASP LEU GLN ALA ARG MET THR SEQRES 3 A 514 ALA GLY GLU LEU ASP SER THR THR LEU THR GLN ALA TYR SEQRES 4 A 514 LEU GLN ARG ILE ALA ALA LEU ASP ARG THR GLY PRO ARG SEQRES 5 A 514 LEU HIS ALA VAL ILE GLU LEU ASN PRO ASP ALA LEU LYS SEQRES 6 A 514 GLU ALA ALA GLU ARG ASP ARG GLU ARG ARG ASP GLY ARG SEQRES 7 A 514 LEU ARG GLY PRO LEU HIS GLY ILE PRO LEU LEU LEU LYS SEQRES 8 A 514 ASP ASN ILE ASN ALA ALA PRO MET ALA THR SER ALA GLY SEQRES 9 A 514 SER LEU ALA LEU GLN ASP PHE ARG PRO ASP ASP ALA TYR SEQRES 10 A 514 LEU VAL ARG ARG LEU ARG ASP ALA GLY ALA VAL VAL LEU SEQRES 11 A 514 GLY LYS THR ASN LEU SER GLU TRP MET ASN PHE ARG SER SEQRES 12 A 514 ASN ASN SER ILE SER GLY TRP SER ALA ARG GLY GLY GLN SEQRES 13 A 514 THR ARG ASN PRO TYR ARG PRO SER HIS SER PRO CYS GLY SEQRES 14 A 514 SER SER SER GLY SER ALA VAL ALA VAL ALA ALA ASN LEU SEQRES 15 A 514 ALA SER VAL ALA ILE GLY THR GLU THR ASP GLY SER ILE SEQRES 16 A 514 VAL CYS PRO ALA ALA ILE ASN GLY VAL VAL GLY LEU LYS SEQRES 17 A 514 PRO THR VAL GLY LEU VAL SER ARG ASP GLY ILE ILE PRO SEQRES 18 A 514 ILE SER PHE SER GLN ASP THR PRO GLY PRO MET ALA ARG SEQRES 19 A 514 SER VAL ALA ASP ALA ALA ALA VAL LEU THR ALA ILE ALA SEQRES 20 A 514 GLY ARG ASP PRO ALA ASP PRO ALA THR ALA THR MET PRO SEQRES 21 A 514 GLY ARG ALA VAL TYR ASP TYR THR ALA ARG LEU ASP PRO SEQRES 22 A 514 GLN GLY LEU ARG GLY LYS ARG ILE GLY LEU LEU GLN VAL SEQRES 23 A 514 PRO LEU LEU LYS TYR ARG GLY MET PRO PRO LEU ILE GLU SEQRES 24 A 514 GLN ALA ALA THR GLU LEU ARG ARG ALA GLY ALA VAL VAL SEQRES 25 A 514 VAL PRO VAL GLU LEU PRO ASN TYR GLY ALA TRP ALA GLU SEQRES 26 A 514 ALA GLU ARG THR LEU LEU LEU TYR GLU PHE LYS ALA GLY SEQRES 27 A 514 LEU GLU ARG TYR PHE ASN THR HIS ARG ALA PRO LEU ARG SEQRES 28 A 514 SER LEU ALA ASP LEU ILE ALA PHE ASN GLN ALA HIS SER SEQRES 29 A 514 LYS GLN GLU LEU ALA LEU PHE GLY GLN GLU LEU LEU VAL SEQRES 30 A 514 GLU ALA ASP ALA THR ALA GLY LEU ALA ASP PRO ALA TYR SEQRES 31 A 514 ILE ARG ALA ARG SER ASP ALA ARG ARG LEU ALA GLY PRO SEQRES 32 A 514 GLU GLY ILE ASP ALA ALA LEU ALA ALA HIS GLN LEU ASP SEQRES 33 A 514 ALA LEU VAL ALA PRO THR THR GLY VAL ALA TRP PRO ILE SEQRES 34 A 514 ARG PRO GLU GLY ASP ASP PHE PRO GLY GLU SER TYR SER SEQRES 35 A 514 ALA ALA ALA VAL ALA GLY TYR PRO SER LEU THR VAL PRO SEQRES 36 A 514 MET GLY GLN ILE ASP GLY LEU PRO VAL GLY LEU LEU PHE SEQRES 37 A 514 MET GLY THR ALA TRP SER GLU PRO LYS LEU ILE GLU MET SEQRES 38 A 514 ALA TYR ALA TYR GLU GLN ARG THR ARG ALA ARG ARG PRO