HEADER LIGASE 16-DEC-10 3Q12 TITLE PANTOATE-BETA-ALANINE LIGASE FROM YERSINIA PESTIS IN COMPLEX WITH TITLE 2 PANTOATE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: PANTOATE--BETA-ALANINE LIGASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: PANTOTHENATE SYNTHETASE, PS, PANTOATE-ACTIVATING ENZYME; COMPND 5 EC: 6.3.2.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: YERSINIA PESTIS; SOURCE 3 ORGANISM_TAXID: 632; SOURCE 4 STRAIN: CO92; SOURCE 5 GENE: PANC, Y0785, YPO3402, YP_0283; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG7 KEYWDS STRUCTURAL GENOMICS, CENTER FOR STRUCTURAL GENOMICS OF INFECTIOUS KEYWDS 2 DISEASES, CSGID, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR J.OSIPIUK,N.MALTSEVA,K.KWON,W.F.ANDERSON,A.JOACHIMIAK,CENTER FOR AUTHOR 2 STRUCTURAL GENOMICS OF INFECTIOUS DISEASES (CSGID) REVDAT 3 13-SEP-23 3Q12 1 REMARK SEQADV REVDAT 2 08-NOV-17 3Q12 1 REMARK REVDAT 1 02-FEB-11 3Q12 0 JRNL AUTH J.OSIPIUK,N.MALTSEVA,K.KWON,W.F.ANDERSON,A.JOACHIMIAK JRNL TITL PANTOATE-BETA-ALANINE LIGASE FROM YERSINIA PESTIS. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.58 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.2 REMARK 3 NUMBER OF REFLECTIONS : 153765 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) : 0.152 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 7730 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) : 1.58 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.62 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5146 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 41.52 REMARK 3 BIN R VALUE (WORKING SET) : 0.2720 REMARK 3 BIN FREE R VALUE SET COUNT : 271 REMARK 3 BIN FREE R VALUE : 0.3390 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8920 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 42 REMARK 3 SOLVENT ATOMS : 1154 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.80000 REMARK 3 B22 (A**2) : -0.93000 REMARK 3 B33 (A**2) : 2.12000 REMARK 3 B12 (A**2) : -0.04000 REMARK 3 B13 (A**2) : 0.26000 REMARK 3 B23 (A**2) : 0.92000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.115 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.088 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.049 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.052 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 9678 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 6643 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 13261 ; 1.668 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): 16324 ; 0.984 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1288 ; 5.740 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 469 ;38.282 ;24.222 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1771 ;13.543 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 88 ;16.070 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1538 ; 0.225 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 10872 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1890 ; 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): 5918 ; 1.766 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2359 ; 0.562 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 9652 ; 2.758 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3760 ; 4.118 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 3528 ; 6.189 ; 4.500 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): 16321 ; 1.676 ; 3.000 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 : 1.40 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 3Q12 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-DEC-10. REMARK 100 THE DEPOSITION ID IS D_1000063060. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 153768 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.580 REMARK 200 RESOLUTION RANGE LOW (A) : 36.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.4 REMARK 200 DATA REDUNDANCY : 2.100 REMARK 200 R MERGE (I) : 0.04200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 41.7 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : 0.26700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.940 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP, HKL-3000 REMARK 200 STARTING MODEL: 3Q10 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.39 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS-TRIS, 20% PEG-5000 MME, PH REMARK 280 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 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: 3290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 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: 3270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26020 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 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 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 SER A -2 REMARK 465 ASN A -1 REMARK 465 SER B -2 REMARK 465 ARG B 283 REMARK 465 HIS B 284 REMARK 465 SER C -2 REMARK 465 ASN C -1 REMARK 465 SER D -2 REMARK 465 ASN D -1 REMARK 465 ARG D 283 REMARK 465 HIS D 284 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 O1 PAF A 501 O HOH A 867 1.89 REMARK 500 O HOH A 451 O HOH A 582 1.98 REMARK 500 O HOH C 931 O HOH C 1157 1.98 REMARK 500 O HOH A 876 O HOH A 877 2.09 REMARK 500 NE2 GLN C 76 O HOH C 1059 2.10 REMARK 500 OD2 ASP B 110 O HOH B 333 2.10 REMARK 500 O HOH A 820 O HOH B 1012 2.11 REMARK 500 O HOH C 312 O HOH D 947 2.11 REMARK 500 NZ LYS A 151 O HOH A 870 2.12 REMARK 500 OE1 GLU B 80 O HOH B 843 2.16 REMARK 