HEADER TRANSFERASE 31-DEC-14 3X2S TITLE CRYSTAL STRUCTURE OF PYRENE-CONJUGATED ADENYLATE KINASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENYLATE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: AK, ATP-AMP TRANSPHOSPHORYLASE, ATP-AMP PHOSPHOTRANSFERASE, COMPND 5 ADENYLATE MONOPHOSPHATE KINASE; COMPND 6 EC: 2.7.4.3; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI STR. K-12 SUBSTR. MDS42; SOURCE 3 ORGANISM_TAXID: 1110693; SOURCE 4 STRAIN: MDS42; SOURCE 5 GENE: ADK, ECMDS42_0373; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NMP AND LID DOMAINS, KINASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.FUJII,Y.SEKIGUCHI,H.MATSUMURA,T.INOUE,W.-S.CHUNG,S.HIROTA,T.MATSUO REVDAT 2 08-NOV-23 3X2S 1 REMARK SEQADV LINK REVDAT 1 01-APR-15 3X2S 0 JRNL AUTH A.FUJII,Y.SEKIGUCHI,H.MATSUMURA,T.INOUE,W.S.CHUNG,S.HIROTA, JRNL AUTH 2 T.MATSUO JRNL TITL EXCIMER EMISSION PROPERTIES ON PYRENE-LABELED PROTEIN JRNL TITL 2 SURFACE: CORRELATION BETWEEN EMISSION SPECTRA, RING STACKING JRNL TITL 3 MODES, AND FLEXIBILITIES OF PYRENE PROBES. JRNL REF BIOCONJUG.CHEM. V. 26 537 2015 JRNL REFN ISSN 1043-1802 JRNL PMID 25646669 JRNL DOI 10.1021/ACS.BIOCONJCHEM.5B00026 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 65919.490 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.9 REMARK 3 NUMBER OF REFLECTIONS : 10422 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 SET) : 0.207 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.300 REMARK 3 FREE R VALUE TEST SET COUNT : 548 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.011 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.98 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1556 REMARK 3 BIN R VALUE (WORKING SET) : 0.3080 REMARK 3 BIN FREE R VALUE : 0.3600 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.30 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 70 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.043 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3312 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 200 REMARK 3 SOLVENT ATOMS : 27 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 16.69000 REMARK 3 B22 (A**2) : -6.00000 REMARK 3 B33 (A**2) : -10.69000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.33 REMARK 3 ESD FROM SIGMAA (A) : 0.46 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.43 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.55 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.990 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.200 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.080 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.750 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.810 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.40 REMARK 3 BSOL : 51.80 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP2.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 5 : AP5.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN2.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 5 : AP5.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 3X2S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000097106. