HEADER OXIDOREDUCTASE 10-DEC-13 4NY7 TITLE BOND LENGTH ANALYSIS OF THE PQQC Y175F MUTANT STRUCTURE SHOWS EVIDENCE TITLE 2 FOR BOUND PQQ IN THE REDUCED FORM CAVEAT 4NY7 SEVERAL COVALENT ANGLE AND BOND DEVIATIONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PYRROLOQUINOLINE-QUINONE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: COENZYME PQQ SYNTHESIS PROTEIN C, PYRROLOQUINOLINE QUINONE COMPND 5 BIOSYNTHESIS PROTEIN C; COMPND 6 EC: 1.3.3.11; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: KLEBSIELLA PNEUMONIAE SUBSP. PNEUMONIAE; SOURCE 3 ORGANISM_TAXID: 272620; SOURCE 4 STRAIN: ATCC 700721 / MGH 78578; SOURCE 5 GENE: PQQC, KPN78578_17810, KPN_01811; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 KEYWDS ALL HELICAL, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.J.FISHER,S.PUEHRINGER REVDAT 3 20-SEP-23 4NY7 1 REMARK SEQADV REVDAT 2 22-NOV-17 4NY7 1 REMARK REVDAT 1 04-MAR-15 4NY7 0 JRNL AUTH S.J.FISHER,S.PUEHRINGER JRNL TITL BOND LENGTH ANALYSIS OF THE PQQC Y175F MUTANT STRUCTURE JRNL TITL 2 SHOWS EVIDENCE FOR BOUND PQQ IN THE REDUCED FORM JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.44 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.44 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.125 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.182 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 4996 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 102211 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4152 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 110 REMARK 3 SOLVENT ATOMS : 568 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : NULL REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : NULL REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : NULL REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : NULL REMARK 3 NUMBER OF RESTRAINTS : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.045 REMARK 3 ANGLE DISTANCES (A) : 0.038 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH & HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4NY7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-JAN-14. REMARK 100 THE DEPOSITION ID IS D_1000083804. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 REMARK 200 MONOCHROMATOR : DIAMOND (111), GE(220) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 100186 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.430 REMARK 200 RESOLUTION RANGE LOW (A) : 37.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.05600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.43 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.51 REMARK 200 COMPLETENESS FOR SHELL (%) : 0.