HEADER TRANSFERASE 03-MAY-16 5G3Y TITLE CRYSTAL STRUCTURE OF ADENYLATE KINASE ANCESTOR 1 WITH ZN AND ADP BOUND COMPND MOL_ID: 1; COMPND 2 MOLECULE: ADENYLATE KINSE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.4.3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET17B KEYWDS ADENYLATE KINASE, ADP, TRANSFERASE, PHOSPHORYL TRANSFER, NUCLEOTIDE- KEYWDS 2 BINDING EXPDTA X-RAY DIFFRACTION AUTHOR V.NGUYEN,S.KUTTER,J.ENGLISH,D.KERN REVDAT 4 10-JAN-24 5G3Y 1 REMARK LINK REVDAT 3 08-MAY-19 5G3Y 1 REMARK REVDAT 2 01-MAR-17 5G3Y 1 JRNL REVDAT 1 28-DEC-16 5G3Y 0 JRNL AUTH V.NGUYEN,C.WILSON,M.HOEMBERGER,J.B.STILLER,R.V.AGAFONOV, JRNL AUTH 2 S.KUTTER,J.ENGLISH,D.L.THEOBALD,D.KERN JRNL TITL EVOLUTIONARY DRIVERS OF THERMOADAPTATION IN ENZYME JRNL TITL 2 CATALYSIS. JRNL REF SCIENCE V. 355 289 2017 JRNL REFN ESSN 1095-9203 JRNL PMID 28008087 JRNL DOI 10.1126/SCIENCE.AAH3717 REMARK 2 REMARK 2 RESOLUTION. 1.18 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0135 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) : 1.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.70 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 3 NUMBER OF REFLECTIONS : 66341 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) : 0.132 REMARK 3 R VALUE (WORKING SET) : 0.132 REMARK 3 FREE R VALUE : 0.150 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.500 REMARK 3 FREE R VALUE TEST SET COUNT : 1033 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) : 1.18 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4384 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 87.43 REMARK 3 BIN R VALUE (WORKING SET) : 0.2320 REMARK 3 BIN FREE R VALUE SET COUNT : 67 REMARK 3 BIN FREE R VALUE : 0.2090 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1647 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 55 REMARK 3 SOLVENT ATOMS : 261 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.14000 REMARK 3 B22 (A**2) : -0.03000 REMARK 3 B33 (A**2) : 0.17000 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): 0.032 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.031 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.020 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.970 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.979 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.975 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1787 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1725 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2436 ; 1.650 ; 2.038 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4012 ; 0.937 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 230 ; 5.038 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 81 ;31.322 ;25.802 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 330 ;10.551 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;15.623 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 273 ; 0.096 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1999 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 357 ; 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): 871 ; 1.074 ; 1.265 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 870 ; 1.070 ; 1.262 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1092 ; 1.449 ; 1.907 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 916 ; 1.676 ; 1.543 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): 3512 ; 1.326 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 56 ;26.444 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3681 ; 9.192 ; 5.000 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 5G3Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-MAY-16. REMARK 100 THE DEPOSITION ID IS D_1290066709. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUL-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97840 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67513 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.180 REMARK 200 RESOLUTION RANGE LOW (A) : 47.