HEADER OXIDOREDUCTASE 16-DEC-92 1LVL TITLE THE REFINED STRUCTURE OF PSEUDOMONAS PUTIDA LIPOAMIDE DEHYDROGENASE TITLE 2 COMPLEXED WITH NAD+ AT 2.45 ANGSTROMS RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROLIPOAMIDE DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.8.1.4; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PUTIDA; SOURCE 3 ORGANISM_TAXID: 303 KEYWDS OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR A.MATTEVI,W.G.J.HOL REVDAT 4 13-JUL-11 1LVL 1 VERSN REVDAT 3 24-FEB-09 1LVL 1 VERSN REVDAT 2 01-APR-03 1LVL 1 JRNL REVDAT 1 31-JAN-94 1LVL 0 JRNL AUTH A.MATTEVI,G.OBMOLOVA,J.R.SOKATCH,C.BETZEL,W.G.HOL JRNL TITL THE REFINED CRYSTAL STRUCTURE OF PSEUDOMONAS PUTIDA JRNL TITL 2 LIPOAMIDE DEHYDROGENASE COMPLEXED WITH NAD+ AT 2.45 A JRNL TITL 3 RESOLUTION. JRNL REF PROTEINS V. 13 336 1992 JRNL REFN ISSN 0887-3585 JRNL PMID 1325638 JRNL DOI 10.1002/PROT.340130406 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.MATTEVI,A.J.SCHIERBEEK,W.G.J.HOL REMARK 1 TITL THE REFINED CRYSTAL STRUCTURE OF LIPOAMIDE DEHYDROGENASE REMARK 1 TITL 2 FROM AZOTOBACTER VINELANDII AT 2.2 ANGSTROMS RESOLUTION. A REMARK 1 TITL 3 COMPARISON WITH THE STRUCTURE OF GLUTATHIONE REDUCTASE REMARK 1 REF J.MOL.BIOL. V. 220 975 1991 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 2 REMARK 1 AUTH G.BURNS,T.BROWN,K.HATTER,J.R.SOKATCH REMARK 1 TITL SEQUENCE ANALYSIS OF THE LPDV GENE FOR LIPOAMIDE REMARK 1 TITL 2 DEHYDROGENASE OF BRANCHED-CHAIN-OXOACID DEHYDROGENASE OF REMARK 1 TITL 3 PSEUDOMONAS PUTIDA REMARK 1 REF EUR.J.BIOCHEM. V. 179 61 1989 REMARK 1 REFN ISSN 0014-2956 REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : GROMOS, TNT REMARK 3 AUTHORS : FUJINAGA,GROS,VAN GUNSTEREN,TRONRUD,TEN REMARK 3 : EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 18085 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) : 0.215 REMARK 3 R VALUE (WORKING SET) : NULL 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 : 3372 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 97 REMARK 3 SOLVENT ATOMS : 190 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) : NULL ; NULL ; NULL REMARK 3 BOND ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TORSION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES (A) : NULL ; NULL ; NULL REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS (A) : NULL ; NULL ; NULL REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : NULL REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1LVL 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 : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.73 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 75.54000 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 75.54000 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 32.16000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 54.06000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 32.16000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 