HEADER HYDROLASE 06-OCT-14 4WL5 OBSLTE 16-AUG-17 4WL5 5LHC TITLE STRUCTURE OF D456A MUTANT OF THE NICKING ENDONUCLEASE NT.BSPD6I. COMPND MOL_ID: 1; COMPND 2 MOLECULE: HETERODIMERIC RESTRICTION ENDONUCLEASE R.BSPD6I LARGE COMPND 3 SUBUNIT; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SP. D6; SOURCE 3 ORGANISM_TAXID: 127889; SOURCE 4 GENE: BSPD6R1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS NICKING ENDONUCLEASE, RESTRICTION ENZYME HYDROLASE ACTIVITY'S MUTANT, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR G.S.KACHALOVA,A.N.POPOV,A.K.YUNUSOVA,R.I.ARTYUKH,T.A.PEREVYAZOVA, AUTHOR 2 L.A.ZHELEZNAYA,H.D.BARTUNIK REVDAT 2 16-AUG-17 4WL5 1 OBSLTE REVDAT 1 23-DEC-15 4WL5 0 JRNL AUTH G.S.KACHALOVA,A.N.POPOV,A.K.YUNUSOVA,R.I.ARTYUKH, JRNL AUTH 2 T.A.PEREVYAZOVA,L.A.ZHELEZNAYA,H.D.BARTUNIK JRNL TITL STRUCTURE OF D456A MUTANT OF THE NICKING ENDONUCLEASE JRNL TITL 2 NT.BSPD6I. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.96 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 10394 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) : 0.221 REMARK 3 R VALUE (WORKING SET) : 0.218 REMARK 3 FREE R VALUE : 0.287 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 557 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) : 3.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.23 REMARK 3 REFLECTION IN BIN (WORKING SET) : 561 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 84.53 REMARK 3 BIN R VALUE (WORKING SET) : 0.3110 REMARK 3 BIN FREE R VALUE SET COUNT : 29 REMARK 3 BIN FREE R VALUE : 0.4100 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4916 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 38 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 36.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.25000 REMARK 3 B22 (A**2) : 0.13000 REMARK 3 B33 (A**2) : -0.38000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.639 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.513 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 29.068 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.911 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.840 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5014 ; 0.010 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6750 ; 1.195 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 592 ; 5.307 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 252 ;35.613 ;24.881 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 973 ;14.774 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;12.782 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 734 ; 0.068 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3742 ; 0.004 ; 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): 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 : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4WL5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-OCT-14. REMARK 100 THE DEPOSITION ID IS D_1000203091. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-APR-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97553 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10405 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.150 REMARK 200 RESOLUTION RANGE LOW (A) : 89.