HEADER LYASE 02-JUL-20 7CGS TITLE CRYSTAL ENDO-DEGLYCOSYLATED HYDROXYNITRILE LYASE ISOZYME 5 MUTANT TITLE 2 L343F FROM PRUNUS COMMUNIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: (R)-MANDELONITRILE LYASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DEGLYCOSYLATED HYDROXYNITRILE LYASE ISOZYME 5; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PRUNUS DULCIS; SOURCE 3 ORGANISM_COMMON: ALMOND; SOURCE 4 ORGANISM_TAXID: 3755; SOURCE 5 GENE: ALMOND_2B028509; SOURCE 6 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922 KEYWDS HYDROXYNITRILE LYASE, FLAVIN PROTEIN, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.C.ZHENG,F.L.LI REVDAT 2 29-NOV-23 7CGS 1 REMARK REVDAT 1 21-APR-21 7CGS 0 JRNL AUTH Y.C.ZHENG,L.Y.DING,Q.JIA,Z.LIN,R.HONG,H.L.YU,J.H.XU JRNL TITL A HIGH-THROUGHPUT SCREENING METHOD FOR THE DIRECTED JRNL TITL 2 EVOLUTION OF HYDROXYNITRILE LYASE TOWARDS CYANOHYDRIN JRNL TITL 3 SYNTHESIS. JRNL REF CHEMBIOCHEM V. 22 996 2021 JRNL REFN ESSN 1439-7633 JRNL PMID 33146944 JRNL DOI 10.1002/CBIC.202000658 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 3 NUMBER OF REFLECTIONS : 72207 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) : 0.149 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.175 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3880 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4277 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 77.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.2170 REMARK 3 BIN FREE R VALUE SET COUNT : 230 REMARK 3 BIN FREE R VALUE : 0.2420 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3973 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 184 REMARK 3 SOLVENT ATOMS : 725 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.15000 REMARK 3 B22 (A**2) : -0.21000 REMARK 3 B33 (A**2) : 0.36000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.074 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.075 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.048 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.401 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4266 ; 0.014 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 3764 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5842 ; 1.917 ; 1.697 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8763 ; 1.536 ; 1.642 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 513 ; 7.406 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 182 ;32.477 ;22.637 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 570 ;11.257 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;17.467 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 573 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4778 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 862 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7CGS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-JUL-20. REMARK 100 THE DEPOSITION ID IS D_1300017591. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-OCT-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.25~8.75 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) : 0.9789 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 77470 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 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 (%) : 95.6 REMARK 200 DATA REDUNDANCY : 12.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 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: 6J8K REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM TRIS-BICINE PH 8.5, 60MM CACL2, REMARK 280 60MM MGCL2, 18% V/V PEG 500MME, 9% W/V PEG 20000, PH 8.25, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 24.84400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 65.70700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.61150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.70700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.84400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.61150 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3560 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19120 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 21.0 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 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 GLU A -9 REMARK 465 ALA A -8 REMARK 465 GLU A -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 SER A 224 REMARK 465 ASN A 225 REMARK 465 THR A 226 REMARK 465 SER A 227 REMARK 465 GLU A 439 REMARK 465 ASN A 440 REMARK 465 ILE A 520 REMARK 465 ARG A 521 REMARK 465 LEU A 522 REMARK 465 GLU A 523 REMARK 465 ALA A 524 REMARK 465 ILE A 525 REMARK 465 HIS A 526 REMARK 465 ASN A 527 REMARK 465 ILE A 528 REMARK 465 GLN A 529 REMARK 465 GLU A 530 REMARK 465 SER A 531 REMARK 465 MET A 532 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 SER A 280 OG 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 HOH A 1235 O HOH A 1314 1.81 REMARK 500 O HOH A 768 O HOH A 1136 1.91 REMARK 500 O HOH A 1231 O HOH A 1339 1.96 REMARK 500 O HOH A 870 O HOH A 1266 2.00 REMARK 500 O HOH A 1081 O HOH A 1191 2.03 REMARK 500 O HOH A 1259 O HOH A 1267 2.05 REMARK 500 O HOH A 717 O HOH A 1374 2.05 REMARK 500 O HOH A 1221 O HOH A 1399 2.07 REMARK 500 O HOH A 832 O HOH A 1021 2.09 REMARK 500 O HOH A 1060 O HOH A 1247 2.11 REMARK 500 O HOH A 1205 O HOH A 1255 2.12 REMARK 500 O HOH A 704 O HOH A 1180 2.13 REMARK 500 O HOH A 1176 O HOH A 1355 2.13 REMARK 500 O HOH A 915 O HOH A 1214 2.15 REMARK 500 O HOH A 1074 O HOH A 1330 2.16 REMARK 500 O HOH A 863 O HOH A 879 2.16 REMARK 500 OD2 ASP A 240 O HOH A 701 2.17 REMARK 500 O HOH A 1287 O HOH A 1316 2.18 