HEADER OXIDOREDUCTASE 04-AUG-09 3IJP TITLE CRYSTAL STRUCTURE OF DIHYDRODIPICOLINATE REDUCTASE FROM BARTONELLA TITLE 2 HENSELAE AT 2.0A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDRODIPICOLINATE REDUCTASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DHPR; COMPND 5 EC: 1.3.1.26; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BARTONELLA HENSELAE; SOURCE 3 ORGANISM_COMMON: ROCHALIMAEA HENSELAE; SOURCE 4 ORGANISM_TAXID: 38323; SOURCE 5 STRAIN: HOUSTON-1; SOURCE 6 GENE: DAPB, BH12440; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: AVA0421 KEYWDS SSGCID, SBRI, DECODE BIOSTRUCTURES, NIAID, BARTONELLA HENSELAE, KEYWDS 2 DIHYDRODIPICOLINATE REDUCTASE, AMINO-ACID BIOSYNTHESIS, KEYWDS 3 DIAMINOPIMELATE BIOSYNTHESIS, LYSINE BIOSYNTHESIS, NADP, KEYWDS 4 OXIDOREDUCTASE, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS KEYWDS 5 CENTER FOR INFECTIOUS DISEASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 5 06-SEP-23 3IJP 1 REMARK SEQADV LINK REVDAT 4 01-FEB-17 3IJP 1 AUTHOR JRNL REVDAT 3 25-JAN-17 3IJP 1 JRNL REVDAT 2 14-DEC-16 3IJP 1 JRNL VERSN REVDAT 1 11-AUG-09 3IJP 0 JRNL AUTH A.R.CALA,M.T.NADEAU,J.ABENDROTH,B.L.STAKER,A.R.REERS, JRNL AUTH 2 A.W.WEATHERHEAD,R.C.DOBSON,P.J.MYLER,A.O.HUDSON JRNL TITL THE CRYSTAL STRUCTURE OF DIHYDRODIPICOLINATE REDUCTASE FROM JRNL TITL 2 THE HUMAN-PATHOGENIC BACTERIUM BARTONELLA HENSELAE STRAIN JRNL TITL 3 HOUSTON-1 AT 2.3 ANGSTROM RESOLUTION. JRNL REF ACTA CRYSTALLOGR F STRUCT V. 72 885 2016 JRNL REF 2 BIOL COMMUN JRNL REFN ESSN 2053-230X JRNL PMID 27917836 JRNL DOI 10.1107/S2053230X16018525 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0088 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 48332 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2444 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3311 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2600 REMARK 3 BIN FREE R VALUE SET COUNT : 164 REMARK 3 BIN FREE R VALUE : 0.2940 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3984 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 56 REMARK 3 SOLVENT ATOMS : 478 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.45 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.06 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.06000 REMARK 3 B22 (A**2) : -0.06000 REMARK 3 B33 (A**2) : 0.11000 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): 0.168 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.153 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.093 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.788 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4119 ; 0.018 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2723 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5572 ; 1.589 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6645 ; 0.954 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 539 ; 6.196 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 177 ;37.071 ;24.124 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 703 ;13.803 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;12.894 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 645 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4651 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 831 ; 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): 2629 ; 0.957 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1114 ; 0.192 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4181 ; 1.862 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1490 ; 2.787 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1387 ; 4.483 ; 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): 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 : 1.40 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 REMARK 4 REMARK 4 3IJP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-AUG-09. REMARK 100 THE DEPOSITION ID IS D_1000054496. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9744 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48383 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 9.600 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.9400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.90 REMARK 200 R MERGE FOR SHELL (I) : 0.61800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1ARZ MODIFIED WITH CCP4 PROGRAM CHAINSAW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROPLEX SCREEN: 100MM SODIUM CITRATE REMARK 280 PH 5.5, 5% PEG 4000, 200MM SODIUM ACETATE, BAHEA.00189.A AT REMARK 280 6.05MG/ML, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K, PH REMARK 280 5.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 2 2 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 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+1/4 REMARK 290 8555 -Y,-X,-Z+3/4 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 88.47500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 132.71250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 44.23750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 88.47500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 44.23750 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 132.71250 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: 14990 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -133.0 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 109.38000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 MET A -20 REMARK 465 ALA A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 HIS A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 MET A -12 REMARK 465 GLY A -11 REMARK 465 THR A -10 REMARK 465 LEU A -9 REMARK 465 GLU A -8 REMARK 465 ALA A -7 REMARK 465 GLN A -6 REMARK 465 THR A -5 REMARK 465 GLN A -4 REMARK 465 GLY A -3 REMARK 465 PRO A -2 REMARK 465 GLY A -1 REMARK 465 ASN A 266 REMARK 465 GLU A 267 REMARK 465 MET B -20 REMARK 465 ALA B -19 REMARK 465 HIS B -18 REMARK 465 HIS B -17 REMARK 465 HIS B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 MET B -12 REMARK 465 GLY B -11 REMARK 465 THR B -10 REMARK 465 LEU B -9 REMARK 465 GLU B -8 REMARK 465 ALA B -7 REMARK 465 GLN B -6 REMARK 465 THR B -5 REMARK 465 GLN B -4 REMARK 465 GLY B -3 REMARK 465 PRO B -2 REMARK 465 GLY B -1 REMARK 465 GLU B 267 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 LYS A 24 CG CD CE NZ REMARK 470 LYS A 103 CG CD CE NZ REMARK 470 LYS A 195 CG CD CE NZ REMARK 470 LYS B 24 CG CD CE NZ REMARK 470 ARG B 34 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 35 CG CD CE NZ REMARK 470 LYS B 103 CG CD CE NZ 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 CYS A 205 CB CYS A 205 SG 0.130 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 ASP A 41 -13.45 83.29 REMARK 500 PHE A 52 125.20 -36.82 REMARK 500 SER A 75 -96.73 -141.27 REMARK 500 HIS A 155 153.69 -48.02 REMARK 500 ASP B 41 -7.50 74.98 REMARK 500 ASN B 67 68.14 -150.75 REMARK 