SEQRES 39 A 514 PRO HIS PHE ASP THR ASP ALA LEU ILE ASP ALA GLY GLU SEQRES 40 A 514 PRO HIS HIS HIS HIS HIS HIS HET CD A1532 1 HET CD A1533 1 HET CD A1534 1 HET CD A1535 1 HET CD A1536 1 HET CD A1537 1 HET CD A1538 1 HET CD A1539 1 HET CD A1540 1 HET ACY A1541 4 HET ACY A1542 4 HET ACY A1543 4 HET ACY A1544 4 HET ACY A1545 4 HETNAM CD CADMIUM ION HETNAM ACY ACETIC ACID FORMUL 2 CD 9(CD 2+) FORMUL 11 ACY 5(C2 H4 O2) FORMUL 16 HOH *340(H2 O) HELIX 1 1 ASP A 49 ALA A 59 1 11 HELIX 2 2 ASP A 63 ASP A 79 1 17 HELIX 3 3 ASP A 94 ASP A 108 1 15 HELIX 4 4 SER A 137 GLN A 141 5 5 HELIX 5 5 ALA A 148 ALA A 157 1 10 HELIX 6 6 SER A 168 PHE A 173 5 6 HELIX 7 7 SER A 203 ALA A 212 1 10 HELIX 8 8 ILE A 227 ASN A 234 1 8 HELIX 9 9 SER A 267 ALA A 279 1 13 HELIX 10 10 ASP A 285 MET A 291 5 7 HELIX 11 11 ASP A 298 LEU A 303 5 6 HELIX 12 12 VAL A 318 TYR A 323 5 6 HELIX 13 13 MET A 326 ALA A 340 1 15 HELIX 14 14 TRP A 355 HIS A 378 1 24 HELIX 15 15 SER A 384 HIS A 395 1 12 HELIX 16 16 HIS A 395 LEU A 400 1 6 HELIX 17 17 GLN A 405 ALA A 413 1 9 HELIX 18 18 ASP A 419 GLY A 434 1 16 HELIX 19 19 GLY A 437 HIS A 445 1 9 HELIX 20 20 TYR A 473 GLY A 480 1 8 HELIX 21 21 SER A 506 ARG A 522 1 17 SHEET 1 AA11 VAL A 88 LEU A 91 0 SHEET 2 AA11 VAL A 160 THR A 165 -1 O LYS A 164 N GLU A 90 SHEET 3 AA11 PRO A 119 LYS A 123 1 O LEU A 120 N LEU A 162 SHEET 4 AA11 VAL A 217 GLU A 222 1 O VAL A 217 N LEU A 121 SHEET 5 AA11 THR A 260 ALA A 265 -1 O THR A 260 N GLU A 222 SHEET 6 AA11 VAL A 237 LYS A 240 -1 O VAL A 237 N ALA A 265 SHEET 7 AA11 SER A 483 ILE A 491 -1 O SER A 483 N LYS A 240 SHEET 8 AA11 LEU A 494 MET A 501 -1 O LEU A 494 N ILE A 491 SHEET 9 AA11 ALA A 449 PRO A 453 -1 O LEU A 450 N MET A 501 SHEET 10 AA11 ARG A 312 LEU A 316 1 O GLY A 314 N VAL A 451 SHEET 11 AA11 VAL A 343 VAL A 347 1 O VAL A 343 N ILE A 313 SHEET 1 AB 2 TRP A 182 SER A 183 0 SHEET 2 AB 2 GLY A 187 GLN A 188 -1 O GLY A 187 N SER A 183 SSBOND 1 CYS A 200 CYS A 229 1555 1555 2.16 LINK NE2 HIS A 86 CD CD A1534 1555 1555 2.33 LINK OE2 GLU A 98 CD CD A1538 1555 1555 2.52 LINK OE1 GLU A 98 CD CD A1538 1555 1555 2.20 LINK OE1 GLU A 101 CD CD A1538 1555 1555 2.20 LINK OD1 ASP A 156 CD CD A1532 1555 1555 2.31 LINK OD2 ASP A 156 CD CD A1532 1555 1555 2.55 LINK NE2 HIS A 197 CD CD A1535 1555 1555 2.44 LINK OE1 GLU A 331 CD CD A1537 4555 1555 2.74 LINK OE2 GLU A 331 CD CD A1537 1555 1555 2.59 LINK OE2 GLU A 331 CD CD A1537 4555 1555 2.59 LINK OE1 GLU A 331 CD CD A1537 1555 1555 2.74 LINK ND1 