HEADER TRANSFERASE 05-SEP-13 4MKH TITLE CRYSTAL STRUCTURE OF A STABLE ADENYLATE KINASE VARIANT AKV18 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENYLATE KINASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: AK, ATP-AMP TRANSPHOSPHORYLASE, ATP:AMP PHOSPHOTRANSFERASE, COMPND 5 ADENYLATE MONOPHOSPHATE KINASE, SUPEROXIDE-INDUCIBLE PROTEIN 16, COMPND 6 SOI16; COMPND 7 EC: 2.7.4.3; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 224308; SOURCE 4 STRAIN: 168; SOURCE 5 GENE: ADK, BSU01370; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS ADENYLATE KINASE, ZINC FINGER, TRANSFERASE ACTIVITY, KEYWDS 2 PHOSPHOTRANSFERASE ACTIVITY, ZINC BINDING, ATP BINDING, KEYWDS 3 PHOSPHORYLATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.MOON,E.BAE REVDAT 3 08-NOV-23 4MKH 1 REMARK REVDAT 2 24-AUG-22 4MKH 1 JRNL REMARK SEQADV LINK REVDAT 1 26-MAR-14 4MKH 0 JRNL AUTH S.MOON,D.K.JUNG,G.N.PHILLIPS JR.,E.BAE JRNL TITL AN INTEGRATED APPROACH FOR THERMAL STABILIZATION OF A JRNL TITL 2 MESOPHILIC ADENYLATE KINASE. JRNL REF PROTEINS V. 82 1947 2014 JRNL REFN ESSN 1097-0134 JRNL PMID 24615904 JRNL DOI 10.1002/PROT.24549 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 31754 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) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1689 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2261 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.21 REMARK 3 BIN R VALUE (WORKING SET) : 0.2450 REMARK 3 BIN FREE R VALUE SET COUNT : 113 REMARK 3 BIN FREE R VALUE : 0.3100 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1706 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 70 REMARK 3 SOLVENT ATOMS : 135 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.69000 REMARK 3 B22 (A**2) : -0.40000 REMARK 3 B33 (A**2) : 0.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.46000 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): 0.082 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.051 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.826 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): 1805 ; 0.027 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2441 ; 2.772 ; 2.034 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 217 ; 5.357 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 81 ;32.795 ;24.691 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 323 ;12.059 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;15.100 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 272 ; 0.164 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1319 ; 0.015 ; 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 : 4 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 31 A 60 REMARK 3 ORIGIN FOR THE GROUP (A): -10.1377 -5.1307 1.8357 REMARK 3 T TENSOR REMARK 3 T11: 0.0545 T22: 0.0526 REMARK 3 T33: 0.0410 T12: -0.0188 REMARK 3 T13: 0.0328 T23: -0.0222 REMARK 3 L TENSOR REMARK 3 L11: 0.6874 L22: 1.6391 REMARK 3 L33: 2.5066 L12: 0.1386 REMARK 3 L13: -0.4530 L23: 0.0529 REMARK 3 S TENSOR REMARK 3 S11: -0.0271 S12: 0.0922 S13: -0.1002 REMARK 3 S21: 0.1390 S22: -0.1159 S23: 0.1265 REMARK 3 S31: 0.0832 S32: -0.2007 S33: 0.1430 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 127 A 164 REMARK 3 ORIGIN FOR THE GROUP (A): -21.0376 -19.9382 -7.7392 REMARK 3 T TENSOR REMARK 3 