500 SER B 75 -116.81 -99.36 REMARK 500 LEU B 265 41.55 -105.93 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 301 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ILE A 20 O REMARK 620 2 ARG A 23 O 85.7 REMARK 620 3 VAL A 26 O 100.3 94.8 REMARK 620 4 HOH A 459 O 98.9 86.1 160.8 REMARK 620 5 HOH A 460 O 99.3 165.4 97.7 79.6 REMARK 620 N 1 2 3 4 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 ILE B 20 O REMARK 620 2 ARG B 23 O 84.2 REMARK 620 3 VAL B 26 O 99.8 86.9 REMARK 620 4 HOH B 332 O 97.4 169.3 103.2 REMARK 620 5 HOH B 481 O 172.7 89.9 84.0 87.7 REMARK 620 6 HOH B 494 O 94.5 83.9 162.1 85.4 80.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: BAHEA.00189.A RELATED DB: TARGETDB DBREF 3IJP A 1 267 UNP Q6G2G3 DAPB_BARHE 1 267 DBREF 3IJP B 1 267 UNP Q6G2G3 DAPB_BARHE 1 267 SEQADV 3IJP MET A -20 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP ALA A -19 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS A -18 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS A -17 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS A -16 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS A -15 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS A -14 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS A -13 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP MET A -12 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLY A -11 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP THR A -10 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP LEU A -9 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLU A -8 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP ALA A -7 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLN A -6 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP THR A -5 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLN A -4 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLY A -3 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP PRO A -2 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLY A -1 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP SER A 0 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP MET B -20 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP ALA B -19 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS B -18 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS B -17 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS B -16 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS B -15 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS B -14 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP HIS B -13 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP MET B -12 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLY B -11 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP THR B -10 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP LEU B -9 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLU B -8 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP ALA B -7 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLN B -6 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP THR B -5 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLN B -4 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLY B -3 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP PRO B -2 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP GLY B -1 UNP Q6G2G3 EXPRESSION TAG SEQADV 3IJP SER B 0 UNP Q6G2G3 EXPRESSION TAG SEQRES 1 A 