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.37400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 3HLX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M AMMONIUM SULFATE, 0.1M BIS-TRIS REMARK 280 PH 6.5, 25% W/V POLY- ETHYLENE GLYCOL 3,350, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 298K, PH 7.8 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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 -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 35.49900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 58.01000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 35.49900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 58.01000 REMARK 290 SMTRY3 4 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: 7890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -68.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 HIS A 256 REMARK 465 HIS A 257 REMARK 465 HIS A 258 REMARK 465 MET B 1 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: 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 ASP A 5 CG ASP A 5 OD2 0.150 REMARK 500 HIS A 30 ND1 HIS A 30 CE1 0.164 REMARK 500 HIS A 30 CE1 HIS A 30 NE2 -0.218 REMARK 500 HIS A 30 CE1 HIS A 30 NE2 -0.308 REMARK 500 ARG A 75 NE ARG A 75 CZ -0.120 REMARK 500 ARG A 75 CZ ARG A 75 NH1 0.190 REMARK 500 HIS A 88 CE1 HIS A 88 NE2 -0.106 REMARK 500 GLU A 90 CD GLU A 90 OE1 -0.115 REMARK 500 GLU A 90 CD GLU A 90 OE2 0.149 REMARK 500 ASP A 91 CG ASP A 91 OD1 0.248 REMARK 500 ASP A 91 CG ASP A 91 OD2 -0.265 REMARK 500 GLU A 95 CD GLU A 95 OE1 0.133 REMARK 500 GLU A 95 CD GLU A 95 OE2 -0.075 REMARK 500 ASP A 109 CG ASP A 109 OD1 0.190 REMARK 500 ASP A 109 CG ASP A 109 OD1 -0.175 REMARK 500 ASP A 109 CG ASP A 109 OD2 -0.145 REMARK 500 ASP A 109 CG ASP A 109 OD2 0.205 REMARK 500 GLU A 114 CD GLU A 114 OE1 -0.106 REMARK 500 GLU A 114 CD GLU A 114 OE2 0.097 REMARK 500 ARG A 115 NE ARG A 115 CZ -0.328 REMARK 500 ARG A 115 CZ ARG A 115 NH1 0.458 REMARK 500 HIS A 116 CE1 HIS A 116 NE2 -0.098 REMARK 500 ARG A 133 NE ARG A 133 CZ 0.089 REMARK 500 ARG A 134 CZ ARG A 134 NH1 0.190 REMARK 500 ARG A 134 CZ ARG A 134 NH1 -0.083 REMARK 500 ARG A 134 CZ ARG A 134 NH2 -0.103 REMARK 500 GLU A 139 CD GLU A 139 OE2 -0.076 REMARK 500 GLU A 171 CD GLU A 171 OE1 -0.293 REMARK 500 GLU A 171 CD GLU A 171 OE2 0.331 REMARK 500 ARG A 177 NE ARG A 177 CZ -0.132 REMARK 500 ARG A 177 CZ ARG A 177 NH2 0.103 REMARK 500 ARG A 185 NE ARG A 185 CZ -0.270 REMARK 500 ARG A 185 NE ARG A 185 CZ -0.126 REMARK 500 ARG A 185 CZ ARG A 185 NH1 0.365 REMARK 500 ARG A 185 CZ ARG A 185 NH1 0.256 REMARK 500 ARG A 185 CZ ARG A 185 NH2 -0.085 REMARK 500 GLU A 188 CD GLU A 188 OE1 0.263 REMARK 500 GLU A 188 CD GLU A 188 OE2 -0.198 REMARK 500 ASP A 199 CG ASP A 199 OD1 -0.165 REMARK 500 ARG A 206 NE ARG A 206 CZ -0.080 REMARK 500 ARG A 206 CZ ARG A 206 NH1 0.104 REMARK 500 ARG A 249 CZ ARG A 249 NH1 -0.142 REMARK 500 GLU A 253 