HEADER LYASE 23-AUG-16 5T26 TITLE KINETIC, SPECTRAL AND STRUCTURAL CHARACTERIZATION OF THE SLOW BINDING TITLE 2 INHIBITOR ACETOPYRUVATE WITH DIHYDRODIPICOLINATE SYNTHASE FROM TITLE 3 ESCHERICHIA COLI. COMPND MOL_ID: 1; COMPND 2 MOLECULE: 4-HYDROXY-TETRAHYDRODIPICOLINATE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: HTPA SYNTHASE; COMPND 5 EC: 4.3.3.7; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI O8 (STRAIN IAI1); SOURCE 3 ORGANISM_TAXID: 585034; SOURCE 4 STRAIN: IAI1; SOURCE 5 GENE: DAPA, ECIAI1_2529; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DIHYDRODIPICOLINATE SYNTHASE, KINETICS, ACETOPYRUVATE MODIFICATION, KEYWDS 2 LYASE EXPDTA X-RAY DIFFRACTION AUTHOR L.CHOOBACK,L.M.THOMAS,W.E.KARSTEN,C.D.FLEMING,P.SEABOURN REVDAT 8 15-NOV-23 5T26 1 LINK REVDAT 7 04-OCT-23 5T26 1 LINK REVDAT 6 02-OCT-19 5T26 1 REMARK REVDAT 5 07-AUG-19 5T26 1 REMARK SHEET LINK SITE REVDAT 5 2 1 ATOM REVDAT 4 30-MAY-18 5T26 1 REMARK REVDAT 3 23-AUG-17 5T26 1 REMARK REVDAT 2 17-MAY-17 5T26 1 REMARK HETSYN REVDAT 1 05-OCT-16 5T26 0 JRNL AUTH L.CHOOBACK,L.M.THOMAS,W.E.KARSTEN,C.D.FLEMING,P.SEABOURN JRNL TITL KINETIC, SPECTRAL AND STRUCTURAL CHARACTERIZATION OF THE JRNL TITL 2 SLOW BINDING INHIBITOR ACETOPYRUVATE WITH JRNL TITL 3 DIHYDRODIPICOLINATE SYNTHASE FROM ESCHERICHIA COLI. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0253 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.51 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 35248 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1850 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2526 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.58 REMARK 3 BIN R VALUE (WORKING SET) : 0.2220 REMARK 3 BIN FREE R VALUE SET COUNT : 118 REMARK 3 BIN FREE R VALUE : 0.2620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4421 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 23 REMARK 3 SOLVENT ATOMS : 514 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.05000 REMARK 3 B22 (A**2) : -0.22000 REMARK 3 B33 (A**2) : 0.17000 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): 0.205 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.166 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.113 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.370 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4513 ; 0.010 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4303 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6125 ; 1.695 ; 1.649 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9970 ; 1.442 ; 1.586 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 583 ; 7.155 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 204 ;32.472 ;22.451 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 753 ;14.852 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;21.853 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 628 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5038 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 853 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : NULL 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5T26 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1000223491. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-AUG-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.1 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 MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : MULTILAYER OPTICS REMARK 200 OPTICS : VERIMAXHF REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 200K REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35248 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 81.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 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 <I/SIGMA(I)> 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: PHASER REMARK 200 STARTING MODEL: 1YXC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350 200 MM SODIUM TARTRATE REMARK 280 14.7 MM HEPES PH 7.1, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K 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 68.66250 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 68.66250 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 28.35700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 80.74600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 28.35700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 80.74600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 68.66250 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 28.35700 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 80.74600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 68.66250 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 28.35700 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 80.74600 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 56.71400 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 68.66250 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 B 625 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 HIS A -1 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 HIS A 0 CG ND1 CD2 CE1 NE2 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 B 480 O HOH B 581 2.09 REMARK 500 O HOH A 478 O HOH A 607 2.16 REMARK 500 O HOH A 550 O HOH A 650 2.17 REMARK 500 O HOH A 520 O HOH A 637 2.18 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 74P B 161 C GLU B 162 N 0.250 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 109 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 74P A 161 O - C - N ANGL. DEV. = 14.0 DEGREES REMARK 500 ARG B 109 NE - CZ - NH1 ANGL. DEV. = 3.0 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 TYR A 107 -47.84 81.76 REMARK 500 VAL A 135 70.76 -152.24 REMARK 500 PRO A 249 37.01 -98.96 REMARK 500 TYR B 107 -45.31 83.14 REMARK 500 VAL B 135 70.16 -151.08 REMARK 500 PRO B 249 34.94 -99.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 74P B 161 17.55 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 NA A 303 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 5 OG REMARK 620 2 THR A 36 OG1 132.5 REMARK 620 3 ALA A 211 O 120.1 107.