HEADER TRANSFERASE 28-FEB-18 6FUX TITLE STRUCTURE OF AMINOGLYCOSIDE PHOSPHOTRANSFERASE APH(3'')-ID FROM TITLE 2 STREPTOMYCES RIMOSUS ATCC10970 IN COMPLEX WITH ADP AND STREPTOMYCIN CAVEAT 6FUX SRY A 303 HAS WRONG CHIRALITY AT ATOM C11 SRY A 303 HAS CAVEAT 2 6FUX WRONG CHIRALITY AT ATOM C51 COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOGLYCOSIDE PHOSPHOTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES RIMOSUS SUBSP. RIMOSUS ATCC 10970; SOURCE 3 ORGANISM_TAXID: 1265868; SOURCE 4 ATCC: 10970; SOURCE 5 GENE: SRIM_08058; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS STREPTOMYCES RIMOSUS, AMINOGLYCOSIDE PHOSPHOTRANSFERASE, ANTIBIOTIC KEYWDS 2 RESISTANCE, STREPTOMYCIN, PHOSPHORYLATION, ATP BINDING, KINASE KEYWDS 3 ACTIVITY, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.M.BOYKO,A.Y.NIKOLAEVA,D.A.KORZHENEVSKIY,M.G.ALEKSEEVA, AUTHOR 2 D.A.MAVLETOVA,N.V.ZAKHAREVICH,N.N.RUDAKOVA,V.N.DANILENKO,V.O.POPOV REVDAT 4 17-JAN-24 6FUX 1 REMARK REVDAT 3 17-JUL-19 6FUX 1 JRNL REVDAT 2 10-JUL-19 6FUX 1 JRNL REVDAT 1 20-MAR-19 6FUX 0 JRNL AUTH M.G.ALEKSEEVA,K.M.BOYKO,A.Y.NIKOLAEVA,D.A.MAVLETOVA, JRNL AUTH 2 N.N.RUDAKOVA,N.V.ZAKHAREVICH,D.A.KORZHENEVSKIY, JRNL AUTH 3 R.H.ZIGANSHIN,V.O.POPOV,V.N.DANILENKO JRNL TITL IDENTIFICATION, FUNCTIONAL AND STRUCTURAL CHARACTERIZATION JRNL TITL 2 OF NOVEL AMINOGLYCOSIDE PHOSPHOTRANSFERASE JRNL TITL 3 APH(3′′)-ID FROM STREPTOMYCES RIMOSUS SUBSP. JRNL TITL 4 RIMOSUS ATCC 10970. JRNL REF ARCH.BIOCHEM.BIOPHYS. V. 671 111 2019 JRNL REFN ESSN 1096-0384 JRNL PMID 31251922 JRNL DOI 10.1016/J.ABB.2019.06.008 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 55.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 33229 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.202 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1740 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2424 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.11 REMARK 3 BIN R VALUE (WORKING SET) : 0.2670 REMARK 3 BIN FREE R VALUE SET COUNT : 115 REMARK 3 BIN FREE R VALUE : 0.3050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2059 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 65 REMARK 3 SOLVENT ATOMS : 262 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 27.33 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.52000 REMARK 3 B22 (A**2) : -2.17000 REMARK 3 B33 (A**2) : 2.69000 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): 0.091 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.092 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.073 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.027 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2230 ; 0.021 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 1925 ; 0.002 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3045 ; 2.760 ; 1.702 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4533 ; 2.519 ; 1.661 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 265 ; 6.826 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 140 ;29.543 ;19.857 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 335 ;15.265 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;23.303 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 