HEADER OXIDOREDUCTASE 04-NOV-08 3F5Q TITLE CRYSTAL STRUCTURE OF PUTATIVE SHORT CHAIN DEHYDROGENASE FROM TITLE 2 ESCHERICHIA COLI CFT073 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: HYPOTHETICAL OXIDOREDUCTASE YCIK; COMPND 5 EC: 1.-.-.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI O6; SOURCE 3 ORGANISM_TAXID: 217992; SOURCE 4 STRAIN: CFT073; SOURCE 5 GENE: AAN80202.1, C1736, YCIK; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)CODON+RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: BC-PSGX3(BC) KEYWDS STRUCTURAL GENOMICS, PROTEIN STRUCTURE INITIATIVE, NEW YORK KEYWDS 2 STRUCTURAL GENOMIX RESEARCH CONSORTIUM, NYSGXRC, DEHYDROGENASE, KEYWDS 3 OXIDOREDUCTASE, PSI-2, NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL KEYWDS 4 GENOMICS EXPDTA X-RAY DIFFRACTION AUTHOR V.N.MALASHKEVICH,R.TORO,J.M.SAUDER,S.K.BURLEY,S.C.ALMO,NEW YORK SGX AUTHOR 2 RESEARCH CENTER FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 5 10-FEB-21 3F5Q 1 AUTHOR JRNL REVDAT 4 14-NOV-18 3F5Q 1 AUTHOR REVDAT 3 25-OCT-17 3F5Q 1 REMARK REVDAT 2 13-JUL-11 3F5Q 1 VERSN REVDAT 1 13-JAN-09 3F5Q 0 JRNL AUTH V.N.MALASHKEVICH,R.TORO,J.M.SAUDER,S.K.BURLEY,S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF AN UNCHARACTERIZED PROTEIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.76 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.76 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 41194 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) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2085 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) : 1.76 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.81 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2726 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2100 REMARK 3 BIN FREE R VALUE SET COUNT : 126 REMARK 3 BIN FREE R VALUE : 0.2750 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3544 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 362 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : -0.06000 REMARK 3 B33 (A**2) : -0.02000 REMARK 3 B12 (A**2) : -0.14000 REMARK 3 B13 (A**2) : 0.04000 REMARK 3 B23 (A**2) : -0.07000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.126 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.123 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.079 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.872 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3659 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4962 ; 1.402 ; 1.961 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 463 ; 6.011 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 175 ;37.646 ;24.514 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 635 ;16.042 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;15.358 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 555 ; 0.102 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2797 ; 0.007 ; 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): 2299 ; 1.069 ; 3.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3688 ; 3.485 ;50.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1360 ; 7.580 ;50.