HEADER HYDROLASE/DNA 09-OCT-15 5E5S TITLE I-SMAMI K103A MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: I-SMAMI LAGLIDADG MEGANUCLEASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 114-415; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: BOTTOM STRAND DNA; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: TOP STRAND DNA LEFT SITE; COMPND 13 CHAIN: C; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 4; COMPND 16 MOLECULE: DNA (5'-D(P*CP*AP*GP*GP*TP*GP*TP*AP*CP*G)-3'); COMPND 17 CHAIN: D; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SORDARIA MACROSPORA (STRAIN ATCC MYA-333 / DSM SOURCE 3 997 / K(L3346) / K-HELL); SOURCE 4 ORGANISM_TAXID: 771870; SOURCE 5 STRAIN: ATCC MYA-333 / DSM 997 / K(L3346) / K-HELL; SOURCE 6 GENE: SMAC_12671; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)RIL+; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21D(+); SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 18 ORGANISM_TAXID: 32630; SOURCE 19 MOL_ID: 4; SOURCE 20 SYNTHETIC: YES; SOURCE 21 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 22 ORGANISM_TAXID: 32630 KEYWDS LAGLIDADG, I-SMAMI MUTANT, NICKASE, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.W.SHEN REVDAT 4 25-DEC-19 5E5S 1 REMARK REVDAT 3 13-SEP-17 5E5S 1 JRNL REMARK REVDAT 2 10-FEB-16 5E5S 1 JRNL REVDAT 1 13-JAN-16 5E5S 0 JRNL AUTH B.W.SHEN,A.LAMBERT,B.C.WALKER,B.L.STODDARD,B.K.KAISER JRNL TITL THE STRUCTURAL BASIS OF ASYMMETRY IN DNA BINDING AND JRNL TITL 2 CLEAVAGE AS EXHIBITED BY THE I-SMAMI LAGLIDADG MEGANUCLEASE. JRNL REF J.MOL.BIOL. V. 428 206 2016 JRNL REFN ESSN 1089-8638 JRNL PMID 26705195 JRNL DOI 10.1016/J.JMB.2015.12.005 REMARK 2 REMARK 2 RESOLUTION. 2.29 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0124 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.29 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 17413 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) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 891 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.29 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.35 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1187 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.29 REMARK 3 BIN R VALUE (WORKING SET) : 0.2660 REMARK 3 BIN FREE R VALUE SET COUNT : 66 REMARK 3 BIN FREE R VALUE : 0.3480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2362 REMARK 3 NUCLEIC ACID ATOMS : 1020 REMARK 3 HETEROGEN ATOMS : 11 REMARK 3 SOLVENT ATOMS : 23 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.54000 REMARK 3 B22 (A**2) : -0.75000 REMARK 3 B33 (A**2) : -3.79000 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): 0.424 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.260 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.205 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.574 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.932 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3569 ; 0.013 ; 0.017 REMARK 3 BOND LENGTHS OTHERS (A): 2958 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5024 ; 1.765 ; 1.693 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6870 ; 1.240 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 298 ; 7.178 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 98 ;38.722 ;24.388 