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 302 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 45 O REMARK 620 2 GLU A 47 OE1 122.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 304 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PRO A 105 O REMARK 620 2 THR A 139 O 101.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 305 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 185 OG REMARK 620 2 SER A 190 OG 120.3 REMARK 620 3 HOH A 471 O 108.8 103.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 301 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 243 O REMARK 620 2 ASN A 248 OD1 116.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 301 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 45 O REMARK 620 2 GLU B 47 OE1 122.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 302 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU B 243 O REMARK 620 2 ASN B 248 OD1 110.7 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TLA B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5T25 RELATED DB: PDB DBREF 5T26 A 1 292 UNP B7M7I1 DAPA_ECO8A 1 292 DBREF 5T26 B 1 292 UNP B7M7I1 DAPA_ECO8A 1 292 SEQADV 5T26 HIS A -1 UNP B7M7I1 EXPRESSION TAG SEQADV 5T26 HIS A 0 UNP B7M7I1 EXPRESSION TAG SEQADV 5T26 HIS B -1 UNP B7M7I1 EXPRESSION TAG SEQADV 5T26 HIS B 0 UNP B7M7I1 EXPRESSION TAG SEQRES 1 A 294 HIS HIS MET PHE THR GLY SER ILE VAL ALA ILE VAL THR SEQRES 2 A 294 PRO MET ASP GLU LYS GLY ASN VAL CYS ARG ALA SER LEU SEQRES 3 A 294 LYS LYS LEU ILE ASP TYR HIS VAL ALA SER GLY THR SER SEQRES 4 A 294 ALA ILE VAL SER VAL GLY THR THR GLY GLU SER ALA THR SEQRES 5 A 294 LEU ASN HIS ASP GLU HIS ALA ASP VAL VAL MET MET THR SEQRES 6 A 294 LEU ASP LEU ALA ASP GLY ARG ILE PRO VAL ILE ALA GLY SEQRES 7 A 294 THR GLY ALA ASN ALA THR ALA GLU ALA ILE SER LEU THR SEQRES 8 A 294 GLN ARG PHE ASN ASP SER GLY ILE VAL GLY CYS LEU THR SEQRES 9 A 294 VAL THR PRO TYR TYR ASN ARG PRO SER GLN GLU GLY LEU SEQRES 10 A 294 TYR GLN HIS PHE LYS ALA ILE ALA GLU HIS THR ASP LEU SEQRES 11 A 294 PRO GLN ILE LEU TYR ASN VAL PRO SER ARG THR GLY CYS SEQRES 12 A 294 ASP LEU LEU PRO GLU THR VAL GLY ARG LEU ALA LYS VAL SEQRES 13 A 294 LYS ASN ILE ILE GLY ILE 74P GLU ALA THR GLY ASN LEU SEQRES 14 A 294 THR ARG VAL ASN GLN ILE LYS GLU LEU VAL SER ASP ASP SEQRES 15 A 294 PHE VAL LEU LEU SER GLY ASP ASP ALA SER ALA LEU ASP SEQRES 16 A 294 PHE MET GLN LEU GLY GLY HIS GLY VAL ILE SER VAL THR SEQRES 17 A 294 ALA ASN VAL ALA ALA ARG ASP MET ALA GLN MET CYS LYS SEQRES 18 A 294 LEU ALA ALA GLU GLY HIS PHE ALA GLU ALA ARG VAL ILE SEQRES 19 A 294 ASN GLN ARG LEU MET PRO LEU HIS ASN LYS LEU PHE VAL SEQRES 20 A 294 GLU PRO ASN PRO ILE PRO VAL LYS TRP ALA CYS LYS GLU SEQRES 21 A 294 LEU GLY LEU VAL ALA THR ASP THR LEU ARG LEU PRO MET SEQRES 22 A 294 THR PRO ILE THR ASP SER GLY ARG GLU THR VAL ARG ALA SEQRES 23 A 294 ALA LEU LYS HIS ALA GLY LEU LEU SEQRES 1 B 294 HIS HIS MET PHE THR GLY SER ILE VAL ALA ILE VAL THR SEQRES 2 B 294 PRO MET ASP GLU LYS GLY ASN VAL CYS ARG ALA SER LEU SEQRES 3 B 294 LYS LYS