291 ; 0.416 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2549 ; 0.016 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 418 ; 0.007 ; 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 : 5 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 272 REMARK 3 ORIGIN FOR THE GROUP (A): 30.6177 65.4125 17.6273 REMARK 3 T TENSOR REMARK 3 T11: 0.0210 T22: 0.1458 REMARK 3 T33: 0.0093 T12: -0.0042 REMARK 3 T13: -0.0090 T23: -0.0087 REMARK 3 L TENSOR REMARK 3 L11: 0.8137 L22: 0.9096 REMARK 3 L33: 1.0783 L12: 0.1731 REMARK 3 L13: -0.4757 L23: -0.0952 REMARK 3 S TENSOR REMARK 3 S11: 0.0447 S12: -0.1146 S13: 0.0335 REMARK 3 S21: 0.1340 S22: -0.0054 S23: -0.0734 REMARK 3 S31: -0.0507 S32: 0.0597 S33: -0.0392 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 301 A 301 REMARK 3 ORIGIN FOR THE GROUP (A): 37.6991 64.6718 10.1978 REMARK 3 T TENSOR REMARK 3 T11: 0.3866 T22: 0.1782 REMARK 3 T33: 0.0776 T12: -0.1052 REMARK 3 T13: 0.0352 T23: -0.0036 REMARK 3 L TENSOR REMARK 3 L11: 13.4715 L22: 60.8101 REMARK 3 L33: 35.7804 L12: -16.6915 REMARK 3 L13: 19.3791 L23: -41.8191 REMARK 3 S TENSOR REMARK 3 S11: 1.3698 S12: -0.1559 S13: 0.5782 REMARK 3 S21: 0.5221 S22: -2.2919 S23: -0.9183 REMARK 3 S31: 0.9776 S32: 0.8758 S33: 0.9220 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 401 A 662 REMARK 3 ORIGIN FOR THE GROUP (A): 30.1250 64.7862 16.8299 REMARK 3 T TENSOR REMARK 3 T11: 0.1279 T22: 0.2638 REMARK 3 T33: 0.1154 T12: 0.0047 REMARK 3 T13: -0.0255 T23: -0.0068 REMARK 3 L TENSOR REMARK 3 L11: 0.4816 L22: 0.6808 REMARK 3 L33: 0.9147 L12: 0.0982 REMARK 3 L13: -0.2082 L23: -0.0363 REMARK 3 S TENSOR REMARK 3 S11: 0.0369 S12: -0.0199 S13: 0.0017 REMARK 3 S21: 0.0620 S22: -0.0268 S23: -0.0438 REMARK 3 S31: 0.0011 S32: 0.0353 S33: -0.0101 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 302 A 302 REMARK 3 ORIGIN FOR THE GROUP (A): 39.7801 70.2126 12.6924 REMARK 3 T TENSOR REMARK 3 T11: 0.1133 T22: 0.1197 REMARK 3 T33: 0.0873 T12: 0.0199 REMARK 3 T13: -0.0014 T23: -0.0031 REMARK 3 L TENSOR REMARK 3 L11: 2.8245 L22: 2.2630 REMARK 3 L33: 29.9654 L12: -1.1615 REMARK 3 L13: 6.9006 L23: -7.6723 REMARK 3 S TENSOR REMARK 3 S11: 0.1081 S12: -0.1427 S13: -0.0084 REMARK 3 S21: -0.0173 S22: -0.1151 S23: -0.0080 REMARK 3 S31: 0.2240 S32: 0.1494 S33: 0.0070 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 303 A 303 REMARK 3 ORIGIN FOR THE GROUP (A): 33.9216 68.8719 27.2241 REMARK 3 T TENSOR REMARK 3 T11: 0.4647 T22: 0.1984 REMARK 3 T33: 0.1761 T12: -0.1159 REMARK 3 T13: -0.0626 T23: -0.0895 REMARK 3 L TENSOR REMARK 3 L11: 9.5084 L22: 2.2640 REMARK 3 L33: 12.1978 L12: 4.5663 REMARK 3 L13: 10.6875 L23: 5.0225 REMARK 3 S TENSOR REMARK 3 S11: 0.0566 S12: -0.1492 S13: 0.0892 REMARK 3 S21: 0.2061 S22: -0.1349 S23: 0.0281 REMARK 3 S31: -0.2008 S32: -0.0279 S33: 0.0783 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 : WITH TLS ADDED REMARK 4 REMARK 4 6FUX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-FEB-18. REMARK 100 THE DEPOSITION ID IS D_1200008969. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU 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 : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34969 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 55.