HEADER TRANSFERASE 04-FEB-23 8I8M OBSLTE 05-JUN-24 8I8M 8ZN2 TITLE CRYSTAL STRUCTURE OF THE TERNARY COMPLEX OF PHOSPHOPANTETHEINE TITLE 2 ADENYLYLTRANSFERASE (PPAT) FROM ENTEROBACTER SP. WITH COENZYME-A AND TITLE 3 PHOSPHONOACETIC ACID AT 2.65 A RESOLUTION. COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOPANTETHEINE ADENYLYLTRANSFERASE; COMPND 3 CHAIN: A, B, C, D, E, F; 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: ENTEROBACTER SP. 638; SOURCE 3 ORGANISM_TAXID: 399742; SOURCE 4 GENE: COAD, ENT638_0105; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS COAD, PPAT, TRANSFERASE, COENZYME A BIOSYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR N.AHMAD,P.SHARMA,S.SHARMA,T.P.SINGH REVDAT 3 05-JUN-24 8I8M 1 OBSLTE REVDAT 2 29-MAY-24 8I8M 1 REMARK REVDAT 1 12-APR-23 8I8M 0 JRNL AUTH N.AHMAD,P.SHARMA,S.SHARMA,T.P.SINGH JRNL TITL CRYSTAL STRUCTURE OF THE TERNARY COMPLEX OF JRNL TITL 2 PHOSPHOPANTETHEINE ADENYLYLTRANSFERASE (PPAT) FROM JRNL TITL 3 ENTEROBACTER SP. WITH COENZYME-A AND PHOSPHONOACETIC ACID AT JRNL TITL 4 2.65 A RESOLUTION. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0403 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.64 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 31523 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.869 REMARK 3 FREE R VALUE TEST SET COUNT : 1535 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) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2232 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.19 REMARK 3 BIN R VALUE (WORKING SET) : 0.2560 REMARK 3 BIN FREE R VALUE SET COUNT : 113 REMARK 3 BIN FREE R VALUE : 0.3210 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7547 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 160 REMARK 3 SOLVENT ATOMS : 438 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 38.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00400 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.321 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7864 ; 0.007 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 7558 ; 0.002 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10648 ; 1.405 ; 1.650 REMARK 3 BOND ANGLES OTHERS (DEGREES): 17385 ; 0.740 ; 1.570 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 959 ; 6.837 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 54 ; 9.564 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1355 ;14.673 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1218 ; 0.059 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8979 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1743 ; 0.006 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1776 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 175 ; 0.254 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3883 ; 0.179 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 417 ; 0.198 ; 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): 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): 3854 ; 4.383 ; 4.432 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3854 ; 4.382 ; 4.431 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4807 ; 6.923 ; 7.945 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 4808 ; 6.922 ; 7.946 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 4010 ; 5.120 ; 4.999 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 4009 ; 5.120 ; 5.