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL32XU 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 : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11218 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 39.700 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.600 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.1 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) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.29700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1AKE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES SODIUM PH 7.5, 0.8M REMARK 280 POTASSIUM SODIUM TARTRATE TETRAHYDRATE', VAPOR DIFFUSION, REMARK 280 SITTING DROP, 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 30.05700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.15400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.49600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.15400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.05700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.49600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 350 REMARK 350 BIOMOLECULE: 2 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: B 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 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 167 CZ 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 LEU A 45 N - CA - C ANGL. DEV. = -20.6 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 PRO A 9 155.00 -47.93 REMARK 500 LYS A 40 0.22 -67.69 REMARK 500 SER A 43 120.39 -19.17 REMARK 500 LEU A 45 0.44 157.16 REMARK 500 LYS A 47 -79.93 28.55 REMARK 500 GLN A 48 54.29 -69.55 REMARK 500 ALA A 49 -16.16 -148.45 REMARK 500 GLN A 74 151.83 -36.96 REMARK 500 ILE A 116 -70.56 -29.38 REMARK 500 ALA A 127 -76.46 -23.32 REMARK 500 VAL A 135 1.89 -56.63 REMARK 500 LYS A 136 -50.23 -145.28 REMARK 500 GLU A 161 -55.23 -27.06 REMARK 500 ALA A 176 -36.10 -31.82 REMARK 500 GLU A 187 8.53 -67.28 REMARK 500 THR A 191 150.70 176.45 REMARK 500 MET B 21 -77.50 -43.36 REMARK 500 SER B 43 156.30 31.41 REMARK 500 GLU B 44 73.19 -69.87 REMARK 500 LEU B 45 -49.30 172.81 REMARK 500 LYS B 47 -10.37 -33.35 REMARK 500 ILE B 116 -61.16 -29.61 REMARK 500 VAL B 121 -79.13 -52.69 REMARK 500 VAL B 135 10.85 -61.67 REMARK 500 LYS B 136 -57.32 -145.80 REMARK 500 ALA B 176 -34.71 -30.99 REMARK 500 VAL B 202 -53.56 -23.86 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 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 AP5 A 303 O1D REMARK 620 2 AP5 A 303 O2G 69.1 REMARK 620 3 AP5 A 303 O3D 59.0 79.5 REMARK 620 4 HOH A 401 O 115.2 74.8 62.8 REMARK 620 5 HOH A 406 O 133.9 156.2 106.3 87.3 REMARK 620 6 HOH A 407 O 71.4 83.7 130.4 152.4 107.5 REMARK 620 7 HOH A 408 O 131.3 69.3 133.8 76.4 91.5 80.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 304 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 AP5 B 303 O1D REMARK 620 2 AP5 B 303 O2G 80.4 REMARK 620 3 HOH B 401 O 76.1 75.8 REMARK 620 4 HOH B 402 O 119.1 143.2 136.4 REMARK 620 5 HOH B 406 O 143.2 72.5 73.4 97.2 REMARK 620 6 HOH B 407 O 103.3 72.6 148.0 72.6 92.0 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 JPY A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE JPY A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AP5 A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE JPY B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE JPY B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE AP5 B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 304 DBREF 3X2S A 1 214 UNP H0QBG3 H0QBG3_ECOLI 1 214 DBREF 3X2S B 1 214 UNP H0QBG3 H0QBG3_ECOLI 1 214 SEQADV 3X2S CYS A 55 UNP H0QBG3 ALA 55 ENGINEERED MUTATION SEQADV 3X2S SER A 77 UNP H0QBG3 CYS 77 ENGINEERED MUTATION SEQADV 3X2S CYS A 169 UNP H0QBG3 