HEADER TRANSPORT PROTEIN 02-DEC-13 4NTL TITLE CRYSTAL STRUCTURE OF A LIPOPROTEIN, YAEC FAMILY (EF3198) FROM TITLE 2 ENTEROCOCCUS FAECALIS V583 AT 1.80 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: LIPOPROTEIN, YAEC FAMILY; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: YAEC FAMILY LIPOPROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROCOCCUS FAECALIS; SOURCE 3 ORGANISM_TAXID: 226185; SOURCE 4 STRAIN: ATCC 700802 / V583; SOURCE 5 GENE: EF_3198, I574_00285, NP_816800.1, OO5_00380; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: PB1; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS NLPA LIPOPROTEIN, PF03180 FAMILY, STRUCTURAL GENOMICS, JOINT CENTER KEYWDS 2 FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI- KEYWDS 3 BIOLOGY, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 4 01-FEB-23 4NTL 1 REMARK SEQADV LINK REVDAT 3 24-JAN-18 4NTL 1 JRNL REVDAT 2 22-NOV-17 4NTL 1 REMARK REVDAT 1 11-DEC-13 4NTL 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF A LIPOPROTEIN, YAEC FAMILY (EF3198) JRNL TITL 2 FROM ENTEROCOCCUS FAECALIS V583 AT 1.80 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 32352 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.179 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1640 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2161 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.98 REMARK 3 BIN R VALUE (WORKING SET) : 0.3090 REMARK 3 BIN FREE R VALUE SET COUNT : 122 REMARK 3 BIN FREE R VALUE : 0.3300 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1886 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 280 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.15000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : -0.31000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.107 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.106 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.073 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.326 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.946 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2036 ; 0.013 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 1989 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2766 ; 1.547 ; 1.994 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4636 ; 0.807 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 275 ; 5.859 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 94 ;42.452 ;27.128 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 367 ;14.308 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 2 ; 3.914 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 311 ; 0.092 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2337 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 407 ; 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): 1006 ; 3.253 ; 3.957 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1003 ; 3.204 ; 3.949 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1263 ; 4.191 ; 7.366 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1 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 31 A 272 REMARK 3 ORIGIN FOR THE GROUP (A): 5.2479 34.2901 19.3299 REMARK 3 T TENSOR REMARK 3 T11: 0.0277 T22: 0.0350 REMARK 3 T33: 0.0202 T12: 0.0152 REMARK 3 T13: 0.0004 T23: -0.0005 REMARK 3 L TENSOR REMARK 3 L11: 0.6520 L22: 0.3060 REMARK 3 L33: 0.2433 L12: -0.0582 REMARK 3 L13: 0.0908 L23: 0.0436 REMARK 3 S TENSOR REMARK 3 S11: -0.0374 S12: 0.0119 S13: -0.0088 REMARK 3 S21: 0.0554 S22: 0.0883 S23: -0.0215 REMARK 3 S31: 0.0322 S32: -0.0117 S33: -0.0509 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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: 1.HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS. 2.ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL REMARK 3 B FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U REMARK 3 FACTORS. 3.WATERS WERE EXCLUDED FROM AUTOMATIC TLS ASSIGNMENT. REMARK 3 4.A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE REMARK 3 INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE REMARK 3 ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.75 FOR THE REDUCED REMARK 3 SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 5. ZINC (ZN) REMARK 3 FROM THE CRYSTALLIZATION SOLUTION HAS BEEN MODELED INTO THE REMARK 3 STRUCTURE. THE MODELING OF ZINC IS SUPPORTED BY ANOMALOUS REMARK 3 DIFFERENCE ELECTRON DENSITY MAPS.6. 1,2-ETHANEDIOL (EDO) USED AS REMARK 3 A CRYOPROTECTANT WAS MODELED INTO THE STRUCTURE. 7.SODIUM (NA) REMARK 3 FROM THE PURIFICATION BUFFER AND ACETATE (ACT) FROM THE REMARK 3 CRYSTALLIZATION HAVE BEEN MODELED INTO THE STRUCTURE. REMARK 4 REMARK 4 4NTL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-DEC-13. REMARK 100 THE DEPOSITION ID IS D_1000083639. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-OCT-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979347,0.918401,0.979261 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : KOHZU: DOUBLE CRYSTAL SI(111) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC Q315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.20 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32421 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.799 REMARK 200 RESOLUTION RANGE LOW (A) : 29.013 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.16800 REMARK 200 FOR THE DATA SET : 11.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.60 REMARK 200 R MERGE FOR SHELL (I) : 0.01900 REMARK 200 R SYM FOR SHELL (I) : 1.91100 REMARK 200 FOR SHELL : 0.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHARP, SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.12 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2000M ZINC ACETATE, 10.0000% REMARK 280 POLYETHYLENE GLYCOL 8000, 0.1M MES PH 6.0, VAPOR DIFFUSION, REMARK 280 SITTING DROP,NANODROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 48.58050 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 48.58050 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 72.34300 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 48.58050 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 48.58050 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 72.34300 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 48.58050 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 48.58050 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 72.34300 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 48.58050 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 48.58050 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 72.34300 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 48.58050 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 48.58050 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 72.34300 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 48.58050 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 48.58050 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 72.34300 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 48.58050 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 48.58050 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 72.34300 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 48.58050 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 48.58050 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 72.34300 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -189.0 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 97.16100 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 ZN ZN A 301 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 571 LIES ON A SPECIAL POSITION. 