HEADER HYDROLASE 21-JUN-20 7CDY TITLE CRYSTAL STRUCTURE OF GLUCOSE DEHYDROGENASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUCOSE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SERRATIA SP. FS14; SOURCE 3 ORGANISM_TAXID: 1327989; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GLUCOSE DEHYDROGENASE, SERRATIA, PQQ, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.JIA,D.XU,W.WANG,T.RAN REVDAT 2 29-NOV-23 7CDY 1 REMARK REVDAT 1 23-JUN-21 7CDY 0 JRNL AUTH S.JIA,D.XU,W.WANG,T.RAN JRNL TITL STRUCTURE OF GLUCOSE DEHYDROGENASE AT 1.33 ANGSTROMS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.33 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.33 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 77.48 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 170646 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.181 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.992 REMARK 3 FREE R VALUE TEST SET COUNT : 8519 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) : 1.33 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 11485 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.99 REMARK 3 BIN R VALUE (WORKING SET) : 0.2780 REMARK 3 BIN FREE R VALUE SET COUNT : 564 REMARK 3 BIN FREE R VALUE : 0.2880 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5337 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 994 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.87 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.26500 REMARK 3 B22 (A**2) : 0.81900 REMARK 3 B33 (A**2) : -0.34300 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.25600 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.049 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.049 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5659 ; 0.014 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 5191 ; 0.035 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7700 ; 1.768 ; 1.647 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12037 ; 2.309 ; 1.577 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 718 ; 6.881 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 321 ;30.056 ;21.090 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 874 ;12.786 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 52 ;14.269 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 655 ; 0.124 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6552 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1264 ; 0.006 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 866 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 58 ; 0.195 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2608 ; 0.177 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 704 ; 0.206 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 7 ; 0.072 ; 0.200 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): 2839 ; 1.823 ; 1.421 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2838 ; 1.818 ; 1.420 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3565 ; 2.489 ; 2.133 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3566 ; 2.488 ; 2.134 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2820 ; 3.045 ; 1.657 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2821 ; 3.045 ; 1.658 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4134 ; 4.095 ; 2.397 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4135 ; 4.094 ; 2.398 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 7CDY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JUN-20. REMARK 100 THE DEPOSITION ID IS D_1300017387. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-APR-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL19U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 170679 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.329 REMARK 200 RESOLUTION RANGE LOW (A) : 77.475 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.33 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.35 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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 REMARK 200 STARTING MODEL: 2G8S REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG4000, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 277K 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 44.30600 REMARK 290 SMTRY3 2 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 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 LEU A 348 REMARK 465 GLU A 349 REMARK 465 HIS A 350 REMARK 465 HIS A 351 REMARK 465 HIS A 352 REMARK 465 HIS A 353 REMARK 465 HIS A 354 REMARK 465 HIS A 355 REMARK 465 MET B 1 REMARK 465 PRO B 212 REMARK 465 ARG B 213 REMARK 465 LEU B 348 REMARK 465 GLU B 349 REMARK 465 HIS B 350 REMARK 465 HIS B 351 REMARK 465 HIS B 352 REMARK 465 HIS B 353 REMARK 465 HIS B 354 REMARK 465 HIS B 355 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU A 23 CG CD OE1 OE2 REMARK 470 GLU A 86 CG CD OE1 OE2 REMARK 470 ARG A 105 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 304 CG CD CE NZ REMARK 470 LYS B 42 CG CD CE NZ REMARK 470 GLU B 86 CG CD OE1 OE2 REMARK 470 TYR B 238 CG CD1 CD2 CE1 CE2 CZ OH 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 H LEU A 222 HH TYR A 227 1.05 REMARK 500 H LEU B 222 HH TYR B 227 1.12 REMARK 500 HG SER A 16 H VAL A 65 1.29 REMARK 500 HG SER A 284 HH11 ARG A 297 1.30 REMARK 500 H GLY A 180 O HOH A 510 1.51 REMARK 500 HE22 GLN B 276 O HOH B 502 1.53 REMARK 500 HE22 GLN B 6 O HOH B 503 1.53 REMARK 500 HE21 GLN A 134 O HOH A 505 1.58 REMARK 500 O LEU B 231 H LYS B 247 1.58 REMARK 500 H GLY A 87 O HOH A 532 1.60 REMARK 500 O HOH A 920 O HOH B 522 2.08 REMARK 500 O HOH A 717 O HOH A 737 2.11 REMARK 500 O HOH B 512 O HOH B 731 2.16 REMARK 500 OE1 GLN B 24 O HOH B 501 2.16 REMARK 500 O HOH A 720 O HOH A 823 2.17 REMARK 500 O HOH A 826 O HOH A 951 2.18 REMARK 500 O HOH B 784 O HOH B 797 2.18 REMARK 500 O HOH B 515 O HOH B 523 2.18 REMARK 500 NE2 GLN B 276 O HOH B 502 2.18 REMARK 500 O HOH A 511 O HOH A 855 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 