HEADER OXIDOREDUCTASE 03-NOV-11 3UHA TITLE CRYSTAL STRUCTURE OF SACCHAROPINE DEHYDROGENASE FROM SACCHAROMYCES TITLE 2 CERVISIAE COMPLEXED WITH NAD. COMPND MOL_ID: 1; COMPND 2 MOLECULE: SACCHAROPINE DEHYDROGENASE [NAD+, L-LYSINE-FORMING]; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: SDH, LYSINE--2-OXOGLUTARATE REDUCTASE; COMPND 5 EC: 1.5.1.7; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: LYS1, YIR034C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-16B KEYWDS LYSINE BIOSYNTHESIS, PROTON SHUTTLE, ENZYME MECHANISM, NAD BINDING, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR P.F.COOK,V.P.KUMAR,L.M.THOMAS,A.H.WEST,K.D.BOBYK REVDAT 3 13-SEP-23 3UHA 1 REMARK SEQADV REVDAT 2 22-FEB-12 3UHA 1 JRNL REVDAT 1 01-FEB-12 3UHA 0 JRNL AUTH V.P.KUMAR,L.M.THOMAS,K.D.BOBYK,B.ANDI,P.F.COOK,A.H.WEST JRNL TITL EVIDENCE IN SUPPORT OF LYSINE 77 AND HISTIDINE 96 AS JRNL TITL 2 ACID-BASE CATALYTIC RESIDUES IN SACCHAROPINE DEHYDROGENASE JRNL TITL 3 FROM SACCHAROMYCES CEREVISIAE. JRNL REF BIOCHEMISTRY V. 51 857 2012 JRNL REFN ISSN 0006-2960 JRNL PMID 22243403 JRNL DOI 10.1021/BI201808U REMARK 2 REMARK 2 RESOLUTION. 2.30 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.64 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 33594 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1757 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) : 2438 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.20 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 122 REMARK 3 BIN FREE R VALUE : 0.3430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5728 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 89 REMARK 3 SOLVENT ATOMS : 55 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 33.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.51 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.70000 REMARK 3 B22 (A**2) : -0.49000 REMARK 3 B33 (A**2) : 1.51000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.36000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.266 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.189 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.800 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.928 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.877 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5972 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8146 ; 1.885 ; 1.984 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 728 ; 6.217 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 250 ;37.648 ;23.440 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 974 ;17.970 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 40 ;22.386 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 920 ; 0.117 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4500 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 3662 ; 0.945 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5952 ; 1.766 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2310 ; 2.746 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2194 ; 4.438 ; 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 3UHA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-NOV-11. REMARK 100 THE DEPOSITION ID IS D_1000068753. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 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 FR-E+ SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54178 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35383 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 32.640 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 200 DATA REDUNDANCY : 2.200 REMARK 200 R MERGE (I) : 0.12200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.3000 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) : 2.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : 0.63200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 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 ID 3UGK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS PROPANE, 0.22M MALONATE, REMARK 280 24% PEG 3350, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 52.22500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 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 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: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32570 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 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 -64.01000 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 1 REMARK 465 ALA A 2 REMARK 465 LYS A 368 REMARK 465 ARG A 369 REMARK 465 SER A 370 REMARK 465 SER A 371 REMARK 465 ARG A 372 REMARK 465 LEU A 373 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 LYS B 368 REMARK 465 ARG B 369 REMARK 465 SER B 370 REMARK 465 SER B 371 REMARK 465 ARG B 372 REMARK 465 LEU B 373 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 LEU A 76 CB - CG - CD2 ANGL. DEV. = -11.7 DEGREES REMARK 500 ILE B 250 CG1 - CB - CG2 ANGL. DEV. = -13.7 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 LEU A 15 -22.43 82.08 REMARK 500 LEU A 76 -61.00 -100.07 REMARK 500 GLU A 78 166.62 -49.45 REMARK 500 PRO A 80 141.69 -37.69 REMARK 500 THR A 82 -36.75 -38.60 REMARK 500 GLN A 93 164.89 176.37 REMARK 500 LEU A 121 -38.43 -32.64 REMARK 500 ASP A 159 -16.53 -47.55 REMARK 500 ASP A 227 -150.92 -127.17 REMARK 500 ILE A 250 135.41 126.93 REMARK 500 SER A 253 -74.75 -124.45 REMARK 500 LYS A 254 150.31 -48.66 REMARK 500 ILE A 256 130.26 67.04 REMARK 500 ASP A 281 52.51 -91.94 REMARK 500 ALA B 102 125.71 -39.04 REMARK 500 ASP B 159 -29.89 -39.85 REMARK 500 ASP B 227 -151.88 -138.22 REMARK 500 LYS B 254 151.81 165.30 REMARK 500 ASP B 281 52.20 -96.17 REMARK 500 ASN B 287 115.73 -30.19 REMARK 500 LYS B 300 75.80 -160.09 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 NAD A 374 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD B 374 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 375 DBREF 3UHA A 1 373 UNP P38998 LYS1_YEAST 1 373 DBREF 3UHA B 1 373 UNP P38998 LYS1_YEAST 1 373 SEQADV 3UHA SER A 205 UNP P38998 CYS 205 ENGINEERED MUTATION SEQADV 3UHA SER B 205 UNP P38998 CYS 205 ENGINEERED MUTATION SEQRES 1 A 373 MET ALA ALA VAL THR LEU HIS LEU ARG ALA GLU THR LYS SEQRES 2 A 373 PRO LEU GLU ALA ARG ALA ALA LEU THR PRO THR THR VAL SEQRES 3 A 373 LYS LYS LEU ILE ALA LYS GLY PHE LYS ILE TYR VAL GLU SEQRES 4 A 373 ASP SER PRO GLN SER THR PHE ASN ILE ASN GLU TYR ARG SEQRES 5 A 373 GLN ALA GLY ALA ILE ILE VAL PRO ALA GLY SER TRP LYS SEQRES 6 A 373 THR ALA PRO ARG ASP ARG ILE ILE ILE GLY LEU LYS GLU SEQRES 7 A 373 MET PRO GLU THR ASP THR PHE PRO LEU VAL HIS GLU HIS SEQRES 8 A 373 ILE GLN PHE ALA HIS CYS TYR LYS ASP GLN ALA GLY TRP SEQRES 9 A 373 GLN ASN VAL LEU MET ARG PHE ILE LYS GLY HIS GLY THR SEQRES 10 A 373 LEU TYR