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 5841 ; 8.046 ; 8.956 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 5842 ; 8.046 ; 8.956 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 8I8M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-FEB-23. REMARK 100 THE DEPOSITION ID IS D_1300035133. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-SEP-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8731 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31523 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 42.680 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 2.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.72 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BIS-TRIS PROPANE PH 7.0, SODIUM REMARK 280 CITRATE TRIBASIC DIHYDRATE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 68.96450 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.32150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 68.96450 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 39.32150 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 2670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 REMARK 350 BIOMOLECULE: 3 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: 4300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F 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 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 GLY A -6 REMARK 465 LEU A -5 REMARK 465 VAL A -4 REMARK 465 ALA A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 GLY C -6 REMARK 465 LEU C -5 REMARK 465 VAL C -4 REMARK 465 ALA C -3 REMARK 465 ARG C -2 REMARK 465 GLY C -1 REMARK 465 SER C 0 REMARK 465 GLY D -6 REMARK 465 LEU D -5 REMARK 465 VAL D -4 REMARK 465 ALA D -3 REMARK 465 ARG D -2 REMARK 465 GLY D -1 REMARK 465 SER D 0 REMARK 465 GLY E -6 REMARK 465 LEU E -5 REMARK 465 VAL E -4 REMARK 465 ALA E -3 REMARK 465 ARG E -2 REMARK 465 GLY E -1 REMARK 465 SER E 0 REMARK 465 GLY F -6 REMARK 465 LEU F -5 REMARK 465 VAL F -4 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 VAL B -4 O HOH B 301 2.07 REMARK 500 O HOH E 329 O HOH E 362 2.12 REMARK 500 O ALA C 94 O HOH C 301 2.18 REMARK 500 OD1 ASP E 72 O HOH E 301 2.18 REMARK 500 OD1 ASP A 72 O HOH A 301 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 51 NE - CZ - NH2 ANGL. DEV. = 3.1 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 SER A 39 65.61 -118.72 REMARK 500 ALA B 139 8.91 80.34 REMARK 500 MET C 110 85.82 -164.48 REMARK 500 ALA C 139 -149.55 54.99 REMARK 500 ASP D 12 75.04 -117.67 REMARK 500 ALA D 75 -3.28 81.54 REMARK 500 MET D 110 74.10 -161.43 REMARK 500 SER E 39 64.93 -119.47 REMARK 500 MET E 110 84.35 -158.36 REMARK 500 HIS E 138 58.21 -108.82 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 SER D 2 THR D 3 149.