HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 14-DEC-10 3PZB TITLE CRYSTALS STRUCTURE OF ASPARTATE BETA-SEMIALDEHYDE DEHYDROGENASE TITLE 2 COMPLEX WITH NADP AND D-2,3-DIAMINOPROPIONATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASPARTATE-SEMIALDEHYDE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.2.1.11; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 1313; SOURCE 4 GENE: CGSSP23BS72_03388; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET 28A KEYWDS NADP, OXIDOREDUCTASE-OXIDOREDUCTASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.G.PAVLOVSKY,R.E.VIOLA REVDAT 4 21-FEB-24 3PZB 1 REMARK SEQADV LINK REVDAT 3 08-NOV-17 3PZB 1 REMARK REVDAT 2 14-MAY-14 3PZB 1 HETSYN REVDAT 1 04-JAN-12 3PZB 0 JRNL AUTH A.G.PAVLOVSKY,X.LIU,C.R.FAEHNLE,N.POTENTE,R.E.VIOLA JRNL TITL STRUCTURAL CHARACTERIZATION OF INHIBITORS WITH SELECTIVITY JRNL TITL 2 AGAINST MEMBERS OF A HOMOLOGOUS ENZYME FAMILY. JRNL REF CHEM.BIOL.DRUG DES. V. 79 128 2012 JRNL REFN ISSN 1747-0277 JRNL PMID 22039970 JRNL DOI 10.1111/J.1747-0285.2011.01267.X REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 3 NUMBER OF REFLECTIONS : 44587 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 : 2387 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2367 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 67.40 REMARK 3 BIN R VALUE (WORKING SET) : 0.2160 REMARK 3 BIN FREE R VALUE SET COUNT : 118 REMARK 3 BIN FREE R VALUE : 0.2670 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5465 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 131 REMARK 3 SOLVENT ATOMS : 433 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.23000 REMARK 3 B22 (A**2) : 1.71000 REMARK 3 B33 (A**2) : -1.84000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.27000 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): 0.160 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.097 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.527 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5712 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7770 ; 0.996 ; 1.988 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 720 ; 5.242 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 231 ;34.567 ;25.065 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 959 ;12.097 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;15.377 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 906 ; 0.065 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4216 ; 0.003 ; 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): 3589 ; 0.210 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5805 ; 0.424 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2123 ; 0.738 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1963 ; 1.270 ; 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 358 REMARK 3 RESIDUE RANGE : A 367 A 371 REMARK 3 RESIDUE RANGE : A 372 A 555 REMARK 3 ORIGIN FOR THE GROUP (A): 1.6050 29.3247 51.7760 REMARK 3 T TENSOR REMARK 3 T11: 0.0232 T22: 0.0505 REMARK 3 T33: 0.0270 T12: -0.0125 REMARK 3 T13: 0.0002 T23: -0.0186 REMARK 3 L TENSOR REMARK 3 L11: 0.1848 L22: 0.1962 REMARK 3 L33: 1.3779 L12: 0.1281 REMARK 3 L13: -0.2652 L23: -0.1981 REMARK 3 S TENSOR REMARK 3 S11: -0.0112 S12: -0.0090 S13: -0.0197 REMARK 3 S21: 0.0086 S22: -0.0558 S23: 0.0043 REMARK 3 S31: 0.1130 S32: -0.1253 S33: 0.0671 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 360 REMARK 3 RESIDUE RANGE : B 367 B 371 REMARK 3 RESIDUE RANGE : B 372 B 620 REMARK 3 ORIGIN FOR THE GROUP (A): 21.1671 40.0461 23.3127 REMARK 3 T TENSOR REMARK 3 T11: 0.0175 T22: 0.0318 REMARK 3 T33: 0.0188 T12: 0.0006 REMARK 3 T13: -0.0081 T23: 0.0065 REMARK 3 L TENSOR REMARK 3 L11: 0.5389 L22: 0.1433 REMARK 3 L33: 0.6857 L12: 0.0682 REMARK 3 L13: -0.3742 L23: -0.0692 REMARK 3 S TENSOR REMARK 3 S11: -0.0354 S12: 0.0092 S13: 0.0003 REMARK 3 S21: -0.0007 S22: 0.0059 S23: -0.0078 REMARK 3 S31: -0.0393 S32: 0.0521 S33: 0.0295 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 3PZB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-DEC-10. REMARK 100 THE DEPOSITION ID IS D_1000062997. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.033 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : HORIZONTALLY AND VERTICALLY REMARK 200 FOCUSING BIMORPH MIRRORS IN REMARK 200 KIRKPATRICK-BAEZ CONFIGURATION REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46990 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 23.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.2 REMARK 200 DATA REDUNDANCY : 2.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09000 REMARK 200 FOR THE DATA SET : 10.5000 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) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 70.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.21800 REMARK 200 FOR SHELL : 4.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS 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 (%): 48.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23% PEG 8K, 0.1 M TRIS-HCL, 0.1 M NA REMARK 280 -ACETATE, 10 MM DTT, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 298K, PH 8 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 50.04500 REMARK 290 SMTRY3 2 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 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25000 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 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 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 LEU A 359 REMARK 465 GLU A 360 REMARK 465 HIS A 361 REMARK 465 HIS A 362 REMARK 465 HIS A 363 REMARK 465 HIS A 364 REMARK 465 HIS A 365 REMARK 465 HIS A 366 REMARK 465 MET B 1 REMARK 465 HIS B 361 REMARK 465 HIS B 362 REMARK 465 HIS B 363 REMARK 465 HIS B 364 REMARK 465 HIS B 365 REMARK 465 HIS B 366 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 36 -158.67 -155.02 REMARK 500 LYS A 48 -109.85 59.21 REMARK 500 SER A 71 61.43 -153.65 REMARK 500 PRO A 207 45.35 -82.09 REMARK 500 ASP A 210 -167.79 66.54 REMARK 500 ALA A 251 122.74 88.13 REMARK 500 ASP A 312 -46.32 -134.28 REMARK 500 LEU A 327 -92.87 -97.02 REMARK 500 ALA A 330 -85.01 -151.55 REMARK 500 ALA B 36 -154.52 -153.06 REMARK 500 LYS B 48 -108.44 55.61 REMARK 500 PRO B 207 46.80 -80.44 REMARK 500 ASP B 210 -168.62 66.82 REMARK 500 ASP B 216 -3.31 74.65 REMARK 500 ALA B 251 116.40 90.75 REMARK 500 ASP B 312 -47.95 -132.15 REMARK 500 LEU B 327 -91.53 -99.48 REMARK 500 ALA B 330 -87.07 -151.42 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 369 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 274 O REMARK 620 2 PHE A 276 O 119.2 REMARK 620 3 ALA A 279 O 110.7 90.1 REMARK 620 4 HOH A 483 O 113.7 126.6 77.7 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 2RA B 367 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 2RA A 367 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP A 368 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP B 368 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 369 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 369 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 371 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 370 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 371 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2GZ1 RELATED DB: PDB REMARK 900 THE SAME PROTEIN/NADP COMPLEXED WITH D-2,3-DIAMINOPROPIONATE REMARK 900 RELATED ID: 3PYL RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH 2'-5'-ADP AND D-2,3- REMARK 900 DIAMINOPROPIONATE REMARK 900 RELATED ID: 3PZR RELATED DB: PDB REMARK 900 RELATED ID: 3Q0E RELATED DB: PDB REMARK 900 RELATED ID: 3Q11 RELATED DB: PDB REMARK 900 RELATED ID: 3Q1L RELATED DB: PDB REMARK 900 RELATED ID: 3PWK RELATED DB: PDB REMARK 900 RELATED ID: 3PWS RELATED DB: PDB REMARK 900 RELATED ID: 3PYX RELATED DB: PDB DBREF 3PZB A 1 358 UNP A5MTN0 A5MTN0_STRPN 1 358 DBREF 3PZB B 1 358 UNP A5MTN0 A5MTN0_STRPN 1 358 SEQADV 3PZB LEU A 359 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB GLU A 360 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS A 361 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS A 362 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS A 363 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS A 364 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS A 365 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS A 366 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB LEU B 359 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB GLU B 360 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS B 361 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS B 362 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS B 363 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS B 364 