HIS A 378 CD CD A1540 1555 1555 2.63 LINK NE2 HIS A 395 CD CD A1539 1555 1555 2.44 LINK NE2 HIS A 445 CD CD A1533 1555 1555 2.52 LINK NE2 HIS A 528 CD CD A1532 5544 1555 2.16 LINK OD1 ASP A 530 CD CD A1532 5544 1555 2.42 LINK OD2 ASP A 530 CD CD A1532 5544 1555 2.53 LINK CD CD A1532 O HOH A2114 1555 1555 2.55 LINK CD CD A1532 O HOH A2124 1555 1555 2.27 LINK CD CD A1533 OXT ACY A1544 1555 1555 2.96 LINK CD CD A1533 O ACY A1544 1555 1555 2.24 LINK CD CD A1533 O HOH A2230 1555 1555 2.36 LINK CD CD A1533 O HOH A2302 1555 1555 2.56 LINK CD CD A1533 O HOH A2337 1555 1555 2.61 LINK CD CD A1534 O ACY A1545 1555 1555 2.31 LINK CD CD A1534 OXT ACY A1545 1555 1555 2.80 LINK CD CD A1534 O HOH A2052 1555 1555 2.49 LINK CD CD A1534 O HOH A2053 1555 1555 2.70 LINK CD CD A1534 O HOH A2055 1555 1555 2.03 LINK CD CD A1534 O HOH A2338 1555 1555 2.43 LINK CD CD A1534 O HOH A2338 1555 6554 2.43 LINK CD CD A1535 O HOH A2307 1555 1555 2.73 LINK CD CD A1538 O ACY A1542 1555 1555 3.00 LINK CD CD A1538 OXT ACY A1542 1555 1555 2.25 LINK CD CD A1538 O HOH A2069 1555 1555 2.11 LINK CD CD A1539 O HOH A2261 1555 1555 2.19 LINK CD CD A1539 O HOH A2262 1555 1555 2.86 LINK CD CD A1539 O HOH A2263 1555 1555 2.67 LINK CD CD A1540 O HOH A2107 1555 1555 2.56 CISPEP 1 ALA A 129 PRO A 130 0 2.87 CISPEP 2 GLY A 201 SER A 202 0 3.03 SITE 1 AC1 5 ASP A 156 HIS A 528 ASP A 530 HOH A2114 SITE 2 AC1 5 HOH A2124 SITE 1 AC2 5 HIS A 445 ACY A1544 HOH A2230 HOH A2302 SITE 2 AC2 5 HOH A2337 SITE 1 AC3 6 HIS A 86 ACY A1545 HOH A2052 HOH A2053 SITE 2 AC3 6 HOH A2055 HOH A2338 SITE 1 AC4 3 HIS A 197 CD A1536 HOH A2307 SITE 1 AC5 2 HIS A 197 CD A1535 SITE 1 AC6 1 GLU A 331 SITE 1 AC7 4 GLU A 98 GLU A 101 ACY A1542 HOH A2069 SITE 1 AC8 4 HIS A 395 HOH A2261 HOH A2262 HOH A2263 SITE 1 AC9 2 HIS A 378 HOH A2107 SITE 1 BC1 5 ALA A 415 GLY A 416 LEU A 417 ALA A 418 SITE 2 BC1 5 HOH A2191 SITE 1 BC2 8 GLU A 98 GLU A 101 ARG A 102 ARG A 155 SITE 2 BC2 8 ASP A 492 GLY A 493 CD A1538 HOH A2340 SITE 1 BC3 7 ASN A 172 GLY A 201 SER A 202 ASP A 224 SITE 2 BC3 7 GLY A 225 SER A 226 HOH A2128 SITE 1 BC4 5 PRO A 346 VAL A 347 GLU A 348 HIS A 445 SITE 2 BC4 5 CD A1533 SITE 1 BC5 7 ARG A 80 HIS A 86 ARG A 185 GLY A 186 SITE 2 BC5 7 GLY A 187 CD A1534 HOH A2055 CRYST1 82.870 82.870 112.891 90.00 90.00 120.00 P 31 2 1 6 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 0.012067 0.006967 0.000000 0.00000 SCALE2 0.000000 0.013934 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008858 0.00000