REMARK 500 O HOH A 771 O HOH A 1081 2.19 REMARK 500 ND2 ASN A 151 O HOH A 702 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 GLY A 25 C GLY A 25 O 0.103 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 ARG A 101 NE - CZ - NH1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG A 101 NE - CZ - NH2 ANGL. DEV. = -6.8 DEGREES REMARK 500 ASP A 325 CB - CG - OD2 ANGL. DEV. = -5.8 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 SER A 342 -13.48 79.68 REMARK 500 THR A 442 -74.17 107.26 REMARK 500 HIS A 460 42.34 -102.56 REMARK 500 SER A 465 55.97 -141.99 REMARK 500 LYS A 469 -55.19 -124.12 REMARK 500 ASP A 487 -172.75 173.41 REMARK 500 ASN A 496 -171.82 179.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLN A 245 -10.17 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 A1422 DISTANCE = 5.88 ANGSTROMS REMARK 525 HOH A1423 DISTANCE = 6.02 ANGSTROMS REMARK 525 HOH A1424 DISTANCE = 6.16 ANGSTROMS REMARK 525 HOH A1425 DISTANCE = 7.21 ANGSTROMS DBREF1 7CGS A 1 532 UNP A0A5E4GBK6_PRUDU DBREF2 7CGS A A0A5E4GBK6 28 559 SEQADV 7CGS GLU A -9 UNP A0A5E4GBK EXPRESSION TAG SEQADV 7CGS ALA A -8 UNP A0A5E4GBK EXPRESSION TAG SEQADV 7CGS GLU A -7 UNP A0A5E4GBK EXPRESSION TAG SEQADV 7CGS ALA A -6 UNP A0A5E4GBK EXPRESSION TAG SEQADV 7CGS HIS A -5 UNP A0A5E4GBK EXPRESSION TAG SEQADV 7CGS HIS A -4 UNP A0A5E4GBK EXPRESSION TAG SEQADV 7CGS HIS A -3 UNP A0A5E4GBK EXPRESSION TAG SEQADV 7CGS HIS A -2 UNP A0A5E4GBK EXPRESSION TAG SEQADV 7CGS HIS A -1 UNP A0A5E4GBK EXPRESSION TAG SEQADV 7CGS HIS A 0 UNP A0A5E4GBK EXPRESSION TAG SEQADV 7CGS PHE A 343 UNP A0A5E4GBK LEU 370 ENGINEERED MUTATION SEQADV 7CGS MET A 532 UNP A0A5E4GBK GLN 559 CONFLICT SEQRES 1 A 542 GLU ALA GLU ALA HIS HIS HIS HIS HIS HIS LEU ALA ASN SEQRES 2 A 542 THR SER ALA HIS ASP PHE SER TYR LEU LYS PHE VAL TYR SEQRES 3 A 542 ASN ALA THR ASP THR SER LEU GLU GLY SER TYR ASP TYR SEQRES 4 A 542 ILE VAL ILE GLY GLY GLY THR SER GLY CYS PRO LEU ALA SEQRES 5 A 542 ALA THR LEU SER GLU LYS TYR LYS VAL LEU LEU LEU GLU SEQRES 6 A 542 ARG GLY THR ILE ALA THR GLU TYR PRO ASN THR LEU THR SEQRES 7 A 542 ALA ASP GLY PHE ALA TYR ASN LEU GLN GLN GLN ASP ASP SEQRES 8 A 542 GLY LYS THR PRO VAL GLU ARG PHE VAL SER GLU ASP GLY SEQRES 9 A 542 ILE ASP ASN VAL ARG ALA ARG ILE LEU GLY GLY THR THR SEQRES 10 A 542 ILE ILE ASN ALA GLY VAL TYR ALA ARG ALA ASN ILE SER SEQRES 11 A 542 PHE TYR SER GLN THR GLY ILE GLU TRP ASP LEU ASP LEU SEQRES 12 A 542 VAL ASN LYS THR TYR GLU TRP VAL GLU ASP ALA ILE VAL SEQRES 13 A 542 VAL LYS PRO ASN ASN GLN SER TRP GLN SER VAL ILE GLY SEQRES 14 A 542 GLU GLY PHE LEU GLU ALA GLY ILE LEU PRO ASP ASN GLY SEQRES 15 A 542 PHE SER LEU ASP HIS GLU ALA GLY THR ARG LEU THR GLY SEQRES 16 A 542 SER THR PHE ASP ASN ASN GLY THR ARG HIS ALA ALA ASP SEQRES 17 A 542 GLU LEU LEU ASN LYS GLY ASP PRO ASN