T11: 0.0317 T22: 0.0504 REMARK 3 T33: 0.0578 T12: -0.0005 REMARK 3 T13: -0.0061 T23: 0.0102 REMARK 3 L TENSOR REMARK 3 L11: 3.7687 L22: 2.1065 REMARK 3 L33: 3.1460 L12: 1.4840 REMARK 3 L13: -1.9700 L23: -0.1703 REMARK 3 S TENSOR REMARK 3 S11: -0.1348 S12: -0.0161 S13: -0.2039 REMARK 3 S21: 0.0603 S22: 0.0215 S23: -0.1443 REMARK 3 S31: 0.2723 S32: 0.0095 S33: 0.1134 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 0 A 30 REMARK 3 RESIDUE RANGE : A 61 A 126 REMARK 3 RESIDUE RANGE : A 165 A 217 REMARK 3 ORIGIN FOR THE GROUP (A): 0.9741 -11.7615 -12.3695 REMARK 3 T TENSOR REMARK 3 T11: 0.0195 T22: 0.0273 REMARK 3 T33: 0.0186 T12: 0.0051 REMARK 3 T13: -0.0041 T23: -0.0056 REMARK 3 L TENSOR REMARK 3 L11: 0.5457 L22: 0.6713 REMARK 3 L33: 0.3035 L12: -0.2561 REMARK 3 L13: -0.0231 L23: -0.1332 REMARK 3 S TENSOR REMARK 3 S11: -0.0051 S12: 0.0581 S13: 0.0014 REMARK 3 S21: 0.0043 S22: -0.0070 S23: -0.0312 REMARK 3 S31: 0.0301 S32: 0.0404 S33: 0.0121 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): -9.3697 -11.6646 -10.5917 REMARK 3 T TENSOR REMARK 3 T11: 0.1035 T22: 0.1555 REMARK 3 T33: 0.1253 T12: 0.0409 REMARK 3 T13: -0.0318 T23: -0.0266 REMARK 3 L TENSOR REMARK 3 L11: 2.7317 L22: 3.1790 REMARK 3 L33: 5.3908 L12: 2.9306 REMARK 3 L13: 2.7491 L23: 3.0978 REMARK 3 S TENSOR REMARK 3 S11: 0.1983 S12: 0.1555 S13: -0.1261 REMARK 3 S21: 0.2307 S22: 0.1141 S23: -0.1419 REMARK 3 S31: 0.3875 S32: 0.2720 S33: -0.3124 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: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4MKH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000082023. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-DEC-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 7A (6B, 6C1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : DCM SI (111) CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33460 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.65300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 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: 4MKG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6M AMMONIUM CITRATE PH 8.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 310.15K, PH 7.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 27.59700 REMARK 290 SMTRY3 2 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 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 MET A -1 REMARK 465 HIS A 218 REMARK 465 HIS A 219 REMARK 465 HIS A 220 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 HIS A 216 CG HIS A 216 CD2 0.059 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 MET A 1 CG - SD - CE ANGL. DEV. = -17.7 DEGREES REMARK 500 LEU A 16 CA - CB - CG ANGL. DEV. = 20.9 DEGREES REMARK 500 ASP A 54 CB - CG - OD1 ANGL. DEV. = -8.2 DEGREES REMARK 500 ARG A 69 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 ARG A 88 NE - CZ - NH1 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG A 88 NE - CZ - NH2 ANGL. DEV. = 7.2 DEGREES REMARK 500 ARG A 105 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ASP A 108 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 123 NE - CZ - NH2 ANGL. DEV. = -5.0 DEGREES REMARK 500 ASP A 151 CB - CG - OD1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 160 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG A 160 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG