HEADER OXIDOREDUCTASE 30-MAY-08 3DB0 TITLE CRYSTAL STRUCTURE OF PUTATIVE PYRIDOXAMINE 5'-PHOSPHATE OXIDASE TITLE 2 (NP_472219.1) FROM LISTERIA INNOCUA AT 2.00 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: LIN2891 PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA INNOCUA; SOURCE 3 ORGANISM_TAXID: 1642; SOURCE 4 GENE: LIN2891; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS NP_472219.1, PUTATIVE PYRIDOXAMINE 5'-PHOSPHATE OXIDASE, STRUCTURAL KEYWDS 2 GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, PROTEIN KEYWDS 3 STRUCTURE INITIATIVE, PSI-2, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 01-FEB-23 3DB0 1 SEQADV REVDAT 5 24-JUL-19 3DB0 1 REMARK LINK REVDAT 4 25-OCT-17 3DB0 1 REMARK REVDAT 3 13-JUL-11 3DB0 1 VERSN REVDAT 2 24-FEB-09 3DB0 1 VERSN REVDAT 1 29-JUL-08 3DB0 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE PYRIDOXAMINE 5'-PHOSPHATE JRNL TITL 2 OXIDASE (NP_472219.1) FROM LISTERIA INNOCUA AT 2.00 A JRNL TITL 3 RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0067 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 16307 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) : 0.185 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 828 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) : 1100 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.81 REMARK 3 BIN R VALUE (WORKING SET) : 0.2050 REMARK 3 BIN FREE R VALUE SET COUNT : 61 REMARK 3 BIN FREE R VALUE : 0.2480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1863 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 109 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 26.25 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.04000 REMARK 3 B22 (A**2) : 0.32000 REMARK 3 B33 (A**2) : -0.43000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.27000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.191 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.175 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.119 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.466 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1929 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1256 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2630 ; 1.725 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3094 ; 1.005 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 242 ; 3.978 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 84 ;32.051 ;25.119 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 316 ;12.326 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;14.793 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 305 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2144 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 363 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1213 ; 1.942 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 485 ; 0.725 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1967 ; 3.193 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 716 ; 5.578 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 663 ; 8.194 ;11.000 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 3 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 4 A 47 4 REMARK 3 1 B 4 B 47 4 REMARK 3 2 A 64 A 94 4 REMARK 3 2 B 64 B 94 4 REMARK 3 3 A 111 A 126 4 REMARK 3 3 B 111 B 126 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1104 ; 0.510 ; 0.500 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1104 ; 1.690 ; 2.000 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 : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 126 REMARK 3 ORIGIN FOR THE GROUP (A): 16.9728 10.1908 13.2338 REMARK 3 T TENSOR REMARK 3 T11: -0.0025 T22: 0.0422 REMARK 3 T33: 0.0035 T12: 0.0402 REMARK 3 T13: -0.0181 T23: -0.0359 REMARK 3 L TENSOR REMARK 3 L11: 1.5534 L22: 1.6881 REMARK 3 L33: 0.9667 L12: -0.6175 REMARK 3 L13: 0.1829 L23: -0.0042 REMARK 3 S TENSOR REMARK 3 S11: -0.0079 S12: 0.0117 S13: -0.1494 REMARK 3 S21: -0.0057 S22: 0.0678 S23: -0.0393 REMARK 3 S31: 0.1495 S32: 0.1567 S33: -0.0599 