500 O HOH D 303 O HOH D 957 2.17 REMARK 500 OD2 ASP D 110 O HOH D 538 2.17 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 73 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG B 47 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ASP B 110 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP B 110 CB - CG - OD2 ANGL. DEV. = -6.9 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 THR A 74 53.09 -142.98 REMARK 500 LEU A 118 -122.61 56.95 REMARK 500 THR B 74 59.52 -144.88 REMARK 500 ALA B 113 -59.94 80.23 REMARK 500 LEU B 118 -118.87 49.23 REMARK 500 THR C 74 54.79 -141.55 REMARK 500 LEU C 118 -125.42 56.95 REMARK 500 ASP C 152 76.17 -101.34 REMARK 500 HIS D 34 -166.01 -122.92 REMARK 500 THR D 74 57.77 -142.57 REMARK 500 ALA D 113 -63.73 72.82 REMARK 500 LEU D 118 -119.17 49.42 REMARK 500 ARG D 220 23.65 -141.33 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PAF A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 285 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PAF B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PAF C 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL C 285 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PAF D 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3Q10 RELATED DB: PDB REMARK 900 PANTOATE-BETA-ALANINE LIGASE FROM YERSINIA PESTIS IN COMPLEX WITH REMARK 900 AMP. REMARK 900 RELATED ID: IDP90523 RELATED DB: TARGETDB DBREF 3Q12 A 1 284 UNP Q8ZBK7 PANC_YERPE 1 284 DBREF 3Q12 B 1 284 UNP Q8ZBK7 PANC_YERPE 1 284 DBREF 3Q12 C 1 284 UNP Q8ZBK7 PANC_YERPE 1 284 DBREF 3Q12 D 1 284 UNP Q8ZBK7 PANC_YERPE 1 284 SEQADV 3Q12 SER A -2 UNP Q8ZBK7 EXPRESSION TAG SEQADV 3Q12 ASN A -1 UNP Q8ZBK7 EXPRESSION TAG SEQADV 3Q12 ALA A 0 UNP Q8ZBK7 EXPRESSION TAG SEQADV 3Q12 SER B -2 UNP Q8ZBK7 EXPRESSION TAG SEQADV 3Q12 ASN B -1 UNP Q8ZBK7 EXPRESSION TAG SEQADV 3Q12 ALA B 0 UNP Q8ZBK7 EXPRESSION TAG SEQADV 3Q12 SER C -2 UNP Q8ZBK7 EXPRESSION TAG SEQADV 3Q12 ASN C -1 UNP Q8ZBK7 EXPRESSION TAG SEQADV 3Q12 ALA C 0 UNP Q8ZBK7 EXPRESSION TAG SEQADV 3Q12 SER D -2 UNP Q8ZBK7 EXPRESSION TAG SEQADV 3Q12 ASN D -1 UNP Q8ZBK7 EXPRESSION TAG SEQADV 3Q12 ALA D 0 UNP Q8ZBK7 EXPRESSION TAG SEQRES 1 A 287 SER ASN ALA MET LEU ILE ILE GLU THR LEU PRO LEU LEU SEQRES 2 A 287 ARG GLN GLN ILE ARG ARG TRP ARG GLN GLU GLY LYS ARG SEQRES 3 A 287 ILE ALA LEU VAL PRO THR MET GLY ASN LEU HIS GLU GLY SEQRES 4 A 287 HIS MET THR LEU VAL ASP GLU ALA LYS THR ARG ALA ASP SEQRES 5 A 287 VAL VAL VAL VAL THR ILE PHE VAL ASN PRO LEU GLN PHE SEQRES 6 A 287 GLU ARG PRO ASP ASP LEU ALA HIS TYR PRO ARG THR LEU SEQRES 7 A 287 GLN GLU ASP CYS GLU LYS LEU THR ARG HIS GLY ALA ASP SEQRES 8 A 287 LEU VAL PHE ALA PRO ALA ALA ALA ASP ILE TYR PRO ALA SEQRES 9 A 287 GLY LEU GLU LYS GLN THR