10 20 30 40 50 60 70 80 1DRW - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER OXIDOREDUCTASE 28-JUN-96 1DRW
TITLE ESCHERICHIA COLI DHPR/NHDH COMPLEX
COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDRODIPICOLINATE REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DHPR, DAPB; COMPND 5 EC: 1.3.1.26; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: DAPB; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL213D; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET3D; SOURCE 9 EXPRESSION_SYSTEM_GENE: DAPB
KEYWDS OXIDOREDUCTASE
EXPDTA X-RAY DIFFRACTION
AUTHOR S.G.REDDY,G.SCAPIN,J.S.BLANCHARD
REVDAT 3 13-JUL-11 1DRW 1 VERSN REVDAT 2 24-FEB-09 1DRW 1 VERSN REVDAT 1 27-JAN-97 1DRW 0
JRNL AUTH S.G.REDDY,G.SCAPIN,J.S.BLANCHARD JRNL TITL INTERACTION OF PYRIDINE NUCLEOTIDE SUBSTRATES WITH JRNL TITL 2 ESCHERICHIA COLI DIHYDRODIPICOLINATE REDUCTASE: JRNL TITL 3 THERMODYNAMIC AND STRUCTURAL ANALYSIS OF BINARY COMPLEXES. JRNL REF BIOCHEMISTRY V. 35 13294 1996 JRNL REFN ISSN 0006-2960 JRNL PMID 8873595 JRNL DOI 10.1021/BI9615809
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.SCAPIN,J.S.BLANCHARD,J.C.SACCHETTINI REMARK 1 TITL THREE-DIMENSIONAL STRUCTURE OF ESCHERICHIA COLI REMARK 1 TITL 2 DIHYDRODIPICOLINATE REDUCTASE REMARK 1 REF BIOCHEMISTRY V. 34 3502 1995 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 2 REMARK 1 AUTH S.G.REDDY,J.C.SACCHETTINI,J.S.BLANCHARD REMARK 1 TITL EXPRESSION, PURIFICATION, AND CHARACTERIZATION OF REMARK 1 TITL 2 ESCHERICHIA COLI DIHYDRODIPICOLINATE REDUCTASE REMARK 1 REF BIOCHEMISTRY V. 34 3492 1995 REMARK 1 REFN ISSN 0006-2960
REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT REMARK 3 AUTHORS : TRONRUD,TEN EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 82.0 REMARK 3 NUMBER OF REFLECTIONS : 12405 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1980 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 81 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : 0.020 ; 2.500 ; 2105 REMARK 3 BOND ANGLES (DEGREES) : 1.770 ; 3.000 ; 2762 REMARK 3 TORSION ANGLES (DEGREES) : 20.700; 0.000 ; 1255 REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : 0.030 ; 2.000 ; 49 REMARK 3 GENERAL PLANES (A) : 0.050 ; 3.000 ; 308 REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : 3.930 ; 0.400 ; 2105 REMARK 3 NON-BONDED CONTACTS (A) : 0.070 ; 10.000; 115 REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : 0.85 REMARK 3 BSOL : 374.90 REMARK 3 REMARK 3 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : ENGH AND HUBER MODIFIED FOR TNT REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : TNT BCORREL.DAT REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1DRW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-DEC-94 REMARK 200 TEMPERATURE (KELVIN) : 290 REMARK 200 PH : 7.5 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 RUH2R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : SIEMENS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XENGEN REMARK 200 DATA SCALING SOFTWARE : XENGEN REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14125 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 74.3 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 30.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.22800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: DIFFERENCE FOURIER REMARK 200 SOFTWARE USED: PHASES REMARK 200 STARTING MODEL: DHPR-NADPH COMPLEX REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.2M (NH4)2SO4 IN 100 MM HEPES, PH 7.5