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 4 B 127 REMARK 3 ORIGIN FOR THE GROUP (A): -2.9192 22.9543 18.0694 REMARK 3 T TENSOR REMARK 3 T11: -0.0610 T22: -0.0937 REMARK 3 T33: -0.0652 T12: -0.0002 REMARK 3 T13: 0.0030 T23: 0.0103 REMARK 3 L TENSOR REMARK 3 L11: 0.8808 L22: 0.7775 REMARK 3 L33: 1.6368 L12: -0.5379 REMARK 3 L13: 0.2632 L23: 0.5827 REMARK 3 S TENSOR REMARK 3 S11: 0.0223 S12: -0.0049 S13: -0.0175 REMARK 3 S21: 0.0139 S22: -0.0185 S23: 0.0265 REMARK 3 S31: 0.0230 S32: -0.0816 S33: -0.0037 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: REMARK 3 1.HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 2.ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 3 3.A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY REMARK 3 OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 REMARK 3 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL REMARK 3 S-MET INCORPORATION. REMARK 4 REMARK 4 3DB0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000047813. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-APR-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.57 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91837,0.97956,0.97908 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16307 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 26.055 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.8800 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) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.45900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40.9% 1,2-PROPANEDIOL, 0.1M SODIUM REMARK 280 ACETATE PH 4.57, NANODROP, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 46.08000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 21.11500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 46.08000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 21.11500 REMARK 290 SMTRY3 4 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 300 REMARK: AUTHORS STATE THAT SIZE EXCLUSION CHROMATOGRAPHY WITH REMARK 300 STATIC LIGHT SCATTERING SUPPORTS THE ASSIGNMENT OF AN DIMER AS A REMARK 300 SIGNIFICANT OLIGOMERIZATION STATE IN SOLUTION. THE DIMER IS REMARK 300 CONSISTENT AN ANALYSIS OF CRYSTAL PACKING AND A SIMILAR DIMER IS REMARK 300 PREDICTED TO BE A STABLE FOR SEVERAL HOMOLOGS. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5500 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -43.0 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 -1.72088 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 61.99612 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24430 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 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 0.00000 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 REMARK 350 BIOMOLECULE: 3 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: 1770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 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 GLY A 0 REMARK 465 GLY A 48 REMARK 465 LYS A 49 REMARK 465 GLU A 50 REMARK 465 LEU A 51 REMARK 465 GLY A 106 REMARK 465 GLU A 107 REMARK 465 ASP A 108 REMARK 465 SER A 109 REMARK 465 PRO A 110 REMARK 465 SER A 111 REMARK 465 SER A 127 REMARK 465 GLY B 0 REMARK 465 MSE B 1 REMARK 465 GLU B 2 REMARK 465 ASN B 3 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 GLU A 2 CG CD OE1 OE2 REMARK 470 GLU A 4 CG CD OE1 OE2 REMARK 470 LYS A 8 CD CE NZ REMARK 470 GLN A 17 CG CD OE1 NE2 REMARK 470 ARG A 59 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 93 CD OE1 OE2 REMARK 470 ARG A 94 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 97 CG CD OE1 OE2 REMARK 470 ASN A 98 CG OD1 ND2 REMARK 470 SER A 100 OG REMARK 470 LYS A 101 CB CG CD CE NZ REMARK 470 ASP A 102 CG OD1 OD2 REMARK 470 PHE A 104 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLN A 105 CG CD OE1 NE2 REMARK 470 ARG A 123 NE CZ NH1 NH2 REMARK 470 GLU B 4 CD OE1 OE2 REMARK 470 LYS B 8 CG CD CE NZ REMARK 470 GLU B 107 CG CD OE1 OE2 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 SER A 100 77.21 -119.78 