605 O HOH A 1021 1455 2.19 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 SER A 347 N - CA - CB ANGL. DEV. = 11.2 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 22 -128.81 58.75 REMARK 500 LEU A 63 -105.17 -109.77 REMARK 500 ASP A 70 30.84 -98.02 REMARK 500 ARG A 191 -80.09 -94.01 REMARK 500 PRO A 212 -112.71 -78.06 REMARK 500 ALA B 22 -129.90 59.09 REMARK 500 ALA B 56 57.92 -98.68 REMARK 500 LEU B 63 -105.22 -111.50 REMARK 500 HIS B 124 60.16 63.47 REMARK 500 GLN B 146 79.68 -111.25 REMARK 500 ARG B 191 -84.84 -89.31 REMARK 500 ARG B 191 -84.88 -89.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1040 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH A1041 DISTANCE = 6.24 ANGSTROMS REMARK 525 HOH A1042 DISTANCE = 6.59 ANGSTROMS REMARK 525 HOH A1043 DISTANCE = 6.67 ANGSTROMS REMARK 525 HOH A1044 DISTANCE = 7.46 ANGSTROMS REMARK 525 HOH A1045 DISTANCE = 8.49 ANGSTROMS REMARK 525 HOH B 945 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH B 946 DISTANCE = 6.59 ANGSTROMS REMARK 525 HOH B 947 DISTANCE = 7.03 ANGSTROMS REMARK 525 HOH B 948 DISTANCE = 8.21 ANGSTROMS REMARK 525 HOH B 949 DISTANCE = 9.12 ANGSTROMS 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 CA A 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 217 OE1 REMARK 620 2 GLU A 217 OE2 52.9 REMARK 620 3 TYR A 227 O 140.6 165.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 217 OE1 REMARK 620 2 GLU B 217 OE2 51.5 REMARK 620 3 TYR B 227 O 149.3 159.0 REMARK 620 N 1 2 DBREF 7CDY A 1 355 PDB 7CDY 7CDY 1 355 DBREF 7CDY B 1 355 PDB 7CDY 7CDY 1 355 SEQRES 1 A 355 MET PRO THR VAL SER GLN LEU GLN ASP GLY LEU GLU HIS SEQRES 2 A 355 PRO TRP SER LEU ALA PHE LEU PRO ALA GLU GLN GLY LEU SEQRES 3 A 355 LEU ILE THR GLU ARG PRO GLY ARG LEU ARG LEU TRP GLN SEQRES 4 A 355 GLN ASP LYS GLY LEU SER PRO PRO ILE ALA GLY VAL PRO SEQRES 5 A 355 GLN VAL TYR ALA GLU GLY GLN GLY GLY LEU LEU GLU VAL SEQRES 6 A 355 LEU PRO ALA PRO ASP PHE ALA ALA SER ARG ARG VAL TYR SEQRES 7 A 355 LEU SER PHE ALA GLU PRO GLY GLU GLY GLY LYS ALA GLY SEQRES 8 A 355 THR ALA VAL GLY TYR GLY ARG LEU SER ASP ASP ASP ALA SEQRES 9 A 355 ARG LEU GLU ASN PHE LYS VAL ILE PHE ARG GLN GLN PRO SEQRES 10 A 355 LYS LEU SER VAL GLY ASN HIS PHE GLY GLY LYS LEU ALA SEQRES 11 A 355 PHE ASP ARG GLN GLY TYR LEU PHE ILE ALA LEU GLY GLU SEQRES 12 A 355 ASN ASN GLN ARG PRO THR ALA GLN GLU THR ASP LYS LEU SEQRES 13 A 355 GLN GLY LYS LEU VAL ARG LEU THR ALA GLU GLY ALA VAL SEQRES 14 A 355 PRO PRO ASP ASN PRO TRP VAL GLY GLN ALA GLY LYS ARG SEQRES 15 A 355 PRO GLU VAL TRP SER TYR GLY HIS ARG ASN PRO GLN GLY SEQRES 16 A 355 LEU ALA LEU ASN PRO TRP SER GLY ALA ILE TRP GLU HIS SEQRES 17 A 355 GLU HIS GLY PRO ARG GLY GLY ASP GLU LEU ASN ILE PRO SEQRES 18 A 355 LEU PRO GLY LYS ASN TYR GLY TRP PRO LEU ALA THR TYR SEQRES 19 A 355 GLY ILE ASN TYR SER GLY GLN PRO ILE PRO GLU ALA LYS SEQRES 20 A 355 GLY GLU ARG VAL PRO GLY THR GLU GLN PRO LEU HIS TYR SEQRES 21 A 355 TRP ARG VAL SER PRO GLY LEU SER GLY MET ALA PHE TYR SEQRES 22 A 355 