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS B 365 UNP A5MTN0 EXPRESSION TAG SEQADV 3PZB HIS B 366 UNP A5MTN0 EXPRESSION TAG SEQRES 1 A 366 MET GLY TYR THR VAL ALA VAL VAL GLY ALA THR GLY ALA SEQRES 2 A 366 VAL GLY ALA GLN MET ILE LYS MET LEU GLU GLU SER THR SEQRES 3 A 366 LEU PRO ILE ASP LYS ILE ARG TYR LEU ALA SER ALA ARG SEQRES 4 A 366 SER ALA GLY LYS SER LEU LYS PHE LYS ASP GLN ASP ILE SEQRES 5 A 366 THR ILE GLU GLU THR THR GLU THR ALA PHE GLU GLY VAL SEQRES 6 A 366 ASP ILE ALA LEU PHE SER ALA GLY SER SER THR SER ALA SEQRES 7 A 366 LYS TYR ALA PRO TYR ALA VAL LYS ALA GLY VAL VAL VAL SEQRES 8 A 366 VAL ASP ASN THR SER TYR PHE ARG GLN ASN PRO ASP VAL SEQRES 9 A 366 PRO LEU VAL VAL PRO GLU VAL ASN ALA HIS ALA LEU ASP SEQRES 10 A 366 ALA HIS ASN GLY ILE ILE ALA CYS PRO ASN CYS SER THR SEQRES 11 A 366 ILE GLN MET MET VAL ALA LEU GLU PRO VAL ARG GLN LYS SEQRES 12 A 366 TRP GLY LEU ASP ARG ILE ILE VAL SER THR TYR GLN ALA SEQRES 13 A 366 VAL SER GLY ALA GLY MET GLY ALA ILE LEU GLU THR GLN SEQRES 14 A 366 ARG GLU LEU ARG GLU VAL LEU ASN ASP GLY VAL LYS PRO SEQRES 15 A 366 CYS ASP LEU HIS ALA GLU ILE LEU PRO SER GLY GLY ASP SEQRES 16 A 366 LYS LYS HIS TYR PRO ILE ALA PHE ASN ALA LEU PRO GLN SEQRES 17 A 366 ILE ASP VAL PHE THR ASP ASN ASP TYR THR TYR GLU GLU SEQRES 18 A 366 MET LYS MET THR LYS GLU THR LYS LYS ILE MET GLU ASP SEQRES 19 A 366 ASP SER ILE ALA VAL SER ALA THR CYS VAL ARG ILE PRO SEQRES 20 A 366 VAL LEU SER ALA HIS SER GLU SER VAL TYR ILE GLU THR SEQRES 21 A 366 LYS GLU VAL ALA PRO ILE GLU GLU VAL LYS ALA ALA ILE SEQRES 22 A 366 ALA ALA PHE PRO GLY ALA VAL LEU GLU ASP ASP VAL ALA SEQRES 23 A 366 HIS GLN ILE TYR PRO GLN ALA ILE ASN ALA VAL GLY SER SEQRES 24 A 366 ARG ASP THR PHE VAL GLY ARG ILE ARG LYS ASP LEU ASP SEQRES 25 A 366 ALA GLU LYS GLY ILE HIS MET TRP VAL VAL SER ASP ASN SEQRES 26 A 366 LEU LEU LYS GLY ALA ALA TRP ASN SER VAL GLN ILE ALA SEQRES 27 A 366 GLU THR LEU HIS GLU ARG GLY LEU VAL ARG PRO THR ALA SEQRES 28 A 366 GLU LEU LYS PHE GLU LEU LYS LEU GLU HIS HIS HIS HIS SEQRES 29 A 366 HIS HIS SEQRES 1 B 366 MET GLY TYR THR VAL ALA VAL VAL GLY ALA THR GLY ALA SEQRES 2 B 366 VAL GLY ALA GLN MET ILE LYS MET LEU GLU GLU SER THR SEQRES 3 B 366 LEU PRO ILE ASP LYS ILE ARG TYR LEU ALA SER ALA ARG SEQRES 4 B 366 SER ALA GLY LYS SER LEU LYS PHE LYS ASP GLN ASP ILE SEQRES 5 B 366 THR ILE GLU GLU THR THR GLU THR ALA PHE GLU GLY VAL SEQRES 6 B 366 ASP ILE ALA LEU PHE SER ALA GLY SER SER THR SER ALA SEQRES 7 B 366 LYS TYR ALA PRO TYR ALA VAL LYS ALA GLY VAL VAL VAL SEQRES 8 B 366 VAL ASP ASN THR SER TYR PHE ARG GLN ASN PRO ASP VAL SEQRES 9 B 366 PRO LEU VAL VAL PRO GLU VAL ASN ALA HIS ALA LEU ASP SEQRES 10 B 366 ALA HIS ASN GLY ILE ILE ALA CYS PRO ASN CYS SER THR SEQRES 11 B 366 ILE GLN MET MET VAL ALA LEU GLU PRO VAL ARG GLN LYS SEQRES 12 B 366 TRP GLY LEU ASP ARG ILE ILE VAL SER THR TYR GLN ALA SEQRES 13 B 366 VAL SER GLY ALA GLY MET GLY ALA ILE LEU GLU THR GLN SEQRES 