TYR VAL ASP VAL PRO ALA LEU SEQRES 10 A 287 SER THR ILE LEU GLU GLY ALA SER ARG PRO GLY HIS PHE SEQRES 11 A 287 ARG GLY VAL SER THR ILE VAL SER LYS LEU PHE ASN LEU SEQRES 12 A 287 ILE GLN PRO ASP VAL ALA CYS PHE GLY GLU LYS ASP TYR SEQRES 13 A 287 GLN GLN LEU ALA LEU ILE ARG LYS MET VAL ALA ASP MET SEQRES 14 A 287 GLY TYR ASP ILE ASN ILE VAL GLY VAL PRO THR VAL ARG SEQRES 15 A 287 ALA LYS ASP GLY LEU ALA LEU SER SER ARG ASN GLY TYR SEQRES 16 A 287 LEU THR GLU GLU GLU ARG GLN ILE ALA PRO GLN LEU SER SEQRES 17 A 287 LYS ILE MET TRP ALA LEU ALA GLU LYS MET ALA LEU GLY SEQRES 18 A 287 GLU ARG GLN ILE ASP ALA LEU LEU GLU GLU ALA ALA ALA SEQRES 19 A 287 GLN LEU LEU ARG VAL GLY PHE THR PRO ASP GLU LEU PHE SEQRES 20 A 287 ILE ARG ASP ALA GLU THR LEU GLN PRO LEU THR VAL ASP SEQRES 21 A 287 SER GLN GLN ALA VAL ILE LEU MET ALA ALA TRP LEU GLY SEQRES 22 A 287 LYS ALA ARG LEU ILE ASP ASN GLN LEU VAL ASP LEU ARG SEQRES 23 A 287 HIS SEQRES 1 B 287 SER ASN ALA MET LEU ILE ILE GLU THR LEU PRO LEU LEU SEQRES 2 B 287 ARG GLN GLN ILE ARG ARG TRP ARG GLN GLU GLY LYS ARG SEQRES 3 B 287 ILE ALA LEU VAL PRO THR MET GLY ASN LEU HIS GLU GLY SEQRES 4 B 287 HIS MET THR LEU VAL ASP GLU ALA LYS THR ARG ALA ASP SEQRES 5 B 287 VAL VAL VAL VAL THR ILE PHE VAL ASN PRO LEU GLN PHE SEQRES 6 B 287 GLU ARG PRO ASP ASP LEU ALA HIS TYR PRO ARG THR LEU SEQRES 7 B 287 GLN GLU ASP CYS GLU LYS LEU THR ARG HIS GLY ALA ASP SEQRES 8 B 287 LEU VAL PHE ALA PRO ALA ALA ALA ASP ILE TYR PRO ALA SEQRES 9 B 287 GLY LEU GLU LYS GLN THR TYR VAL ASP VAL PRO ALA LEU SEQRES 10 B 287 SER THR ILE LEU GLU GLY ALA SER ARG PRO GLY HIS PHE SEQRES 11 B 287 ARG GLY VAL SER THR ILE VAL SER LYS LEU PHE ASN LEU SEQRES 12 B 287 ILE GLN PRO ASP VAL ALA CYS PHE GLY GLU LYS ASP TYR SEQRES 13 B 287 GLN GLN LEU ALA LEU ILE ARG LYS MET VAL ALA ASP MET SEQRES 14 B 287 GLY TYR ASP ILE ASN ILE VAL GLY VAL PRO THR VAL ARG SEQRES 15 B 287 ALA LYS ASP GLY LEU ALA LEU SER SER ARG ASN GLY TYR SEQRES 16 B 287 LEU THR GLU GLU GLU ARG GLN ILE ALA PRO GLN LEU SER SEQRES 17 B 287 LYS ILE MET TRP ALA LEU ALA GLU LYS MET ALA LEU GLY SEQRES 18 B 287 GLU ARG GLN ILE ASP ALA LEU LEU GLU GLU ALA ALA ALA SEQRES 19 B 287 GLN LEU LEU ARG VAL GLY PHE THR PRO ASP GLU LEU PHE SEQRES 20 B 287 ILE ARG ASP ALA GLU THR LEU GLN PRO LEU THR VAL ASP SEQRES 21 B 287 SER GLN GLN ALA VAL ILE LEU MET ALA ALA TRP LEU GLY SEQRES 22 B 287 LYS ALA ARG LEU ILE ASP ASN GLN LEU VAL ASP LEU ARG SEQRES 23 B 287 HIS SEQRES 1 C 287 SER ASN ALA MET LEU ILE ILE GLU THR LEU PRO LEU LEU SEQRES 2 C 287 ARG GLN GLN ILE ARG ARG TRP ARG GLN GLU GLY LYS ARG SEQRES 3 C 287 ILE ALA LEU VAL PRO THR MET GLY ASN LEU HIS GLU GLY SEQRES 4 C 287 HIS MET THR LEU VAL ASP GLU ALA LYS THR ARG ALA ASP SEQRES 5 C 287 VAL VAL VAL