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 2.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.62000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2EWF REMARK 200 REMARK 200 REMARK: VERY THIN NEEDLE 0.08MM*0.03MM*0.01MM REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 8000, 40MM POTASSIUM REMARK 280 PHOSPHATE, 20% GLYCEROL, PH 7.4, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K 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 29.45000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.48000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 43.90000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.48000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.45000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 43.90000 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: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 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 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 GLY A 212 REMARK 465 LYS A 213 REMARK 465 ILE A 214 REMARK 465 ARG A 215 REMARK 465 GLU A 216 REMARK 465 GLY A 217 REMARK 465 LYS A 218 REMARK 465 SER A 219 REMARK 465 ASP A 220 REMARK 465 SER A 221 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 703 O HOH A 704 0.36 REMARK 500 O LYS A 38 N TYR A 40 2.09 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 ALA A 65 CA ALA A 65 CB 0.186 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 GLY A 39 N - CA - C ANGL. DEV. = -22.5 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 2 -67.07 -103.72 REMARK 500 LYS A 3 8.97 87.98 REMARK 500 LYS A 4 91.32 -27.31 REMARK 500 SER A 10 99.86 -57.10 REMARK 500 SER A 12 93.93 61.43 REMARK 500 PHE A 29 30.80 -91.37 REMARK 500 VAL A 37 -177.98 -53.10 REMARK 500 LYS A 38 -158.01 102.86 REMARK 500 LYS A 41 -103.29 49.99 REMARK 500 ALA A 42 -36.92 -23.35 REMARK 500 PRO A 54 38.13 -65.31 REMARK 500 LEU A 57 17.65 -162.25 REMARK 500 THR A 59 -161.30 45.43 REMARK 500 THR A 60 -14.84 56.58 REMARK 500 TYR A 61 -70.27 -65.35 REMARK 500 LYS A 62 116.69 -163.48 REMARK 500 GLU A 64 -102.41 140.49 REMARK 500 ALA A 65 -9.25 173.04 REMARK 500 ALA A 66 61.14 -65.85 REMARK 500 PHE A 67 -108.19 49.43 REMARK 500 SER A 120 -169.85 -121.10 REMARK 500 LYS A 126 -70.42 -57.41 REMARK 500 GLU A 132 -29.64 -140.93 REMARK 500 SER A 134 69.73 -168.31 REMARK 500 ASN A 210 81.42 58.84 REMARK 500 ASN A 280 41.12 -94.67 REMARK 500 GLU A 302 52.70 -93.65 REMARK 500 ASP A 441 -148.85 -81.13 REMARK 500 VAL A 447 -66.69 -123.35 REMARK 500 HIS A 449 -160.54 -75.03 REMARK 500 ALA A 451 179.87 134.88 REMARK 500 ASP A 463 11.90 -144.46 REMARK 500 LYS A 474 5.73 -64.51 REMARK 500 ALA A 476 -111.03 125.67 REMARK 500 THR A 477 49.70 -4.16 REMARK 500 GLN A 478 80.25 49.27 REMARK 500 PHE A 479 -94.87 117.37 REMARK 500 MET A 481 -76.13 103.88 REMARK 500 SER A 483 -55.81 -166.33 REMARK 500 LYS A 600 -87.51 -80.03 REMARK 500 GLU A 601 165.45 57.79 REMARK 500 VAL A 602 -145.65 148.12 REMARK 500 ARG A 603 -33.93 179.39 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 ALA A 476 THR A 477 -133.58 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 A 737 DISTANCE = 6.37 ANGSTROMS REMARK 525 HOH A 738 DISTANCE = 7.97 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2EWF RELATED DB: PDB REMARK 900 PRESENT STRUCTURE IS THE STRUCTURE OF D456A MUTANT OF 2EWF DBREF 4WL5 A 1 604 UNP A3FEV7 A3FEV7_9BACI 1 604 SEQADV 4WL5 HIS A -5 UNP A3FEV7 EXPRESSION TAG SEQADV 4WL5 HIS A -4 UNP A3FEV7 EXPRESSION TAG SEQADV 4WL5 HIS A -3 UNP A3FEV7 EXPRESSION TAG SEQADV 4WL5 HIS A -2 UNP A3FEV7 EXPRESSION TAG SEQADV 4WL5 HIS A -1 UNP A3FEV7 EXPRESSION TAG SEQADV 4WL5 HIS A 0 UNP A3FEV7 EXPRESSION TAG SEQADV 4WL5 ALA A 456 UNP A3FEV7 ASP 456 ENGINEERED MUTATION SEQRES 1 A 610 HIS HIS HIS HIS HIS HIS MET ALA LYS LYS VAL ASN TRP SEQRES 2 A 610 TYR VAL SER CYS SER PRO ARG SER PRO GLU LYS ILE GLN SEQRES 3 A 610 PRO GLU LEU LYS VAL LEU ALA ASN PHE GLU GLY SER TYR SEQRES 4 A 610 TRP LYS GLY VAL LYS GLY TYR LYS ALA GLN GLU ALA PHE SEQRES 5 A 610 ALA LYS GLU LEU ALA ALA LEU PRO GLN PHE LEU GLY THR SEQRES 6 A 610 THR TYR LYS LYS GLU ALA ALA PHE SER THR ARG ASP ARG SEQRES 7 A 610 VAL ALA PRO MET LYS THR TYR GLY PHE VAL PHE VAL ASP SEQRES 8 A 610 GLU GLU GLY TYR LEU ARG ILE THR GLU ALA GLY LYS MET SEQRES 9 A 610 LEU ALA ASN ASN ARG ARG PRO LYS ASP VAL PHE LEU LYS SEQRES 10 A 610 GLN LEU VAL LYS TRP GLN TYR PRO SER PHE GLN HIS LYS SEQRES 11 A 610 GLY LYS GLU TYR PRO GLU GLU GLU TRP SER ILE ASN PRO SEQRES 12 A 610 LEU VAL PHE VAL LEU SER LEU LEU LYS LYS VAL GLY GLY SEQRES 13 A 610 LEU SER LYS LEU ASP ILE ALA MET PHE CYS LEU THR ALA SEQRES 14 A 610 THR ASN ASN ASN GLN VAL ASP GLU ILE ALA GLU GLU ILE SEQRES 15 A 610 MET GLN PHE ARG ASN GLU ARG GLU LYS ILE LYS GLY GLN SEQRES 16 A 610 ASN LYS LYS LEU GLU PHE THR GLU ASN TYR PHE PHE LYS SEQRES 17 A 610 ARG PHE GLU LYS ILE TYR GLY ASN VAL GLY LYS ILE ARG SEQRES 18 A 610 GLU GLY LYS SER ASP SER SER HIS LYS SER LYS ILE GLU SEQRES 19 A 610 THR LYS MET ARG ASN ALA ARG ASP VAL ALA ASP ALA THR SEQRES 20 A 610 THR ARG TYR PHE ARG TYR THR GLY LEU PHE VAL ALA ARG SEQRES 21 A 610 GLY ASN GLN LEU VAL LEU ASN PRO GLU LYS SER ASP LEU SEQRES 22 A 610 ILE ASP GLU ILE ILE SER SER SER LYS VAL VAL LYS ASN SEQRES 23 A 610 TYR THR ARG VAL GLU GLU PHE HIS GLU TYR TYR GLY ASN SEQRES 24 A 610 PRO SER LEU PRO GLN PHE SER PHE GLU THR LYS GLU GLN SEQRES 25 A 610 LEU LEU ASP LEU ALA HIS ARG ILE ARG ASP GLU ASN THR SEQRES 26 A 610 ARG LEU ALA GLU GLN LEU VAL GLU HIS PHE PRO ASN VAL SEQRES 27 A 610 LYS VAL GLU ILE GLN VAL LEU GLU ASP ILE TYR ASN SER SEQRES 28 A 610 LEU ASN LYS LYS VAL ASP VAL GLU THR LEU LYS ASP VAL SEQRES 29 A 610 ILE TYR HIS ALA LYS GLU LEU GLN LEU GLU LEU LYS LYS SEQRES 30 A 610 LYS LYS LEU GLN ALA ASP PHE ASN ASP PRO ARG GLN LEU SEQRES 31 A 610 GLU GLU VAL ILE ASP LEU LEU GLU VAL TYR HIS GLU LYS SEQRES 32 A 610 LYS ASN VAL ILE GLU GLU LYS ILE LYS ALA ARG PHE ILE SEQRES 33 A 610 ALA ASN LYS ASN THR VAL PHE GLU TRP LEU THR TRP ASN SEQRES 34 A 610 GLY PHE ILE ILE LEU GLY ASN ALA LEU GLU TYR LYS ASN SEQRES 35 A 610 ASN PHE VAL ILE ASP GLU GLU