HEADER TRANSFERASE 26-DEC-17 5Z1M TITLE CRYSTAL STRUCTURE OF THE COMPLEX OF TRIMERIC PHOSPHOPANTETHEINE TITLE 2 ADENYLYLTRANSFERASE FROM ACINETOBACTER BAUMANNII WITH CITRATE ION AT TITLE 3 1.87 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOPANTETHEINE ADENYLYLTRANSFERASE; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: DEPHOSPHO-COA PYROPHOSPHORYLASE,PANTETHEINE-PHOSPHATE COMPND 5 ADENYLYLTRANSFERASE,PPAT; COMPND 6 EC: 2.7.7.3; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACINETOBACTER BAUMANNII; SOURCE 3 ORGANISM_TAXID: 470; SOURCE 4 GENE: COAD; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR P.K.SINGH,A.GUPTA,P.KAUR,S.SHARMA,T.P.SINGH REVDAT 2 22-NOV-23 5Z1M 1 REMARK REVDAT 1 14-FEB-18 5Z1M 0 JRNL AUTH P.K.SINGH,A.GUPTA,P.KAUR,S.SHARMA,T.P.SINGH JRNL TITL CRYSTAL STRUCTURE OF THE COMPLEX OF TRIMERIC JRNL TITL 2 PHOSPHOPANTETHEINE ADENYLYLTRANSFERASE FROM ACINETOBACTER JRNL TITL 3 BAUMANNII WITH CITRATE ION AT 1.87 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.87 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0189 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) : 1.87 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 39459 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.237 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2052 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) : 1.87 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2897 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.80 REMARK 3 BIN R VALUE (WORKING SET) : 0.3020 REMARK 3 BIN FREE R VALUE SET COUNT : 155 REMARK 3 BIN FREE R VALUE : 0.3440 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3915 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 39 REMARK 3 SOLVENT ATOMS : 202 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.61000 REMARK 3 B22 (A**2) : 2.41000 REMARK 3 B33 (A**2) : -1.80000 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): 0.150 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.146 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.124 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.806 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4041 ; 0.025 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3729 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5466 ; 2.329 ; 1.945 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8610 ; 1.190 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 486 ; 6.948 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 201 ;31.939 ;23.433 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 672 ;16.036 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;19.894 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 606 ; 0.235 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4494 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 888 ; 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): 1953 ; 2.603 ; 2.700 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1952 ; 2.603 ; 2.698 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2436 ; 3.707 ; 4.028 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2437 ; 3.707 ; 4.030 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2088 ; 3.477 ; 3.260 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2086 ; 3.476 ; 3.259 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3030 ; 5.234 ; 4.707 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 16692 ; 7.837 ;52.826 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 16633 ; 7.812 ;52.653 