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1274 ; 1.346 ; 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 : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 6 A 246 REMARK 3 ORIGIN FOR THE GROUP (A): 21.2572 33.6793 61.5851 REMARK 3 T TENSOR REMARK 3 T11: -0.0708 T22: -0.0169 REMARK 3 T33: -0.0344 T12: 0.0205 REMARK 3 T13: -0.0248 T23: 0.0043 REMARK 3 L TENSOR REMARK 3 L11: 0.6047 L22: 1.8822 REMARK 3 L33: 0.8350 L12: 0.6328 REMARK 3 L13: -0.1468 L23: -0.1256 REMARK 3 S TENSOR REMARK 3 S11: 0.0565 S12: -0.0834 S13: -0.0461 REMARK 3 S21: 0.1818 S22: -0.0921 S23: -0.0713 REMARK 3 S31: -0.0002 S32: -0.0711 S33: 0.0357 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 6 B 245 REMARK 3 ORIGIN FOR THE GROUP (A): 6.7960 6.1769 35.6299 REMARK 3 T TENSOR REMARK 3 T11: 0.0601 T22: -0.0304 REMARK 3 T33: -0.0567 T12: -0.0382 REMARK 3 T13: 0.0246 T23: -0.0189 REMARK 3 L TENSOR REMARK 3 L11: 1.0598 L22: 1.0805 REMARK 3 L33: 0.8671 L12: 0.9017 REMARK 3 L13: -0.1003 L23: -0.1325 REMARK 3 S TENSOR REMARK 3 S11: -0.2405 S12: 0.1971 S13: -0.0845 REMARK 3 S21: -0.3739 S22: 0.1993 S23: -0.0637 REMARK 3 S31: -0.1206 S32: -0.0161 S33: 0.0412 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3F5Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-NOV-08. REMARK 100 THE DEPOSITION ID IS D_1000050179. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41952 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.760 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.08700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 39.8620 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.76 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.82 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.19200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, RESOLVE 2.13, SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M AMMONIUM ACETATE, 0.1M HEPES, 25% REMARK 280 PEG3350, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: BIOLOGICAL UNIT IS THE SAME AS ASYMMETRIC UNIT. 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: 2950 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 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 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 27.77552 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 46.31820 REMARK 350 BIOMT3 2 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 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 SER A 2 REMARK 465 LEU A 3 REMARK 465 HIS A 4 REMARK 465 TYR A 5 REMARK 465 THR A 201 REMARK 465 ALA A 202 REMARK 465 MET A 203 REMARK 465 ARG A 204 REMARK 465 ALA A 205 REMARK 465 SER A 206 REMARK 465 ALA A 207 REMARK 465 PHE A 208 REMARK 465 PRO A 209 REMARK 465 THR A 210 REMARK 465 GLU A 211 REMARK 465 ASP A 212 REMARK 465 PRO A 213 REMARK 465 GLY A 247 REMARK 465 ARG A 248 REMARK 465 LYS A 249 REMARK 465 PRO A 250 REMARK 465 GLY A 251 REMARK 465 ILE A 252 REMARK 465 SER A 253 REMARK 465 GLN A 254 REMARK 465 GLU A 255 REMARK 465 GLY A 256 REMARK 465 HIS A 257 REMARK 465 HIS A 258 REMARK 465 HIS A 259 REMARK 465 HIS A 260 REMARK 465 HIS A 261 REMARK 465 HIS A 262 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 LEU B 3 REMARK 465 HIS B 4 REMARK 465 TYR B 5 REMARK 465 THR B 201 REMARK 465 ALA B 202 REMARK 465 MET B 203 REMARK 465 ARG B 204 REMARK 465 ALA B 205 REMARK 465 SER B 206 REMARK 465 ALA B 207 REMARK 465 PHE B 208 REMARK 465 PRO B 209 REMARK 465 THR B 210 REMARK 465 GLU B 211 REMARK 465 PRO B 246 REMARK 465 GLY B 247 REMARK 465 ARG B 248 REMARK 465 LYS B 249 REMARK 465 PRO B 250 REMARK 465 GLY B 251 REMARK 465 ILE B 252 REMARK 465 SER B 253 REMARK 465 GLN B 254 REMARK 465 GLU B 255 REMARK 465 GLY B 256 REMARK 465 HIS B 257 REMARK 465 HIS B 258 REMARK 465 HIS B 259 REMARK 465 HIS B 260 REMARK 465 HIS B 261 REMARK 465 HIS B 262 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 ARG B 236 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE2 GLU B 49 NH2 ARG B 