LEU ILE ASP TYR HIS VAL ALA SER GLY THR SER SEQRES 4 B 294 ALA ILE VAL SER VAL GLY THR THR GLY GLU SER ALA THR SEQRES 5 B 294 LEU ASN HIS ASP GLU HIS ALA ASP VAL VAL MET MET THR SEQRES 6 B 294 LEU ASP LEU ALA ASP GLY ARG ILE PRO VAL ILE ALA GLY SEQRES 7 B 294 THR GLY ALA ASN ALA THR ALA GLU ALA ILE SER LEU THR SEQRES 8 B 294 GLN ARG PHE ASN ASP SER GLY ILE VAL GLY CYS LEU THR SEQRES 9 B 294 VAL THR PRO TYR TYR ASN ARG PRO SER GLN GLU GLY LEU SEQRES 10 B 294 TYR GLN HIS PHE LYS ALA ILE ALA GLU HIS THR ASP LEU SEQRES 11 B 294 PRO GLN ILE LEU TYR ASN VAL PRO SER ARG THR GLY CYS SEQRES 12 B 294 ASP LEU LEU PRO GLU THR VAL GLY ARG LEU ALA LYS VAL SEQRES 13 B 294 LYS ASN ILE ILE GLY ILE 74P GLU ALA THR GLY ASN LEU SEQRES 14 B 294 THR ARG VAL ASN GLN ILE LYS GLU LEU VAL SER ASP ASP SEQRES 15 B 294 PHE VAL LEU LEU SER GLY ASP ASP ALA SER ALA LEU ASP SEQRES 16 B 294 PHE MET GLN LEU GLY GLY HIS GLY VAL ILE SER VAL THR SEQRES 17 B 294 ALA ASN VAL ALA ALA ARG ASP MET ALA GLN MET CYS LYS SEQRES 18 B 294 LEU ALA ALA GLU GLY HIS PHE ALA GLU ALA ARG VAL ILE SEQRES 19 B 294 ASN GLN ARG LEU MET PRO LEU HIS ASN LYS LEU PHE VAL SEQRES 20 B 294 GLU PRO ASN PRO ILE PRO VAL LYS TRP ALA CYS LYS GLU SEQRES 21 B 294 LEU GLY LEU VAL ALA THR ASP THR LEU ARG LEU PRO MET SEQRES 22 B 294 THR PRO ILE THR ASP SER GLY ARG GLU THR VAL ARG ALA SEQRES 23 B 294 ALA LEU LYS HIS ALA GLY LEU LEU MODRES 5T26 74P A 161 LYS MODIFIED RESIDUE MODRES 5T26 74P B 161 LYS MODIFIED RESIDUE HET 74P A 161 17 HET 74P B 161 17 HET NA A 301 1 HET NA A 302 1 HET NA A 303 1 HET NA A 304 1 HET NA A 305 1 HET NA B 301 1 HET NA B 302 1 HET TLA B 303 10 HET GOL B 304 6 HETNAM 74P (E)-N~6~-(1-CARBOXY-3-OXOBUTYLIDENE)-L-LYSINE HETNAM NA SODIUM ION HETNAM TLA L(+)-TARTARIC ACID HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 74P 2(C11 H18 N2 O5) FORMUL 3 NA 7(NA 1+) FORMUL 10 TLA C4 H6 O6 FORMUL 11 GOL C3 H8 O3 FORMUL 12 HOH *514(H2 O) HELIX 1 AA1 CYS A 20 GLY A 35 1 16 HELIX 2 AA2 GLU A 47 LEU A 51 5 5 HELIX 3 AA3 ASN A 52 ASP A 68 1 17 HELIX 4 AA4 ALA A 81 ARG A 91 1 11 HELIX 5 AA5 SER A 111 GLU A 124 1 14 HELIX 6 AA6 VAL A 135 GLY A 140 1 6 HELIX 7 AA7 LEU A 144 LYS A 153 1 10 HELIX 8 AA8 THR A 168 GLU A 175 1 8 HELIX 9 AA9 ASP A 187 ALA A 189 5 3 HELIX 10 AB1 SER A 190 LEU A 197 1 8 HELIX 11 AB2 VAL A 205 VAL A 209 5 5 HELIX 12 AB3 ALA A 210 GLU A 223 1 14 HELIX 13 AB4 HIS A 225 LEU A 243 1 19 HELIX 14 AB5 PRO A 249 LEU A 259 1 11 HELIX 15 AB6 THR A 275 ALA A 289 1 15 HELIX 16 AB7 HIS B -1 THR B 3 5 5 HELIX 17 AB8 CYS B 20 GLY B 35 1 16 HELIX 18 AB9 GLU B 47 LEU B 51 5 5 HELIX 19 AC1 ASN B 52 ASP B 68 1 17 HELIX 20 AC2 ALA B 81 ASN B 93 1 13 HELIX 21 AC3 SER B 111 HIS B 125 1 15 HELIX 22 AC4 VAL B 135 GLY B 140 1 6 HELIX 23 AC5 LEU B 144 LYS B 153 1 10 HELIX 24 AC6 THR B 168 GLU B 175 1 8 HELIX 25 AC7 ASP B 187 ALA B 189 5 3 HELIX 26 AC8 SER B 190 LEU B 197 1 8 HELIX 27 AC9 VAL B 205 VAL B 209 5 5 HELIX 28 AD1 ALA B 210 GLU B 223 1 14 HELIX 29 AD2 HIS B 225 LEU B 243 1 19 HELIX 30 AD3 PRO B 249 LEU B 259 1 11 HELIX 31 AD4 THR B 275 