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 453 ;20.564 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;18.344 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 509 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3269 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 794 ; 0.002 ; 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): 1189 ; 4.066 ; 5.048 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1188 ; 4.066 ; 5.044 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1485 ; 5.786 ; 7.553 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1486 ; 5.785 ; 7.557 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2380 ; 5.318 ; 5.817 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2381 ; 5.317 ; 5.818 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3539 ; 7.837 ; 8.610 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 14875 ;10.973 ;50.704 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 14876 ;10.972 ;50.706 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 REMARK 4 REMARK 4 5E5S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-OCT-15. REMARK 100 THE DEPOSITION ID IS D_1000214414. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-APR-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 - 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18618 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.280 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 12.70 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.11600 REMARK 200 FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.28 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.46 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.8 REMARK 200 DATA REDUNDANCY IN SHELL : 9.20 REMARK 200 R MERGE FOR SHELL (I) : 0.70100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.300 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: 4LOX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 28 - 32 % PEG550MME, HEPES, MGCL2, PH REMARK 280 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 29.79450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.82600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.09950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.82600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.79450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.09950 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -82.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 SER A 1 REMARK 465 LYS A 2 REMARK 465 GLY A 3 REMARK 465 ARG A 301 REMARK 465 LEU A 302 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 4 CG CD OE1 OE2 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 NZ LYS A 294 OP2 DG D 19 2.08 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 ASN A 165 N ASN A 165 CA -0.124 REMARK 500 DC D 16 P DC D 16 OP3 -0.112 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 ASN A 165 CB - CA - C ANGL. DEV. = 12.2 DEGREES REMARK 500 ASN A 165 N - CA - CB ANGL. DEV. = -11.1 DEGREES REMARK 500 DC B 5 O5' - P - OP1 ANGL. DEV. = 10.3 DEGREES REMARK 500 DC B 5 O5' - P - OP2 ANGL. DEV. = -9.7 DEGREES REMARK 500 DT B 15 O3' - P - OP2 ANGL. DEV. = 13.1 DEGREES REMARK 500 DT B 15 O3' - P - OP1 ANGL. DEV. = -13.4 DEGREES REMARK 500 DT C 15 O5' - P - OP1 ANGL. DEV. = 9.6 DEGREES REMARK 500 DG D 18 