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG C 88 0.08 SIDE CHAIN REMARK 500 ARG C 137 0.10 SIDE CHAIN REMARK 500 ARG E 107 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 8I8M A 1 159 UNP A4W515 COAD_ENT38 1 159 DBREF 8I8M B 1 159 UNP A4W515 COAD_ENT38 1 159 DBREF 8I8M C 1 159 UNP A4W515 COAD_ENT38 1 159 DBREF 8I8M D 1 159 UNP A4W515 COAD_ENT38 1 159 DBREF 8I8M E 1 159 UNP A4W515 COAD_ENT38 1 159 DBREF 8I8M F 1 159 UNP A4W515 COAD_ENT38 1 159 SEQADV 8I8M GLY A -6 UNP A4W515 EXPRESSION TAG SEQADV 8I8M LEU A -5 UNP A4W515 EXPRESSION TAG SEQADV 8I8M VAL A -4 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ALA A -3 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ARG A -2 UNP A4W515 EXPRESSION TAG SEQADV 8I8M GLY A -1 UNP A4W515 EXPRESSION TAG SEQADV 8I8M SER A 0 UNP A4W515 EXPRESSION TAG SEQADV 8I8M GLY B -6 UNP A4W515 EXPRESSION TAG SEQADV 8I8M LEU B -5 UNP A4W515 EXPRESSION TAG SEQADV 8I8M VAL B -4 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ALA B -3 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ARG B -2 UNP A4W515 EXPRESSION TAG SEQADV 8I8M GLY B -1 UNP A4W515 EXPRESSION TAG SEQADV 8I8M SER B 0 UNP A4W515 EXPRESSION TAG SEQADV 8I8M GLY C -6 UNP A4W515 EXPRESSION TAG SEQADV 8I8M LEU C -5 UNP A4W515 EXPRESSION TAG SEQADV 8I8M VAL C -4 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ALA C -3 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ARG C -2 UNP A4W515 EXPRESSION TAG SEQADV 8I8M GLY C -1 UNP A4W515 EXPRESSION TAG SEQADV 8I8M SER C 0 UNP A4W515 EXPRESSION TAG SEQADV 8I8M GLY D -6 UNP A4W515 EXPRESSION TAG SEQADV 8I8M LEU D -5 UNP A4W515 EXPRESSION TAG SEQADV 8I8M VAL D -4 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ALA D -3 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ARG D -2 UNP A4W515 EXPRESSION TAG SEQADV 8I8M GLY D -1 UNP A4W515 EXPRESSION TAG SEQADV 8I8M SER D 0 UNP A4W515 EXPRESSION TAG SEQADV 8I8M GLY E -6 UNP A4W515 EXPRESSION TAG SEQADV 8I8M LEU E -5 UNP A4W515 EXPRESSION TAG SEQADV 8I8M VAL E -4 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ALA E -3 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ARG E -2 UNP A4W515 EXPRESSION TAG SEQADV 8I8M GLY E -1 UNP A4W515 EXPRESSION TAG SEQADV 8I8M SER E 0 UNP A4W515 EXPRESSION TAG SEQADV 8I8M GLY F -6 UNP A4W515 EXPRESSION TAG SEQADV 8I8M LEU F -5 UNP A4W515 EXPRESSION TAG SEQADV 8I8M VAL F -4 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ALA F -3 UNP A4W515 EXPRESSION TAG SEQADV 8I8M ARG F -2 UNP A4W515 EXPRESSION TAG SEQADV 8I8M GLY F -1 UNP A4W515 EXPRESSION TAG SEQADV 8I8M SER F 0 UNP A4W515 EXPRESSION TAG SEQRES 1 A 166 GLY LEU VAL ALA ARG GLY SER MET SER THR LYS ALA ILE SEQRES 2 A 166 TYR PRO GLY THR PHE ASP PRO ILE THR ASN GLY HIS ILE SEQRES 3 A 166 ASP ILE ILE THR ARG ALA ALA SER MET PHE ASP ARG VAL SEQRES 4 A 166 ILE LEU ALA ILE ALA ALA SER PRO SER LYS LYS PRO MET SEQRES 5 