52 1.46 REMARK 500 O HOH A 420 O HOH A 578 1.76 REMARK 500 O HOH A 283 O HOH A 509 1.83 REMARK 500 O HOH A 401 O HOH A 589 1.90 REMARK 500 O HOH A 412 O HOH A 420 1.96 REMARK 500 O HOH A 391 O HOH A 394 2.04 REMARK 500 NE2 GLN A 117 O HOH A 521 2.14 REMARK 500 O HOH A 354 O HOH A 374 2.18 REMARK 500 O ARG A 188 O HOH A 279 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 MET B 123 CG MET B 123 SD 0.164 REMARK 500 MET B 132 CG MET B 132 SD 0.163 REMARK 500 MET B 230 CG MET B 230 SD 0.159 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 146 68.10 -161.42 REMARK 500 SER A 153 -156.23 -116.37 REMARK 500 ASN A 163 -7.21 85.70 REMARK 500 GLN A 186 -113.42 9.35 REMARK 500 GLN A 187 -1.23 81.03 REMARK 500 LYS A 215 -8.32 67.93 REMARK 500 VAL B 127 -66.17 -109.53 REMARK 500 ALA B 146 76.33 -169.79 REMARK 500 SER B 153 -155.20 -111.56 REMARK 500 ASN B 163 -7.03 84.09 REMARK 500 GLN B 187 -40.07 81.20 REMARK 500 ARG B 236 -12.29 77.14 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 THR A 199 ARG A 200 138.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-13837B RELATED DB: TARGETDB DBREF 3F5Q A 4 254 UNP Q8FHV3 Q8FHV3_ECOL6 2 252 DBREF 3F5Q B 4 254 UNP Q8FHV3 Q8FHV3_ECOL6 2 252 SEQADV 3F5Q MET A 1 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q SER A 2 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q LEU A 3 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q GLU A 255 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q GLY A 256 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS A 257 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS A 258 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS A 259 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS A 260 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS A 261 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS A 262 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q MET B 1 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q SER B 2 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q LEU B 3 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q GLU B 255 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q GLY B 256 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS B 257 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS B 258 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS B 259 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS B 260 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS B 261 UNP Q8FHV3 EXPRESSION TAG SEQADV 3F5Q HIS B 262 UNP Q8FHV3 EXPRESSION TAG SEQRES 1 A 262 MET SER LEU HIS TYR GLN PRO LYS GLN ASP LEU LEU ASN SEQRES 2 A 262 ASP ARG ILE ILE LEU VAL THR GLY ALA SER ASP GLY ILE SEQRES 3 A 262 GLY ARG GLU ALA ALA MET THR TYR ALA ARG TYR GLY ALA SEQRES 4 A 262 THR VAL ILE LEU LEU GLY ARG ASN GLU GLU LYS LEU ARG SEQRES 5 A 262 GLN VAL ALA SER HIS ILE ASN GLU GLU THR GLY ARG GLN SEQRES 6 A 262 PRO GLN TRP PHE ILE LEU ASP LEU LEU THR CYS THR SER SEQRES 7 A 262 GLU ASP CYS GLN GLN LEU ALA GLN ARG ILE ALA VAL ASN SEQRES 8 A 262 TYR PRO ARG LEU ASP GLY VAL LEU HIS ASN ALA GLY LEU SEQRES 9 A 262 LEU GLY ASP VAL CYS PRO MET SER GLU GLN ASP PRO GLN SEQRES 10 A 262 VAL TRP GLN ASP VAL MET GLN VAL ASN VAL ASN ALA THR SEQRES 11 A 262 PHE MET LEU THR GLN ALA LEU LEU PRO LEU LEU LEU LYS SEQRES 12 A 262 SER ASP ALA GLY SER LEU VAL PHE THR SER SER SER VAL SEQRES 13 A 262 GLY ARG GLN GLY ARG ALA ASN TRP GLY ALA TYR ALA ALA SEQRES 14 A 262 SER LYS PHE ALA THR GLU GLY MET MET GLN VAL LEU ALA SEQRES 15 A 262 ASP GLU TYR GLN GLN ARG LEU