A 171 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ASP A 200 CB - CG - OD1 ANGL. DEV. = 5.6 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 142 67.76 -159.99 REMARK 500 ASP A 153 -1.38 -143.68 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 ZN A 301 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 130 SG REMARK 620 2 CYS A 133 SG 108.5 REMARK 620 3 CYS A 150 SG 106.3 112.4 REMARK 620 4 ASP A 153 OD2 122.0 95.4 112.0 REMARK 620 5 ASP A 153 OD1 87.5 148.2 87.8 53.4 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AP5 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 305 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4MKF RELATED DB: PDB REMARK 900 RELATED ID: 4MKG RELATED DB: PDB DBREF 4MKH A 1 212 UNP P16304 KAD_BACSU 1 212 SEQADV 4MKH MET A -1 UNP P16304 EXPRESSION TAG SEQADV 4MKH GLY A 0 UNP P16304 EXPRESSION TAG SEQADV 4MKH ILE A 3 UNP P16304 LEU 3 ENGINEERED MUTATION SEQADV 4MKH LEU A 16 UNP P16304 GLN 16 ENGINEERED MUTATION SEQADV 4MKH ALA A 17 UNP P16304 GLY 17 ENGINEERED MUTATION SEQADV 4MKH LYS A 19 UNP P16304 ARG 19 ENGINEERED MUTATION SEQADV 4MKH LYS A 23 UNP P16304 ASP 23 ENGINEERED MUTATION SEQADV 4MKH ARG A 69 UNP P16304 LYS 69 ENGINEERED MUTATION SEQADV 4MKH SER A 73 UNP P16304 GLY 73 ENGINEERED MUTATION SEQADV 4MKH SER A 75 UNP P16304 ASP 75 ENGINEERED MUTATION SEQADV 4MKH MET A 103 UNP P16304 TYR 103 ENGINEERED MUTATION SEQADV 4MKH ARG A 105 UNP P16304 LYS 105 ENGINEERED MUTATION SEQADV 4MKH GLN A 114 UNP P16304 GLU 114 ENGINEERED MUTATION SEQADV 4MKH ARG A 116 UNP P16304 ASP 116 ENGINEERED MUTATION SEQADV 4MKH GLU A 118 UNP P16304 ASP 118 ENGINEERED MUTATION SEQADV 4MKH GLU A 119 UNP P16304 VAL 119 ENGINEERED MUTATION SEQADV 4MKH THR A 169 UNP P16304 SER 169 ENGINEERED MUTATION SEQADV 4MKH MET A 179 UNP P16304 THR 179 ENGINEERED MUTATION SEQADV 4MKH ALA A 180 UNP P16304 GLN 180 ENGINEERED MUTATION SEQADV 4MKH ALA A 184 UNP P16304 ASP 184 ENGINEERED MUTATION SEQADV 4MKH ASP A 187 UNP P16304 SER 187 ENGINEERED MUTATION SEQADV 4MKH SER A 188 UNP P16304 GLU 188 ENGINEERED MUTATION SEQADV 4MKH GLU A 190 UNP P16304 GLY 190 ENGINEERED MUTATION SEQADV 4MKH VAL A 191 UNP P16304 TYR 191 ENGINEERED MUTATION SEQADV 4MKH VAL A 193 UNP P16304 ALA 193 ENGINEERED MUTATION SEQADV 4MKH GLU A 198 UNP P16304 GLN 198 ENGINEERED MUTATION SEQADV 4MKH ARG A 199 UNP P16304 GLN 199 ENGINEERED MUTATION SEQADV 4MKH GLU A 202 UNP P16304 GLN 202 ENGINEERED MUTATION SEQADV 4MKH PHE A 205 UNP P16304 TYR 205 ENGINEERED MUTATION SEQADV 4MKH ASP A 209 UNP P16304 LYS 209 ENGINEERED MUTATION SEQADV 4MKH VAL A 210 UNP P16304 ASP 210 ENGINEERED MUTATION SEQADV 4MKH ILE A 211 UNP P16304 LEU 211 ENGINEERED MUTATION SEQADV 4MKH LEU A 213 UNP P16304 EXPRESSION TAG SEQADV 4MKH GLU A 214 UNP P16304 EXPRESSION TAG SEQADV 4MKH HIS A 215 UNP P16304 EXPRESSION TAG SEQADV 4MKH HIS A 216 UNP P16304 EXPRESSION TAG SEQADV 4MKH HIS A 217 UNP P16304 EXPRESSION TAG SEQADV 4MKH HIS A 218 UNP P16304 EXPRESSION TAG SEQADV 4MKH HIS A 219 UNP P16304 EXPRESSION TAG SEQADV 4MKH HIS A 220 UNP P16304 EXPRESSION TAG SEQRES 1 A 222 MET GLY MET ASN ILE VAL LEU MET GLY LEU PRO GLY ALA SEQRES 2 A 222 GLY LYS GLY THR LEU ALA GLU LYS ILE VAL GLU LYS TYR SEQRES 3 A 222 GLY ILE PRO HIS ILE SER THR GLY ASP MET PHE ARG ALA SEQRES 4 A 222 ALA MET