LEU GLN PRO VAL THR HIS SEQRES 36 A 610 ALA ALA GLY ASN GLN PRO ALA MET GLU ILE ILE TYR GLU SEQRES 37 A 610 ASP PHE ILE VAL LEU GLY GLU VAL THR THR SER LYS GLY SEQRES 38 A 610 ALA THR GLN PHE LYS MET GLU SER GLU PRO VAL THR ARG SEQRES 39 A 610 HIS TYR LEU ASN LYS LYS LYS GLU LEU GLU LYS GLN GLY SEQRES 40 A 610 VAL GLU LYS GLU LEU TYR CYS LEU PHE ILE ALA PRO GLU SEQRES 41 A 610 ILE ASN LYS ASN THR PHE GLU GLU PHE MET LYS TYR ASN SEQRES 42 A 610 ILE VAL GLN ASN THR ARG ILE ILE PRO LEU SER LEU LYS SEQRES 43 A 610 GLN PHE ASN MET LEU LEU MET VAL GLN LYS LYS LEU ILE SEQRES 44 A 610 GLU LYS GLY ARG ARG LEU SER SER TYR ASP ILE LYS ASN SEQRES 45 A 610 LEU MET VAL SER LEU TYR ARG THR THR ILE GLU CYS GLU SEQRES 46 A 610 ARG LYS TYR THR GLN ILE LYS ALA GLY LEU GLU GLU THR SEQRES 47 A 610 LEU ASN ASN TRP VAL VAL ASP LYS GLU VAL ARG PHE FORMUL 2 HOH *38(H2 O) HELIX 1 AA1 SER A 15 GLU A 17 5 3 HELIX 2 AA2 LYS A 18 ASN A 28 1 11 HELIX 3 AA3 LYS A 41 ALA A 51 1 11 HELIX 4 AA4 THR A 69 TYR A 79 1 11 HELIX 5 AA5 THR A 93 ASN A 101 1 9 HELIX 6 AA6 ARG A 104 TRP A 116 1 13 HELIX 7 AA7 ASN A 136 GLY A 149 1 14 HELIX 8 AA8 SER A 152 PHE A 159 1 8 HELIX 9 AA9 ASN A 165 ASN A 167 5 3 HELIX 10 AB1 GLN A 168 ILE A 186 1 19 HELIX 11 AB2 GLY A 188 TYR A 208 1 21 HELIX 12 AB3 HIS A 223 ARG A 246 1 24 HELIX 13 AB4 LYS A 264 SER A 275 1 12 HELIX 14 AB5 ARG A 283 GLY A 292 1 10 HELIX 15 AB6 GLU A 305 GLU A 327 1 23 HELIX 16 AB7 PHE A 329 ASN A 331 5 3 HELIX 17 AB8 VAL A 332 TYR A 343 1 12 HELIX 18 AB9 ASP A 351 PHE A 378 1 28 HELIX 19 AC1 ASP A 380 VAL A 393 1 14 HELIX 20 AC2 TYR A 394 GLU A 396 5 3 HELIX 21 AC3 LYS A 397 PHE A 409 1 13 HELIX 22 AC4 ASN A 412 GLY A 429 1 18 HELIX 23 AC5 SER A 483 GLY A 501 1 19 HELIX 24 AC6 ASN A 516 GLN A 530 1 15 HELIX 25 AC7 LEU A 539 LYS A 555 1 17 HELIX 26 AC8 SER A 560 GLU A 577 1 18 HELIX 27 AC9 LYS A 581 ASP A 599 1 19 SHEET 1 AA1 2 VAL A 82 VAL A 84 0 SHEET 2 AA1 2 LEU A 90 ILE A 92 -1 O ARG A 91 N PHE A 83 SHEET 1 AA2 3 GLY A 150 LEU A 151 0 SHEET 2 AA2 3 GLN A 257 LEU A 260 -1 O LEU A 258 N LEU A 151 SHEET 3 AA2 3 PHE A 251 ARG A 254 -1 N VAL A 252 O VAL A 259 SHEET 1 AA3 5 GLU A 433 ASN A 436 0 SHEET 2 AA3 5 MET A 457 ILE A 460 -1 O GLU A 458 N LYS A 435 SHEET 3 AA3 5 PHE A 464 VAL A 470 -1 O GLY A 468 N MET A 457 SHEET 4 AA3 5 GLU A 505 ALA A 512 1 O TYR A 507 N LEU A 467 SHEET 5 AA3 5 ILE A 534 SER A 538 1 O ILE A 535 N CYS A 508 SHEET 1 AA4 2 VAL A 439 ILE A 440 0 SHEET 2 AA4 2 PRO A 446 THR A 448 -1 O VAL A 447 N VAL A 439 LINK O VAL A 37 CG LYS A 38 1555 1555 1.42 CISPEP 1 ALA A 2 LYS A 3 0 -1.97 CISPEP 2 SER A 12 PRO A 13 0 7.77 CISPEP 3 GLY A 39 TYR A 40 0 3.13 CISPEP 4 TYR A 40 LYS A 41 0 -2.68 CISPEP 5 TYR A 61 LYS A 62 0 -4.55 CISPEP 6 LYS A 62 LYS A 63 0 2.23 CISPEP 7 GLU A 64 ALA A 65 0 -4.29 CISPEP 8 TYR A 118 PRO A 119 0 -1.54 CISPEP 9 LEU A 296 PRO A 297 0 -0.48 CISPEP 10 PHE A 479 LYS A 480 0 -15.49 CRYST1 58.900 87.800 118.960 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 0.016978 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011390 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008406 0.00000