CD GLU A 253 OE2 0.096 REMARK 500 HIS A 255 ND1 HIS A 255 CE1 -0.130 REMARK 500 HIS A 255 CE1 HIS A 255 NE2 0.160 REMARK 500 GLU B 14 CD GLU B 14 OE1 -0.176 REMARK 500 GLU B 14 CD GLU B 14 OE2 0.335 REMARK 500 HIS B 30 CE1 HIS B 30 NE2 -0.176 REMARK 500 GLU B 41 CD GLU B 41 OE1 0.112 REMARK 500 ARG B 50 NE ARG B 50 CZ -0.089 REMARK 500 REMARK 500 THIS ENTRY HAS 101 BOND DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL 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 5 CB - CG - OD1 ANGL. DEV. = 10.3 DEGREES REMARK 500 ASP A 5 CB - CG - OD2 ANGL. DEV. = -8.1 DEGREES REMARK 500 HIS A 27 CG - ND1 - CE1 ANGL. DEV. = 15.8 DEGREES REMARK 500 HIS A 27 ND1 - CE1 - NE2 ANGL. DEV. = -10.4 DEGREES REMARK 500 PRO A 28 O - C - N ANGL. DEV. = -13.2 DEGREES REMARK 500 TYR A 29 C - N - CA ANGL. DEV. = 15.8 DEGREES REMARK 500 HIS A 30 CE1 - NE2 - CD2 ANGL. DEV. = 7.2 DEGREES REMARK 500 GLU A 41 O - C - N ANGL. DEV. = -9.7 DEGREES REMARK 500 ARG A 50 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG A 74 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 ARG A 74 NE - CZ - NH2 ANGL. DEV. = -6.6 DEGREES REMARK 500 ARG A 75 CD - NE - CZ ANGL. DEV. = 12.7 DEGREES REMARK 500 ARG A 75 NH1 - CZ - NH2 ANGL. DEV. = -10.7 DEGREES REMARK 500 ARG A 75 NE - CZ - NH1 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG A 75 NE - CZ - NH2 ANGL. DEV. = 15.0 DEGREES REMARK 500 GLU A 90 O - C - N ANGL. DEV. = -10.4 DEGREES REMARK 500 ASP A 91 CB - CG - OD1 ANGL. DEV. = -13.1 DEGREES REMARK 500 ASP A 91 CB - CG - OD1 ANGL. DEV. = 11.1 DEGREES REMARK 500 ASP A 91 CB - CG - OD2 ANGL. DEV. = 14.5 DEGREES REMARK 500 ASP A 91 CA - C - N ANGL. DEV. = 15.6 DEGREES REMARK 500 GLY A 92 C - N - CA ANGL. DEV. = 14.1 DEGREES REMARK 500 GLY A 92 C - N - CA ANGL. DEV. = 23.1 DEGREES REMARK 500 ARG A 99 NE - CZ - NH1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ARG A 99 NE - CZ - NH2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG A 108 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ASP A 109 CB - CG - OD1 ANGL. DEV. = -9.7 DEGREES REMARK 500 ASP A 109 CB - CG - OD1 ANGL. DEV. = 17.6 DEGREES REMARK 500 ASP A 109 CB - CG - OD2 ANGL. DEV. = 12.8 DEGREES REMARK 500 ASP A 109 CB - CG - OD2 ANGL. DEV. = -12.8 DEGREES REMARK 500 ARG A 115 CD - NE - CZ ANGL. DEV. = 51.7 DEGREES REMARK 500 ARG A 115 NH1 - CZ - NH2 ANGL. DEV. = -21.3 DEGREES REMARK 500 ARG A 115 NE - CZ - NH1 ANGL. DEV. = -9.9 DEGREES REMARK 500 ARG A 115 NE - CZ - NH2 ANGL. DEV. = 31.2 DEGREES REMARK 500 ARG A 122 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 122 NE - CZ - NH2 ANGL. DEV. = -5.9 DEGREES REMARK 500 ARG A 133 NE - CZ - NH2 ANGL. DEV. = -5.9 DEGREES REMARK 500 ARG A 134 NE - CZ - NH1 ANGL. DEV. = -9.9 DEGREES REMARK 500 ARG A 134 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 