ALA B 289 1 15 SHEET 1 AA1 9 GLY A 4 ALA A 8 0 SHEET 2 AA1 9 ALA A 38 SER A 41 1 O VAL A 40 N VAL A 7 SHEET 3 AA1 9 VAL A 73 GLY A 76 1 O ILE A 74 N ILE A 39 SHEET 4 AA1 9 GLY A 99 VAL A 103 1 O LEU A 101 N ALA A 75 SHEET 5 AA1 9 GLN A 130 ASN A 134 1 O ILE A 131 N CYS A 100 SHEET 6 AA1 9 ILE A 157 GLU A 162 1 O 74P A 161 N LEU A 132 SHEET 7 AA1 9 VAL A 182 SER A 185 1 O LEU A 184 N GLU A 162 SHEET 8 AA1 9 GLY A 201 SER A 204 1 O ILE A 203 N SER A 185 SHEET 9 AA1 9 GLY A 4 ALA A 8 1 N ILE A 6 O SER A 204 SHEET 1 AA2 9 GLY B 4 ALA B 8 0 SHEET 2 AA2 9 ALA B 38 SER B 41 1 O VAL B 40 N VAL B 7 SHEET 3 AA2 9 VAL B 73 GLY B 76 1 O ILE B 74 N ILE B 39 SHEET 4 AA2 9 GLY B 99 VAL B 103 1 O LEU B 101 N ALA B 75 SHEET 5 AA2 9 GLN B 130 ASN B 134 1 O ILE B 131 N CYS B 100 SHEET 6 AA2 9 ILE B 157 GLU B 162 1 O 74P B 161 N LEU B 132 SHEET 7 AA2 9 VAL B 182 SER B 185 1 O LEU B 184 N GLU B 162 SHEET 8 AA2 9 GLY B 201 SER B 204 1 O ILE B 203 N SER B 185 SHEET 9 AA2 9 GLY B 4 ALA B 8 1 N ILE B 6 O SER B 204 LINK C ILE A 160 N 74P A 161 1555 1555 1.45 LINK C 74P A 161 N GLU A 162 1555 1555 1.35 LINK C ILE B 160 N 74P B 161 1555 1555 1.46 LINK C 74P B 161 N GLU B 162 1555 1555 1.59 LINK OG SER A 5 NA NA A 303 1555 1555 2.65 LINK OG1 THR A 36 NA NA A 303 1555 1555 2.82 LINK O THR A 45 NA NA A 302 1555 1555 2.72 LINK OE1 GLU A 47 NA NA A 302 1555 1555 2.81 LINK O PRO A 105 NA NA A 304 1555 1555 2.74 LINK O THR A 139 NA NA A 304 1555 1555 2.71 LINK OG SER A 185 NA NA A 305 1555 1555 2.61 LINK OG SER A 190 NA NA A 305 1555 1555 2.68 LINK O ALA A 211 NA NA A 303 1555 1555 2.85 LINK O LEU A 243 NA NA A 301 1555 1555 2.54 LINK OD1 ASN A 248 NA NA A 301 1555 1555 2.82 LINK NA NA A 305 O HOH A 471 1555 1555 2.67 LINK O THR B 45 NA NA B 301 1555 1555 2.70 LINK OE1 GLU B 47 NA NA B 301 1555 1555 2.69 LINK O LEU B 243 NA NA B 302 1555 1555 2.57 LINK OD1 ASN B 248 NA NA B 302 1555 1555 2.87 CISPEP 1 ASN A 248 PRO A 249 0 2.30 CISPEP 2 LEU A 269 PRO A 270 0 12.50 CISPEP 3 ASN B 248 PRO B 249 0 4.14 CISPEP 4 LEU B 269 PRO B 270 0 8.99 SITE 1 AC1 5 LEU A 243 ASN A 248 PRO A 249 PRO A 251 SITE 2 AC1 5 VAL A 252 SITE 1 AC2 6 VAL A 10 THR A 11 THR A 45 GLY A 46 SITE 2 AC2 6 GLU A 47 LYS A 253 SITE 1 AC3 4 SER A 5 THR A 36 ALA A 211 ALA A 215 SITE 1 AC4 6 PRO A 105 TYR A 106 TYR A 107 ARG A 109 SITE 2 AC4 6 THR A 139 CYS A 141 SITE 1 AC5 5 SER A 185 ASP A 187 SER A 190 PHE A 194 SITE 2 AC5 5 HOH A 471 SITE 1 AC6 6 VAL B 10 THR B 11 THR B 45 GLY B 46 SITE 2 AC6 6 GLU B 47 LYS B 253 SITE 1 AC7 5 LEU B 243 ASN B 248 PRO B 249 PRO B 251 SITE 2 AC7 5 VAL B 252 SITE 1 AC8 11 VAL A 231 ARG A 235 GLY B 224 HIS B 225 SITE 2 AC8 11 PHE B 226 ALA B 227 GLU B 228 HOH B 416 SITE 3 AC8 11 HOH B 441 HOH B 448 HOH B 517 SITE 1 AC9 5 SER B 48 ALA B 49 ASN B 80 TYR B 106 SITE 2 AC9 5 TYR B 107 CRYST1 56.714 161.492 137.325 90.00 90.00 90.00 C 2 2 21 16 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.017632 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006192 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007282 0.00000