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 3 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 1 163 B 1 163 10452 0.09 0.05 REMARK 3 2 A 1 163 C 1 163 10428 0.10 0.05 REMARK 3 3 B 1 163 C 1 163 10424 0.09 0.05 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 1 A 163 REMARK 3 ORIGIN FOR THE GROUP (A): 15.1427 -27.8439 24.6805 REMARK 3 T TENSOR REMARK 3 T11: 0.0366 T22: 0.1571 REMARK 3 T33: 0.0879 T12: 0.0506 REMARK 3 T13: 0.0162 T23: -0.0316 REMARK 3 L TENSOR REMARK 3 L11: 2.4722 L22: 2.7018 REMARK 3 L33: 2.0882 L12: 1.3144 REMARK 3 L13: 1.5831 L23: 0.8560 REMARK 3 S TENSOR REMARK 3 S11: 0.0807 S12: 0.1299 S13: -0.0324 REMARK 3 S21: -0.1454 S22: -0.0675 S23: -0.0478 REMARK 3 S31: -0.0558 S32: -0.1355 S33: -0.0132 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 : B 1 B 163 REMARK 3 ORIGIN FOR THE GROUP (A): 42.3352 -19.2216 8.0853 REMARK 3 T TENSOR REMARK 3 T11: 0.0840 T22: 0.1609 REMARK 3 T33: 0.0686 T12: -0.0205 REMARK 3 T13: 0.0343 T23: 0.0489 REMARK 3 L TENSOR REMARK 3 L11: 2.3528 L22: 2.4806 REMARK 3 L33: 3.1358 L12: -1.2972 REMARK 3 L13: 0.6558 L23: -0.3260 REMARK 3 S TENSOR REMARK 3 S11: 0.0560 S12: 0.3473 S13: 0.0365 REMARK 3 S21: -0.1755 S22: -0.0221 S23: 0.1024 REMARK 3 S31: -0.0233 S32: -0.0813 S33: -0.0339 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 : C 1 C 163 REMARK 3 ORIGIN FOR THE GROUP (A): 35.2077 -51.0459 12.5923 REMARK 3 T TENSOR REMARK 3 T11: 0.3303 T22: 0.0367 REMARK 3 T33: 0.1235 T12: 0.0165 REMARK 3 T13: -0.1128 T23: -0.0055 REMARK 3 L TENSOR REMARK 3 L11: 2.4594 L22: 2.0172 REMARK 3 L33: 3.8207 L12: 0.3184 REMARK 3 L13: -0.6173 L23: -0.0894 REMARK 3 S TENSOR REMARK 3 S11: 0.1238 S12: 0.2642 S13: 0.0764 REMARK 3 S21: -0.5120 S22: 0.1013 S23: 0.2126 REMARK 3 S31: 0.0904 S32: -0.0914 S33: -0.2251 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 5Z1M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1300006312. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JUL-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.96600 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41511 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.870 REMARK 200 RESOLUTION RANGE LOW (A) : 41.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : 0.04100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.87 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.90 REMARK 200 R MERGE FOR SHELL (I) : 0.80000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 5H7X REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES NA PH 7.5, 1.0M NA CITRATE REMARK 280 TRIBASIC DIHYDRATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z 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 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 54.63000 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 54.63000 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 38.12500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 59.41000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 38.12500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 59.41000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 54.63000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 38.12500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 59.41000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 54.63000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 38.12500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 59.41000 REMARK 290 SMTRY3 8 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 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 408 LIES ON A SPECIAL POSITION. 