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 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+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 37.80000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 40.85000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 46.90000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 37.80000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 40.85000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 46.90000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 37.80000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 40.85000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 46.90000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 37.80000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 40.85000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 46.90000 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 16920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 75.60000 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 350 BIOMT1 3 -1.000000 0.000000 0.000000 75.60000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 93.80000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 93.80000
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 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 2 CG ND1 CD2 CE1 NE2 REMARK 470 ASP A 3 CG OD1 OD2 REMARK 470 ILE A 6 CG1 CG2 CD1 REMARK 470 ARG A 7 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 19 CG CD NE CZ NH1 NH2 REMARK 470 SER A 42 OG REMARK 470 SER A 47 OG REMARK 470 GLN A 94 CG CD OE1 NE2
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 LEU A 273 C LEU A 273 OXT 1.410 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 ASP A 48 N - CA - C ANGL. DEV. = 21.9 DEGREES REMARK 500 LEU A 270 CB - CG - CD1 ANGL. DEV. = -10.8 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 ASP A 3 105.39 80.32 REMARK 500 ALA A 4 178.30 171.77 REMARK 500 ASN A 5 59.95 -65.02 REMARK 500 ILE A 6 121.62 167.39 REMARK 500 ALA A 11 -100.95 -40.98 REMARK 500 ALA A 13 -34.87 -31.58 REMARK 500 LEU A 26 -77.72 -46.22 REMARK 500 SER A 47 -87.93 -53.52 REMARK 500 ASP A 48 -148.90 -33.50 REMARK 500 ALA A 49 -130.75 -172.26 REMARK 500 GLU A 51 31.86 -143.02 REMARK 500 ALA A 53 33.59 -85.18 REMARK 500 ALA A 55 19.92 53.47 REMARK 500 GLN A 63 -147.95 -142.10 REMARK 500 SER A 64 -11.80 -163.86 REMARK 500 LYS A 70 -15.97 -47.91 REMARK 500 THR A 80 -109.75 -127.44 REMARK 500 HIS A 160 171.41 -59.88 REMARK 500 ASP A 183 15.86 57.37 REMARK 500 GLU A 258 17.83 -154.24 REMARK 500 SER A 259 -172.53 -66.19 REMARK 500 ASP A 269 34.26 70.55 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 ASP A 120 0.07 SIDE CHAIN REMARK 500 TYR A 150 0.08 SIDE CHAIN REMARK 500 PHE A 224 0.07 SIDE CHAIN REMARK 500 PHE A 262 0.07 SIDE CHAIN 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 ILE A 6 12.02 REMARK 500 VAL A 8 -10.64 REMARK 500 ARG A 16 -12.57 REMARK 500 LEU A 26 -10.87 REMARK 500 ASP A 48 12.91 REMARK 500 GLY A 54 -10.59 REMARK 500 ILE A 77 -12.81 REMARK 500 ILE A 155 12.87 REMARK 500 ASP A 183 12.79 REMARK 500 GLU A 219 10.27 REMARK 500 ALA A 225 -12.90 REMARK 500 ASP A 226 -10.32 REMARK 500 GLY A 260 11.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 ALA A 13 15.2 L L OUTSIDE RANGE REMARK 500 MET A 17 24.9 L L OUTSIDE RANGE REMARK 500 ASP A 48 19.1 L L OUTSIDE RANGE REMARK 500 VAL A 146 6.7 L L EXPECTING SP3 REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 405 DISTANCE = 7.14 ANGSTROMS REMARK 525 HOH A 444 DISTANCE = 5.64 ANGSTROMS REMARK 525 HOH A 454 DISTANCE = 8.48 ANGSTROMS