134 NE - CZ - NH2 ANGL. DEV. = 15.6 DEGREES REMARK 500 ARG A 134 NE - CZ - NH2 ANGL. DEV. = -6.6 DEGREES REMARK 500 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 157 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 GLU A 171 CG - CD - OE1 ANGL. DEV. = 23.1 DEGREES REMARK 500 GLU A 171 CG - CD - OE2 ANGL. DEV. = -18.1 DEGREES REMARK 500 ARG A 177 CD - NE - CZ ANGL. DEV. = 11.5 DEGREES REMARK 500 ARG A 177 NH1 - CZ - NH2 ANGL. DEV. = -11.0 DEGREES REMARK 500 ARG A 177 NE - CZ - NH1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ARG A 177 NE - CZ - NH2 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 179 NE - CZ - NH2 ANGL. DEV. = 5.1 DEGREES REMARK 500 ARG A 185 CD - NE - CZ ANGL. DEV. = 36.5 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 140 ANGLE DEVIATIONS. 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 HIS B 88 106.98 41.93 REMARK 500 GLU B 114 16.51 59.39 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 GLU A 90 ASP A 91 -147.92 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 PQQ A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PQQ B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 307 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3HLX RELATED DB: PDB DBREF 4NY7 A 1 251 UNP A6T9H1 PQQC_KLEP7 1 251 DBREF 4NY7 B 1 251 UNP A6T9H1 PQQC_KLEP7 1 251 SEQADV 4NY7 PHE A 175 UNP A6T9H1 TYR 175 ENGINEERED MUTATION SEQADV 4NY7 LEU A 252 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 GLU A 253 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 HIS A 254 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 HIS A 255 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 HIS A 256 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 HIS A 257 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 HIS A 258 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 PHE B 175 UNP A6T9H1 TYR 175 ENGINEERED MUTATION SEQADV 4NY7 LEU B 252 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 GLU B 253 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 HIS B 254 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 HIS B 255 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 HIS B 256 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 HIS B 257 UNP A6T9H1 EXPRESSION TAG SEQADV 4NY7 HIS B 258 UNP A6T9H1 EXPRESSION TAG SEQRES 1 A 258 MET LEU ILE THR ASP THR LEU SER PRO GLN ALA PHE GLU SEQRES 2 A 258 GLU ALA LEU ARG ALA LYS GLY ASP PHE TYR HIS ILE HIS SEQRES 3 A 258 HIS PRO TYR HIS ILE ALA MET HIS ASN GLY ASN ALA THR SEQRES 4 A 258 ARG GLU GLN ILE GLN GLY TRP VAL ALA ASN ARG PHE TYR SEQRES 5 A 258 TYR GLN THR THR ILE PRO LEU LYS ASP ALA ALA ILE MET SEQRES 6 A 258 ALA ASN CYS PRO ASP ALA GLN THR ARG ARG LYS TRP VAL SEQRES 7 A 258 GLN ARG ILE LEU