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 5.952 REMARK 200 R MERGE (I) : 0.13800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.0400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 0.65100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 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: 6FUC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MES MONOHYDRATE; 12% PEG20000, PH REMARK 280 6.5, VAPOR DIFFUSION, TEMPERATURE 277K 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 23.48500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.30500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.90000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.30500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.48500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.90000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 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 ASP A 25 REMARK 465 GLY A 26 REMARK 465 GLU A 27 REMARK 465 SER A 28 REMARK 465 GLY A 29 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 MET A 1 CE REMARK 470 GLU A 21 CG CD OE1 OE2 REMARK 470 ASP A 48 OD1 OD2 REMARK 470 ILE A 93 CD1 REMARK 470 ASP A 235 CG OD1 OD2 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 OG1 THR A 128 O HOH A 402 2.04 REMARK 500 O HOH A 557 O HOH A 565 2.15 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 40 CG - CD - NE ANGL. DEV. = 28.3 DEGREES REMARK 500 ARG A 77 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 115 CG - CD - NE ANGL. DEV. = -13.0 DEGREES REMARK 500 ARG A 115 CG - CD - NE ANGL. DEV. = 14.5 DEGREES REMARK 500 THR A 128 OG1 - CB - CG2 ANGL. DEV. = -42.4 DEGREES REMARK 500 THR A 128 CA - CB - OG1 ANGL. DEV. = 25.0 DEGREES REMARK 500 TYR A 171 CA - CB - CG ANGL. DEV. = -13.7 DEGREES REMARK 500 ARG A 212 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 259 CB - CG - CD ANGL. DEV. = -15.7 DEGREES REMARK 500 ARG A 259 NE - CZ - NH2 ANGL. DEV. = -4.9 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 ARG A 129 41.44 -141.78 REMARK 500 ASP A 189 65.91 -150.84 REMARK 500 ASP A 236 77.47 -65.86 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 40 0.35 SIDE CHAIN REMARK 500 ARG A 97 0.15 SIDE CHAIN REMARK 500 ARG A 104 0.08 SIDE CHAIN REMARK 500 ARG A 115 0.16 SIDE CHAIN REMARK 500 ARG A 238 0.20 SIDE CHAIN REMARK 500 ARG A 259 0.09 SIDE CHAIN 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 662 DISTANCE = 5.90 ANGSTROMS REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 ADP A 302 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ADP A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SRY A 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6FUC RELATED DB: PDB REMARK 900 APO-ENZYME DBREF 6FUX A 1 272 UNP L8EXH9 L8EXH9_STRRM 1 272 SEQRES 1 A 272 MET ILE ASP LEU THR ALA PHE LEU THR LEU LEU ARG ALA SEQRES 2 A 272 ASP GLY GLY ASP ALA GLY TRP GLU PRO VAL THR ASP GLY SEQRES 3 A 272 GLU SER GLY ALA ALA VAL PHE ARG SER ALA ASP GLY SER SEQRES 4 A 272 ARG TYR ALA LYS CYS VAL PRO ALA ASP GLN VAL ALA ALA SEQRES 5 A 272 LEU GLU ALA GLU ARG ASP ARG VAL SER TRP LEU SER THR SEQRES 6 A 272 GLN ASP ILE PRO GLY PRO ARG VAL LEU ASP TRP ARG VAL SEQRES 