VAL 169 ENGINEERED MUTATION SEQADV 3X2S CYS B 55 UNP H0QBG3 ALA 55 ENGINEERED MUTATION SEQADV 3X2S SER B 77 UNP H0QBG3 CYS 77 ENGINEERED MUTATION SEQADV 3X2S CYS B 169 UNP H0QBG3 VAL 169 ENGINEERED MUTATION SEQRES 1 A 214 MET ARG ILE ILE LEU LEU GLY ALA PRO GLY ALA GLY LYS SEQRES 2 A 214 GLY THR GLN ALA GLN PHE ILE MET GLU LYS TYR GLY ILE SEQRES 3 A 214 PRO GLN ILE SER THR GLY ASP MET LEU ARG ALA ALA VAL SEQRES 4 A 214 LYS SER GLY SER GLU LEU GLY LYS GLN ALA LYS ASP ILE SEQRES 5 A 214 MET ASP CYS GLY LYS LEU VAL THR ASP GLU LEU VAL ILE SEQRES 6 A 214 ALA LEU VAL LYS GLU ARG ILE ALA GLN GLU ASP SER ARG SEQRES 7 A 214 ASN GLY PHE LEU LEU ASP GLY PHE PRO ARG THR ILE PRO SEQRES 8 A 214 GLN ALA ASP ALA MET LYS GLU ALA GLY ILE ASN VAL ASP SEQRES 9 A 214 TYR VAL LEU GLU PHE ASP VAL PRO ASP GLU LEU ILE VAL SEQRES 10 A 214 ASP ARG ILE VAL GLY ARG ARG VAL HIS ALA PRO SER GLY SEQRES 11 A 214 ARG VAL TYR HIS VAL LYS PHE ASN PRO PRO LYS VAL GLU SEQRES 12 A 214 GLY LYS ASP ASP VAL THR GLY GLU GLU LEU THR THR ARG SEQRES 13 A 214 LYS ASP ASP GLN GLU GLU THR VAL ARG LYS ARG LEU CYS SEQRES 14 A 214 GLU TYR HIS GLN MET THR ALA PRO LEU ILE GLY TYR TYR SEQRES 15 A 214 SER LYS GLU ALA GLU ALA GLY ASN THR LYS TYR ALA LYS SEQRES 16 A 214 VAL ASP GLY THR LYS PRO VAL ALA GLU VAL ARG ALA ASP SEQRES 17 A 214 LEU GLU LYS ILE LEU GLY SEQRES 1 B 214 MET ARG ILE ILE LEU LEU GLY ALA PRO GLY ALA GLY LYS SEQRES 2 B 214 GLY THR GLN ALA GLN PHE ILE MET GLU LYS TYR GLY ILE SEQRES 3 B 214 PRO GLN ILE SER THR GLY ASP MET LEU ARG ALA ALA VAL SEQRES 4 B 214 LYS SER GLY SER GLU LEU GLY LYS GLN ALA LYS ASP ILE SEQRES 5 B 214 MET ASP CYS GLY LYS LEU VAL THR ASP GLU LEU VAL ILE SEQRES 6 B 214 ALA LEU VAL LYS GLU ARG ILE ALA GLN GLU ASP SER ARG SEQRES 7 B 214 ASN GLY PHE LEU LEU ASP GLY PHE PRO ARG THR ILE PRO SEQRES 8 B 214 GLN ALA ASP ALA MET LYS GLU ALA GLY ILE ASN VAL ASP SEQRES 9 B 214 TYR VAL LEU GLU PHE ASP VAL PRO ASP GLU LEU ILE VAL SEQRES 10 B 214 ASP ARG ILE VAL GLY ARG ARG VAL HIS ALA PRO SER GLY SEQRES 11 B 214 ARG VAL TYR HIS VAL LYS PHE ASN PRO PRO LYS VAL GLU SEQRES 12 B 214 GLY LYS ASP ASP VAL THR GLY GLU GLU LEU THR THR ARG SEQRES 13 B 214 LYS ASP ASP GLN GLU GLU THR VAL ARG LYS ARG LEU CYS SEQRES 14 B 214 GLU TYR HIS GLN MET THR ALA PRO LEU ILE GLY TYR TYR SEQRES 15 B 214 SER LYS GLU ALA GLU ALA GLY ASN THR LYS TYR ALA LYS SEQRES 16 B 214 VAL ASP GLY THR LYS PRO VAL ALA GLU VAL ARG ALA ASP SEQRES 17 B 214 LEU GLU LYS ILE LEU GLY HET JPY A 301 21 HET JPY A 302 21 HET AP5 A 303 57 HET MG A 304 1 HET JPY B 301 21 HET JPY B 302 21 HET AP5 B 303 57 HET MG B 304 1 HETNAM JPY N-(PYREN-1-YLMETHYL)ACETAMIDE HETNAM AP5 BIS(ADENOSINE)-5'-PENTAPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 JPY 4(C19 H15 N O) FORMUL 5 AP5 2(C20 H29 N10 O22 P5) FORMUL 6 MG 2(MG 2+) FORMUL 11 HOH *27(H2 O) HELIX 1 1 GLY A 12 GLY A 25 1 14 HELIX 2 2 THR A 31 LYS A 40 1 10 HELIX 3 3 ALA A 49 GLY A 56 1 8 HELIX 4 4 THR A 60 GLN A 74 1 15 HELIX 5 5 THR A 89 ALA A 99 1 11 HELIX 6 6 PRO A 112 GLY A 122 1 11 HELIX 7 7 ALA A 127 GLY A 130 5 4 HELIX 8 8 ARG A 156 ASP A 159 5 4 HELIX 9 9 GLN A 160 THR A 175 1 16 HELIX 10 10 ALA A 176 GLU A 187 1 12 HELIX 11 11 PRO A 201 GLY A 214 1 14 HELIX 12 12 GLY B 12 GLY B 25 1 14 HELIX 13 13 THR B 31 SER B 41 1 11 HELIX 14 14 ALA B 49 CYS B 55 1 7 HELIX 15 15 THR B 60 GLN B 74 1 15 HELIX 16 16 THR B 89 ALA B 99 1 11 HELIX 17 17 PRO B 112 ILE B 120 1 9 HELIX 18 18 ARG B 156 ASP B 159 5 4 HELIX 19 