HEADER OXIDOREDUCTASE 06-APR-09 3GZ4 TITLE CRYSTAL STRUCTURE OF PUTATIVE SHORT CHAIN DEHYDROGENASE FROM TITLE 2 ESCHERICHIA COLI CFT073 COMPLEXED WITH NADPH COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYPOTHETICAL OXIDOREDUCTASE YCIK; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.-.-.-; COMPND 5 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,C.MORANO,J.M.SAUDER,S.K.BURLEY,S.C.ALMO,NEW AUTHOR 2 YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 8 21-FEB-24 3GZ4 1 REMARK REVDAT 7 10-FEB-21 3GZ4 1 AUTHOR JRNL REMARK REVDAT 6 21-NOV-18 3GZ4 1 AUTHOR REVDAT 5 01-NOV-17 3GZ4 1 REMARK REVDAT 4 04-DEC-13 3GZ4 1 HET HETATM HETNAM REMARK REVDAT 3 24-OCT-12 3GZ4 1 AUTHOR REVDAT 2 13-JUL-11 3GZ4 1 VERSN REVDAT 1 14-APR-09 3GZ4 0 JRNL AUTH V.N.MALASHKEVICH,R.TORO,C.MORANO,J.M.SAUDER,S.K.BURLEY, JRNL AUTH 2 S.C.ALMO JRNL TITL CRYSTAL STRUCTURE OF PUTATIVE SHORT CHAIN DEHYDROGENASE FROM JRNL TITL 2 ESCHERICHIA COLI CFT073 COMPLEXED WITH NADPH JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 72.9 REMARK 3 NUMBER OF REFLECTIONS : 20664 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) : 0.227 REMARK 3 R VALUE (WORKING SET) : 0.226 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1026 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 760 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 38.49 REMARK 3 BIN R VALUE (WORKING SET) : 0.4540 REMARK 3 BIN FREE R VALUE SET COUNT : 43 REMARK 3 BIN FREE R VALUE : 0.4630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3729 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 96 REMARK 3 SOLVENT ATOMS : 116 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) : 35.79 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.59000 REMARK 3 B22 (A**2) : -4.04000 REMARK 3 B33 (A**2) : 0.45000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 10.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.116 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.057 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.161 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.770 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.924 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.915 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3920 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5337 ; 1.646 ; 1.993 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 484 ; 6.838 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 179 ;35.601 ;24.246 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 654 ;17.662 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;13.787 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 595 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2959 ; 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): 2404 ; 0.899 ; 3.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3859 ; 3.974 ;50.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1516 ; 9.461 ;50.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1477 ; 0.845 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 99999 A 99999 1 REMARK 3 1 B 99999 B 99999 1 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 1888 ; 0.310 ; 5.000 REMARK 3 TIGHT THERMAL 1 A (A**2): 1888 ; 3.030 ;10.000 REMARK 3 REMARK 3 TWIN DETAILS REMARK 3 NUMBER OF TWIN DOMAINS : 2 REMARK 3 TWIN DOMAIN : 1 REMARK 3 TWIN OPERATOR : H, K, L REMARK 3 TWIN FRACTION : 0.946 REMARK 3 TWIN DOMAIN : 2 REMARK 3 TWIN OPERATOR : -H, -K, H+L REMARK 3 TWIN FRACTION : 0.054 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 243 REMARK 3 RESIDUE RANGE : A 500 A 500 REMARK 3 RESIDUE RANGE : A 259 A 374 REMARK 3 ORIGIN FOR THE GROUP (A): 12.0711 0.8154 14.8002 REMARK 3 T TENSOR REMARK 3 T11: 0.0000 T22: 0.0000 REMARK 3 T33: 0.0000 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 3 B 242 REMARK 3 RESIDUE RANGE : B 500 B 500 REMARK 3 ORIGIN FOR THE GROUP (A): 4.4822 -27.9873 -1.6833 REMARK 3 T TENSOR REMARK 3 T11: 0.0000 T22: 0.0000 REMARK 3 T33: 0.0000 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 3GZ4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-APR-09. REMARK 100 THE DEPOSITION ID IS D_1000052487. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 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) : NULL 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, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21681 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 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 (%) : 65.7 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : 0.14300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.0190 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 (%) : 14.1 REMARK 200 DATA REDUNDANCY IN SHELL : 1.20 REMARK 200 R MERGE FOR SHELL (I) : 0.87700 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.2 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 8000, 0.1 M NA-CACODYLATE, 0.2 REMARK 280 M MAGNESIUM ACETATE , PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K 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 65.25550 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: 5570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 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 -3 REMARK 465 SER A -2 REMARK 465 LEU A -1 REMARK 465 HIS A 0 REMARK 465 TYR A 1 REMARK 465 ARG A 244 REMARK 465 LYS A 245 REMARK 465 PRO A 246 REMARK 465 GLY A 247 REMARK 465 ILE A 248 REMARK 465 SER A 249 REMARK 465 GLN A 250 REMARK 465 GLU A 251 REMARK 465 GLY A 252 REMARK 465 HIS A 253 REMARK 465 HIS A 254 REMARK 465 HIS A 255 REMARK 465 HIS A 256 REMARK 465 HIS A 257 REMARK 465 HIS A 258 REMARK 465 MET B -3 REMARK 465 SER B -2 REMARK 465 LEU B -1 REMARK 465 HIS B 0 REMARK 465 TYR B 1 REMARK 465 GLN B 2 REMARK 465 GLY B 243 REMARK 465 ARG B 244 REMARK 465 LYS B 245 REMARK 465 PRO B 246 REMARK 465 GLY B 247 REMARK 465 ILE B 248 REMARK 465 SER B 249 REMARK 465 GLN B 250 REMARK 465 GLU B 251 REMARK 465 GLY B 252 REMARK 465 HIS B 253 REMARK 465 HIS B 254 REMARK 465 HIS B 255 REMARK 465 HIS B 256 REMARK 465 HIS B 257 REMARK 465 HIS B 258 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 O ASN A 122 O HOH A 285 2.12 REMARK 500 O1X NDP A 500 O HOH A 282 2.16 REMARK 500 OE2 GLU A 57 O HOH A 276 2.18 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 PRO A 3 -149.75 -85.60 REMARK 500 ASP A 20 157.66 175.73 REMARK 500 ARG A 90 -172.44 169.31 REMARK 500 PRO A 106 138.57 -34.41 REMARK 500 GLN A 110 127.43 -37.77 REMARK 500 ALA A 142 39.94 -148.36 REMARK 500 SER A 149 -161.85 -110.38 REMARK 500 ASN A 159 -2.17 84.64 REMARK 500 VAL A 176 -71.59 -63.12 REMARK 500 GLN A 183 -0.32 61.33 REMARK 500 PRO A 242 91.53 -58.25 REMARK 500 ALA B 98 154.43 -49.22 REMARK 500 SER B 149 -150.22 -106.88 REMARK 500 ASN B 159 -5.57 83.00 REMARK 500 GLN B 183 3.15 53.69 REMARK 500 ARG B 196 83.38 -65.34 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 GLN A 2 PRO A 3 -144.52 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NDP A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NDP B 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-13837B RELATED DB: TARGETDB DBREF 3GZ4 A 0 250 UNP Q8FHV3 Q8FHV3_ECOL6 2 252 DBREF 3GZ4 B 0 250 UNP Q8FHV3 Q8FHV3_ECOL6 2 252 SEQADV 3GZ4 MET A -3 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 SER A -2 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 LEU A -1 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 GLU A 251 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 GLY A 252 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS A 253 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS A 254 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS A 255 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS A 256 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS A 257 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS A 258 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 MET B -3 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 SER B -2 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 LEU B -1 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 GLU B 251 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 GLY B 252 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS B 253 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS B 254 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS B 255 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS B 256 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS B 257 UNP Q8FHV3 EXPRESSION TAG SEQADV 3GZ4 HIS B 258 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 HET NDP A 500 48 HET NDP B 500 48 HETNAM NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM 2 NDP PHOSPHATE FORMUL 3 NDP 2(C21 H30 N7 O17 P3) FORMUL 5 HOH *116(H2 O) HELIX 1 1 ASP A 20 TYR A 33 1 14 HELIX 2 2 ASN A 43 GLY A 59 1 17 HELIX 3 3 THR A 73 TYR A 88 1 16 HELIX 4 4 ASP A 111 VAL A 123 1 13 HELIX 5 5 VAL A 123 LYS A 139 1 17 HELIX 6 6 SER A 150 ARG A 154 5 5 HELIX 7 7 TRP A 160 TYR A 181 1 22 HELIX 8 8 THR A 197 PHE A 204 1 8 HELIX 9 9 ASP A 208 LEU A 212 5 5 HELIX 10 10 THR A 214 ASP A 217 5 4 HELIX 11 11 ILE A 218 LEU A 225 1 8 HELIX 12 12 MET A 226 ARG A 231 5 6 HELIX 13 13 ASP B 20 TYR B 33 1 14 HELIX 14 14 ASN B 43 GLY B 59 1 17 HELIX 15 15 THR B 73 TYR B 88 1 16 HELIX 16 16 ASP B 111 VAL B 123 1 13 HELIX 17 17 VAL B 123 LYS B 139 1 17 HELIX 18 18 SER B 150 ARG B 154 5 5 HELIX 19 19 TRP B 160 TYR B 181 1 22 HELIX 20 20 THR B 197 PHE B 204 1 8 HELIX 21 21 ASP B 208 LEU B 212 5 5 HELIX 22 22 THR B 214 ASP B 217 5 4 HELIX 23 23 ILE B 218 LEU B 225 1 8 HELIX 24 24 GLY B 227 ARG B 231 5 5 SHEET 1 A 7 GLN A 63 ILE A 66 0 SHEET 2 A 7 THR A 36 GLY A 41 1 N LEU A 39 O GLN A 63 SHEET 3 A 7 ILE A 12 THR A 16 1 N VAL A 15 O ILE A 38 SHEET 4 A 7 GLY A 93 LEU A 95 1 O LEU A 95 N LEU A 14 SHEET 5 A 7 SER A 144 THR A 148 1 O SER A 144 N VAL A 94 SHEET 6 A 7 ARG A 186 ASN A 191 1 O ARG A 186 N LEU A 145 SHEET 7 A 7 THR A 237 ASP A 239 1 O PHE A 238 N ASN A 191 SHEET 1 B 7 GLN B 63 ILE B 66 0 SHEET 2 B 7 THR B 36 GLY B 41 1 N LEU B 39 O PHE B 65 SHEET 3 B 7 ILE B 12 THR B 16 1 N ILE B 13 O THR B 36 SHEET 4 B 7 GLY B 93 HIS B 96 1 O LEU B 95 N LEU B 14 SHEET 5 B 7 GLY B 143 THR B 148 1 O SER B 144 N VAL B 94 SHEET 6 B 7 LEU B 185 ASN B 191 1 O ILE B 190 N PHE B 147 SHEET 7 B 7 THR B 237 ASP B 239 1 O PHE B 238 N ASN B 191 SITE 1 AC1 30 GLY A 17 SER A 19 GLY A 21 ILE A 22 SITE 2 AC1 30 ARG A 42 ASN A 43 LYS A 46 LEU A 67 SITE 3 AC1 30 ASP A 68 LEU A 69 LEU A 70 ASN A 97 SITE 4 AC1 30 ALA A 98 GLY A 99 VAL A 121 THR A 148 SITE 5 AC1 30 SER A 149 SER A 150 TYR A 163 LYS A 167 SITE 6 AC1 30 GLY A 193 GLY A 194 THR A 195 THR A 197 SITE 7 AC1 30 MET A 199 ARG A 200 HOH A 261 HOH A 282 SITE 8 AC1 30 HOH A 330 HOH A 374 SITE 1 AC2 26 GLY B 17 SER B 19 ASP B 20 GLY B 21 SITE 2 AC2 26 ILE B 22 ARG B 42 LYS B 46 LEU B 67 SITE 3 AC2 26 ASP B 68 LEU B 69 LEU B 70 ASN B 97 SITE 4 AC2 26 ALA B 98 GLY B 99 THR B 148 SER B 149 SITE 5 AC2 26 SER B 150 TYR B 163 LYS B 167 PRO B 192 SITE 6 AC2 26 GLY B 193 GLY B 194 THR B 195 THR B 197 SITE 7 AC2 26 MET B 199 ARG B 200 CRYST1 43.794 130.511 47.934 90.00 115.06 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 0.022834 0.000000 0.010675 0.00000 SCALE2 0.000000 0.007662 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023029 0.00000