7 A 272 GLY ALA ALA GLY ALA GLY LEU LEU THR SER THR VAL GLU SEQRES 8 A 272 GLY ILE PRO ALA ASP ARG ALA SER ALA SER MET LEU ARG SEQRES 9 A 272 ALA ALA TRP GLU PRO ILE ALA ASP ALA VAL ARG ARG LEU SEQRES 10 A 272 HIS GLU LEU PRO PRO GLU LYS CYS PRO PHE THR ARG GLU SEQRES 11 A 272 LEU GLY GLU MET PHE SER MET ALA ARG ASP VAL VAL ALA SEQRES 12 A 272 ARG GLU ALA VAL ASN PRO ASP PHE LEU PRO GLU GLU GLN SEQRES 13 A 272 ARG HIS THR PRO PRO GLY GLU LEU LEU ALA ARG LEU ALA SEQRES 14 A 272 PRO TYR VAL GLY GLN ARG LEU ALA GLN GLU ALA ALA GLN SEQRES 15 A 272 THR VAL VAL CYS HIS GLY ASP LEU CYS LEU PRO ASN ILE SEQRES 16 A 272 ILE LEU ASP PRO ASP THR LEU ASP VAL ALA GLY PHE ILE SEQRES 17 A 272 ASP LEU GLY ARG LEU GLY ARG ALA ASP PRO TYR ALA ASP SEQRES 18 A 272 LEU ALA LEU LEU PHE ALA THR ALA ARG GLU THR TRP GLY SEQRES 19 A 272 ASP ASP GLU ARG TRP SER GLN SER ALA GLU GLU GLU PHE SEQRES 20 A 272 ALA ALA ARG TYR GLY ILE ALA LEU ASP ARG ASP ARG GLU SEQRES 21 A 272 ARG PHE TYR LEU HIS LEU ASP PRO LEU THR TRP GLY HET GOL A 301 6 HET ADP A 302 19 HET SRY A 303 41 HETNAM GOL GLYCEROL HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM SRY STREPTOMYCIN HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN SRY STREPTOMYCIN A FORMUL 2 GOL C3 H8 O3 FORMUL 3 ADP C10 H15 N5 O10 P2 FORMUL 4 SRY C21 H39 N7 O12 FORMUL 5 HOH *262(H2 O) HELIX 1 AA1 ASP A 3 ALA A 13 1 11 HELIX 2 AA2 PRO A 46 ASP A 48 5 3 HELIX 3 AA3 GLN A 49 SER A 64 1 16 HELIX 4 AA4 ASP A 96 ALA A 98 5 3 HELIX 5 AA5 SER A 99 HIS A 118 1 20 HELIX 6 AA6 GLU A 119 LEU A 120 5 2 HELIX 7 AA7 PRO A 121 CYS A 125 5 5 HELIX 8 AA8 GLU A 130 ARG A 144 1 15 HELIX 9 AA9 ASN A 148 LEU A 152 5 5 HELIX 10 AB1 PRO A 153 ARG A 157 5 5 HELIX 11 AB2 PRO A 160 ALA A 169 1 10 HELIX 12 AB3 TYR A 171 GLN A 182 1 12 HELIX 13 AB4 CYS A 191 PRO A 193 5 3 HELIX 14 AB5 ASP A 217 GLY A 234 1 18 HELIX 15 AB6 ASP A 236 GLY A 252 1 17 HELIX 16 AB7 ASP A 256 ASP A 267 1 12 HELIX 17 AB8 PRO A 268 TRP A 271 5 4 SHEET 1 AA1 5 GLU A 21 PRO A 22 0 SHEET 2 AA1 5 ALA A 31 ARG A 34 -1 O ARG A 34 N GLU A 21 SHEET 3 AA1 5 ARG A 40 VAL A 45 -1 O CYS A 44 N ALA A 31 SHEET 4 AA1 5 GLY A 82 SER A 88 -1 O THR A 87 N TYR A 41 SHEET 5 AA1 5 VAL A 73 GLY A 79 -1 N LEU A 74 O LEU A 86 SHEET 1 AA2 3 ILE A 93 PRO A 94 0 SHEET 2 AA2 3 ILE A 195 LEU A 197 -1 O LEU A 197 N ILE A 93 SHEET 3 AA2 3 VAL A 204 PHE A 207 -1 O GLY A 206 N ILE A 196 SHEET 1 AA3 2 VAL A 184 CYS A 186 0 SHEET 2 AA3 2 GLY A 214 ALA A 216 -1 O ALA A 216 N VAL A 184 SITE 1 AC1 8 LYS A 43 GLU A 56 VAL A 60 ILE A 208 SITE 2 AC1 8 ASP A 209 LEU A 210 ADP A 302 HOH A 525 SITE 1 AC2 12 TYR A 41 PRO A 71 THR A 87 SER A 88 SITE 2 AC2 12 THR A 89 VAL A 90 ILE A 208 ASP A 209 SITE 3 AC2 12 GOL A 301 HOH A 404 HOH A 413 HOH A 420 SITE 1 AC3 19 ASP A 150 PHE A 151 LEU A 152 ARG A 157 SITE 2 AC3 19 ASP A 189 CYS A 191 PRO A 193 GLU A 231 SITE 3 AC3 19 ASP A 267 PRO A 268 TRP A 271 HOH A 425 SITE 4 AC3 19 HOH A 431 HOH A 457 HOH A 459 HOH A 487 SITE 5 AC3 19 HOH A 526 HOH A 546 HOH A 554 CRYST1 46.970 77.800 78.610 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 0.021290 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012853 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012721 0.00000