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 394 O HOH C 320 2.00 REMARK 500 O HOH A 301 O HOH A 368 2.12 REMARK 500 O HOH C 337 O HOH C 339 2.14 REMARK 500 O HOH A 337 O HOH A 374 2.16 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 A 50 CD GLU A 50 OE2 0.097 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 LEU A 74 CB - CG - CD1 ANGL. DEV. = 10.8 DEGREES REMARK 500 LEU A 74 CB - CG - CD2 ANGL. DEV. = -12.4 DEGREES REMARK 500 MET A 106 CG - SD - CE ANGL. DEV. = 15.8 DEGREES REMARK 500 ARG A 134 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ASP B 21 CB - CG - OD2 ANGL. DEV. = -7.5 DEGREES REMARK 500 ARG B 89 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ASP B 111 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG B 134 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 134 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 LEU C 55 CB - CG - CD1 ANGL. DEV. = -11.0 DEGREES REMARK 500 ARG C 92 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 MET C 106 CG - SD - CE ANGL. DEV. = -15.8 DEGREES REMARK 500 ARG C 134 NE - CZ - NH1 ANGL. DEV. = 4.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LYS A 43 74.01 41.24 REMARK 500 LYS B 3 128.80 109.08 REMARK 500 ASP B 13 68.68 -119.82 REMARK 500 LYS B 43 76.61 39.68 REMARK 500 ASP B 72 -52.61 -121.38 REMARK 500 LYS C 43 75.98 38.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 HIS A 42 LYS A 43 -137.54 REMARK 500 HIS B 42 LYS B 43 -137.20 REMARK 500 HIS C 42 LYS C 43 -137.60 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 A 409 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH A 410 DISTANCE = 6.50 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CIT A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CIT B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CIT C 201 DBREF1 5Z1M A 1 163 UNP A0A059ZFC5_ACIBA DBREF2 5Z1M A A0A059ZFC5 1 163 DBREF1 5Z1M B 1 163 UNP A0A059ZFC5_ACIBA DBREF2 5Z1M B A0A059ZFC5 1 163 DBREF1 5Z1M C 1 163 UNP A0A059ZFC5_ACIBA DBREF2 5Z1M C A0A059ZFC5 1 163 SEQRES 1 A 163 MET SER LYS THR ARG VAL ILE TYR PRO GLY THR PHE ASP SEQRES 2 A 163 PRO ILE THR ASN GLY HIS VAL ASP LEU VAL THR ARG ALA SEQRES 3 A 163 SER ARG MET PHE ASP GLU VAL VAL VAL ALA ILE ALA ILE SEQRES 4 A 163 GLY HIS HIS LYS ASN PRO LEU PHE SER LEU GLU GLU ARG SEQRES 5 A 163 VAL ALA LEU ALA GLN SER SER LEU GLY HIS LEU SER ASN SEQRES 6 A 163 VAL GLU PHE VAL GLY PHE ASP GLY LEU LEU VAL ASN PHE SEQRES 7 A 163 PHE LYS GLU GLN LYS ALA THR ALA VAL LEU ARG GLY LEU SEQRES 8 A 163 ARG ALA VAL SER ASP PHE GLU TYR GLU PHE GLN LEU ALA SEQRES 9 A 163 ASN MET ASN ARG GLN LEU ASP PRO HIS PHE GLU ALA VAL SEQRES 10 A 163 PHE LEU THR PRO SER GLU GLN TYR SER PHE ILE SER SER SEQRES 11 A 163 THR LEU ILE ARG GLU ILE ALA ARG LEU LYS GLY ASP VAL SEQRES 12 A 163 THR LYS PHE VAL PRO GLN ALA VAL VAL GLU ALA PHE GLU SEQRES 13 A 163 ARG LYS HIS GLN GLN GLY TRP SEQRES 1 B 163 MET SER LYS THR ARG VAL ILE TYR PRO GLY THR PHE ASP SEQRES 2 B 163 PRO ILE THR ASN GLY HIS VAL ASP LEU VAL THR ARG ALA SEQRES 3 B 163 SER ARG MET PHE ASP GLU VAL VAL VAL ALA ILE ALA ILE SEQRES 4 B 163 GLY HIS HIS LYS ASN PRO LEU PHE SER LEU GLU GLU ARG SEQRES 5 B 163 VAL ALA LEU ALA GLN SER SER LEU GLY HIS LEU SER ASN SEQRES 6 B 163 VAL GLU PHE VAL GLY PHE ASP GLY LEU LEU VAL ASN PHE SEQRES 7 B 163 PHE LYS GLU GLN LYS ALA THR ALA VAL LEU ARG GLY LEU SEQRES 8 B 163 ARG ALA VAL SER ASP PHE GLU TYR GLU PHE GLN LEU ALA SEQRES 9 B 163 ASN MET ASN ARG GLN LEU ASP PRO HIS PHE GLU