54.06000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 75.54000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 32.16000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 54.06000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 75.54000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 32.16000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 54.06000 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 300 REMARK: THE CRYSTALS CONTAIN ONE MONOMER PER ASYMMETRIC UNIT. REMARK 300 THE SECOND SUBUNIT OF THE DIMER IS GENERATED BY THE REMARK 300 TWOFOLD ROTATION ABOUT THE A AXIS: REMARK 300 1.00 0.00 0.00 0.00 REMARK 300 0.00 -1.00 0.00 -108.118 REMARK 300 0.00 0.00 -1.00 -151.077 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 12510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -85.0 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -108.12000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -151.08000 REMARK 400 REMARK 400 COMPOUND REMARK 400 PSEUDOMONAS PUTIDA IS THE ONLY KNOWN ORGANISM WHICH REMARK 400 PRODUCES THREE DIFFERENT LIPOAMIDE DEHYDROGENASES. REMARK 400 ONE (LIPDH VAL) OF THEM IS SPECIFIC FOR THE BRANCHED CHAIN REMARK 400 OXOACIDDEHYDROGENASE COMPLEX. LIPDH VAL IS A DIMER OF TWO REMARK 400 IDENTICAL SUBUNITS. EACH CHAIN IS COMPOSED OF 458 REMARK 400 RESIDUES AND ONE MOLECULE OF FAD. THE PROTEIN WAS REMARK 400 COCRYSTALLIZED WITH NAD+. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 477 O HOH A 644 5455 1.70 REMARK 500 O HOH A 530 O HOH A 543 5555 1.90 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 HIS A 62 NE2 HIS A 62 CD2 -0.069 REMARK 500 HIS A 109 NE2 HIS A 109 CD2 -0.074 REMARK 500 HIS A 115 NE2 HIS A 115 CD2 -0.068 REMARK 500 HIS A 233 NE2 HIS A 233 CD2 -0.067 REMARK 500 HIS A 398 NE2 HIS A 398 CD2 -0.071 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 23 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 CYS A 43 CA - CB - SG ANGL. DEV. = 7.6 DEGREES REMARK 500 ARG A 66 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 VAL A 77 CG1 - CB - CG2 ANGL. DEV. = -9.8 DEGREES REMARK 500 TRP A 90 CD1 - CG - CD2 ANGL. DEV. = 5.3 DEGREES REMARK 500 TRP A 90 CB - CG - CD1 ANGL. DEV. = -8.1 DEGREES REMARK 500 TRP A 90 CE2 - CD2 - CG ANGL. DEV. = -5.4 DEGREES REMARK 500 TRP A 90 CG - CD2 - CE3 ANGL. DEV. = 5.6 DEGREES REMARK 500 TRP A 117 CD1 - CG - CD2 ANGL. DEV. = 5.2 DEGREES REMARK 500 TRP A 117 CE2 - CD2 - CG ANGL. DEV. = -5.5 DEGREES REMARK 500 LEU A 139 CA - CB - CG ANGL. DEV. = 15.2 DEGREES REMARK 500 GLY A 250 CA - C - N ANGL. DEV. = -12.2 DEGREES REMARK 500 ARG A 259 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 MET A 282 CA - CB - CG ANGL. DEV. = -14.9 DEGREES REMARK 500 TRP A 301 CD1 - CG - CD2 ANGL. DEV. = 7.1 DEGREES REMARK 500 TRP A 301 CE2 - CD2 - CG ANGL. DEV. = -5.9 DEGREES REMARK 500 VAL A 306 CA - CB - CG2 ANGL. DEV. = -12.6 DEGREES REMARK 500 GLU A 309 CA - C - N ANGL. DEV. = 19.6 DEGREES REMARK 