ASP GLY GLN ARG PHE PRO ALA TRP ARG HIS SER LEU PHE SEQRES 23 A 355 ILE GLY ALA LEU ALA GLN LYS ALA LEU ILE ARG LEU THR SEQRES 24 A 355 LEU GLU GLY ASP LYS VAL VAL ALA GLU GLU ARG LEU LEU SEQRES 25 A 355 GLY ASP ARG GLY GLU ARG ILE ARG GLU VAL ARG SER GLY SEQRES 26 A 355 PRO ASP GLY TYR LEU TYR LEU LEU THR ASP GLU ARG ASP SEQRES 27 A 355 GLY LYS LEU LEU LYS VAL GLY ALA SER LEU GLU HIS HIS SEQRES 28 A 355 HIS HIS HIS HIS SEQRES 1 B 355 MET PRO THR VAL SER GLN LEU GLN ASP GLY LEU GLU HIS SEQRES 2 B 355 PRO TRP SER LEU ALA PHE LEU PRO ALA GLU GLN GLY LEU SEQRES 3 B 355 LEU ILE THR GLU ARG PRO GLY ARG LEU ARG LEU TRP GLN SEQRES 4 B 355 GLN ASP LYS GLY LEU SER PRO PRO ILE ALA GLY VAL PRO SEQRES 5 B 355 GLN VAL TYR ALA GLU GLY GLN GLY GLY LEU LEU GLU VAL SEQRES 6 B 355 LEU PRO ALA PRO ASP PHE ALA ALA SER ARG ARG VAL TYR SEQRES 7 B 355 LEU SER PHE ALA GLU PRO GLY GLU GLY GLY LYS ALA GLY SEQRES 8 B 355 THR ALA VAL GLY TYR GLY ARG LEU SER ASP ASP ASP ALA SEQRES 9 B 355 ARG LEU GLU ASN PHE LYS VAL ILE PHE ARG GLN GLN PRO SEQRES 10 B 355 LYS LEU SER VAL GLY ASN HIS PHE GLY GLY LYS LEU ALA SEQRES 11 B 355 PHE ASP ARG GLN GLY TYR LEU PHE ILE ALA LEU GLY GLU SEQRES 12 B 355 ASN ASN GLN ARG PRO THR ALA GLN GLU THR ASP LYS LEU SEQRES 13 B 355 GLN GLY LYS LEU VAL ARG LEU THR ALA GLU GLY ALA VAL SEQRES 14 B 355 PRO PRO ASP ASN PRO TRP VAL GLY GLN ALA GLY LYS ARG SEQRES 15 B 355 PRO GLU VAL TRP SER TYR GLY HIS ARG ASN PRO GLN GLY SEQRES 16 B 355 LEU ALA LEU ASN PRO TRP SER GLY ALA ILE TRP GLU HIS SEQRES 17 B 355 GLU HIS GLY PRO ARG GLY GLY ASP GLU LEU ASN ILE PRO SEQRES 18 B 355 LEU PRO GLY LYS ASN TYR GLY TRP PRO LEU ALA THR TYR SEQRES 19 B 355 GLY ILE ASN TYR SER GLY GLN PRO ILE PRO GLU ALA LYS SEQRES 20 B 355 GLY GLU ARG VAL PRO GLY THR GLU GLN PRO LEU HIS TYR SEQRES 21 B 355 TRP ARG VAL SER PRO GLY LEU SER GLY MET ALA PHE TYR SEQRES 22 B 355 ASP GLY GLN ARG PHE PRO ALA TRP ARG HIS SER LEU PHE SEQRES 23 B 355 ILE GLY ALA LEU ALA GLN LYS ALA LEU ILE ARG LEU THR SEQRES 24 B 355 LEU GLU GLY ASP LYS VAL VAL ALA GLU GLU ARG LEU LEU SEQRES 25 B 355 GLY ASP ARG GLY GLU ARG ILE ARG GLU VAL ARG SER GLY SEQRES 26 B 355 PRO ASP GLY TYR LEU TYR LEU LEU THR ASP GLU ARG ASP SEQRES 27 B 355 GLY LYS LEU LEU LYS VAL GLY ALA SER LEU GLU HIS HIS SEQRES 28 B 355 HIS HIS HIS HIS HET GOL A 401 14 HET CA A 402 1 HET GOL B 401 14 HET GOL B 402 14 HET CA B 403 1 HETNAM GOL GLYCEROL HETNAM CA CALCIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 3(C3 H8 O3) FORMUL 4 CA 2(CA 2+) FORMUL 8 HOH *994(H2 O) HELIX 1 AA1 ASP A 70 ARG A 75 1 6 HELIX 2 AA2 GLU A 86 GLY A 88 5 3 HELIX 3 AA3 GLN A 146 GLU A 152 5 7 HELIX 4 AA4 PHE A 278 ARG A 282 5 5 HELIX 5 AA5 ASP B 70 ARG B 75 1 6 HELIX 6 AA6 GLN B 146 GLU B 152 5 7 HELIX 7 AA7 PHE B 278 ARG B 282 5 5 HELIX 8 AA8 LEU B 312 GLY B 316 5 5 SHEET 1 AA1 4 THR A 3 LEU A 11 0 SHEET 2 AA1 4 GLY A 339 GLY A 345 -1 O LYS A 343 N SER A 5 SHEET 3 AA1 4 LEU A 330 THR A 334 -1 N LEU A 330 O VAL A 344 SHEET 4 AA1 4 ILE A 319 SER A 324 -1 N ARG A 323 O TYR