19 GLN B 160 THR B 175 1 16 HELIX 20 20 ALA B 176 ALA B 188 1 13 HELIX 21 21 PRO B 201 GLY B 214 1 14 SHEET 1 A 5 GLN A 28 SER A 30 0 SHEET 2 A 5 PHE A 81 ASP A 84 1 O ASP A 84 N ILE A 29 SHEET 3 A 5 ARG A 2 GLY A 7 1 N ILE A 3 O LEU A 83 SHEET 4 A 5 TYR A 105 ASP A 110 1 O PHE A 109 N LEU A 6 SHEET 5 A 5 LYS A 192 ASP A 197 1 O ALA A 194 N GLU A 108 SHEET 1 B 2 ARG A 123 VAL A 125 0 SHEET 2 B 2 VAL A 132 HIS A 134 -1 O TYR A 133 N ARG A 124 SHEET 1 C 5 GLN B 28 SER B 30 0 SHEET 2 C 5 PHE B 81 ASP B 84 1 O LEU B 82 N ILE B 29 SHEET 3 C 5 ARG B 2 GLY B 7 1 N LEU B 5 O LEU B 83 SHEET 4 C 5 TYR B 105 ASP B 110 1 O PHE B 109 N LEU B 6 SHEET 5 C 5 LYS B 192 ASP B 197 1 O ALA B 194 N GLU B 108 SHEET 1 D 2 ARG B 123 VAL B 125 0 SHEET 2 D 2 VAL B 132 HIS B 134 -1 O TYR B 133 N ARG B 124 LINK SG CYS A 55 C1 JPY A 301 1555 1555 1.79 LINK SG CYS A 169 C1 JPY A 302 1555 1555 1.77 LINK SG CYS B 55 C1 JPY B 301 1555 1555 1.79 LINK SG CYS B 169 C1 JPY B 302 1555 1555 1.77 LINK O1D AP5 A 303 MG MG A 304 1555 1555 1.96 LINK O2G AP5 A 303 MG MG A 304 1555 1555 2.61 LINK O3D AP5 A 303 MG MG A 304 1555 1555 2.96 LINK MG MG A 304 O HOH A 401 1555 1555 2.18 LINK MG MG A 304 O HOH A 406 1555 1555 2.09 LINK MG MG A 304 O HOH A 407 1555 1555 2.31 LINK MG MG A 304 O HOH A 408 1555 1555 2.00 LINK O1D AP5 B 303 MG MG B 304 1555 1555 1.94 LINK O2G AP5 B 303 MG MG B 304 1555 1555 2.33 LINK MG MG B 304 O HOH B 401 1555 1555 2.30 LINK MG MG B 304 O HOH B 402 1555 1555 2.36 LINK MG MG B 304 O HOH B 406 1555 1555 1.88 LINK MG MG B 304 O HOH B 407 1555 1555 1.93 CISPEP 1 PHE A 86 PRO A 87 0 -0.28 CISPEP 2 PHE B 86 PRO B 87 0 0.01 SITE 1 AC1 4 CYS A 55 LYS A 166 GLU A 170 JPY A 302 SITE 1 AC2 10 CYS A 169 GLU A 170 GLN A 173 JPY A 301 SITE 2 AC2 10 MET B 34 LEU B 67 GLU B 70 ARG B 71 SITE 3 AC2 10 GLN B 74 PRO B 128 SITE 1 AC3 38 PRO A 9 GLY A 10 ALA A 11 GLY A 12 SITE 2 AC3 38 LYS A 13 GLY A 14 THR A 15 THR A 31 SITE 3 AC3 38 GLY A 32 ARG A 36 MET A 53 LYS A 57 SITE 4 AC3 38 LEU A 58 VAL A 59 VAL A 64 GLY A 85 SITE 5 AC3 38 PHE A 86 ARG A 88 GLN A 92 ARG A 119 SITE 6 AC3 38 ARG A 123 VAL A 132 TYR A 133 HIS A 134 SITE 7 AC3 38 PHE A 137 ARG A 156 ARG A 167 LYS A 200 SITE 8 AC3 38 PRO A 201 VAL A 202 MG A 304 HOH A 401 SITE 9 AC3 38 HOH A 403 HOH A 405 HOH A 407 HOH A 408 SITE 10 AC3 38 HOH A 410 GLU B 114 SITE 1 AC4 6 GLY A 14 AP5 A 303 HOH A 401 HOH A 406 SITE 2 AC4 6 HOH A 407 HOH A 408 SITE 1 AC5 5 ALA A 37 CYS B 55 LYS B 57 LYS B 166 SITE 2 AC5 5 JPY B 302 SITE 1 AC6 9 MET A 34 LEU A 67 GLU A 70 ARG A 71 SITE 2 AC6 9 GLN A 74 CYS B 169 GLU B 170 GLN B 173 SITE 3 AC6 9 JPY B 301 SITE 1 AC7 39 GLU A 114 PRO B 9 GLY B 10 ALA B 11 SITE 2 AC7 39 GLY B 12 LYS B 13 GLY B 14 THR B 15 SITE 3 AC7 39 THR B 31 GLY B 32 LEU B 35 ARG B 36 SITE 4 AC7 39 LYS B 57 LEU B 58 VAL B 59 VAL B 64 SITE 5 AC7 39 GLY B 85 PHE B 86 ARG B 88 GLN B 92 SITE 6 AC7 39 ARG B 119 ARG B 123 VAL B 132 TYR B 133 SITE 7 AC7 39 HIS B 134 PHE B 137 ARG B 156 ARG B 167 SITE 8 AC7 39 GLY B 198 LYS B 200 PRO B 201 VAL B 202 SITE 9 AC7 39 MG B 304 HOH B 401 HOH B 406 HOH B 407 SITE 10 AC7 39 HOH B 408 HOH B 409 HOH B 410 SITE 1 AC8 6 GLY B 14 AP5 B 303 HOH B 401 HOH B 402 SITE 2 AC8 6 HOH B 406 HOH B 407 CRYST1 60.114 58.992 118.308 90.00 90.00 90.00 P 21 21 21 8 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 0.016635 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016951 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008453 0.00000