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 ASP A 27 REMARK 465 GLN A 28 REMARK 465 LYS A 29 REMARK 465 GLU A 30 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 LYS A 194 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 74 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 126 CB - CG - OD1 ANGL. DEV. = 7.2 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 86 -10.13 -160.40 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 ZN A 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 41 OE2 REMARK 620 2 ASP A 45 OD2 108.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 53 OE2 REMARK 620 2 HOH A 680 O 88.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 303 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 74 OD1 REMARK 620 2 HIS A 78 ND1 110.2 REMARK 620 3 GLU A 80 OE1 99.9 118.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 311 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 193 OE2 REMARK 620 2 ASP A 195 OD2 115.5 REMARK 620 3 ASP A 195 OD1 71.3 45.1 REMARK 620 4 HOH A 615 O 75.9 67.0 62.1 REMARK 620 5 HOH A 676 O 142.6 82.2 112.4 140.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 304 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 227 ND1 REMARK 620 2 ACT A 310 O 95.0 REMARK 620 3 ACT A 310 OXT 142.9 52.2 REMARK 620 4 HOH A 672 O 111.9 116.3 75.9 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 ZN A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 311 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: JCSG-420195 RELATED DB: TARGETTRACK REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT (RESIDUES 27-272) 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 4NTL A 27 272 UNP Q82Z74 Q82Z74_ENTFA 27 272 SEQADV 4NTL GLY A 0 UNP Q82Z74 EXPRESSION TAG SEQRES 1 A 247 GLY ASP GLN LYS GLU ASP LYS GLU ILE THR VAL ALA VAL SEQRES 2 A 247 GLN LEU GLU SER SER LYS ASP ILE LEU GLU ILE ALA LYS SEQRES 3 A 247 LYS GLU ALA GLU LYS LYS GLY TYR LYS ILE ASN ILE MSE SEQRES 4 A 247 GLU VAL SER ASP ASN VAL ALA TYR ASN ASP ALA VAL GLN SEQRES 5 A 247 HIS ASP GLU ALA ASP ALA ASN PHE ALA GLN HIS GLN PRO SEQRES 6 A 247 PHE MSE GLU MSE PHE ASN LYS GLU LYS LYS ALA ASP LEU SEQRES 7 A 247 VAL ALA VAL GLN PRO ILE TYR TYR PHE ALA GLY GLY PHE SEQRES 8 A 247 TYR SER LYS GLU TYR GLN ASP ALA LYS ASP LEU PRO GLU SEQRES 9 A 247 ASN ALA LYS VAL GLY ILE PRO SER ASP PRO THR ASN GLU SEQRES 10 A 247 GLY ARG ALA LEU ALA ILE LEU ASN ALA ASN GLY VAL ILE SEQRES 11 A 247 LYS LEU LYS GLU GLY VAL GLY PHE ASN GLY THR VAL ALA SEQRES 12 A 247 ASP VAL VAL GLU ASN PRO LYS ASN ILE THR PHE GLU SER SEQRES 13 A 247 ILE ASP LEU LEU ASN LEU ALA LYS ALA TYR ASP GLU LYS SEQRES 14 A 247 ASP ILE ALA MSE VAL PHE CYS TYR PRO ALA TYR LEU GLU SEQRES 15 A 247 PRO ALA GLY LEU THR THR LYS ASP ALA ILE LEU LEU GLU SEQRES 16 A 247 ASP LYS GLU ALA SER LYS HIS TYR ALA LEU GLN VAL VAL SEQRES 17 A 247 THR ARG LYS GLY GLU LYS ASP SER GLU LYS ILE LYS VAL SEQRES 18 A 247 LEU LYS GLU ALA MSE THR THR LYS GLU VAL ALA GLU TYR SEQRES 19 A 247 ILE LYS LYS ASN SER LYS GLY ALA ASN ILE PRO ALA PHE MODRES 4NTL MSE A 64 MET SELENOMETHIONINE MODRES 4NTL MSE A 92 MET SELENOMETHIONINE MODRES 4NTL MSE A 94 MET SELENOMETHIONINE MODRES 4NTL MSE A 198 MET SELENOMETHIONINE MODRES 4NTL MSE A 251 MET SELENOMETHIONINE HET MSE A 64 13 HET MSE A 92 8 HET MSE A 94 8 HET MSE A 198 8 HET MSE A 251 13 HET ZN A 301 1 HET ZN A 302 1 HET ZN A 303 1 HET ZN A 304 1 HET ZN A 305 1 HET EDO A 306 4 HET EDO A 307 4 HET EDO A 308 