LYS GLU GLU THR PRO LEU GLY LEU GLU ALA LYS SEQRES 5 A 222 SER TYR ILE ASP LYS GLY GLU LEU VAL PRO ASP GLU VAL SEQRES 6 A 222 THR ILE GLY ILE VAL ARG GLU ARG LEU SER LYS SER ASP SEQRES 7 A 222 CYS GLU ARG GLY PHE LEU LEU ASP GLY PHE PRO ARG THR SEQRES 8 A 222 VAL ALA GLN ALA GLU ALA LEU GLU GLU ILE LEU GLU GLU SEQRES 9 A 222 MET GLY ARG PRO ILE ASP TYR VAL ILE ASN ILE GLN VAL SEQRES 10 A 222 ARG LYS GLU GLU LEU MET GLU ARG LEU THR GLY ARG ARG SEQRES 11 A 222 ILE CYS SER VAL CYS GLY THR THR TYR HIS LEU VAL PHE SEQRES 12 A 222 ASN PRO PRO LYS THR PRO GLY ILE CYS ASP LYS ASP GLY SEQRES 13 A 222 GLY GLU LEU TYR GLN ARG ALA ASP ASP ASN GLU GLU THR SEQRES 14 A 222 VAL THR LYS ARG LEU GLU VAL ASN MET LYS GLN MET ALA SEQRES 15 A 222 PRO LEU LEU ALA PHE TYR ASP SER LYS GLU VAL LEU VAL SEQRES 16 A 222 ASN VAL ASN GLY GLU ARG ASP ILE GLU ASP VAL PHE ALA SEQRES 17 A 222 ASP VAL ASP VAL ILE LEU LEU GLU HIS HIS HIS HIS HIS SEQRES 18 A 222 HIS HET ZN A 301 1 HET AP5 A 302 60 HET EDO A 303 4 HET EDO A 304 4 HET EDO A 305 4 HETNAM ZN ZINC ION HETNAM AP5 BIS(ADENOSINE)-5'-PENTAPHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ZN ZN 2+ FORMUL 3 AP5 C20 H29 N10 O22 P5 FORMUL 4 EDO 3(C2 H6 O2) FORMUL 7 HOH *135(H2 O) HELIX 1 1 GLY A 12 GLY A 25 1 14 HELIX 2 2 THR A 31 GLU A 41 1 11 HELIX 3 3 THR A 43 GLY A 56 1 14 HELIX 4 4 PRO A 60 SER A 73 1 14 HELIX 5 5 LYS A 74 ARG A 79 5 6 HELIX 6 6 THR A 89 GLY A 104 1 16 HELIX 7 7 ARG A 116 GLY A 126 1 11 HELIX 8 8 ASN A 164 LYS A 189 1 26 HELIX 9 9 ASP A 200 HIS A 217 1 18 SHEET 1 A 5 HIS A 28 SER A 30 0 SHEET 2 A 5 PHE A 81 ASP A 84 1 O LEU A 82 N ILE A 29 SHEET 3 A 5 ASN A 2 MET A 6 1 N LEU A 5 O LEU A 83 SHEET 4 A 5 TYR A 109 GLN A 114 1 O ILE A 111 N VAL A 4 SHEET 5 A 5 LEU A 192 ASN A 196 1 O VAL A 193 N ASN A 112 SHEET 1 B 3 THR A 136 HIS A 138 0 SHEET 2 B 3 ARG A 127 CYS A 130 -1 N ARG A 128 O TYR A 137 SHEET 3 B 3 LEU A 157 TYR A 158 -1 O TYR A 158 N ILE A 129 LINK SG CYS A 130 ZN ZN A 301 1555 1555 2.32 LINK SG CYS A 133 ZN ZN A 301 1555 1555 2.40 LINK SG CYS A 150 ZN ZN A 301 1555 1555 2.32 LINK OD2 ASP A 153 ZN ZN A 301 1555 1555 2.01 LINK OD1 ASP A 153 ZN ZN A 301 1555 1555 2.63 CISPEP 1 PHE A 86 PRO A 87 0 0.64 SITE 1 AC1 4 CYS A 130 CYS A 133 CYS A 150 ASP A 153 SITE 1 AC2 37 PRO A 9 GLY A 10 ALA A 11 GLY A 12 SITE 2 AC2 37 LYS A 13 GLY A 14 THR A 15 THR A 31 SITE 3 AC2 37 GLY A 32 ARG A 36 ILE A 53 GLU A 57 SITE 4 AC2 37 LEU A 58 VAL A 59 THR A 64 GLY A 85 SITE 5 AC2 37 PHE A 86 ARG A 88 GLN A 92 ARG A 123 SITE 6 AC2 37 LEU A 124 ARG A 127 HIS A 138 PHE A 141 SITE 7 AC2 37 ARG A 160 ARG A 171 ARG A 199 ILE A 201 SITE 8 AC2 37 HOH A 404 HOH A 407 HOH A 421 HOH A 423 SITE 9 AC2 37 HOH A 424 HOH A 455 HOH A 459 HOH A 486 SITE 10 AC2 37 HOH A 488 SITE 1 AC3 9 MET A 6 GLY A 7 LEU A 8 ASN A 175 SITE 2 AC3 9 MET A 179 EDO A 304 HOH A 497 HOH A 498 SITE 3 AC3 9 HOH A 499 SITE 1 AC4 9 LEU A 5 MET A 6 GLY A 7 LYS A 13 SITE 2 AC4 9 GLY A 85 PHE A 86 PRO A 87 ARG A 88 SITE 3 AC4 9 EDO A 303 SITE 1 AC5 7 ASN A 2 GLY A 104 ARG A 105 ARG A 128 SITE 2 AC5 7 LEU A 157 HOH A 508 HOH A 509 CRYST1 44.194 55.194 46.375 90.00 110.61 90.00 P 1 21 1 2 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 0.022628 0.000000 0.008510 0.00000 SCALE2 0.000000 0.018118 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023038 0.00000