ASP HIS ASP GLY SER HIS GLY GLU ASP SEQRES 8 A 258 GLY GLY ILE GLU ALA TRP LEU ARG LEU GLY GLU ALA VAL SEQRES 9 A 258 GLY LEU SER ARG ASP ASP LEU LEU SER GLU ARG HIS VAL SEQRES 10 A 258 LEU PRO GLY VAL ARG PHE ALA VAL ASP ALA TYR LEU ASN SEQRES 11 A 258 PHE ALA ARG ARG ALA CYS TRP GLN GLU ALA ALA CYS SER SEQRES 12 A 258 SER LEU THR GLU LEU PHE ALA PRO GLN ILE HIS GLN SER SEQRES 13 A 258 ARG LEU ASP SER TRP PRO GLN HIS TYR PRO TRP ILE LYS SEQRES 14 A 258 GLU GLU GLY TYR PHE PHE PHE ARG SER ARG LEU SER GLN SEQRES 15 A 258 ALA ASN ARG ASP VAL GLU HIS GLY LEU ALA LEU ALA LYS SEQRES 16 A 258 ALA TYR CYS ASP SER ALA GLU LYS GLN ASN ARG MET LEU SEQRES 17 A 258 GLU ILE LEU GLN PHE LYS LEU ASP ILE LEU TRP SER MET SEQRES 18 A 258 LEU ASP ALA MET THR MET ALA TYR ALA LEU GLN ARG PRO SEQRES 19 A 258 PRO TYR HIS THR VAL THR ASP LYS ALA ALA TRP HIS THR SEQRES 20 A 258 THR ARG LEU VAL LEU GLU HIS HIS HIS HIS HIS SEQRES 1 B 258 MET LEU ILE THR ASP THR LEU SER PRO GLN ALA PHE GLU SEQRES 2 B 258 GLU ALA LEU ARG ALA LYS GLY ASP PHE TYR HIS ILE HIS SEQRES 3 B 258 HIS PRO TYR HIS ILE ALA MET HIS ASN GLY ASN ALA THR SEQRES 4 B 258 ARG GLU GLN ILE GLN GLY TRP VAL ALA ASN ARG PHE TYR SEQRES 5 B 258 TYR GLN THR THR ILE PRO LEU LYS ASP ALA ALA ILE MET SEQRES 6 B 258 ALA ASN CYS PRO ASP ALA GLN THR ARG ARG LYS TRP VAL SEQRES 7 B 258 GLN ARG ILE LEU ASP HIS ASP GLY SER HIS GLY GLU ASP SEQRES 8 B 258 GLY GLY ILE GLU ALA TRP LEU ARG LEU GLY GLU ALA VAL SEQRES 9 B 258 GLY LEU SER ARG ASP ASP LEU LEU SER GLU ARG HIS VAL SEQRES 10 B 258 LEU PRO GLY VAL ARG PHE ALA VAL ASP ALA TYR LEU ASN SEQRES 11 B 258 PHE ALA ARG ARG ALA CYS TRP GLN GLU ALA ALA CYS SER SEQRES 12 B 258 SER LEU THR GLU LEU PHE ALA PRO GLN ILE HIS GLN SER SEQRES 13 B 258 ARG LEU ASP SER TRP PRO GLN HIS TYR PRO TRP ILE LYS SEQRES 14 B 258 GLU GLU GLY TYR PHE PHE PHE ARG SER ARG LEU SER GLN SEQRES 15 B 258 ALA ASN ARG ASP VAL GLU HIS GLY LEU ALA LEU ALA LYS SEQRES 16 B 258 ALA TYR CYS ASP SER ALA GLU LYS GLN ASN ARG MET LEU SEQRES 17 B 258 GLU ILE LEU GLN PHE LYS LEU ASP ILE LEU TRP SER MET SEQRES 18 B 258 LEU ASP ALA MET THR MET ALA TYR ALA LEU GLN ARG PRO SEQRES 19 B 258 PRO TYR HIS THR VAL THR ASP LYS ALA ALA TRP HIS THR SEQRES 20 B 258 THR ARG LEU VAL LEU GLU HIS HIS HIS HIS HIS HET PQQ A 301 24 HET GOL A 302 6 HET GOL A 303 6 HET CL A 304 1 HET GOL A 305 6 HET GOL A 306 6 HET GOL A 307 6 HET PQQ B 301 24 HET GOL B 302 6 HET GOL B 303 6 HET CL B 304 1 HET GOL B 305 6 HET GOL B 306 6 HET GOL B 307 6 HETNAM PQQ PYRROLOQUINOLINE QUINONE HETNAM GOL GLYCEROL HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 PQQ 2(C14 H6 N2 O8) FORMUL 4 GOL 10(C3 H8 O3) FORMUL 6 CL 2(CL 1-) FORMUL 17 HOH *568(H2 O) HELIX 1 1 SER A 8 LYS A 19 1 12 HELIX 2 2 GLY A 20 HIS A 26 5 7 HELIX 3 3 HIS A 27 ASN A 35 1 9 