VAL THR ILE PHE VAL ASN PRO LEU GLN PHE SEQRES 6 C 287 GLU ARG PRO ASP ASP LEU ALA HIS TYR PRO ARG THR LEU SEQRES 7 C 287 GLN GLU ASP CYS GLU LYS LEU THR ARG HIS GLY ALA ASP SEQRES 8 C 287 LEU VAL PHE ALA PRO ALA ALA ALA ASP ILE TYR PRO ALA SEQRES 9 C 287 GLY LEU GLU LYS GLN THR TYR VAL ASP VAL PRO ALA LEU SEQRES 10 C 287 SER THR ILE LEU GLU GLY ALA SER ARG PRO GLY HIS PHE SEQRES 11 C 287 ARG GLY VAL SER THR ILE VAL SER LYS LEU PHE ASN LEU SEQRES 12 C 287 ILE GLN PRO ASP VAL ALA CYS PHE GLY GLU LYS ASP TYR SEQRES 13 C 287 GLN GLN LEU ALA LEU ILE ARG LYS MET VAL ALA ASP MET SEQRES 14 C 287 GLY TYR ASP ILE ASN ILE VAL GLY VAL PRO THR VAL ARG SEQRES 15 C 287 ALA LYS ASP GLY LEU ALA LEU SER SER ARG ASN GLY TYR SEQRES 16 C 287 LEU THR GLU GLU GLU ARG GLN ILE ALA PRO GLN LEU SER SEQRES 17 C 287 LYS ILE MET TRP ALA LEU ALA GLU LYS MET ALA LEU GLY SEQRES 18 C 287 GLU ARG GLN ILE ASP ALA LEU LEU GLU GLU ALA ALA ALA SEQRES 19 C 287 GLN LEU LEU ARG VAL GLY PHE THR PRO ASP GLU LEU PHE SEQRES 20 C 287 ILE ARG ASP ALA GLU THR LEU GLN PRO LEU THR VAL ASP SEQRES 21 C 287 SER GLN GLN ALA VAL ILE LEU MET ALA ALA TRP LEU GLY SEQRES 22 C 287 LYS ALA ARG LEU ILE ASP ASN GLN LEU VAL ASP LEU ARG SEQRES 23 C 287 HIS SEQRES 1 D 287 SER ASN ALA MET LEU ILE ILE GLU THR LEU PRO LEU LEU SEQRES 2 D 287 ARG GLN GLN ILE ARG ARG TRP ARG GLN GLU GLY LYS ARG SEQRES 3 D 287 ILE ALA LEU VAL PRO THR MET GLY ASN LEU HIS GLU GLY SEQRES 4 D 287 HIS MET THR LEU VAL ASP GLU ALA LYS THR ARG ALA ASP SEQRES 5 D 287 VAL VAL VAL VAL THR ILE PHE VAL ASN PRO LEU GLN PHE SEQRES 6 D 287 GLU ARG PRO ASP ASP LEU ALA HIS TYR PRO ARG THR LEU SEQRES 7 D 287 GLN GLU ASP CYS GLU LYS LEU THR ARG HIS GLY ALA ASP SEQRES 8 D 287 LEU VAL PHE ALA PRO ALA ALA ALA ASP ILE TYR PRO ALA SEQRES 9 D 287 GLY LEU GLU LYS GLN THR TYR VAL ASP VAL PRO ALA LEU SEQRES 10 D 287 SER THR ILE LEU GLU GLY ALA SER ARG PRO GLY HIS PHE SEQRES 11 D 287 ARG GLY VAL SER THR ILE VAL SER LYS LEU PHE ASN LEU SEQRES 12 D 287 ILE GLN PRO ASP VAL ALA CYS PHE GLY GLU LYS ASP TYR SEQRES 13 D 287 GLN GLN LEU ALA LEU ILE ARG LYS MET VAL ALA ASP MET SEQRES 14 D 287 GLY TYR ASP ILE ASN ILE VAL GLY VAL PRO THR VAL ARG SEQRES 15 D 287 ALA LYS ASP GLY LEU ALA LEU SER SER ARG ASN GLY TYR SEQRES 16 D 287 LEU THR GLU GLU GLU ARG GLN ILE ALA PRO GLN LEU SER SEQRES 17 D 287 LYS ILE MET TRP ALA LEU ALA GLU LYS MET ALA LEU GLY SEQRES 18 D 287 GLU ARG GLN ILE ASP ALA LEU LEU GLU GLU ALA ALA ALA SEQRES 19 D 287 GLN LEU LEU ARG VAL GLY PHE THR PRO ASP GLU LEU PHE SEQRES 20 D 287 ILE ARG ASP ALA GLU THR LEU GLN PRO LEU THR VAL ASP SEQRES 21 D 287 SER GLN GLN ALA VAL ILE LEU MET ALA ALA TRP LEU GLY SEQRES 22 D 287 LYS ALA ARG LEU ILE ASP ASN GLN LEU VAL ASP LEU ARG SEQRES 23 D 287 HIS HET PAF A 501 