500 MET A 311 CG - SD - CE ANGL. DEV. = -18.9 DEGREES REMARK 500 HIS A 314 CE1 - NE2 - CD2 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 315 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 315 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 MET A 317 CA - CB - CG ANGL. DEV. = -11.1 DEGREES REMARK 500 ARG A 333 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG A 333 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 VAL A 342 CG1 - CB - CG2 ANGL. DEV. = -10.6 DEGREES REMARK 500 ARG A 378 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 ARG A 378 NE - CZ - NH2 ANGL. DEV. = -7.7 DEGREES REMARK 500 TRP A 403 CD1 - CG - CD2 ANGL. DEV. = 7.3 DEGREES REMARK 500 TRP A 403 CE2 - CD2 - CG ANGL. DEV. = -6.1 DEGREES REMARK 500 VAL A 410 CA - CB - CG2 ANGL. DEV. = -10.3 DEGREES REMARK 500 ARG A 450 NE - CZ - NH2 ANGL. DEV. = -3.8 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 ALA A 21 -70.52 -56.20 REMARK 500 GLN A 37 -69.03 -103.75 REMARK 500 ILE A 46 39.80 -150.88 REMARK 500 CYS A 48 -79.70 -22.31 REMARK 500 HIS A 115 -153.76 -71.94 REMARK 500 LYS A 124 -29.97 172.98 REMARK 500 ASP A 129 25.58 47.09 REMARK 500 ALA A 141 52.45 -154.72 REMARK 500 PRO A 157 -31.24 -18.73 REMARK 500 SER A 160 -169.21 -125.16 REMARK 500 LEU A 165 22.02 -75.14 REMARK 500 ALA A 166 50.10 -157.32 REMARK 500 PRO A 208 -8.81 -55.58 REMARK 500 ASN A 240 -83.69 45.40 REMARK 500 LYS A 249 -76.42 -83.65 REMARK 500 GLN A 252 -166.45 -116.96 REMARK 500 LEU A 253 117.48 146.05 REMARK 500 ALA A 263 56.42 -142.82 REMARK 500 ASN A 274 47.75 -72.92 REMARK 500 CYS A 277 0.18 -66.88 REMARK 500 ASP A 279 40.43 -66.35 REMARK 500 THR A 295 -169.44 -75.82 REMARK 500 HIS A 298 -85.97 -14.64 REMARK 500 ASN A 299 37.56 -88.25 REMARK 500 GLU A 309 -121.48 9.12 REMARK 500 ARG A 333 124.72 -178.73 REMARK 500 SER A 384 -74.33 55.50 REMARK 500 LYS A 385 84.67 41.75 REMARK 500 HIS A 398 18.34 54.70 REMARK 500 ALA A 409 29.18 38.24 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 ASP A 83 45.0 L L OUTSIDE RANGE 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 473 DISTANCE = 7.85 ANGSTROMS REMARK 525 HOH A 480 DISTANCE = 6.37 ANGSTROMS REMARK 525 HOH A 484 DISTANCE = 6.29 ANGSTROMS REMARK 525 HOH A 488 DISTANCE = 8.83 ANGSTROMS REMARK 525 HOH A 495 DISTANCE = 18.35 ANGSTROMS REMARK 525 HOH A 497 DISTANCE = 7.66 ANGSTROMS REMARK 525 HOH A 498 DISTANCE = 10.34 ANGSTROMS REMARK 525 HOH A 506 DISTANCE = 12.23 ANGSTROMS REMARK 525 HOH A 507 DISTANCE = 12.05 ANGSTROMS REMARK 525 HOH A 514 DISTANCE = 5.37 ANGSTROMS REMARK 525 HOH A 516 DISTANCE = 5.03 ANGSTROMS REMARK 525 HOH A 521 DISTANCE = 6.14 ANGSTROMS REMARK 525 HOH A 522 DISTANCE = 5.06 ANGSTROMS REMARK 525 HOH A 529 DISTANCE = 8.28 ANGSTROMS REMARK 525 HOH A 531 DISTANCE = 6.99 ANGSTROMS REMARK 525 HOH A 533 DISTANCE = 5.02 ANGSTROMS REMARK 525 HOH A 547 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH A 549 DISTANCE = 7.49 ANGSTROMS REMARK 525 HOH A 550 