C1' - O4' - C4' ANGL. DEV. = -6.5 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 ASN A 30 112.30 -167.03 REMARK 500 PHE A 62 38.28 -94.70 REMARK 500 SER A 71 -62.62 -98.81 REMARK 500 ILE A 89 -50.32 -121.59 REMARK 500 ASN A 139 -131.41 51.38 REMARK 500 GLU A 160 104.72 57.72 REMARK 500 ILE A 161 -164.99 -79.01 REMARK 500 ASN A 162 -151.80 -124.10 REMARK 500 ASN A 163 103.28 -46.86 REMARK 500 ASP A 168 146.56 -170.67 REMARK 500 TRP A 234 123.34 -173.60 REMARK 500 ASN A 298 37.42 72.21 REMARK 500 LYS A 299 -77.41 -113.29 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 LYS A 164 ASN A 165 -147.13 REMARK 500 REMARK 500 REMARK: NULL 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 MG A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 19 O REMARK 620 2 ASP A 179 OD1 97.2 REMARK 620 3 ASP A 179 OD2 86.6 48.4 REMARK 620 4 DT B 15 OP1 96.6 91.2 139.3 REMARK 620 5 DT C 15 OP1 141.5 103.1 83.1 115.1 REMARK 620 6 HOH A 502 O 68.1 122.2 74.5 143.9 73.3 REMARK 620 7 HOH C 101 O 87.0 173.3 137.5 83.1 76.3 64.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 20 OE2 REMARK 620 2 GLY A 178 O 79.8 REMARK 620 3 DC D 16 OP3 162.4 95.2 REMARK 620 4 HOH A 501 O 71.1 70.5 91.3 REMARK 620 5 HOH B 202 O 83.6 154.8 95.0 86.4 REMARK 620 6 HOH D 101 O 96.6 86.5 99.9 155.3 114.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DA B 14 OP1 REMARK 620 2 HOH B 206 O 87.0 REMARK 620 3 HOH C 102 O 169.9 101.1 REMARK 620 4 HOH D 102 O 88.0 87.9 86.3 REMARK 620 5 HOH D 103 O 95.6 165.0 75.0 77.4 REMARK 620 6 HOH B 203 O 98.6 106.4 85.0 164.4 87.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG0 B 102 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LOX RELATED DB: PDB REMARK 900 RELATED ID: 5E5O RELATED DB: PDB REMARK 900 RELATED ID: 5E5P RELATED DB: PDB REMARK 900 RELATED ID: 5E63 RELATED DB: PDB REMARK 900 RELATED ID: 5E67 RELATED DB: PDB DBREF 5E5S A 1 302 UNP F7WD42 F7WD42_SORMK 114 415 DBREF 5E5S B 1 25 PDB 5E5S 5E5S 1 25 DBREF 5E5S C 1 15 PDB 5E5S 5E5S 1 15 DBREF 5E5S D 16 25 PDB 5E5S 5E5S 16 25 SEQADV 5E5S ALA A 103 UNP F7WD42 LYS 216 ENGINEERED MUTATION SEQADV 5E5S ASN A 165 UNP F7WD42 LEU 278 CONFLICT SEQADV 5E5S GLN A 267 UNP F7WD42 MET 380 CONFLICT SEQRES 1 A 302 SER LYS GLY GLU ASN SER LYS LEU ASN PRO TRP ALA VAL SEQRES 2 A 302 VAL GLY PHE ILE ASP ALA GLU GLY SER PHE MET VAL ARG SEQRES 3 A 302 VAL ARG LYS ASN SER LYS TYR LYS THR GLY TRP LEU VAL SEQRES 4 A 302 VAL ALA ILE PHE SER VAL THR VAL ASP LYS LYS ASP LEU SEQRES 5 A 302 PHE LEU LEU GLU SER LEU LYS THR PHE PHE GLY GLY LEU SEQRES 6 A 302 GLY SER ILE LYS LYS SER GLY ASN SER THR PHE SER TYR SEQRES 7 A 302 ARG ILE GLU SER SER GLU GLN LEU THR LYS ILE ILE LEU SEQRES 8 A 302 PRO PHE PHE ASP LYS TYR SER LEU ILE THR GLU ALA LEU SEQRES 9 A 302 GLY ASP TYR LEU LEU PHE LYS LYS VAL LEU GLU LEU MET SEQRES 10 A 302 GLY THR LYS GLU HIS LEU THR GLN ARG GLY LEU GLU LYS SEQRES 11 A 302 ILE VAL SER LEU LYS ALA SER ILE ASN LYS GLY LEU SER SEQRES 12 A 302 GLU GLU LEU GLN ALA ALA PHE PRO GLN CYS VAL PRO THR SEQRES 13 A 302 PRO ARG PRO GLU ILE ASN ASN LYS ASN ILE PRO ASP PRO SEQRES 14 A 302 PHE TRP LEU ALA GLY PHE VAL SER GLY ASP GLY SER PHE SEQRES 15 A 302 LYS SER ILE LEU LYS LYS SER GLU SER ILE LYS VAL GLY SEQRES 16 A 302 PHE GLN SER ILE LEU VAL PHE GLN ILE THR GLN HIS ALA SEQRES 17 A 302 ARG ASP