A 166 PHE ASP LEU GLU GLU ARG VAL ALA LEU ALA THR THR ALA SEQRES 6 A 166 LEU GLN HIS LEU PRO ASN VAL GLU VAL MET GLY PHE SER SEQRES 7 A 166 ASP LEU MET ALA ASN PHE ALA ARG ALA GLN GLN ALA ASN SEQRES 8 A 166 ILE LEU ILE ARG GLY LEU ARG ALA VAL ALA ASP PHE GLU SEQRES 9 A 166 TYR GLU MET GLN LEU ALA HIS MET ASN ARG HIS LEU MET SEQRES 10 A 166 PRO GLU LEU GLU SER VAL PHE LEU MET PRO SER LYS GLU SEQRES 11 A 166 TRP SER PHE ILE SER SER SER LEU VAL LYS GLU VAL ALA SEQRES 12 A 166 ARG HIS ALA GLY ASP VAL THR HIS PHE LEU PRO ALA ASN SEQRES 13 A 166 VAL HIS GLN ALA LEU MET GLU LYS LEU LYS SEQRES 1 B 166 GLY LEU VAL ALA ARG GLY SER MET SER THR LYS ALA ILE SEQRES 2 B 166 TYR PRO GLY THR PHE ASP PRO ILE THR ASN GLY HIS ILE SEQRES 3 B 166 ASP ILE ILE THR ARG ALA ALA SER MET PHE ASP ARG VAL SEQRES 4 B 166 ILE LEU ALA ILE ALA ALA SER PRO SER LYS LYS PRO MET SEQRES 5 B 166 PHE ASP LEU GLU GLU ARG VAL ALA LEU ALA THR THR ALA SEQRES 6 B 166 LEU GLN HIS LEU PRO ASN VAL GLU VAL MET GLY PHE SER SEQRES 7 B 166 ASP LEU MET ALA ASN PHE ALA ARG ALA GLN GLN ALA ASN SEQRES 8 B 166 ILE LEU ILE ARG GLY LEU ARG ALA VAL ALA ASP PHE GLU SEQRES 9 B 166 TYR GLU MET GLN LEU ALA HIS MET ASN ARG HIS LEU MET SEQRES 10 B 166 PRO GLU LEU GLU SER VAL PHE LEU MET PRO SER LYS GLU SEQRES 11 B 166 TRP SER PHE ILE SER SER SER LEU VAL LYS GLU VAL ALA SEQRES 12 B 166 ARG HIS ALA GLY ASP VAL THR HIS PHE LEU PRO ALA ASN SEQRES 13 B 166 VAL HIS GLN ALA LEU MET GLU LYS LEU LYS SEQRES 1 C 166 GLY LEU VAL ALA ARG GLY SER MET SER THR LYS ALA ILE SEQRES 2 C 166 TYR PRO GLY THR PHE ASP PRO ILE THR ASN GLY HIS ILE SEQRES 3 C 166 ASP ILE ILE THR ARG ALA ALA SER MET PHE ASP ARG VAL SEQRES 4 C 166 ILE LEU ALA ILE ALA ALA SER PRO SER LYS LYS PRO MET SEQRES 5 C 166 PHE ASP LEU GLU GLU ARG VAL ALA LEU ALA THR THR ALA SEQRES 6 C 166 LEU GLN HIS LEU PRO ASN VAL GLU VAL MET GLY PHE SER SEQRES 7 C 166 ASP LEU MET ALA ASN PHE ALA ARG ALA GLN GLN ALA ASN SEQRES 8 C 166 ILE LEU ILE ARG GLY LEU ARG ALA VAL ALA ASP PHE GLU SEQRES 9 C 166 TYR GLU MET GLN LEU ALA HIS MET ASN ARG HIS LEU MET SEQRES 10 C 166 PRO GLU LEU GLU SER VAL PHE LEU MET PRO SER LYS GLU SEQRES 11 C 166 TRP SER PHE ILE SER SER SER LEU VAL LYS GLU VAL ALA SEQRES 12 C 166 ARG HIS ALA GLY ASP VAL THR HIS PHE LEU PRO ALA ASN SEQRES 13 C 166 VAL HIS GLN ALA LEU MET GLU LYS LEU LYS SEQRES 1 D 166 GLY LEU VAL ALA ARG GLY SER MET SER THR LYS ALA ILE SEQRES 2 D 166 TYR PRO GLY THR PHE ASP PRO ILE THR ASN GLY HIS ILE SEQRES 3 D 166 ASP ILE ILE THR ARG ALA ALA SER MET PHE ASP ARG VAL SEQRES 4 D 166 ILE LEU ALA ILE ALA ALA SER PRO SER LYS LYS PRO MET SEQRES 5 D 166 PHE ASP LEU GLU GLU ARG VAL ALA LEU ALA THR THR ALA SEQRES 6 D 166 LEU GLN HIS LEU PRO ASN VAL GLU VAL MET GLY PHE SER SEQRES 7 D 166 ASP LEU MET ALA ASN PHE ALA ARG ALA GLN GLN ALA ASN SEQRES 8 D 166 ILE LEU ILE ARG GLY LEU ARG ALA VAL ALA ASP PHE GLU SEQRES 9 D 166 TYR GLU MET GLN LEU ALA HIS MET ASN ARG HIS LEU MET SEQRES 10 D 166 PRO GLU LEU GLU SER VAL PHE LEU MET PRO SER LYS GLU SEQRES 11 D 166 TRP