288 MET ALA HIS HIS HIS HIS HIS HIS MET GLY THR LEU GLU SEQRES 2 A 288 ALA GLN THR GLN GLY PRO GLY SER MET ARG LEU THR VAL SEQRES 3 A 288 VAL GLY ALA ASN GLY ARG MET GLY ARG GLU LEU ILE THR SEQRES 4 A 288 ALA ILE GLN ARG ARG LYS ASP VAL GLU LEU CYS ALA VAL SEQRES 5 A 288 LEU VAL ARG LYS GLY SER SER PHE VAL ASP LYS ASP ALA SEQRES 6 A 288 SER ILE LEU ILE GLY SER ASP PHE LEU GLY VAL ARG ILE SEQRES 7 A 288 THR ASP ASP PRO GLU SER ALA PHE SER ASN THR GLU GLY SEQRES 8 A 288 ILE LEU ASP PHE SER GLN PRO GLN ALA SER VAL LEU TYR SEQRES 9 A 288 ALA ASN TYR ALA ALA GLN LYS SER LEU ILE HIS ILE ILE SEQRES 10 A 288 GLY THR THR GLY PHE SER LYS THR GLU GLU ALA GLN ILE SEQRES 11 A 288 ALA ASP PHE ALA LYS TYR THR THR ILE VAL LYS SER GLY SEQRES 12 A 288 ASN MET SER LEU GLY VAL ASN LEU LEU ALA ASN LEU VAL SEQRES 13 A 288 LYS ARG ALA ALA LYS ALA LEU ASP ASP ASP PHE ASP ILE SEQRES 14 A 288 GLU ILE TYR GLU MET HIS HIS ALA ASN LYS VAL ASP SER SEQRES 15 A 288 PRO SER GLY THR ALA LEU LEU LEU GLY GLN ALA ALA ALA SEQRES 16 A 288 GLU GLY ARG ASN ILE MET LEU LYS ASN VAL SER VAL ASN SEQRES 17 A 288 GLY ARG SER GLY HIS THR GLY LYS ARG GLU LYS GLY THR SEQRES 18 A 288 ILE GLY PHE ALA CYS SER ARG GLY GLY THR VAL ILE GLY SEQRES 19 A 288 ASP HIS SER ILE THR PHE ALA GLY GLU ASN GLU ARG ILE SEQRES 20 A 288 VAL LEU SER HIS ILE ALA GLN GLU ARG SER ILE PHE ALA SEQRES 21 A 288 ASN GLY ALA LEU LYS ALA ALA LEU TRP ALA LYS ASN HIS SEQRES 22 A 288 GLU ASN GLY LEU TYR SER MET LEU ASP VAL LEU GLY LEU SEQRES 23 A 288 ASN GLU SEQRES 1 B 288 MET ALA HIS HIS HIS HIS HIS HIS MET GLY THR LEU GLU SEQRES 2 B 288 ALA GLN THR GLN GLY PRO GLY SER MET ARG LEU THR VAL SEQRES 3 B 288 VAL GLY ALA ASN GLY ARG MET GLY ARG GLU LEU ILE THR SEQRES 4 B 288 ALA ILE GLN ARG ARG LYS ASP VAL GLU LEU CYS ALA VAL SEQRES 5 B 288 LEU VAL ARG LYS GLY SER SER PHE VAL ASP LYS ASP ALA SEQRES 6 B 288 SER ILE LEU ILE GLY SER ASP PHE LEU GLY VAL ARG ILE SEQRES 7 B 288 THR ASP ASP PRO GLU SER ALA PHE SER ASN THR GLU GLY SEQRES 8 B 288 ILE LEU ASP PHE SER GLN PRO GLN ALA SER VAL LEU TYR SEQRES 9 B 288 ALA ASN TYR ALA ALA GLN LYS SER LEU ILE HIS ILE ILE SEQRES 10 B 288 GLY THR THR GLY PHE SER LYS THR GLU GLU ALA GLN ILE SEQRES 11 B 288 ALA ASP PHE ALA LYS TYR THR THR ILE VAL LYS SER GLY SEQRES 12 B 288 ASN MET SER LEU GLY VAL ASN LEU LEU ALA ASN LEU VAL SEQRES 13 B 288 LYS ARG ALA ALA LYS ALA LEU ASP ASP ASP PHE ASP ILE SEQRES 14 B 288 GLU ILE TYR GLU MET HIS HIS ALA ASN LYS VAL ASP SER SEQRES 15 B 288 PRO SER GLY THR ALA LEU LEU LEU GLY GLN ALA ALA ALA SEQRES 16 B 288 GLU GLY ARG ASN ILE MET LEU LYS ASN VAL SER VAL ASN SEQRES 17 B 288 GLY ARG SER GLY HIS THR GLY LYS ARG GLU LYS GLY THR SEQRES 18 B 288 ILE GLY PHE ALA CYS SER ARG GLY GLY THR VAL ILE GLY SEQRES 19 B 288 ASP HIS SER ILE THR PHE ALA GLY GLU ASN GLU ARG ILE SEQRES 20 B 288 VAL LEU SER HIS ILE ALA GLN GLU ARG SER ILE PHE ALA SEQRES 21 B 288 ASN GLY ALA LEU LYS ALA ALA LEU TRP ALA LYS ASN HIS SEQRES 22 B 288 GLU ASN GLY LEU TYR SER MET LEU ASP VAL LEU GLY LEU SEQRES 23 B 288 ASN GLU HET NA A 301 1 HET CL A 302 1 HET NAP A 300 48 HET UNX A 268 1 HET UNX A 269 1 HET UNX A 270 1 HET UNX A 271 1 HET NA B 301 1 HET CL B 302 1 HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM UNX UNKNOWN ATOM OR ION HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE FORMUL 3 NA 2(NA 1+) FORMUL 4 CL 2(CL 1-) FORMUL 5 NAP C21 H28 N7 O17 P3 FORMUL 6 UNX 4(X) FORMUL 12 HOH *478(H2 O) HELIX 1 1 GLY