DISTANCE = 8.55 ANGSTROMS REMARK 525 HOH A 559 DISTANCE = 8.25 ANGSTROMS REMARK 525 HOH A 560 DISTANCE = 10.24 ANGSTROMS REMARK 525 HOH A 565 DISTANCE = 10.21 ANGSTROMS REMARK 525 HOH A 568 DISTANCE = 8.19 ANGSTROMS REMARK 525 HOH A 570 DISTANCE = 9.05 ANGSTROMS REMARK 525 HOH A 572 DISTANCE = 5.65 ANGSTROMS REMARK 525 HOH A 573 DISTANCE = 12.85 ANGSTROMS REMARK 525 HOH A 580 DISTANCE = 9.98 ANGSTROMS REMARK 525 HOH A 591 DISTANCE = 11.05 ANGSTROMS REMARK 525 HOH A 593 DISTANCE = 10.68 ANGSTROMS REMARK 525 HOH A 597 DISTANCE = 6.13 ANGSTROMS REMARK 525 HOH A 615 DISTANCE = 5.43 ANGSTROMS REMARK 525 HOH A 618 DISTANCE = 5.69 ANGSTROMS REMARK 525 HOH A 624 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A 625 DISTANCE = 5.66 ANGSTROMS REMARK 525 HOH A 643 DISTANCE = 5.58 ANGSTROMS REMARK 525 HOH A 648 DISTANCE = 6.76 ANGSTROMS REMARK 650 REMARK 650 HELIX REMARK 650 EACH HELIX IS LABELED BY TWO DIGITS. THE FIRST INDICATES REMARK 650 THE DOMAIN WHERE THE HELIX IS LOCATED AND THE SECOND ONE REMARK 650 GIVES ITS SEQUENTIAL NUMBER. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A 459 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD A 460 DBREF 1LVL A 1 458 UNP P09063 DLD1_PSEPU 2 459 SEQRES 1 A 458 GLN GLN THR ILE GLN THR THR LEU LEU ILE ILE GLY GLY SEQRES 2 A 458 GLY PRO GLY GLY TYR VAL ALA ALA ILE ARG ALA GLY GLN SEQRES 3 A 458 LEU GLY ILE PRO THR VAL LEU VAL GLU GLY GLN ALA LEU SEQRES 4 A 458 GLY GLY THR CYS LEU ASN ILE GLY CYS ILE PRO SER LYS SEQRES 5 A 458 ALA LEU ILE HIS VAL ALA GLU GLN PHE HIS GLN ALA SER SEQRES 6 A 458 ARG PHE THR GLU PRO SER PRO LEU GLY ILE SER VAL ALA SEQRES 7 A 458 SER PRO ARG LEU ASP ILE GLY GLN SER VAL ALA TRP LYS SEQRES 8 A 458 ASP GLY ILE VAL ASP ARG LEU THR THR GLY VAL ALA ALA SEQRES 9 A 458 LEU LEU LYS LYS HIS GLY VAL LYS VAL VAL HIS GLY TRP SEQRES 10 A 458 ALA LYS VAL LEU ASP GLY LYS GLN VAL GLU VAL ASP GLY SEQRES 11 A 458 GLN ARG ILE GLN CYS GLU HIS LEU LEU LEU ALA THR GLY SEQRES 12 A 458 SER SER SER VAL GLU LEU PRO MET LEU PRO LEU GLY GLY SEQRES 13 A 458 PRO VAL ILE SER SER THR GLU ALA LEU ALA PRO LYS ALA SEQRES 14 A 458 LEU PRO GLN HIS LEU VAL VAL VAL GLY GLY GLY TYR ILE SEQRES 15 A 458 GLY LEU GLU LEU GLY ILE ALA TYR ARG LYS LEU GLY ALA SEQRES 16 A 458 GLN VAL SER VAL VAL GLU ALA ARG GLU ARG ILE LEU PRO SEQRES 17 A 458 THR TYR ASP SER GLU LEU THR ALA PRO VAL ALA GLU SER SEQRES 18 A 458 LEU LYS LYS LEU GLY ILE ALA LEU HIS LEU GLY HIS SER SEQRES 19 A 458 VAL GLU GLY TYR GLU ASN GLY CYS LEU LEU ALA ASN ASP SEQRES 20 A 458 GLY LYS GLY GLY GLN LEU ARG LEU GLU ALA ASP ARG VAL SEQRES 21 A 458 LEU VAL ALA VAL GLY ARG ARG PRO ARG THR LYS GLY PHE SEQRES 22 A 458 ASN LEU GLU CYS LEU ASP LEU LYS MET ASN GLY ALA ALA SEQRES 23 A 458 ILE ALA ILE ASP GLU ARG CYS GLN THR SER MET HIS ASN SEQRES 24 A 458 VAL TRP ALA ILE GLY ASP VAL ALA GLY GLU PRO MET LEU SEQRES 25 A 458 ALA HIS ARG ALA MET ALA GLN GLY GLU MET VAL ALA GLU SEQRES 26 A 458 ILE ILE ALA GLY LYS ALA ARG ARG PHE