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: BIN REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: DINUCLEOTIDE BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NHD A 301
DBREF 1DRW A 1 273 UNP P04036 DAPB_ECOLI 1 273
SEQRES 1 A 273 MET HIS ASP ALA ASN ILE ARG VAL ALA ILE ALA GLY ALA SEQRES 2 A 273 GLY GLY ARG MET GLY ARG GLN LEU ILE GLN ALA ALA LEU SEQRES 3 A 273 ALA LEU GLU GLY VAL GLN LEU GLY ALA ALA LEU GLU ARG SEQRES 4 A 273 GLU GLY SER SER LEU LEU GLY SER ASP ALA GLY GLU LEU SEQRES 5 A 273 ALA GLY ALA GLY LYS THR GLY VAL THR VAL GLN SER SER SEQRES 6 A 273 LEU ASP ALA VAL LYS ASP ASP PHE ASP VAL PHE ILE ASP SEQRES 7 A 273 PHE THR ARG PRO GLU GLY THR LEU ASN HIS LEU ALA PHE SEQRES 8 A 273 CYS ARG GLN HIS GLY LYS GLY MET VAL ILE GLY THR THR SEQRES 9 A 273 GLY PHE ASP GLU ALA GLY LYS GLN ALA ILE ARG ASP ALA SEQRES 10 A 273 ALA ALA ASP ILE ALA ILE VAL PHE ALA ALA ASN PHE SER SEQRES 11 A 273 VAL GLY VAL ASN VAL MET LEU LYS LEU LEU GLU LYS ALA SEQRES 12 A 273 ALA LYS VAL MET GLY ASP TYR THR ASP ILE GLU ILE ILE SEQRES 13 A 273 GLU ALA HIS HIS ARG HIS LYS VAL ASP ALA PRO SER GLY SEQRES 14 A 273 THR ALA LEU ALA MET GLY GLU ALA ILE ALA HIS ALA LEU SEQRES 15 A 273 ASP LYS ASP LEU LYS ASP CYS ALA VAL TYR SER ARG GLU SEQRES 16 A 273 GLY HIS THR GLY GLU ARG VAL PRO GLY THR ILE GLY PHE SEQRES 17 A 273 ALA THR VAL ARG ALA GLY ASP ILE VAL GLY GLU HIS THR SEQRES 18 A 273 ALA MET PHE ALA ASP ILE GLY GLU ARG LEU GLU ILE THR SEQRES 19 A 273 HIS LYS ALA SER SER ARG MET THR PHE ALA ASN GLY ALA SEQRES 20 A 273 VAL ARG SER ALA LEU TRP LEU SER GLY LYS GLU SER GLY SEQRES 21 A 273 LEU PHE ASP MET ARG ASP VAL LEU ASP LEU ASN ASN LEU
HET NHD A 301 44
HETNAM NHD NICOTINAMIDE PURIN-6-OL-DINUCLEOTIDE
FORMUL 2 NHD C21 H26 N6 O15 P2 FORMUL 3 HOH *81(H2 O)
HELIX 1 1 ARG A 16 ALA A 27 1 12 HELIX 2 2 LEU A 66 ASP A 72 1 7 HELIX 3 3 PRO A 82 GLN A 94 1 13 HELIX 4 4 GLU A 108 ALA A 119 1 12 HELIX 5 5 VAL A 131 MET A 147 1 17 HELIX 6 6 GLY A 169 ALA A 181 1 13 HELIX 7 7 LEU A 186 CYS A 189 1 4 HELIX 8 8 MET A 241 LEU A 254 1 14 HELIX 9 9 MET A 264 LEU A 268 1 5
SHEET 1 A 5 ILE A 123 PHE A 125 0 SHEET 2 A 5 GLY A 98 ILE A 101 1 N MET A 99 O VAL A 124 SHEET 3 A 5 VAL A 75 ASP A 78 1 N PHE A 76 O GLY A 98 SHEET 4 A 5 ARG A 7 ILE A 10 1 N ALA A 9 O VAL A 75 SHEET 5 A 5 GLN A 32 ALA A 35 1 N GLN A 32 O VAL A 8 SHEET 1 B 4 ILE A 206 ARG A 212 0 SHEET 2 B 4 ASP A 152 HIS A 159 1 N ILE A 153 O GLY A 207 SHEET 3 B 4 GLY A 218 ASP A 226 -1 N ALA A 225 O ASP A 152 SHEET 4 B 4 GLU A 229 ALA A 237 -1 N ALA A 237 O GLY A 218
LINK O3B NHD A 301 O GLY A 12 1555 1555 2.27 LINK O2B NHD A 301 OE2 GLU A 38 1555 1555 2.34
CISPEP 1 ALA A 166 PRO A 167 0 6.42
SITE 1 BIN 15 GLY A 12 GLY A 15 ARG A 16 MET A 17 SITE 2 BIN 15 GLU A 38 ARG A 39 THR A 80 ARG A 81 SITE 3 BIN 15 GLY A 84 GLY A 102 THR A 104 ALA A 126 SITE 4 BIN 15 ALA A 127 PHE A 129 ARG A 240 SITE 1 AC1 20 GLY A 12 GLY A 15 ARG A 16 MET A 17 SITE 2 AC1 20 GLU A 38 ARG A 39 PHE A 79 THR A 80 SITE 3 AC1 20 ARG A 81 GLY A 84 GLY A 102 THR A 103 SITE 4 AC1 20 THR A 104 ALA A 126 ALA A 127 ASN A 128 SITE 5 AC1 20 PHE A 129 PHE A 243 HOH A 441 HOH A 442
CRYST1 75.600 81.700 93.800 90.00 90.00 90.00 I 2 2 2 8
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 0.013228 0.000000 0.000000 0.00000
SCALE2 0.000000 0.012240 0.000000 0.00000
SCALE3 0.000000 0.000000 0.010661 0.00000