HELIX 4 4 THR A 39 ASN A 67 1 29 HELIX 5 5 ASP A 70 GLY A 86 1 17 HELIX 6 6 GLY A 92 VAL A 104 1 13 HELIX 7 7 SER A 107 SER A 113 1 7 HELIX 8 8 LEU A 118 ALA A 135 1 18 HELIX 9 9 CYS A 136 SER A 143 1 8 HELIX 10 10 SER A 144 LEU A 148 5 5 HELIX 11 11 PHE A 149 TYR A 165 1 17 HELIX 12 12 LYS A 169 GLY A 172 5 4 HELIX 13 13 TYR A 173 CYS A 198 1 26 HELIX 14 14 SER A 200 ALA A 230 1 31 HELIX 15 15 SER B 8 LYS B 19 1 12 HELIX 16 16 GLY B 20 HIS B 26 5 7 HELIX 17 17 HIS B 27 ASN B 35 1 9 HELIX 18 18 THR B 39 ASN B 67 1 29 HELIX 19 19 ASP B 70 GLY B 86 1 17 HELIX 20 20 GLY B 92 VAL B 104 1 13 HELIX 21 21 SER B 107 SER B 113 1 7 HELIX 22 22 LEU B 118 ALA B 135 1 18 HELIX 23 23 CYS B 136 SER B 143 1 8 HELIX 24 24 SER B 144 LEU B 148 5 5 HELIX 25 25 PHE B 149 TYR B 165 1 17 HELIX 26 26 LYS B 169 GLY B 172 5 4 HELIX 27 27 TYR B 173 CYS B 198 1 26 HELIX 28 28 SER B 200 ALA B 230 1 31 SITE 1 AC1 18 TYR A 23 HIS A 24 ARG A 50 TYR A 53 SITE 2 AC1 18 GLN A 54 LYS A 60 HIS A 84 TYR A 128 SITE 3 AC1 18 SER A 144 THR A 146 ILE A 153 HIS A 154 SITE 4 AC1 18 ARG A 157 PHE A 175 ARG A 179 LYS A 214 SITE 5 AC1 18 CL A 304 HOH A 437 SITE 1 AC2 7 LYS A 76 TRP A 77 ARG A 80 ARG A 185 SITE 2 AC2 7 ASP A 186 HIS A 189 HOH A 531 SITE 1 AC3 5 ARG A 233 HOH A 661 TYR B 29 THR B 226 SITE 2 AC3 5 HOH B 588 SITE 1 AC4 4 ALA A 150 HIS A 154 ARG A 179 PQQ A 301 SITE 1 AC5 9 GLY A 20 ARG A 40 PHE A 149 GLN A 152 SITE 2 AC5 9 HOH A 414 HOH A 417 HOH A 466 HOH A 501 SITE 3 AC5 9 HOH A 671 SITE 1 AC6 14 ARG A 134 ALA A 135 CYS A 136 VAL A 251 SITE 2 AC6 14 HOH A 452 HOH A 482 HOH A 519 HOH A 547 SITE 3 AC6 14 HOH A 568 HOH A 675 HOH A 677 HOH B 439 SITE 4 AC6 14 HOH B 574 HOH B 682 SITE 1 AC7 3 THR A 6 SER A 8 PRO A 9 SITE 1 AC8 19 TYR B 23 HIS B 24 ARG B 50 TYR B 53 SITE 2 AC8 19 GLN B 54 ILE B 57 LYS B 60 HIS B 84 SITE 3 AC8 19 TYR B 128 SER B 144 THR B 146 ILE B 153 SITE 4 AC8 19 HIS B 154 ARG B 157 PHE B 175 ARG B 179 SITE 5 AC8 19 LYS B 214 CL B 304 HOH B 412 SITE 1 AC9 9 LYS B 76 TRP B 77 GLN B 79 ARG B 80 SITE 2 AC9 9 ARG B 185 ASP B 186 HIS B 189 HOH B 621 SITE 3 AC9 9 HOH B 688 SITE 1 BC1 8 PRO A 28 TYR A 29 THR A 226 ALA A 230 SITE 2 BC1 8 LEU A 231 HOH A 606 ARG B 233 HOH B 541 SITE 1 BC2 5 ALA B 150 HIS B 154 ARG B 179 ALA B 183 SITE 2 BC2 5 PQQ B 301 SITE 1 BC3 5 ASN A 130 ARG A 133 ARG A 134 ARG B 133 SITE 2 BC3 5 ARG B 134 SITE 1 BC4 6 GLN B 138 GLU B 253 HIS B 254 HIS B 255 SITE 2 BC4 6 HOH B 497 HOH B 542 SITE 1 BC5 8 TYR B 229 PRO B 234 ASP B 241 LYS B 242 SITE 2 BC5 8 ALA B 243 TRP B 245 HOH B 537 HOH B 655 CRYST1 70.998 116.020 67.520 90.00 90.00 90.00 P 21 21 2 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 0.014085 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008619 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014810 0.00000