14 B 366 ARG GLU LEU ARG GLU VAL LEU ASN ASP GLY VAL LYS PRO SEQRES 15 B 366 CYS ASP LEU HIS ALA GLU ILE LEU PRO SER GLY GLY ASP SEQRES 16 B 366 LYS LYS HIS TYR PRO ILE ALA PHE ASN ALA LEU PRO GLN SEQRES 17 B 366 ILE ASP VAL PHE THR ASP ASN ASP TYR THR TYR GLU GLU SEQRES 18 B 366 MET LYS MET THR LYS GLU THR LYS LYS ILE MET GLU ASP SEQRES 19 B 366 ASP SER ILE ALA VAL SER ALA THR CYS VAL ARG ILE PRO SEQRES 20 B 366 VAL LEU SER ALA HIS SER GLU SER VAL TYR ILE GLU THR SEQRES 21 B 366 LYS GLU VAL ALA PRO ILE GLU GLU VAL LYS ALA ALA ILE SEQRES 22 B 366 ALA ALA PHE PRO GLY ALA VAL LEU GLU ASP ASP VAL ALA SEQRES 23 B 366 HIS GLN ILE TYR PRO GLN ALA ILE ASN ALA VAL GLY SER SEQRES 24 B 366 ARG ASP THR PHE VAL GLY ARG ILE ARG LYS ASP LEU ASP SEQRES 25 B 366 ALA GLU LYS GLY ILE HIS MET TRP VAL VAL SER ASP ASN SEQRES 26 B 366 LEU LEU LYS GLY ALA ALA TRP ASN SER VAL GLN ILE ALA SEQRES 27 B 366 GLU THR LEU HIS GLU ARG GLY LEU VAL ARG PRO THR ALA SEQRES 28 B 366 GLU LEU LYS PHE GLU LEU LYS LEU GLU HIS HIS HIS HIS SEQRES 29 B 366 HIS HIS HET 2RA A 367 7 HET NAP A 368 48 HET NA A 369 1 HET EDO A 370 4 HET EDO A 371 4 HET 2RA B 367 7 HET NAP B 368 48 HET EDO B 369 4 HET EDO B 370 4 HET EDO B 371 4 HETNAM 2RA 3-AMINO-D-ALANINE HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM NA SODIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN 2RA DIAMINOPROPANOIC ACID HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 2RA 2(C3 H8 N2 O2) FORMUL 4 NAP 2(C21 H28 N7 O17 P3) FORMUL 5 NA NA 1+ FORMUL 6 EDO 5(C2 H6 O2) FORMUL 13 HOH *433(H2 O) HELIX 1 1 GLY A 12 GLU A 24 1 13 HELIX 2 2 GLY A 73 ALA A 87 1 15 HELIX 3 3 VAL A 108 ALA A 113 1 6 HELIX 4 4 HIS A 114 HIS A 119 5 6 HELIX 5 5 ASN A 127 GLY A 145 1 19 HELIX 6 6 ALA A 156 ALA A 160 5 5 HELIX 7 7 GLY A 161 GLY A 179 1 19 HELIX 8 8 LYS A 181 LEU A 185 5 5 HELIX 9 9 THR A 218 MET A 232 1 15 HELIX 10 10 PRO A 265 PHE A 276 1 12 HELIX 11 11 ASP A 284 GLN A 288 5 5 HELIX 12 12 GLN A 292 VAL A 297 1 6 HELIX 13 13 ALA A 330 ARG A 344 1 15 HELIX 14 14 GLY B 12 GLU B 24 1 13 HELIX 15 15 GLY B 73 GLY B 88 1 16 HELIX 16 16 VAL B 108 ALA B 113 1 6 HELIX 17 17 HIS B 114 HIS B 119 5 6 HELIX 18 18 ASN B 127 GLY B 145 1 19 HELIX 19 19 ALA B 156 ALA B 160 5 5 HELIX 20 20 GLY B 161 GLY B 179 1 19 HELIX 21 21 LYS B 181 LEU B 185 5 5 HELIX 22 22 THR B 218 MET B 232 1 15 HELIX 23 23 PRO B 265 ALA B 275 1 11 HELIX 24 24 ASP B 284 GLN B 288 5 5 HELIX 25 25 GLN B 292 VAL B 297 1 6 HELIX 26 26 ALA B 330 ARG B 344 1 15 SHEET 1 A 7 SER A 44 PHE A 47 0 SHEET 2 A 7 GLN A 50 GLU A 56 -1 O ILE A 52 N LEU A 45 SHEET 3 A 7 ILE A 29 ALA A 36 1 N TYR A 34 O GLU A 55 SHEET 4 A 7 TYR A 3 VAL A 8 1 N VAL A 7 O LEU A 35 SHEET 5 A 7 ILE A 67 PHE A 70 1 O LEU A 69 N ALA A 6 SHEET 6 A 7 VAL A 90 ASP A 93 1 O VAL A 92 N ALA A 68 SHEET 7 A 7 ILE A 122 ALA A 124 1 O ILE A 123 N VAL A 91 SHEET 1 B 6 ALA A 238 THR A 242 0 SHEET 2 B 6 ARG A 148 TYR A 154 1 N ILE A 149 O