GLU PRO ALA ALA SEQRES 27 A 458 ILE ALA ALA VAL CYS PHE THR ASP PRO GLU VAL VAL VAL SEQRES 28 A 458 VAL GLY LYS THR PRO GLU GLN ALA SER GLN GLN GLY LEU SEQRES 29 A 458 ASP CYS ILE VAL ALA GLN PHE PRO PHE ALA ALA ASN GLY SEQRES 30 A 458 ARG ALA MET SER LEU GLU SER LYS SER GLY PHE VAL ARG SEQRES 31 A 458 VAL VAL ALA ARG ARG ASP ASN HIS LEU ILE LEU GLY TRP SEQRES 32 A 458 GLN ALA VAL GLY VAL ALA VAL SER GLU LEU SER THR ALA SEQRES 33 A 458 PHE ALA GLN SER LEU GLU MET GLY ALA CYS LEU GLU ASP SEQRES 34 A 458 VAL ALA GLY THR ILE HIS ALA HIS PRO THR LEU GLY GLU SEQRES 35 A 458 ALA VAL GLN GLU ALA ALA LEU ARG ALA LEU GLY HIS ALA SEQRES 36 A 458 LEU HIS ILE HET FAD A 459 53 HET NAD A 460 44 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 NAD C21 H27 N7 O14 P2 FORMUL 4 HOH *190(H2 O) HELIX 1 1.1 GLY A 14 LEU A 27 1 14 HELIX 2 1.2 GLY A 41 PHE A 67 1 27 HELIX 3 1.3 ILE A 84 LYS A 107 1 24 HELIX 4 2.4 SER A 160 LEU A 165 1 6 HELIX 5 2.5 GLY A 180 GLY A 194 1 15 HELIX 6 2.6 ASP A 211 LYS A 224 1 14 HELIX 7 3.7 LEU A 312 ILE A 327 1 16 HELIX 8 4.8 THR A 355 ALA A 359 1 5 HELIX 9 4.9 ALA A 409 GLU A 422 1 14 HELIX 10 4.1 LEU A 427 GLY A 432 1 6 HELIX 11 4.1 GLY A 441 ARG A 450 1 10 SHEET 1 A 6 VAL A 111 HIS A 115 0 SHEET 2 A 6 PRO A 30 VAL A 34 1 SHEET 3 A 6 LEU A 8 GLY A 12 1 SHEET 4 A 6 LEU A 138 ALA A 141 1 SHEET 5 A 6 CYS A 293 THR A 295 1 SHEET 6 A 6 ASN A 299 ILE A 303 -1 SHEET 1 B 3 TRP A 117 LEU A 121 0 SHEET 2 B 3 VAL A 126 GLY A 130 -1 SHEET 3 B 3 GLN A 131 CYS A 135 -1 SHEET 1 C 4 ILE A 227 LEU A 231 0 SHEET 2 C 4 GLN A 196 GLU A 201 1 SHEET 3 C 4 HIS A 173 GLY A 178 1 SHEET 4 C 4 ASP A 258 ALA A 263 1 SHEET 1 D 3 SER A 234 GLU A 239 0 SHEET 2 D 3 GLY A 241 ASN A 246 -1 SHEET 3 D 3 LEU A 253 ALA A 257 -1 SHEET 1 E 5 ALA A 341 PHE A 344 0 SHEET 2 E 5 GLU A 348 VAL A 351 -1 SHEET 3 E 5 LEU A 399 GLY A 407 -1 SHEET 4 E 5 GLY A 387 ALA A 393 -1 SHEET 5 E 5 ILE A 367 PHE A 373 -1 SHEET 1 F 2 GLY A 143 VAL A 147 0 SHEET 2 F 2 GLY A 265 PRO A 268 -1 SSBOND 1 CYS A 43 CYS A 48 1555 1555 2.02 CISPEP 1 ASP A 346 PRO A 347 0 -1.00 CISPEP 2 HIS A 437 PRO A 438 0 -12.38 SITE 1 AC1 27 ILE A 11 GLY A 12 GLY A 16 GLU A 35 SITE 2 AC1 27 GLY A 36 GLY A 41 THR A 42 CYS A 43 SITE 3 AC1 27 GLY A 47 CYS A 48 LYS A 52 GLY A 116 SITE 4 AC1 27 TRP A 117 ALA A 118 ALA A 141 THR A 142 SITE 5 AC1 27 GLY A 143 TYR A 181 ARG A 266 ARG A 269 SITE 6 AC1 27 ASP A 305 LEU A 312 ALA A 313 HIS A 314 SITE 7 AC1 27 HIS A 437 PRO A 438 HOH A 505 SITE 1 AC2 18 VAL A 177 GLY A 178 TYR A 181 ILE A 182 SITE 2 AC2 18 VAL A 200 GLU A 201 ALA A 202 VAL A 235 SITE 3 AC2 18 ALA A 263 VAL A 264 GLY A 265 ARG A 266 SITE 4 AC2 18 GLU A 309 MET A 311 HOH A 461 HOH A 470 SITE 5 AC2 18 HOH A 508 HOH A 583 CRYST1 64.320 108.120 151.080 90.00 90.00 90.00 C 2 2 21 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 0.015547 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009249 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006619 0.00000