ASP LEU GLU PHE LEU GLU ASN ASP GLN GLY ARG SEQRES 11 A 373 ARG VAL ALA ALA PHE GLY PHE TYR ALA GLY PHE ALA GLY SEQRES 12 A 373 ALA ALA LEU GLY VAL ARG ASP TRP ALA PHE LYS GLN THR SEQRES 13 A 373 HIS SER ASP ASP GLU ASP LEU PRO ALA VAL SER PRO TYR SEQRES 14 A 373 PRO ASN GLU LYS ALA LEU VAL LYS ASP VAL THR LYS ASP SEQRES 15 A 373 TYR LYS GLU ALA LEU ALA THR GLY ALA ARG LYS PRO THR SEQRES 16 A 373 VAL LEU ILE ILE GLY ALA LEU GLY ARG SER GLY SER GLY SEQRES 17 A 373 ALA ILE ASP LEU LEU HIS LYS VAL GLY ILE PRO ASP ALA SEQRES 18 A 373 ASN ILE LEU LYS TRP ASP ILE LYS GLU THR SER ARG GLY SEQRES 19 A 373 GLY PRO PHE ASP GLU ILE PRO GLN ALA ASP ILE PHE ILE SEQRES 20 A 373 ASN CYS ILE TYR LEU SER LYS PRO ILE ALA PRO PHE THR SEQRES 21 A 373 ASN MET GLU LYS LEU ASN ASN PRO ASN ARG ARG LEU ARG SEQRES 22 A 373 THR VAL VAL ASP VAL SER ALA ASP THR THR ASN PRO HIS SEQRES 23 A 373 ASN PRO ILE PRO ILE TYR THR VAL ALA THR VAL PHE ASN SEQRES 24 A 373 LYS PRO THR VAL LEU VAL PRO THR THR ALA GLY PRO LYS SEQRES 25 A 373 LEU SER VAL ILE SER ILE ASP HIS LEU PRO SER LEU LEU SEQRES 26 A 373 PRO ARG GLU ALA SER GLU PHE PHE SER HIS ASP LEU LEU SEQRES 27 A 373 PRO SER LEU GLU LEU LEU PRO GLN ARG LYS THR ALA PRO SEQRES 28 A 373 VAL TRP VAL ARG ALA LYS LYS LEU PHE ASP ARG HIS CYS SEQRES 29 A 373 ALA ARG VAL LYS ARG SER SER ARG LEU SEQRES 1 B 373 MET ALA ALA VAL THR LEU HIS LEU ARG ALA GLU THR LYS SEQRES 2 B 373 PRO LEU GLU ALA ARG ALA ALA LEU THR PRO THR THR VAL SEQRES 3 B 373 LYS LYS LEU ILE ALA LYS GLY PHE LYS ILE TYR VAL GLU SEQRES 4 B 373 ASP SER PRO GLN SER THR PHE ASN ILE ASN GLU TYR ARG SEQRES 5 B 373 GLN ALA GLY ALA ILE ILE VAL PRO ALA GLY SER TRP LYS SEQRES 6 B 373 THR ALA PRO ARG ASP ARG ILE ILE ILE GLY LEU LYS GLU SEQRES 7 B 373 MET PRO GLU THR ASP THR PHE PRO LEU VAL HIS GLU HIS SEQRES 8 B 373 ILE GLN PHE ALA HIS CYS TYR LYS ASP GLN ALA GLY TRP SEQRES 9 B 373 GLN ASN VAL LEU MET ARG PHE ILE LYS GLY HIS GLY THR SEQRES 10 B 373 LEU TYR ASP LEU GLU PHE LEU GLU ASN ASP GLN GLY ARG SEQRES 11 B 373 ARG VAL ALA ALA PHE GLY PHE TYR ALA GLY PHE ALA GLY SEQRES 12 B 373 ALA ALA LEU GLY VAL ARG ASP TRP ALA PHE LYS GLN THR SEQRES 13 B 373 HIS SER ASP ASP GLU ASP LEU PRO ALA VAL SER PRO TYR SEQRES 14 B 373 PRO ASN GLU LYS ALA LEU VAL LYS ASP VAL THR LYS ASP SEQRES 15 B 373 TYR LYS GLU ALA LEU ALA THR GLY ALA ARG LYS PRO THR SEQRES 16 B 373 VAL LEU ILE ILE GLY ALA LEU GLY ARG SER GLY SER GLY SEQRES 17 B 373 ALA ILE ASP LEU LEU HIS LYS VAL GLY ILE PRO ASP ALA SEQRES 18 B 373 ASN ILE LEU LYS TRP ASP ILE LYS GLU THR SER ARG GLY SEQRES 19 B 373 GLY PRO PHE ASP GLU ILE PRO GLN ALA ASP ILE PHE ILE SEQRES 20 B 373 ASN CYS ILE TYR LEU SER LYS PRO ILE ALA PRO PHE THR SEQRES 21 B 373 ASN MET GLU LYS LEU ASN ASN PRO ASN ARG ARG LEU ARG SEQRES 22 B 373 THR VAL VAL ASP VAL SER ALA ASP THR THR ASN PRO HIS SEQRES 23 B 373 ASN PRO ILE PRO ILE TYR THR VAL ALA THR VAL PHE ASN SEQRES 24 B 373 LYS PRO THR VAL LEU VAL PRO THR THR ALA GLY PRO LYS SEQRES 25 B 373 LEU SER VAL ILE SER ILE ASP HIS LEU PRO SER LEU LEU SEQRES 26 B 373 PRO ARG GLU ALA SER GLU PHE PHE SER HIS ASP LEU LEU SEQRES 27 B 373 PRO SER LEU GLU LEU LEU PRO GLN ARG LYS THR ALA PRO SEQRES 28 B 373 VAL TRP VAL ARG ALA LYS LYS LEU PHE ASP ARG HIS CYS SEQRES 29 B 373 ALA ARG VAL LYS ARG SER SER ARG LEU HET NAD A 374 44 HET CL A 375 1 HET NAD B 374 44 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM CL