4 HET ACT A 309 4 HET ACT A 310 4 HET NA A 311 1 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETNAM ACT ACETATE ION HETNAM NA SODIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 5(C5 H11 N O2 SE) FORMUL 2 ZN 5(ZN 2+) FORMUL 7 EDO 3(C2 H6 O2) FORMUL 10 ACT 2(C2 H3 O2 1-) FORMUL 12 NA NA 1+ FORMUL 13 HOH *280(H2 O) HELIX 1 1 LEU A 40 LYS A 57 1 18 HELIX 2 2 VAL A 70 HIS A 78 1 9 HELIX 3 3 GLN A 89 LYS A 100 1 12 HELIX 4 4 ASP A 123 LEU A 127 5 5 HELIX 5 5 ASP A 138 ASN A 152 1 15 HELIX 6 6 THR A 166 ALA A 168 5 3 HELIX 7 7 ASP A 183 LEU A 185 5 3 HELIX 8 8 ASN A 186 TYR A 191 1 6 HELIX 9 9 TYR A 202 GLU A 207 5 6 HELIX 10 10 THR A 212 ALA A 216 5 5 HELIX 11 11 ASP A 221 TYR A 228 1 8 HELIX 12 12 GLY A 237 LYS A 239 5 3 HELIX 13 13 SER A 241 MSE A 251 1 11 HELIX 14 14 THR A 253 SER A 264 1 12 SHEET 1 A 6 LYS A 60 GLU A 65 0 SHEET 2 A 6 GLU A 33 VAL A 38 1 N VAL A 38 O MSE A 64 SHEET 3 A 6 ALA A 83 HIS A 88 1 O ALA A 83 N ALA A 37 SHEET 4 A 6 LEU A 230 ARG A 235 -1 O GLN A 231 N GLN A 87 SHEET 5 A 6 LEU A 103 TYR A 111 -1 N VAL A 106 O VAL A 232 SHEET 6 A 6 ILE A 269 PRO A 270 -1 O ILE A 269 N TYR A 111 SHEET 1 B 5 THR A 178 ILE A 182 0 SHEET 2 B 5 LYS A 132 PRO A 136 1 N ILE A 135 O GLU A 180 SHEET 3 B 5 ILE A 196 CYS A 201 1 O MSE A 198 N GLY A 134 SHEET 4 B 5 GLY A 115 TYR A 117 -1 N GLY A 115 O CYS A 201 SHEET 5 B 5 LEU A 218 LEU A 219 -1 O LEU A 218 N PHE A 116 SHEET 1 C 2 LYS A 156 LEU A 157 0 SHEET 2 C 2 VAL A 170 GLU A 172 -1 O VAL A 171 N LYS A 156 LINK C ILE A 63 N MSE A 64 1555 1555 1.33 LINK C MSE A 64 N GLU A 65 1555 1555 1.33 LINK C PHE A 91 N MSE A 92 1555 1555 1.33 LINK C MSE A 92 N GLU A 93 1555 1555 1.32 LINK C GLU A 93 N MSE A 94 1555 1555 1.33 LINK C MSE A 94 N PHE A 95 1555 1555 1.34 LINK C ALA A 197 N MSE A 198 1555 1555 1.34 LINK C MSE A 198 N VAL A 199 1555 1555 1.33 LINK C ALA A 250 N MSE A 251 1555 1555 1.32 LINK C MSE A 251 N THR A 252 1555 1555 1.35 LINK OE2 GLU A 41 ZN ZN A 301 1555 1555 1.91 LINK OD2 ASP A 45 ZN ZN A 301 1555 1555 2.09 LINK OE2 GLU A 53 ZN ZN A 302 1555 1555 2.28 LINK OD1 ASP A 74 ZN ZN A 303 1555 1555 1.74 LINK ND1 HIS A 78 ZN ZN A 303 1555 1555 2.10 LINK OE1 GLU A 80 ZN ZN A 303 1555 1555 2.18 LINK OE2 GLU A 193 NA NA A 311 1555 1555 2.13 LINK OD2 ASP A 195 NA NA A 311 1555 1555 2.85 LINK OD1 ASP A 195 NA NA A 311 1555 1555 2.88 LINK ND1 HIS A 227 ZN ZN A 304 1555 1555 2.04 LINK OXT PHE A 272 ZN ZN A 305 1555 1555 2.07 LINK ZN ZN A 302 O HOH A 680 1555 1555 2.38 LINK ZN ZN A 304 O ACT A 310 1555 1555 2.08 LINK ZN ZN A 304 OXT ACT A 310 1555 1555 2.64 LINK ZN ZN A 304 O HOH A 672 1555 1555 1.83 LINK NA NA A 311 O HOH A 615 1555 1555 2.36 LINK NA NA A 311 O HOH A 676 1555 1555 2.05 SITE 1 AC1 2 GLU A 41 ASP A 45 SITE 1 AC2 4 GLU A 53 GLU A 120 HOH A 599 HOH A 680 SITE 1 AC3 4 ASP A 74 HIS A 78 GLU A 80 GLU A 180 SITE 1 AC4 4 GLU A 159 HIS A 227 ACT A 310 HOH A 672 SITE 1 AC5 4 ASP A 123 ASP A 126 PHE A 272 ACT A 309 SITE 1 AC6 6 GLU A 53 GLU A 120 THR A 253 LYS A 254 SITE 2 AC6 6 GLU A 255 HOH A 622 SITE 1 AC7 9 ALA A 86 GLN A 87 HIS A 88 PHE A 91 SITE 2 AC7 9 LEU A 230 HOH A 503 HOH A 538 HOH A 576 SITE 3 AC7 9 HOH A 590 SITE 1 AC8 6 VAL A 76 ASP A 79 ALA A 81 ARG A 235 SITE 2 AC8 6 GLU A 238 HOH A 551 SITE 1 AC9 5 ASP A 123 ASP A 126 PHE A 272 ZN A 305 SITE 2 AC9 5 HOH A 468 SITE 1 BC1 6 GLU A 159 HIS A 227 ZN A 304 HOH A 448 SITE 2 BC1 6 HOH A 528 HOH A 672 SITE 1 BC2 4 GLU A 193 ASP A 195 HOH A 615 HOH A 676 CRYST1 97.161 97.161 144.686 90.00 90.00 90.00 I 4 2 2 16 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 0.010292 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010292 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006912 0.00000