SER PHE ILE SER SER SER LEU VAL LYS GLU VAL ALA SEQRES 12 D 166 ARG HIS ALA GLY ASP VAL THR HIS PHE LEU PRO ALA ASN SEQRES 13 D 166 VAL HIS GLN ALA LEU MET GLU LYS LEU LYS SEQRES 1 E 166 GLY LEU VAL ALA ARG GLY SER MET SER THR LYS ALA ILE SEQRES 2 E 166 TYR PRO GLY THR PHE ASP PRO ILE THR ASN GLY HIS ILE SEQRES 3 E 166 ASP ILE ILE THR ARG ALA ALA SER MET PHE ASP ARG VAL SEQRES 4 E 166 ILE LEU ALA ILE ALA ALA SER PRO SER LYS LYS PRO MET SEQRES 5 E 166 PHE ASP LEU GLU GLU ARG VAL ALA LEU ALA THR THR ALA SEQRES 6 E 166 LEU GLN HIS LEU PRO ASN VAL GLU VAL MET GLY PHE SER SEQRES 7 E 166 ASP LEU MET ALA ASN PHE ALA ARG ALA GLN GLN ALA ASN SEQRES 8 E 166 ILE LEU ILE ARG GLY LEU ARG ALA VAL ALA ASP PHE GLU SEQRES 9 E 166 TYR GLU MET GLN LEU ALA HIS MET ASN ARG HIS LEU MET SEQRES 10 E 166 PRO GLU LEU GLU SER VAL PHE LEU MET PRO SER LYS GLU SEQRES 11 E 166 TRP SER PHE ILE SER SER SER LEU VAL LYS GLU VAL ALA SEQRES 12 E 166 ARG HIS ALA GLY ASP VAL THR HIS PHE LEU PRO ALA ASN SEQRES 13 E 166 VAL HIS GLN ALA LEU MET GLU LYS LEU LYS SEQRES 1 F 166 GLY LEU VAL ALA ARG GLY SER MET SER THR LYS ALA ILE SEQRES 2 F 166 TYR PRO GLY THR PHE ASP PRO ILE THR ASN GLY HIS ILE SEQRES 3 F 166 ASP ILE ILE THR ARG ALA ALA SER MET PHE ASP ARG VAL SEQRES 4 F 166 ILE LEU ALA ILE ALA ALA SER PRO SER LYS LYS PRO MET SEQRES 5 F 166 PHE ASP LEU GLU GLU ARG VAL ALA LEU ALA THR THR ALA SEQRES 6 F 166 LEU GLN HIS LEU PRO ASN VAL GLU VAL MET GLY PHE SER SEQRES 7 F 166 ASP LEU MET ALA ASN PHE ALA ARG ALA GLN GLN ALA ASN SEQRES 8 F 166 ILE LEU ILE ARG GLY LEU ARG ALA VAL ALA ASP PHE GLU SEQRES 9 F 166 TYR GLU MET GLN LEU ALA HIS MET ASN ARG HIS LEU MET SEQRES 10 F 166 PRO GLU LEU GLU SER VAL PHE LEU MET PRO SER LYS GLU SEQRES 11 F 166 TRP SER PHE ILE SER SER SER LEU VAL LYS GLU VAL ALA SEQRES 12 F 166 ARG HIS ALA GLY ASP VAL THR HIS PHE LEU PRO ALA ASN SEQRES 13 F 166 VAL HIS GLN ALA LEU MET GLU LYS LEU LYS HET COA A 201 48 HET PAE A 202 8 HET EDO B 201 4 HET GOL B 202 6 HET PAE B 203 8 HET PAE C 201 8 HET PAE D 201 8 HET PAE E 201 8 HET COA E 202 48 HET GOL F 201 6 HET PAE F 202 8 HETNAM COA COENZYME A HETNAM PAE PHOSPHONOACETIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM GOL GLYCEROL HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 7 COA 2(C21 H36 N7 O16 P3 S) FORMUL 8 PAE 6(C2 H5 O5 P) FORMUL 9 EDO C2 H6 O2 FORMUL 10 GOL 2(C3 H8 O3) FORMUL 18 HOH *438(H2 O) HELIX 1 AA1 THR A 15 SER A 27 1 13 HELIX 2 AA2 ASP A 47 LEU A 59 1 13 HELIX 3 AA3 LEU A 73 GLN A 82 1 10 HELIX 4 AA4 ALA A 92 MET A 110 1 19 HELIX 5 AA5 SER A 121 SER A 125 5 5 HELIX 6 AA6 SER A 128 HIS A 138 1 11 HELIX 7 AA7 PRO A 147 LYS A 159 1 13 HELIX 8 AA8 THR B 15 PHE B 29 1 15 HELIX 9 AA9 ASP B 47 LEU B 59 1 13 HELIX 10 AB1 LEU B 73 GLN B 81 1 9 HELIX 11 AB2 ALA B 92 ALA B 94 5 3 HELIX 12 AB3 ASP B 95 MET B 110 1 16 HELIX 13 AB4 SER B 121 SER B 125 5 5 HELIX 14 AB5 SER B 128 HIS B 138 1 11 HELIX 15 AB6 PRO B 147 LEU B 158 1 12 HELIX 16 AB7 THR C 15 SER C 27 1 13 HELIX 17 AB8 ASP C 47 GLN C 60 1 14 HELIX 18 AB9 