CHLORIDE ION FORMUL 3 NAD 2(C21 H27 N7 O14 P2) FORMUL 4 CL CL 1- FORMUL 6 HOH *55(H2 O) HELIX 1 1 THR A 22 LYS A 32 1 11 HELIX 2 2 ASN A 47 ALA A 54 1 8 HELIX 3 3 GLY A 62 ALA A 67 5 6 HELIX 4 4 GLY A 103 LYS A 113 1 11 HELIX 5 5 GLU A 122 LEU A 124 5 3 HELIX 6 6 PHE A 135 HIS A 157 1 23 HELIX 7 7 ASN A 171 ALA A 188 1 18 HELIX 8 8 GLY A 203 GLY A 217 1 15 HELIX 9 9 PRO A 219 ALA A 221 5 3 HELIX 10 10 ASP A 227 SER A 232 1 6 HELIX 11 11 ASP A 238 ALA A 243 1 6 HELIX 12 12 ASN A 261 ASN A 266 1 6 HELIX 13 13 HIS A 320 LEU A 324 5 5 HELIX 14 14 LEU A 325 LEU A 343 1 19 HELIX 15 15 LEU A 344 ARG A 347 5 4 HELIX 16 16 ALA A 350 ALA A 365 1 16 HELIX 17 17 THR B 22 LYS B 32 1 11 HELIX 18 18 ASN B 47 ALA B 54 1 8 HELIX 19 19 GLY B 62 THR B 66 5 5 HELIX 20 20 GLY B 103 HIS B 115 1 13 HELIX 21 21 GLU B 122 LEU B 124 5 3 HELIX 22 22 PHE B 135 HIS B 157 1 23 HELIX 23 23 ASN B 171 ALA B 188 1 18 HELIX 24 24 GLY B 203 VAL B 216 1 14 HELIX 25 25 PRO B 219 ALA B 221 5 3 HELIX 26 26 ASP B 227 SER B 232 1 6 HELIX 27 27 ASP B 238 ALA B 243 1 6 HELIX 28 28 ASN B 261 ASN B 266 1 6 HELIX 29 29 HIS B 320 LEU B 324 5 5 HELIX 30 30 LEU B 325 GLU B 342 1 18 HELIX 31 31 LEU B 343 ARG B 347 5 5 HELIX 32 32 ALA B 350 ARG B 366 1 17 SHEET 1 A 6 ILE A 57 VAL A 59 0 SHEET 2 A 6 LYS A 35 GLU A 39 1 N VAL A 38 O ILE A 57 SHEET 3 A 6 THR A 5 LEU A 8 1 N LEU A 6 O TYR A 37 SHEET 4 A 6 ILE A 72 ILE A 74 1 O ILE A 72 N HIS A 7 SHEET 5 A 6 GLU A 90 GLN A 93 1 O ILE A 92 N ILE A 73 SHEET 6 A 6 THR A 117 ASP A 120 1 O THR A 117 N HIS A 91 SHEET 1 B 6 ILE A 223 TRP A 226 0 SHEET 2 B 6 VAL A 196 ILE A 199 1 N VAL A 196 O LEU A 224 SHEET 3 B 6 ILE A 245 ASN A 248 1 O ILE A 247 N LEU A 197 SHEET 4 B 6 THR A 274 ASP A 277 1 O VAL A 276 N PHE A 246 SHEET 5 B 6 LEU A 313 ILE A 316 1 O ILE A 316 N VAL A 275 SHEET 6 B 6 VAL A 303 VAL A 305 -1 N VAL A 305 O LEU A 313 SHEET 1 C 6 ILE B 57 VAL B 59 0 SHEET 2 C 6 LYS B 35 GLU B 39 1 N VAL B 38 O ILE B 57 SHEET 3 C 6 THR B 5 LEU B 8 1 N LEU B 8 O TYR B 37 SHEET 4 C 6 ILE B 72 ILE B 74 1 O ILE B 74 N HIS B 7 SHEET 5 C 6 GLU B 90 GLN B 93 1 O ILE B 92 N ILE B 73 SHEET 6 C 6 THR B 117 ASP B 120 1 O THR B 117 N HIS B 91 SHEET 1 D 6 ILE B 223 TRP B 226 0 SHEET 2 D 6 VAL B 196 ILE B 199 1 N ILE B 198 O TRP B 226 SHEET 3 D 6 ILE B 245 ASN B 248 1 O ILE B 247 N LEU B 197 SHEET 4 D 6 THR B 274 ASP B 277 1 O VAL B 276 N PHE B 246 SHEET 5 D 6 LEU B 313 ILE B 316 1 O SER B 314 N VAL B 275 SHEET 6 D 6 VAL B 303 VAL B 305 -1 N VAL B 303 O VAL B 315 CISPEP 1 GLY A 235 PRO A 236 0 -0.39 CISPEP 2 GLY B 235 PRO B 236 0 -5.90 SITE 1 AC1 19 ARG A 130 ALA A 139 ILE A 199 GLY A 200 SITE 2 AC1 19 GLY A 203 ARG A 204 SER A 205 ASP A 227 SITE 3 AC1 19 ILE A 228 THR A 231 ILE A 250 TYR A 251 SITE 4 AC1 19 ILE A 256 VAL A 278 ILE A 318 ASP A 319 SITE 5 AC1 19 HIS A 320 LEU A 321 PRO A 322 SITE 1 AC2 21 ARG B 130 ALA B 139 ILE B 199 GLY B 200 SITE 2 AC2 21 GLY B 203 ARG B 204 SER B 205 ASP B 227 SITE 3 AC2 21 ILE B 228 THR B 231 CYS B 249 ILE B 250 SITE 4 AC2 21 TYR B 251 ILE B 256 VAL B 278 ILE B 318 SITE 5 AC2 21 ASP B 319 HIS B 320 LEU B 321 PRO B 322 SITE 6 AC2 21 HOH B 377 SITE 1 AC3 2 LYS A 193 LYS B 193 CRYST1 64.010 104.450 69.080 90.00 116.60 90.00 P 1 21 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 0.015623 0.000000 0.007823 0.00000 SCALE2 0.000000 0.009574 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016190 0.00000