ALA VAL SEQRES 10 B 163 PHE LEU THR PRO SER GLU GLN TYR SER PHE ILE SER SER SEQRES 11 B 163 THR LEU ILE ARG GLU ILE ALA ARG LEU LYS GLY ASP VAL SEQRES 12 B 163 THR LYS PHE VAL PRO GLN ALA VAL VAL GLU ALA PHE GLU SEQRES 13 B 163 ARG LYS HIS GLN GLN GLY TRP SEQRES 1 C 163 MET SER LYS THR ARG VAL ILE TYR PRO GLY THR PHE ASP SEQRES 2 C 163 PRO ILE THR ASN GLY HIS VAL ASP LEU VAL THR ARG ALA SEQRES 3 C 163 SER ARG MET PHE ASP GLU VAL VAL VAL ALA ILE ALA ILE SEQRES 4 C 163 GLY HIS HIS LYS ASN PRO LEU PHE SER LEU GLU GLU ARG SEQRES 5 C 163 VAL ALA LEU ALA GLN SER SER LEU GLY HIS LEU SER ASN SEQRES 6 C 163 VAL GLU PHE VAL GLY PHE ASP GLY LEU LEU VAL ASN PHE SEQRES 7 C 163 PHE LYS GLU GLN LYS ALA THR ALA VAL LEU ARG GLY LEU SEQRES 8 C 163 ARG ALA VAL SER ASP PHE GLU TYR GLU PHE GLN LEU ALA SEQRES 9 C 163 ASN MET ASN ARG GLN LEU ASP PRO HIS PHE GLU ALA VAL SEQRES 10 C 163 PHE LEU THR PRO SER GLU GLN TYR SER PHE ILE SER SER SEQRES 11 C 163 THR LEU ILE ARG GLU ILE ALA ARG LEU LYS GLY ASP VAL SEQRES 12 C 163 THR LYS PHE VAL PRO GLN ALA VAL VAL GLU ALA PHE GLU SEQRES 13 C 163 ARG LYS HIS GLN GLN GLY TRP HET CIT A 201 13 HET CIT B 201 13 HET CIT C 201 13 HETNAM CIT CITRIC ACID FORMUL 4 CIT 3(C6 H8 O7) FORMUL 7 HOH *202(H2 O) HELIX 1 AA1 THR A 16 PHE A 30 1 15 HELIX 2 AA2 SER A 48 GLY A 61 1 14 HELIX 3 AA3 LEU A 74 GLN A 82 1 9 HELIX 4 AA4 ALA A 93 ASP A 111 1 19 HELIX 5 AA5 SER A 122 SER A 126 5 5 HELIX 6 AA6 SER A 129 LEU A 139 1 11 HELIX 7 AA7 PRO A 148 GLN A 161 1 14 HELIX 8 AA8 THR B 16 PHE B 30 1 15 HELIX 9 AA9 SER B 48 GLY B 61 1 14 HELIX 10 AB1 LEU B 74 GLN B 82 1 9 HELIX 11 AB2 ALA B 93 ASP B 111 1 19 HELIX 12 AB3 SER B 122 SER B 126 5 5 HELIX 13 AB4 SER B 129 LEU B 139 1 11 HELIX 14 AB5 PRO B 148 GLN B 161 1 14 HELIX 15 AB6 THR C 16 PHE C 30 1 15 HELIX 16 AB7 SER C 48 GLY C 61 1 14 HELIX 17 AB8 LEU C 74 GLN C 82 1 9 HELIX 18 AB9 ALA C 93 ASP C 111 1 19 HELIX 19 AC1 SER C 122 SER C 126 5 5 HELIX 20 AC2 SER C 129 LEU C 139 1 11 HELIX 21 AC3 PRO C 148 GLN C 161 1 14 SHEET 1 AA1 5 VAL A 66 PHE A 71 0 SHEET 2 AA1 5 GLU A 32 ALA A 38 1 N VAL A 35 O GLU A 67 SHEET 3 AA1 5 ARG A 5 GLY A 10 1 N TYR A 8 O VAL A 34 SHEET 4 AA1 5 ALA A 86 GLY A 90 1 O LEU A 88 N ILE A 7 SHEET 5 AA1 5 ALA A 116 LEU A 119 1 O VAL A 117 N VAL A 87 SHEET 1 AA2 5 VAL B 66 PHE B 71 0 SHEET 2 AA2 5 GLU B 32 ALA B 38 1 N VAL B 35 O GLU B 67 SHEET 3 AA2 5 ARG B 5 GLY B 10 1 N TYR B 8 O VAL B 34 SHEET 4 AA2 5 ALA B 86 GLY B 90 1 O LEU B 88 N ILE B 7 SHEET 5 AA2 5 ALA B 116 LEU B 119 1 O VAL B 117 N VAL B 87 SHEET 1 AA3 5 VAL C 66 PHE C 71 0 SHEET 2 AA3 5 GLU C 32 ALA C 38 1 N VAL C 35 O GLU C 67 SHEET 3 AA3 5 ARG C 5 GLY C 10 1 N TYR C 8 O VAL C 34 SHEET 4 AA3 5 ALA C 86 GLY C 90 1 O LEU C 88 N ILE C 7 SHEET 5 AA3 5 ALA C 116 LEU C 119 1 O VAL C 117 N VAL C 87 CISPEP 1 ASP A 13 PRO A 14 0 3.30 CISPEP 2 ASP B 13 PRO B 14 0 1.23 CISPEP 3 ASP C 13 PRO C 14 0 1.38 SITE 1 AC1 11 GLY A 10 THR A 11 PHE A 12 HIS A 19 SITE 2 AC1 11 SER A 129 SER A 130 THR A 131 HOH A 309 SITE 3 AC1 11 HOH A 322 HOH A 344 HOH A 376 SITE 1 AC2 9 GLY B 10 THR B 11 PHE B 12 HIS B 19 SITE 2 AC2 9 SER B 129 SER B 130 THR B 131 HOH B 301 SITE 3 AC2 9 HOH B 305 SITE 1 AC3 9 GLY C 10 THR C 11 PHE C 12 HIS C 19 SITE 2 AC3 9 SER C 129 SER C 130 THR C 131 HOH C 304 SITE 3 AC3 9 HOH C 325 CRYST1 76.250 118.820 109.260 90.00 90.00 90.00 C 2 2 21 24 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 0.013115 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008416 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009152 0.00000