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 TRP A 103 PHE A 104 -127.15 REMARK 500 PHE A 104 GLN A 105 -134.82 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 380201 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT INCLUDES AMINO ACIDS 1-127 OF THE FULL LENGTH PROTEIN REMARK 999 CONSISTING OF 139 RESIDUES AND WAS EXPRESSED WITH A PURIFICATION REMARK 999 TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE REMARK 999 LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3DB0 A 1 127 UNP Q926Z8 Q926Z8_LISIN 1 127 DBREF 3DB0 B 1 127 UNP Q926Z8 Q926Z8_LISIN 1 127 SEQADV 3DB0 GLY A 0 UNP Q926Z8 EXPRESSION TAG SEQADV 3DB0 GLY B 0 UNP Q926Z8 EXPRESSION TAG SEQRES 1 A 128 GLY MSE GLU ASN GLU LEU GLU ASP LYS ILE LEU ALA ILE SEQRES 2 A 128 LEU GLU GLN HIS GLN VAL GLY VAL LEU THR SER VAL GLN SEQRES 3 A 128 GLY ASP PHE PRO HIS ALA ARG TYR MSE THR PHE LEU HIS SEQRES 4 A 128 ASP GLY LEU THR LEU TYR THR PRO SER GLY LYS GLU LEU SEQRES 5 A 128 PRO LYS THR GLU GLU VAL ARG ARG ASN PRO HIS VAL CYS SEQRES 6 A 128 VAL LEU ILE GLY TYR ASP SER PRO GLY SER ALA PHE LEU SEQRES 7 A 128 GLU ILE ASN GLY LEU ALA SER LEU GLU GLU ASP GLU SER SEQRES 8 A 128 ILE LYS GLU ARG ILE TRP GLU ASN ILE SER LYS ASP TRP SEQRES 9 A 128 PHE GLN GLY GLU ASP SER PRO SER PHE VAL VAL ILE LYS SEQRES 10 A 128 ILE VAL PRO GLU GLN ILE ARG ILE LEU ASN SER SEQRES 1 B 128 GLY MSE GLU ASN GLU LEU GLU ASP LYS ILE LEU ALA ILE SEQRES 2 B 128 LEU GLU GLN HIS GLN VAL GLY VAL LEU THR SER VAL GLN SEQRES 3 B 128 GLY ASP PHE PRO HIS ALA ARG TYR MSE THR PHE LEU HIS SEQRES 4 B 128 ASP GLY LEU THR LEU TYR THR PRO SER GLY LYS GLU LEU SEQRES 5 B 128 PRO LYS THR GLU GLU VAL ARG ARG ASN PRO HIS VAL CYS SEQRES 6 B 128 VAL LEU ILE GLY TYR ASP SER PRO GLY SER ALA PHE LEU SEQRES 7 B 128 GLU ILE ASN GLY LEU ALA SER LEU GLU GLU ASP GLU SER SEQRES 8 B 128 ILE LYS GLU ARG ILE TRP GLU ASN ILE SER LYS ASP TRP SEQRES 9 B 128 PHE GLN GLY GLU ASP SER PRO SER PHE VAL VAL ILE LYS SEQRES 10 B 128 ILE VAL PRO GLU GLN ILE ARG ILE LEU ASN SER MODRES 3DB0 MSE A 1 MET SELENOMETHIONINE MODRES 3DB0 MSE A 34 MET SELENOMETHIONINE MODRES 3DB0 MSE B 34 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 34 8 HET MSE B 34 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 3(C5 H11 N O2 SE) FORMUL 3 HOH *109(H2 O) HELIX 1 1 MSE A 1 GLN A 15 1 15 HELIX 2 2 ASP A 88 SER A 100 1 13 HELIX 3 3 GLU B 4 HIS B 16 1 13 HELIX 4 4 LEU B 51 ASN B 60 1 10 HELIX 5 5 ASP B 88 SER B 100 1 13 SHEET 1 A 7 PHE A 28 THR A 35 0 SHEET 2 A 7 VAL A 18 GLN A 25 -1 N LEU A 21 O ARG A 32 SHEET 3 A 7 HIS A 62 ILE A 67 -1 O LEU A 66 N VAL A 20 SHEET 4 A 7 PHE A 76 LEU A 85 -1 O LEU A 77 N ILE A 67 SHEET 5 A 7 VAL A 113 LEU A 125 -1 O LEU A 125 N PHE A 76 SHEET 6 A 7 THR A 42 SER A 47 -1 N THR A 45 O ILE A 115 SHEET 7 A 7 LEU A 37 ASP A 39 -1 N LEU A 37 O TYR A 44 SHEET 1 B 7 PHE B 28 THR B 35 0 SHEET 2 B 7 VAL B 18 GLN B 25 -1 N LEU B 21 O ARG B 32 SHEET 3 B 7 HIS B 62 ILE B 67 -1 O LEU B 66 N VAL B 20 SHEET 4 B 7 PHE B 76 LEU B 85 -1 O ILE B 79 N VAL B 65 SHEET 5 B 7 PHE B 112 LEU B 125 -1 O LYS B 116 N SER B 84 SHEET 6 B 7 THR B 42 GLY B 48 -1 N LEU B 43 O ILE B 117 SHEET 7 B 7 LEU B 37 ASP B 39 -1 N LEU B 37 O TYR B 44 LINK C MSE A 1 N GLU A 2 1555 1555 1.33 LINK C TYR A 33 N MSE A 34 1555 1555 1.34 LINK C MSE A 34 N THR A 35 1555 1555 1.33 LINK C TYR B 33 N MSE B 34 1555 1555 1.32 LINK C MSE B 34 N THR B 35 1555 1555 1.33 CRYST1 92.160 42.230 62.020 90.00 91.59 90.00 C 1 2 1 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 0.010851 0.000000 0.000301 0.00000 SCALE2 0.000000 0.023680 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016130 0.00000 HETATM 1 N MSE A 1 31.895 23.943 29.864 1.00 61.52 N HETATM 2 CA MSE A 1 31.013 22.777 30.109 1.00 62.91 C HETATM 3 C MSE A 1 30.498 22.282 28.760 1.00 60.50 C HETATM 4 O MSE A 1 29.338 21.887 28.617 1.00 57.96 O HETATM 5 CB MSE A 1 29.825 23.162 30.985 1.00 65.10 C HETATM 6 CG MSE A 1 28.794 24.031 30.246 1.00 73.27 C HETATM 7 SE MSE A 1 26.997 24.071 31.060 0.75 92.56 SE HETATM 8 CE MSE A 1 26.048 25.058 29.636 1.00 84.39 C