ARG VAL ASN CYS ILE ASN SEQRES 16 A 262 PRO GLY GLY THR ARG THR ALA MET ARG ALA SER ALA PHE SEQRES 17 A 262 PRO THR GLU ASP PRO GLN LYS LEU LYS THR PRO ALA ASP SEQRES 18 A 262 ILE MET PRO LEU TYR LEU TRP LEU MET GLY ASP ASP SER SEQRES 19 A 262 ARG ARG LYS THR GLY MET THR PHE ASP ALA GLN PRO GLY SEQRES 20 A 262 ARG LYS PRO GLY ILE SER GLN GLU GLY HIS HIS HIS HIS SEQRES 21 A 262 HIS HIS SEQRES 1 B 262 MET SER LEU HIS TYR GLN PRO LYS GLN ASP LEU LEU ASN SEQRES 2 B 262 ASP ARG ILE ILE LEU VAL THR GLY ALA SER ASP GLY ILE SEQRES 3 B 262 GLY ARG GLU ALA ALA MET THR TYR ALA ARG TYR GLY ALA SEQRES 4 B 262 THR VAL ILE LEU LEU GLY ARG ASN GLU GLU LYS LEU ARG SEQRES 5 B 262 GLN VAL ALA SER HIS ILE ASN GLU GLU THR GLY ARG GLN SEQRES 6 B 262 PRO GLN TRP PHE ILE LEU ASP LEU LEU THR CYS THR SER SEQRES 7 B 262 GLU ASP CYS GLN GLN LEU ALA GLN ARG ILE ALA VAL ASN SEQRES 8 B 262 TYR PRO ARG LEU ASP GLY VAL LEU HIS ASN ALA GLY LEU SEQRES 9 B 262 LEU GLY ASP VAL CYS PRO MET SER GLU GLN ASP PRO GLN SEQRES 10 B 262 VAL TRP GLN ASP VAL MET GLN VAL ASN VAL ASN ALA THR SEQRES 11 B 262 PHE MET LEU THR GLN ALA LEU LEU PRO LEU LEU LEU LYS SEQRES 12 B 262 SER ASP ALA GLY SER LEU VAL PHE THR SER SER SER VAL SEQRES 13 B 262 GLY ARG GLN GLY ARG ALA ASN TRP GLY ALA TYR ALA ALA SEQRES 14 B 262 SER LYS PHE ALA THR GLU GLY MET MET GLN VAL LEU ALA SEQRES 15 B 262 ASP GLU TYR GLN GLN ARG LEU ARG VAL ASN CYS ILE ASN SEQRES 16 B 262 PRO GLY GLY THR ARG THR ALA MET ARG ALA SER ALA PHE SEQRES 17 B 262 PRO THR GLU ASP PRO GLN LYS LEU LYS THR PRO ALA ASP SEQRES 18 B 262 ILE MET PRO LEU TYR LEU TRP LEU MET GLY ASP ASP SER SEQRES 19 B 262 ARG ARG LYS THR GLY MET THR PHE ASP ALA GLN PRO GLY SEQRES 20 B 262 ARG LYS PRO GLY ILE SER GLN GLU GLY HIS HIS HIS HIS SEQRES 21 B 262 HIS HIS FORMUL 3 HOH *362(H2 O) HELIX 1 1 ASP A 24 TYR A 37 1 14 HELIX 2 2 ASN A 47 GLY A 63 1 17 HELIX 3 3 THR A 77 TYR A 92 1 16 HELIX 4 4 ASP A 115 VAL A 127 1 13 HELIX 5 5 VAL A 127 LYS A 143 1 17 HELIX 6 6 SER A 154 ARG A 158 5 5 HELIX 7 7 TRP A 164 TYR A 185 1 22 HELIX 8 8 PRO A 219 ASP A 221 5 3 HELIX 9 9 ILE A 222 GLY A 231 1 10 HELIX 10 10 ASP A 232 ARG A 235 5 4 HELIX 11 11 ASP B 24 TYR B 37 1 14 HELIX 12 12 ASN B 47 GLY B 63 1 17 HELIX 13 13 THR B 77 TYR B 92 1 16 HELIX 14 14 ASP B 115 VAL B 127 1 13 HELIX 15 15 VAL B 127 LYS B 143 1 17 HELIX 16 16 SER B 154 ARG B 158 5 5 HELIX 17 17 TRP B 164 TYR B 185 1 22 HELIX 18 18 THR B 218 ASP B 221 5 4 HELIX 19 19 ILE B 222 GLY B 231 1 10 HELIX 20 20 ASP B 232 ARG B 235 5 4 SHEET 1 A 7 GLN A 67 ILE A 70 0 SHEET 2 A 7 THR A 40 GLY A 45 1 N LEU A 43 O GLN A 67 SHEET 3 A 7 ILE A 16 VAL A 19 1 N VAL A 19 O LEU A 44 SHEET 4 A 7 GLY A 97 HIS A 100 1 O LEU A 99 N LEU A 18 SHEET 5 A 7 SER A 148 THR A 152 1 O VAL A 150 N HIS A 100 SHEET 6 A 7 ARG A 190 ASN A 195 1 O ARG A 190 N LEU A 149 SHEET 7 A 7 THR A 241 ASP A 243 1 O PHE A 242 N ASN A 195 SHEET 1 B 7 GLN B 67 ILE B 70 0 SHEET 2 B 7 THR B 40 GLY B 45 1 N LEU B 43 O GLN B 67 SHEET 3 B 7 ILE B 16 VAL B 19 1 N VAL B 19 O ILE B 42 SHEET 4 B 7 GLY B 97 HIS B 100 1 O LEU B 99 N LEU B 18 SHEET 5 B 7 GLY B 147 THR B 152 1 O VAL B 150 N HIS B 100 SHEET 6 B 7 LEU B 189 ASN B 195 1 O ARG B 190 N LEU B 149 SHEET 7 B 7 THR B 241 ASP B 243 1 O PHE B 242 N ASN B 195 CISPEP 1 GLN A 6 PRO A 7 0 -20.34 CRYST1 40.412 48.011 65.232 100.29 102.67 105.26 P 1 2 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 0.024745 0.006753 0.007497 0.00000 SCALE2 0.000000 0.021590 0.005600 0.00000 SCALE3 0.000000 0.000000 0.016232 0.00000 MASTER 439 0 0 20 14 0 0 6 0 0 0 42 END