A 331 SHEET 1 AA2 4 PRO A 14 PHE A 19 0 SHEET 2 AA2 4 LEU A 26 GLU A 30 -1 O LEU A 27 N ALA A 18 SHEET 3 AA2 4 ARG A 34 GLN A 39 -1 O TRP A 38 N LEU A 26 SHEET 4 AA2 4 GLY A 43 LEU A 44 -1 O GLY A 43 N GLN A 39 SHEET 1 AA3 4 LEU A 62 PRO A 67 0 SHEET 2 AA3 4 ARG A 76 PRO A 84 -1 O TYR A 78 N LEU A 66 SHEET 3 AA3 4 ALA A 90 LEU A 99 -1 O GLY A 91 N GLU A 83 SHEET 4 AA3 4 LEU A 106 ARG A 114 -1 O GLU A 107 N ARG A 98 SHEET 1 AA4 4 LEU A 129 PHE A 131 0 SHEET 2 AA4 4 LEU A 137 ALA A 140 -1 O PHE A 138 N ALA A 130 SHEET 3 AA4 4 LEU A 160 LEU A 163 -1 O VAL A 161 N ILE A 139 SHEET 4 AA4 4 VAL A 185 SER A 187 -1 O TRP A 186 N LEU A 160 SHEET 1 AA5 4 ASN A 192 LEU A 198 0 SHEET 2 AA5 4 ILE A 205 HIS A 210 -1 O TRP A 206 N ALA A 197 SHEET 3 AA5 4 ASP A 216 ASN A 219 -1 O ASN A 219 N GLU A 207 SHEET 4 AA5 4 HIS A 259 TRP A 261 -1 O HIS A 259 N LEU A 218 SHEET 1 AA6 4 LEU A 267 TYR A 273 0 SHEET 2 AA6 4 SER A 284 ALA A 289 -1 O PHE A 286 N ALA A 271 SHEET 3 AA6 4 ALA A 294 GLU A 301 -1 O ILE A 296 N ILE A 287 SHEET 4 AA6 4 LYS A 304 LEU A 311 -1 O LEU A 311 N LEU A 295 SHEET 1 AA7 4 THR B 3 LEU B 11 0 SHEET 2 AA7 4 GLY B 339 GLY B 345 -1 O GLY B 339 N LEU B 11 SHEET 3 AA7 4 LEU B 330 THR B 334 -1 N LEU B 330 O VAL B 344 SHEET 4 AA7 4 ILE B 319 SER B 324 -1 N ARG B 323 O TYR B 331 SHEET 1 AA8 4 ALA B 18 PHE B 19 0 SHEET 2 AA8 4 LEU B 26 GLU B 30 -1 O LEU B 27 N ALA B 18 SHEET 3 AA8 4 ARG B 34 GLN B 39 -1 O TRP B 38 N LEU B 26 SHEET 4 AA8 4 GLY B 43 LEU B 44 -1 O GLY B 43 N GLN B 39 SHEET 1 AA9 4 LEU B 62 PRO B 67 0 SHEET 2 AA9 4 ARG B 76 PRO B 84 -1 O TYR B 78 N LEU B 66 SHEET 3 AA9 4 ALA B 90 LEU B 99 -1 O GLY B 91 N GLU B 83 SHEET 4 AA9 4 LEU B 106 ARG B 114 -1 O GLU B 107 N ARG B 98 SHEET 1 AB1 4 LEU B 129 PHE B 131 0 SHEET 2 AB1 4 LEU B 137 ALA B 140 -1 O PHE B 138 N ALA B 130 SHEET 3 AB1 4 LEU B 160 LEU B 163 -1 O VAL B 161 N ILE B 139 SHEET 4 AB1 4 VAL B 185 SER B 187 -1 O TRP B 186 N LEU B 160 SHEET 1 AB2 4 ASN B 192 LEU B 198 0 SHEET 2 AB2 4 ILE B 205 HIS B 210 -1 O TRP B 206 N ALA B 197 SHEET 3 AB2 4 ASP B 216 ASN B 219 -1 O ASN B 219 N GLU B 207 SHEET 4 AB2 4 HIS B 259 TRP B 261 -1 O HIS B 259 N LEU B 218 SHEET 1 AB3 4 LEU B 267 TYR B 273 0 SHEET 2 AB3 4 SER B 284 ALA B 289 -1 O PHE B 286 N ALA B 271 SHEET 3 AB3 4 ALA B 294 GLU B 301 -1 O ILE B 296 N ILE B 287 SHEET 4 AB3 4 LYS B 304 LEU B 311 -1 O LEU B 311 N LEU B 295 LINK OE1 GLU A 217 CA CA A 402 1555 1555 2.46 LINK OE2 GLU A 217 CA CA A 402 1555 1555 2.43 LINK O TYR A 227 CA CA A 402 1555 1555 2.31 LINK OE1 GLU B 217 CA CA B 403 1555 1555 2.48 LINK OE2 GLU B 217 CA CA B 403 1555 1555 2.58 LINK O TYR B 227 CA CA B 403 1555 1555 2.28 CISPEP 1 GLN A 116 PRO A 117 0 -6.50 CISPEP 2 TRP A 229 PRO A 230 0 -1.89 CISPEP 3 GLN B 116 PRO B 117 0 -4.03 CISPEP 4 TRP B 229 PRO B 230 0 1.21 CRYST1 55.364 88.612 80.770 90.00 106.42 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 0.018062 0.000000 0.005324 0.00000 SCALE2 0.000000 0.011285 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012907 0.00000