VAL LYS LEU MET GLU SER LEU ILE SER TYR LEU SEQRES 18 A 302 GLY CYS GLY PHE ILE GLU LYS ASP SER ARG GLY PRO TRP SEQRES 19 A 302 LEU TYR TYR THR VAL THR ASN PHE SER ASP ILE GLN GLY SEQRES 20 A 302 LYS ILE ILE PRO PHE PHE HIS GLN TYR LYS ILE ILE GLY SEQRES 21 A 302 SER LYS TYR GLY ASP TYR GLN ASP TRP CYS LYS ILE ALA SEQRES 22 A 302 LEU ILE MET GLN ASN LYS ASN HIS LEU THR PRO GLU GLY SEQRES 23 A 302 LEU ASN GLU ILE ARG ALA LEU LYS GLY GLY MET ASN LYS SEQRES 24 A 302 GLY ARG LEU SEQRES 1 B 25 DC DG DT DA DC DA DC DC DT DG DA DT DA SEQRES 2 B 25 DA DT DG DG DA DG DG DA DT DA DC DC SEQRES 1 C 15 DG DG DT DA DT DC DC DT DC DC DA DT DT SEQRES 2 C 15 DA DT SEQRES 1 D 10 DC DA DG DG DT DG DT DA DC DG HET MG A 401 1 HET MG A 402 1 HET MG B 101 1 HET PG0 B 102 8 HETNAM MG MAGNESIUM ION HETNAM PG0 2-(2-METHOXYETHOXY)ETHANOL HETSYN PG0 PEG 6000 FORMUL 5 MG 3(MG 2+) FORMUL 8 PG0 C5 H12 O3 FORMUL 9 HOH *23(H2 O) HELIX 1 AA1 ASN A 9 GLU A 20 1 12 HELIX 2 AA2 ASP A 51 PHE A 62 1 12 HELIX 3 AA3 SER A 82 ILE A 89 1 8 HELIX 4 AA4 ILE A 89 TYR A 97 1 9 HELIX 5 AA5 GLU A 102 THR A 119 1 18 HELIX 6 AA6 LYS A 120 LEU A 123 5 4 HELIX 7 AA7 THR A 124 ALA A 136 1 13 HELIX 8 AA8 SER A 143 PHE A 150 1 8 HELIX 9 AA9 ASP A 168 ASP A 179 1 12 HELIX 10 AB1 HIS A 207 ARG A 209 5 3 HELIX 11 AB2 ASP A 210 GLY A 222 1 13 HELIX 12 AB3 ASN A 241 LYS A 248 1 8 HELIX 13 AB4 LYS A 248 TYR A 256 1 9 HELIX 14 AB5 SER A 261 ASN A 278 1 18 HELIX 15 AB6 LYS A 279 LEU A 282 5 4 HELIX 16 AB7 THR A 283 GLY A 296 1 14 SHEET 1 AA1 4 GLY A 21 LYS A 29 0 SHEET 2 AA1 4 TRP A 37 ASP A 48 -1 O LEU A 38 N ARG A 28 SHEET 3 AA1 4 THR A 75 ILE A 80 -1 O ILE A 80 N PHE A 43 SHEET 4 AA1 4 SER A 67 GLY A 72 -1 N LYS A 69 O SER A 77 SHEET 1 AA2 4 GLY A 180 LYS A 188 0 SHEET 2 AA2 4 PHE A 196 GLN A 206 -1 O VAL A 201 N LYS A 183 SHEET 3 AA2 4 LEU A 235 VAL A 239 -1 O LEU A 235 N GLN A 206 SHEET 4 AA2 4 PHE A 225 LYS A 228 -1 N PHE A 225 O THR A 238 LINK O ALA A 19 MG MG A 401 1555 1555 2.05 LINK OE2 GLU A 20 MG MG A 402 1555 1555 2.24 LINK O GLY A 178 MG MG A 402 1555 1555 2.33 LINK OD1 ASP A 179 MG MG A 401 1555 1555 2.80 LINK OD2 ASP A 179 MG MG A 401 1555 1555 2.39 LINK OP1 DA B 14 MG MG B 101 1555 1555 2.15 LINK OP1 DT B 15 MG MG A 401 1555 1555 2.65 LINK OP1 DT C 15 MG MG A 401 1555 1555 2.09 LINK OP3 DC D 16 MG MG A 402 1555 1555 1.84 LINK MG MG A 401 O HOH A 502 1555 1555 2.57 LINK MG MG A 401 O HOH C 101 1555 1555 2.27 LINK MG MG A 402 O HOH A 501 1555 1555 2.24 LINK MG MG A 402 O HOH B 202 1555 1555 2.19 LINK MG MG A 402 O HOH D 101 1555 1555 2.09 LINK MG MG B 101 O HOH B 206 1555 1555 2.06 LINK MG MG B 101 O HOH C 102 1555 1555 2.05 LINK MG MG B 101 O HOH D 102 1555 1555 2.46 LINK MG MG B 101 O HOH D 103 1555 1555 2.13 LINK MG MG B 101 O HOH B 203 1555 1555 2.29 SITE 1 AC1 6 ALA A 19 ASP A 179 HOH A 502 DT B 15 SITE 2 AC1 6 DT C 15 HOH C 101 SITE 1 AC2 6 GLU A 20 GLY A 178 HOH A 501 HOH B 202 SITE 2 AC2 6 DC D 16 HOH D 101 SITE 1 AC3 7 DA B 13 DA B 14 HOH B 203 HOH B 206 SITE 2 AC3 7 HOH C 102 HOH D 102 HOH D 103 SITE 1 AC4 3 DG B 2 DT B 3 DG D 25 CRYST1 59.589 68.199 97.652 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 0.016782 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014663 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010240 0.00000 MASTER 418 0 4 16 8 0 7 6 0 0 0 29 END