A 10 ARG A 22 1 13 HELIX 2 2 ASP A 43 ILE A 48 5 6 HELIX 3 3 ASP A 60 PHE A 65 1 6 HELIX 4 4 GLN A 76 SER A 91 1 16 HELIX 5 5 SER A 102 LYS A 114 1 13 HELIX 6 6 SER A 125 LEU A 142 1 18 HELIX 7 7 SER A 163 ARG A 177 1 15 HELIX 8 8 MET A 180 VAL A 184 1 5 HELIX 9 9 ARG A 189 HIS A 192 5 4 HELIX 10 10 ARG A 235 LYS A 250 1 16 HELIX 11 11 SER A 258 GLY A 264 1 7 HELIX 12 12 MET B 12 ARG B 22 1 11 HELIX 13 13 ALA B 44 GLY B 49 1 6 HELIX 14 14 ASP B 60 PHE B 65 1 6 HELIX 15 15 GLN B 76 SER B 91 1 16 HELIX 16 16 SER B 102 ALA B 113 1 12 HELIX 17 17 SER B 125 LEU B 142 1 18 HELIX 18 18 SER B 163 ARG B 177 1 15 HELIX 19 19 MET B 180 VAL B 184 1 5 HELIX 20 20 ARG B 189 HIS B 192 5 4 HELIX 21 21 ARG B 235 LYS B 250 1 16 HELIX 22 22 SER B 258 GLY B 264 1 7 SHEET 1 A 6 VAL A 26 VAL A 31 0 SHEET 2 A 6 MET A 1 VAL A 5 1 N MET A 1 O GLU A 27 SHEET 3 A 6 GLY A 70 ASP A 73 1 O LEU A 72 N THR A 4 SHEET 4 A 6 ILE A 93 ILE A 96 1 O ILE A 95 N ILE A 71 SHEET 5 A 6 THR A 117 LYS A 120 1 O VAL A 119 N ILE A 96 SHEET 6 A 6 GLY A 255 TYR A 257 1 O TYR A 257 N LYS A 120 SHEET 1 B 5 SER A 185 ASN A 187 0 SHEET 2 B 5 ILE A 201 ARG A 207 1 O PHE A 203 N VAL A 186 SHEET 3 B 5 ASP A 147 HIS A 154 1 N ILE A 150 O GLY A 202 SHEET 4 B 5 GLY A 213 GLY A 221 -1 O THR A 218 N GLU A 149 SHEET 5 B 5 GLU A 224 ALA A 232 -1 O ILE A 226 N PHE A 219 SHEET 1 C 6 VAL B 26 VAL B 31 0 SHEET 2 C 6 MET B 1 VAL B 5 1 N MET B 1 O GLU B 27 SHEET 3 C 6 GLY B 70 ASP B 73 1 O LEU B 72 N THR B 4 SHEET 4 C 6 ILE B 93 ILE B 96 1 O ILE B 95 N ILE B 71 SHEET 5 C 6 THR B 117 LYS B 120 1 O VAL B 119 N ILE B 96 SHEET 6 C 6 GLY B 255 TYR B 257 1 O TYR B 257 N ILE B 118 SHEET 1 D 5 SER B 185 ASN B 187 0 SHEET 2 D 5 ILE B 201 ARG B 207 1 O ILE B 201 N VAL B 186 SHEET 3 D 5 ASP B 147 HIS B 154 1 N ILE B 150 O GLY B 202 SHEET 4 D 5 GLY B 213 GLY B 221 -1 O THR B 218 N GLU B 149 SHEET 5 D 5 GLU B 224 ALA B 232 -1 O LEU B 228 N ILE B 217 LINK O ILE A 20 NA NA A 301 1555 1555 2.54 LINK O ARG A 23 NA NA A 301 1555 1555 2.48 LINK O VAL A 26 NA NA A 301 1555 1555 2.43 LINK NA NA A 301 O HOH A 459 1555 1555 2.24 LINK NA NA A 301 O HOH A 460 1555 1555 2.60 LINK O ILE B 20 NA NA B 301 1555 1555 2.46 LINK O ARG B 23 NA NA B 301 1555 1555 2.51 LINK O VAL B 26 NA NA B 301 1555 1555 2.35 LINK NA NA B 301 O HOH B 332 1555 1555 2.55 LINK NA NA B 301 O HOH B 481 1555 1555 2.32 LINK NA NA B 301 O HOH B 494 1555 1555 2.28 CISPEP 1 SER A 161 PRO A 162 0 -12.61 CISPEP 2 GLY A 264 LEU A 265 0 -25.73 CISPEP 3 SER B 161 PRO B 162 0 -6.27 SITE 1 AC1 5 ILE A 20 ARG A 23 VAL A 26 HOH A 459 SITE 2 AC1 5 HOH A 460 SITE 1 AC2 3 HIS A 155 LYS A 158 HOH A 374 SITE 1 AC3 31 GLY A 7 ASN A 9 GLY A 10 ARG A 11 SITE 2 AC3 31 MET A 12 ARG A 34 PHE A 74 SER A 75 SITE 3 AC3 31 GLN A 76 TYR A 83 GLY A 97 THR A 99 SITE 4 AC3 31 SER A 121 GLY A 122 ASN A 123 MET A 124 SITE 5 AC3 31 LYS A 158 ASP A 160 PHE A 238 HOH A 280 SITE 6 AC3 31 HOH A 282 HOH A 306 HOH A 314 HOH A 349 SITE 7 AC3 31 HOH A 379 HOH A 393 HOH A 397 HOH A 425 SITE 8 AC3 31 HOH A 444 HOH A 454 HOH A 474 SITE 1 AC4 6 ILE B 20 ARG B 23 VAL B 26 HOH B 332 SITE 2 AC4 6 HOH B 481 HOH B 494 SITE 1 AC5 5 ALA B 8 ASN B 9 VAL B 33 ARG B 34 SITE 2 AC5 5 HOH B 416 CRYST1 109.380 109.380 176.950 90.00 90.00 90.00 P 43 2 2 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 0.009142 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009142 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005651 0.00000