ALA A 238 SHEET 3 B 6 HIS A 252 GLU A 259 -1 O SER A 253 N TYR A 154 SHEET 4 B 6 GLY A 316 SER A 323 -1 O ILE A 317 N ILE A 258 SHEET 5 B 6 THR A 302 LYS A 309 -1 N ARG A 308 O HIS A 318 SHEET 6 B 6 ALA A 279 LEU A 281 1 N VAL A 280 O THR A 302 SHEET 1 C 7 SER B 44 PHE B 47 0 SHEET 2 C 7 GLN B 50 GLU B 56 -1 O ILE B 52 N LEU B 45 SHEET 3 C 7 ILE B 29 ALA B 36 1 N TYR B 34 O GLU B 55 SHEET 4 C 7 TYR B 3 VAL B 8 1 N VAL B 7 O LEU B 35 SHEET 5 C 7 ILE B 67 PHE B 70 1 O LEU B 69 N ALA B 6 SHEET 6 C 7 VAL B 90 ASP B 93 1 O VAL B 92 N ALA B 68 SHEET 7 C 7 ILE B 122 ALA B 124 1 O ILE B 123 N VAL B 91 SHEET 1 D 6 ALA B 238 ARG B 245 0 SHEET 2 D 6 ARG B 148 GLN B 155 1 N GLN B 155 O VAL B 244 SHEET 3 D 6 HIS B 252 GLU B 259 -1 O SER B 253 N TYR B 154 SHEET 4 D 6 GLY B 316 SER B 323 -1 O ILE B 317 N ILE B 258 SHEET 5 D 6 THR B 302 LYS B 309 -1 N ARG B 308 O HIS B 318 SHEET 6 D 6 ALA B 279 LEU B 281 1 N VAL B 280 O THR B 302 LINK O ALA A 274 NA NA A 369 1555 1555 2.45 LINK O PHE A 276 NA NA A 369 1555 1555 2.37 LINK O ALA A 279 NA NA A 369 1555 1555 2.29 LINK NA NA A 369 O HOH A 483 1555 1555 2.33 CISPEP 1 LEU A 190 PRO A 191 0 2.47 CISPEP 2 LEU B 190 PRO B 191 0 1.87 SITE 1 AC1 8 ASN B 127 CYS B 128 GLN B 155 GLY B 159 SITE 2 AC1 8 ILE B 209 GLU B 220 ARG B 245 NAP B 368 SITE 1 AC2 8 ASN A 127 CYS A 128 GLN A 155 GLY A 159 SITE 2 AC2 8 ILE A 209 GLU A 220 ARG A 245 NAP A 368 SITE 1 AC3 29 GLY A 9 THR A 11 GLY A 12 ALA A 13 SITE 2 AC3 29 VAL A 14 ALA A 36 SER A 37 ARG A 39 SITE 3 AC3 29 SER A 40 THR A 57 SER A 71 ALA A 72 SITE 4 AC3 29 GLY A 73 THR A 76 ASN A 94 THR A 95 SITE 5 AC3 29 CYS A 128 SER A 158 GLY A 159 GLY A 161 SITE 6 AC3 29 MET A 162 ASN A 325 LEU A 326 GLY A 329 SITE 7 AC3 29 ALA A 330 2RA A 367 HOH A 373 HOH A 485 SITE 8 AC3 29 HOH A 530 SITE 1 AC4 35 GLY B 9 THR B 11 GLY B 12 ALA B 13 SITE 2 AC4 35 VAL B 14 ALA B 36 SER B 37 ARG B 39 SITE 3 AC4 35 SER B 40 THR B 57 SER B 71 ALA B 72 SITE 4 AC4 35 GLY B 73 THR B 76 ASN B 94 THR B 95 SITE 5 AC4 35 CYS B 128 SER B 158 GLY B 159 GLY B 161 SITE 6 AC4 35 MET B 162 ASN B 325 LEU B 326 GLY B 329 SITE 7 AC4 35 ALA B 330 2RA B 367 HOH B 377 HOH B 424 SITE 8 AC4 35 HOH B 458 HOH B 531 HOH B 537 HOH B 579 SITE 9 AC4 35 HOH B 598 HOH B 614 HOH B 618 SITE 1 AC5 5 ALA A 274 PHE A 276 ALA A 279 HOH A 483 SITE 2 AC5 5 GLU B 343 SITE 1 AC6 7 THR A 26 EDO A 370 GLU B 24 SER B 25 SITE 2 AC6 7 TRP B 332 GLU B 339 HOH B 470 SITE 1 AC7 7 GLU A 24 SER A 25 TRP A 332 GLU A 339 SITE 2 AC7 7 HOH A 377 THR B 26 EDO B 369 SITE 1 AC8 5 SER A 250 GLY A 298 ASP A 324 LEU A 326 SITE 2 AC8 5 HOH A 533 SITE 1 AC9 5 SER B 250 GLY B 298 ASP B 324 LEU B 326 SITE 2 AC9 5 HOH B 489 SITE 1 BC1 3 ASP A 312 HOH A 503 LYS B 229 CRYST1 60.042 100.090 64.483 90.00 100.81 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 0.016655 0.000000 0.003180 0.00000 SCALE2 0.000000 0.009991 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015788 0.00000