LEU C 73 GLN C 81 1 9 HELIX 19 AC1 ALA C 92 MET C 110 1 19 HELIX 20 AC2 SER C 128 HIS C 138 1 11 HELIX 21 AC3 PRO C 147 LYS C 157 1 11 HELIX 22 AC4 THR D 15 ALA D 26 1 12 HELIX 23 AC5 ASP D 47 GLN D 60 1 14 HELIX 24 AC6 ASN D 76 GLN D 81 1 6 HELIX 25 AC7 ALA D 92 ALA D 94 5 3 HELIX 26 AC8 ASP D 95 MET D 110 1 16 HELIX 27 AC9 SER D 121 SER D 125 5 5 HELIX 28 AD1 SER D 128 HIS D 138 1 11 HELIX 29 AD2 VAL D 142 LEU D 146 5 5 HELIX 30 AD3 PRO D 147 LEU D 158 1 12 HELIX 31 AD4 THR E 15 PHE E 29 1 15 HELIX 32 AD5 ASP E 47 LEU E 59 1 13 HELIX 33 AD6 LEU E 73 GLN E 81 1 9 HELIX 34 AD7 VAL E 93 MET E 110 1 18 HELIX 35 AD8 SER E 121 SER E 125 5 5 HELIX 36 AD9 SER E 128 HIS E 138 1 11 HELIX 37 AE1 PRO E 147 LYS E 159 1 13 HELIX 38 AE2 THR F 15 SER F 27 1 13 HELIX 39 AE3 ASP F 47 LEU F 59 1 13 HELIX 40 AE4 LEU F 73 GLN F 81 1 9 HELIX 41 AE5 ALA F 92 ALA F 94 5 3 HELIX 42 AE6 ASP F 95 MET F 110 1 16 HELIX 43 AE7 SER F 121 SER F 125 5 5 HELIX 44 AE8 SER F 128 HIS F 138 1 11 HELIX 45 AE9 PRO F 147 LYS F 159 1 13 SHEET 1 AA1 5 VAL A 65 PHE A 70 0 SHEET 2 AA1 5 ARG A 31 ALA A 37 1 N ILE A 36 O MET A 68 SHEET 3 AA1 5 LYS A 4 GLY A 9 1 N TYR A 7 O ILE A 33 SHEET 4 AA1 5 ILE A 85 GLY A 89 1 O ILE A 87 N ILE A 6 SHEET 5 AA1 5 GLU A 114 LEU A 118 1 O VAL A 116 N LEU A 86 SHEET 1 AA2 5 VAL B 65 PHE B 70 0 SHEET 2 AA2 5 ARG B 31 ALA B 37 1 N ILE B 36 O MET B 68 SHEET 3 AA2 5 LYS B 4 GLY B 9 1 N TYR B 7 O ILE B 33 SHEET 4 AA2 5 ILE B 85 GLY B 89 1 O ILE B 87 N ILE B 6 SHEET 5 AA2 5 GLU B 114 LEU B 118 1 O GLU B 114 N LEU B 86 SHEET 1 AA3 5 VAL C 65 PHE C 70 0 SHEET 2 AA3 5 ARG C 31 ALA C 37 1 N ILE C 36 O MET C 68 SHEET 3 AA3 5 LYS C 4 GLY C 9 1 N TYR C 7 O ILE C 33 SHEET 4 AA3 5 ILE C 85 GLY C 89 1 O ILE C 87 N ILE C 6 SHEET 5 AA3 5 GLU C 114 LEU C 118 1 O VAL C 116 N ARG C 88 SHEET 1 AA4 5 VAL D 65 PHE D 70 0 SHEET 2 AA4 5 ARG D 31 ALA D 37 1 N LEU D 34 O GLU D 66 SHEET 3 AA4 5 LYS D 4 GLY D 9 1 N ALA D 5 O ILE D 33 SHEET 4 AA4 5 ILE D 85 GLY D 89 1 O ILE D 87 N ILE D 6 SHEET 5 AA4 5 GLU D 114 LEU D 118 1 O VAL D 116 N LEU D 86 SHEET 1 AA5 5 VAL E 65 PHE E 70 0 SHEET 2 AA5 5 ARG E 31 ALA E 37 1 N ILE E 36 O MET E 68 SHEET 3 AA5 5 LYS E 4 GLY E 9 1 N TYR E 7 O ILE E 33 SHEET 4 AA5 5 ILE E 85 GLY E 89 1 O ILE E 87 N ILE E 6 SHEET 5 AA5 5 GLU E 114 LEU E 118 1 O GLU E 114 N LEU E 86 SHEET 1 AA6 5 VAL F 65 PHE F 70 0 SHEET 2 AA6 5 ARG F 31 ALA F 37 1 N LEU F 34 O GLU F 66 SHEET 3 AA6 5 LYS F 4 GLY F 9 1 N ALA F 5 O ARG F 31 SHEET 4 AA6 5 ILE F 85 GLY F 89 1 O ILE F 87 N ILE F 6 SHEET 5 AA6 5 GLU F 114 LEU F 118 1 O VAL F 116 N LEU F 86 CISPEP 1 ASP A 12 PRO A 13 0 -6.03 CISPEP 2 ASP B 12 PRO B 13 0 -6.70 CISPEP 3 ASP C 12 PRO C 13 0 -0.41 CISPEP 4 ASP D 12 PRO D 13 0 -5.41 CISPEP 5 ASP E 12 PRO E 13 0 -3.86 CISPEP 6 ASP F 12 PRO F 13 0 -6.11 CRYST1 137.929 78.643 107.005 90.00 93.12 90.00 C 1 2 1 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 0.007250 0.000000 0.000395 0.00000 SCALE2 0.000000 0.012716 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009359 0.00000