10 HET CL A 285 1 HET PAF B 501 10 HET PAF C 501 10 HET CL C 285 1 HET PAF D 501 10 HETNAM PAF PANTOATE HETNAM CL CHLORIDE ION HETSYN PAF 2,4-DIHYDROXY-3,3-DIMETHYL-BUTYRATE FORMUL 5 PAF 4(C6 H11 O4 1-) FORMUL 6 CL 2(CL 1-) FORMUL 11 HOH *1154(H2 O) HELIX 1 1 THR A 6 GLU A 20 1 15 HELIX 2 2 HIS A 34 THR A 46 1 13 HELIX 3 3 ASN A 58 PHE A 62 5 5 HELIX 4 4 ARG A 64 TYR A 71 1 8 HELIX 5 5 THR A 74 HIS A 85 1 12 HELIX 6 6 ALA A 94 TYR A 99 1 6 HELIX 7 7 LEU A 118 ARG A 123 1 6 HELIX 8 8 GLY A 125 GLN A 142 1 18 HELIX 9 9 ASP A 152 GLY A 167 1 16 HELIX 10 10 SER A 187 LEU A 193 5 7 HELIX 11 11 THR A 194 ALA A 201 1 8 HELIX 12 12 PRO A 202 LEU A 217 1 16 HELIX 13 13 GLN A 221 GLY A 237 1 17 HELIX 14 14 THR B 6 GLY B 21 1 16 HELIX 15 15 HIS B 34 THR B 46 1 13 HELIX 16 16 ASN B 58 PHE B 62 5 5 HELIX 17 17 PRO B 65 HIS B 70 1 6 HELIX 18 18 THR B 74 HIS B 85 1 12 HELIX 19 19 ALA B 94 TYR B 99 1 6 HELIX 20 20 ILE B 117 ALA B 121 5 5 HELIX 21 21 GLY B 125 GLN B 142 1 18 HELIX 22 22 ASP B 152 GLY B 167 1 16 HELIX 23 23 SER B 187 LEU B 193 5 7 HELIX 24 24 THR B 194 ALA B 201 1 8 HELIX 25 25 PRO B 202 GLY B 218 1 17 HELIX 26 26 GLN B 221 GLY B 237 1 17 HELIX 27 27 THR C 6 GLU C 20 1 15 HELIX 28 28 HIS C 34 THR C 46 1 13 HELIX 29 29 ASN C 58 PHE C 62 5 5 HELIX 30 30 ARG C 64 TYR C 71 1 8 HELIX 31 31 THR C 74 HIS C 85 1 12 HELIX 32 32 ALA C 94 TYR C 99 1 6 HELIX 33 33 LEU C 118 ARG C 123 1 6 HELIX 34 34 GLY C 125 GLN C 142 1 18 HELIX 35 35 ASP C 152 GLY C 167 1 16 HELIX 36 36 SER C 187 LEU C 193 5 7 HELIX 37 37 THR C 194 ALA C 201 1 8 HELIX 38 38 PRO C 202 LEU C 217 1 16 HELIX 39 39 GLN C 221 GLY C 237 1 17 HELIX 40 40 THR D 6 GLU D 20 1 15 HELIX 41 41 HIS D 34 THR D 46 1 13 HELIX 42 42 ASN D 58 PHE D 62 5 5 HELIX 43 43 ARG D 64 TYR D 71 1 8 HELIX 44 44 THR D 74 HIS D 85 1 12 HELIX 45 45 ALA D 94 TYR D 99 1 6 HELIX 46 46 ILE D 117 ARG D 123 5 7 HELIX 47 47 GLY D 125 GLN D 142 1 18 HELIX 48 48 ASP D 152 GLY D 167 1 16 HELIX 49 49 THR D 194 GLN D 199 1 6 HELIX 50 50 ALA D 201 GLY D 218 1 18 HELIX 51 51 GLN D 221 GLY D 237 1 17 SHEET 1 A 6 LEU A 2 ILE A 4 0 SHEET 2 A 6 LEU A 89 PHE A 91 1 O VAL A 90 N ILE A 4 SHEET 3 A 6 VAL A 50 ILE A 55 1 N VAL A 53 O LEU A 89 SHEET 4 A 6 ILE A 24 THR A 29 1 N ALA A 25 O VAL A 52 SHEET 5 A 6 VAL A 145 GLY A 149 1 O CYS A 147 N LEU A 26 SHEET 6 A 6 ASN A 171 VAL A 175 1 O ASN A 171 N ALA A 146 SHEET 1 B 2 TYR A 108 ASP A 110 0 SHEET 2 B 2 TYR B 108 ASP B 110 -1 O ASP B 110 N TYR A 108 SHEET 1 C 3 THR A 239 PRO A 240 0 SHEET 2 C 3 GLN A 260 LEU A 269 -1 O TRP A 268 N THR A 239 SHEET 3 C 3 PHE A 244 ASP A 247 -1 N PHE A 244 O LEU A 264 SHEET 1 D 3 THR A 239 PRO A 240 0 SHEET 2 D 3 GLN A 260 LEU A 269 -1 O TRP A 268 N THR A 239 SHEET 3 D 3 ALA A 272 ASP A 281 -1 O ASP A 276 