ASN LEU LEU VAL SEQRES 18 A 542 ALA VAL GLN ALA SER VAL GLU LYS ILE LEU PHE SER SER SEQRES 19 A 542 ASN THR SER ASN LEU SER ALA ILE GLY VAL ILE TYR THR SEQRES 20 A 542 ASP SER ASP GLY ASN SER HIS GLN ALA PHE VAL ARG GLY SEQRES 21 A 542 ASN GLY GLU VAL ILE VAL SER ALA GLY THR ILE GLY THR SEQRES 22 A 542 PRO GLN LEU LEU LEU LEU SER GLY VAL GLY PRO GLU SER SEQRES 23 A 542 TYR LEU SER SER LEU ASN ILE THR VAL VAL GLN PRO ASN SEQRES 24 A 542 PRO TYR VAL GLY GLN PHE VAL TYR ASP ASN PRO ARG ASN SEQRES 25 A 542 PHE ILE ASN ILE LEU PRO PRO ASN PRO ILE GLU ALA SER SEQRES 26 A 542 VAL VAL THR VAL LEU GLY ILE ARG SER ASP TYR TYR GLN SEQRES 27 A 542 VAL SER LEU SER SER LEU PRO PHE SER THR PRO PRO PHE SEQRES 28 A 542 SER PHE PHE PRO THR THR SER TYR PRO LEU PRO ASN SER SEQRES 29 A 542 THR PHE ALA HIS ILE VAL SER GLN VAL PRO GLY PRO LEU SEQRES 30 A 542 SER HIS GLY SER VAL THR LEU ASN SER SER SER ASP VAL SEQRES 31 A 542 ARG ILE ALA PRO ASN ILE LYS PHE ASN TYR TYR SER ASN SEQRES 32 A 542 SER THR ASP LEU ALA ASN CYS VAL SER GLY MET LYS LYS SEQRES 33 A 542 LEU GLY ASP LEU LEU ARG THR LYS ALA LEU GLU PRO TYR SEQRES 34 A 542 LYS ALA ARG ASP VAL LEU GLY ILE ASP GLY PHE ASN TYR SEQRES 35 A 542 LEU GLY VAL PRO LEU PRO GLU ASN GLN THR ASP ASP ALA SEQRES 36 A 542 SER PHE GLU THR PHE CYS LEU ASP ASN VAL ALA SER TYR SEQRES 37 A 542 TRP HIS TYR HIS GLY GLY SER LEU VAL GLY LYS VAL LEU SEQRES 38 A 542 ASP ASP SER PHE ARG VAL MET GLY ILE LYS ALA LEU ARG SEQRES 39 A 542 VAL VAL ASP ALA SER THR PHE PRO TYR GLU PRO ASN SER SEQRES 40 A 542 HIS PRO GLN GLY PHE TYR LEU MET LEU GLY ARG TYR VAL SEQRES 41 A 542 GLY LEU GLN ILE LEU GLN GLU ARG SER ILE ARG LEU GLU SEQRES 42 A 542 ALA ILE HIS ASN ILE GLN GLU SER MET HET FAD A 601 53 HET NAG A 602 14 HET NAG A 603 14 HET NAG A 604 14 HET NAG A 605 14 HET NAG A 606 14 HET NAG A 607 14 HET NAG A 608 14 HET NAG A 609 14 HET TRS A 610 8 HET BCN A 611 11 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM BCN BICINE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN TRS TRIS BUFFER FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 NAG 8(C8 H15 N O6) FORMUL 11 TRS C4 H12 N O3 1+ FORMUL 12 BCN C6 H13 N O4 FORMUL 13 HOH *725(H2 O) HELIX 1 AA1 PHE A 9 LYS A 13 5 5 HELIX 2 AA2 ASP A 20 GLU A 24 5 5 HELIX 3 AA3 SER A 37 SER A 46 1 10 HELIX 4 AA4 ILE A 59 ASP A 70 5 12 HELIX 5 AA5 GLY A 71 GLN A 78 1 8 HELIX 6 AA6 GLY A 104 ILE A 109 5 6 HELIX 7 AA7 SER A 120 GLY A 126 1 7 HELIX 8 AA8 ASP A 130 VAL A 146 1 17 HELIX 9 AA9 GLN A 152 ALA A 165 1 14 HELIX 10 AB1 ALA A 196 GLY A 204 5 9 HELIX 11 AB2 ALA A 258 SER A 270 1 13 HELIX 12 AB3 PRO A 274 LEU A 281 1 8 HELIX 13 AB4 ASN A 393 ARG A 412 1 20 HELIX 14 AB5 LEU A 416 LYS A 420 5 5 HELIX 15 AB6 GLY A 426 PHE A 430 5 5 HELIX 16 AB7 ASP A 443 ASN A 454 1 12 HELIX 17 AB8 ASP A 487 PHE A 491 5 5 