N MET A 265 SHEET 1 E 6 LEU B 2 ILE B 4 0 SHEET 2 E 6 LEU B 89 PHE B 91 1 O VAL B 90 N ILE B 4 SHEET 3 E 6 VAL B 50 ILE B 55 1 N VAL B 53 O LEU B 89 SHEET 4 E 6 ILE B 24 THR B 29 1 N ALA B 25 O VAL B 52 SHEET 5 E 6 VAL B 145 GLY B 149 1 O VAL B 145 N LEU B 26 SHEET 6 E 6 ASN B 171 VAL B 175 1 O VAL B 173 N ALA B 146 SHEET 1 F 3 THR B 239 PRO B 240 0 SHEET 2 F 3 GLN B 260 LEU B 269 -1 O TRP B 268 N THR B 239 SHEET 3 F 3 PHE B 244 ASP B 247 -1 N PHE B 244 O LEU B 264 SHEET 1 G 3 THR B 239 PRO B 240 0 SHEET 2 G 3 GLN B 260 LEU B 269 -1 O TRP B 268 N THR B 239 SHEET 3 G 3 ALA B 272 ASP B 281 -1 O ALA B 272 N LEU B 269 SHEET 1 H 6 LEU C 2 ILE C 4 0 SHEET 2 H 6 LEU C 89 PHE C 91 1 O VAL C 90 N ILE C 4 SHEET 3 H 6 VAL C 50 ILE C 55 1 N VAL C 53 O LEU C 89 SHEET 4 H 6 ILE C 24 THR C 29 1 N ALA C 25 O VAL C 52 SHEET 5 H 6 VAL C 145 GLY C 149 1 O CYS C 147 N LEU C 26 SHEET 6 H 6 ASN C 171 VAL C 175 1 O VAL C 173 N ALA C 146 SHEET 1 I 2 TYR C 108 ASP C 110 0 SHEET 2 I 2 TYR D 108 ASP D 110 -1 O ASP D 110 N TYR C 108 SHEET 1 J 3 THR C 239 PRO C 240 0 SHEET 2 J 3 GLN C 260 LEU C 269 -1 O TRP C 268 N THR C 239 SHEET 3 J 3 PHE C 244 ASP C 247 -1 N PHE C 244 O LEU C 264 SHEET 1 K 3 THR C 239 PRO C 240 0 SHEET 2 K 3 GLN C 260 LEU C 269 -1 O TRP C 268 N THR C 239 SHEET 3 K 3 ALA C 272 ASP C 281 -1 O GLN C 278 N ILE C 263 SHEET 1 L 6 LEU D 2 ILE D 4 0 SHEET 2 L 6 LEU D 89 PHE D 91 1 O VAL D 90 N ILE D 4 SHEET 3 L 6 VAL D 50 ILE D 55 1 N VAL D 53 O LEU D 89 SHEET 4 L 6 ILE D 24 THR D 29 1 N ALA D 25 O VAL D 52 SHEET 5 L 6 VAL D 145 GLY D 149 1 O VAL D 145 N LEU D 26 SHEET 6 L 6 ASN D 171 VAL D 175 1 O VAL D 173 N ALA D 146 SHEET 1 M 3 THR D 239 PRO D 240 0 SHEET 2 M 3 GLN D 260 LEU D 269 -1 O TRP D 268 N THR D 239 SHEET 3 M 3 PHE D 244 ASP D 247 -1 N PHE D 244 O LEU D 264 SHEET 1 N 3 THR D 239 PRO D 240 0 SHEET 2 N 3 GLN D 260 LEU D 269 -1 O TRP D 268 N THR D 239 SHEET 3 N 3 ALA D 272 ASP D 281 -1 O ALA D 272 N LEU D 269 SITE 1 AC1 9 PRO A 28 THR A 29 GLN A 61 ILE A 133 SITE 2 AC1 9 GLN A 155 HOH A 289 HOH A 704 HOH A 866 SITE 3 AC1 9 HOH A 867 SITE 1 AC2 4 GLN A 61 ARG A 123 HIS A 126 ARG A 189 SITE 1 AC3 7 PRO B 28 THR B 29 GLN B 61 ILE B 133 SITE 2 AC3 7 GLN B 155 HOH B 303 HOH B 312 SITE 1 AC4 9 PRO C 28 THR C 29 MET C 30 GLN C 61 SITE 2 AC4 9 ILE C 133 GLN C 155 HOH C 293 HOH C 798 SITE 3 AC4 9 HOH C 800 SITE 1 AC5 5 GLN C 61 ARG C 123 HIS C 126 ARG C 189 SITE 2 AC5 5 HOH C1028 SITE 1 AC6 8 PRO D 28 THR D 29 GLN D 61 ILE D 133 SITE 2 AC6 8 GLN D 155 HOH D 782 HOH D 811 HOH D 812 CRYST1 44.730 77.054 98.757 100.67 95.33 94.43 P 1 4 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 0.022356 0.001732 0.002467 0.00000 SCALE2 0.000000 0.013017 0.002570 0.00000 SCALE3 0.000000 0.000000 0.010366 0.00000