HELIX 18 AB9 PRO A 499 SER A 519 1 21 SHEET 1 AA1 7 VAL A 15 ASN A 17 0 SHEET 2 AA1 7 LEU A 209 VAL A 213 1 O VAL A 211 N TYR A 16 SHEET 3 AA1 7 VAL A 51 LEU A 54 1 N LEU A 53 O ALA A 212 SHEET 4 AA1 7 GLY A 25 ILE A 32 1 N VAL A 31 O LEU A 54 SHEET 5 AA1 7 SER A 243 VAL A 256 1 O PHE A 247 N GLY A 25 SHEET 6 AA1 7 ALA A 231 THR A 237 -1 N VAL A 234 O ALA A 246 SHEET 7 AA1 7 SER A 216 PHE A 222 -1 N LEU A 221 O ILE A 232 SHEET 1 AA2 6 VAL A 15 ASN A 17 0 SHEET 2 AA2 6 LEU A 209 VAL A 213 1 O VAL A 211 N TYR A 16 SHEET 3 AA2 6 VAL A 51 LEU A 54 1 N LEU A 53 O ALA A 212 SHEET 4 AA2 6 GLY A 25 ILE A 32 1 N VAL A 31 O LEU A 54 SHEET 5 AA2 6 SER A 243 VAL A 256 1 O PHE A 247 N GLY A 25 SHEET 6 AA2 6 LEU A 483 VAL A 485 1 O ARG A 484 N VAL A 256 SHEET 1 AA3 2 VAL A 86 VAL A 90 0 SHEET 2 AA3 2 ASP A 96 ALA A 100 -1 O ARG A 99 N GLU A 87 SHEET 1 AA4 2 VAL A 113 TYR A 114 0 SHEET 2 AA4 2 GLY A 185 SER A 186 -1 O GLY A 185 N TYR A 114 SHEET 1 AA5 7 ASP A 170 PHE A 173 0 SHEET 2 AA5 7 GLY A 180 LEU A 183 1 O THR A 181 N ASN A 171 SHEET 3 AA5 7 VAL A 319 ARG A 323 -1 O ILE A 322 N GLY A 180 SHEET 4 AA5 7 TYR A 326 SER A 333 -1 O GLN A 328 N GLY A 321 SHEET 5 AA5 7 PHE A 356 GLN A 362 -1 O HIS A 358 N LEU A 331 SHEET 6 AA5 7 PRO A 300 ILE A 306 -1 N ILE A 304 O ILE A 359 SHEET 7 AA5 7 TYR A 432 LEU A 433 -1 O LEU A 433 N ASN A 305 SHEET 1 AA6 7 ASP A 170 PHE A 173 0 SHEET 2 AA6 7 GLY A 180 LEU A 183 1 O THR A 181 N ASN A 171 SHEET 3 AA6 7 VAL A 319 ARG A 323 -1 O ILE A 322 N GLY A 180 SHEET 4 AA6 7 TYR A 326 SER A 333 -1 O GLN A 328 N GLY A 321 SHEET 5 AA6 7 PHE A 356 GLN A 362 -1 O HIS A 358 N LEU A 331 SHEET 6 AA6 7 PRO A 300 ILE A 306 -1 N ILE A 304 O ILE A 359 SHEET 7 AA6 7 ALA A 456 SER A 457 -1 O ALA A 456 N ARG A 301 SHEET 1 AA7 2 VAL A 272 GLY A 273 0 SHEET 2 AA7 2 GLN A 287 PRO A 288 1 O GLN A 287 N GLY A 273 SHEET 1 AA8 4 ASN A 385 LYS A 387 0 SHEET 2 AA8 4 GLY A 370 THR A 373 -1 N THR A 373 O ASN A 385 SHEET 3 AA8 4 GLN A 294 TYR A 297 -1 N VAL A 296 O GLY A 370 SHEET 4 AA8 4 HIS A 462 GLY A 463 -1 O HIS A 462 N TYR A 297 SSBOND 1 CYS A 400 CYS A 451 1555 1555 2.09 LINK ND2 ASN A 3 C1 NAG A 609 1555 1555 1.44 LINK ND2 ASN A 17 C1 NAG A 608 1555 1555 1.44 LINK ND2 ASN A 118 C1 NAG A 607 1555 1555 1.46 LINK ND2 ASN A 135 C1 NAG A 606 1555 1555 1.46 LINK ND2 ASN A 191 C1 NAG A 605 1555 1555 1.42 LINK ND2 ASN A 282 C1 NAG A 604 1555 1555 1.45 LINK ND2 ASN A 375 C1 NAG A 603 1555 1555 1.48 LINK ND2 ASN A 393 C1 NAG A 602 1555 1555 1.45 CISPEP 1 LEU A 168 PRO A 169 0 0.21 CISPEP 2 GLY A 365 PRO A 366 0 -13.99 CRYST1 49.688 91.223 131.414 90.00 90.00 90.00 P 21 21 21 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 0.020126 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010962 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007610 0.00000