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.18 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.45000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1P3J REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.5 UL OF PROTEIN MIXTURE (20 MG/ML REMARK 280 ADK ANCESTOR 1 AND 20 MM MGADP IN 40 MM MOPS PH 7.0, 50 MM NACL, REMARK 280 2 MM TCEP) WAS MIXED WITH 0.5 UL OF MOTHER LIQUOR (100 MM SODIUM REMARK 280 ACETATE PH 4.6, 50 MM MGCL2, 2M AMMONIUM SULFATE). CRYSTALS WERE REMARK 280 GROWN BY SITTING DROP METHOD AT 18C., VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 291K 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 23.45850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 35.22850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.67050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 35.22850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.45850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.67050 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 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 ARG A 214 REMARK 465 ASP A 215 REMARK 465 LYS A 216 REMARK 465 GLN A 217 REMARK 465 GLY A 218 REMARK 465 GLY A 219 REMARK 465 GLY A 220 REMARK 465 GLU A 221 REMARK 465 ASN A 222 REMARK 465 LEU A 223 REMARK 465 TYR A 224 REMARK 465 PHE A 225 REMARK 465 GLN A 226 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 128 NE - CZ - NH1 ANGL. DEV. = 3.0 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 68.54 -161.70 REMARK 500 ASP A 163 59.35 -90.85 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 A1214 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 130 SG REMARK 620 2 CYS A 133 SG 115.5 REMARK 620 3 CYS A 150 SG 106.2 104.5 REMARK 620 4 CYS A 153 SG 92.4 122.7 114.6 REMARK 620 N 1 2 3 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 1214 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 1215 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 1216 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5G3Z RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ADENYLATE KINASE ANCESTOR 3 WITH ZN, MG AND REMARK 900 AP5A BOUND REMARK 900 RELATED ID: 5G40 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ADENYLATE KINASE ANCESTOR 4 WITH ZN AND AMP- REMARK 900 ADP BOUND REMARK 900 RELATED ID: 5G41 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ADENYLATE KINASE ANCESTOR 4 WITH ZN, MG AND REMARK 900 AP5A BOUND DBREF 5G3Y A 1 226 PDB 5G3Y 5G3Y 1 226 SEQRES 1 A 226 MET ASN LEU ILE LEU LEU GLY PRO PRO GLY ALA GLY LYS SEQRES 2 A 226 GLY THR GLN ALA GLU LYS ILE VAL GLU GLU TYR GLY ILE SEQRES 3 A 226 PRO HIS ILE SER THR GLY ASP MET PHE ARG ALA ALA ILE SEQRES 4 A 226 LYS GLU GLY THR GLU LEU GLY LEU LYS ALA LYS GLU TYR SEQRES 5 A 226 MET ASP LYS GLY GLU LEU VAL PRO ASP GLU VAL THR ILE SEQRES 6 A 226 GLY LEU VAL LYS GLU ARG LEU SER GLN PRO ASP CYS LYS SEQRES 7 A 226 LYS GLY PHE LEU LEU ASP GLY PHE PRO ARG THR VAL ALA SEQRES 8 A 226 GLN ALA GLU ALA LEU ASP LYS ILE LEU LYS GLU LEU GLY SEQRES 9 A 226 ILE LYS LEU ASP ALA VAL ILE ASN ILE GLU VAL PRO ARG SEQRES 10 A 226 GLU GLU LEU LEU GLU ARG LEU THR GLY ARG ARG VAL CYS SEQRES 11 A 226 ARG GLN CYS GLY ALA THR TYR HIS VAL ILE PHE ASN PRO SEQRES 12 A 226 PRO LYS VAL GLU GLY VAL CYS ASP LYS CYS GLY GLY GLU SEQRES 13 A 226 LEU TYR GLN ARG SER ASP ASP ASN GLU GLU THR VAL SER SEQRES 14 A 226 ASN ARG LEU ASP VAL TYR GLU ASP GLN THR ALA PRO LEU SEQRES 15 A 226 ILE ASP TYR TYR GLU LYS LYS GLY LEU LEU LYS ASN ILE SEQRES 16 A 226 ASP GLY ASP GLN ASP ILE ASP ALA VAL PHE ALA ASP ILE SEQRES 17 A 226 LYS ALA ALA LEU GLY ARG ASP LYS GLN GLY GLY GLY GLU SEQRES 18 A 226 ASN LEU TYR PHE GLN HET ZN A1214 1 HET ADP A1215 27 HET ADP A1216 27 HETNAM ZN ZINC ION HETNAM ADP ADENOSINE-5'-DIPHOSPHATE FORMUL 2 ZN ZN 2+ FORMUL 3 ADP 2(C10 H15 N5 O10 P2) FORMUL 5 HOH *261(H2 O) HELIX 1 1 GLY A 12 GLY A 25 1 14 HELIX 2 2 SER A 30 GLU A 41 1 12 HELIX 3 3 THR A 43 LYS A 55 1 13 HELIX 4 4 PRO A 60 SER A 73 1 14 HELIX 5 5 GLN A 74 LYS A 78 5 5 HELIX 6 6 THR A 89 GLY A 104 1 16 HELIX 7 7 PRO A 116 GLU A 118 5 3 HELIX 8 8 GLU A 119 GLY A 126 1 8 HELIX 9 9 ASN A 164 THR A 179 1 16 HELIX 10 10 PRO A 181 LYS A 188 1 8 HELIX 11 11 ASP A 200 GLY A 213 1 14 SHEET 1 AA 5 HIS A 28 ILE A 29 0 SHEET 2 AA 5 PHE A 81 ASP A 84 1 O LEU A 82 N ILE A 29 SHEET 3 AA 5 ASN A 2 LEU A 6 1 O LEU A 3 N LEU A 83 SHEET 4 AA 5 ALA A 109 GLU A 114 1 O ALA A 109 N ILE A 4 SHEET 5 AA 5 LEU A 192 ASP A 196 1 O LYS A 193 N ASN A 112 SHEET 1 AB 3 THR A 136 HIS A 138 0 SHEET 2 AB 3 ARG A 127 CYS A 130 -1 O ARG A 128 N TYR A 137 SHEET 3 AB 3 LEU A 157 TYR A 158 -1 O TYR A 158 N VAL A 129 LINK SG CYS A 130 ZN ZN A1214 1555 1555 2.35 LINK SG CYS A 133 ZN ZN A1214 1555 1555 2.28 LINK SG CYS A 150 ZN ZN A1214 1555 1555 2.37 LINK SG CYS A 153 ZN ZN A1214 1555 1555 2.31 CISPEP 1 PHE A 86 PRO A 87 0 -2.15 SITE 1 AC1 4 CYS A 130 CYS A 133 CYS A 150 CYS A 153 SITE 1 AC2 20 GLY A 10 ALA A 11 GLY A 12 LYS A 13 SITE 2 AC2 20 GLY A 14 THR A 15 ARG A 123 ARG A 127 SITE 3 AC2 20 THR A 136 TYR A 137 HIS A 138 PHE A 141 SITE 4 AC2 20 GLN A 199 ILE A 201 ADP A1216 HOH A2014 SITE 5 AC2 20 HOH A2017 HOH A2131 HOH A2192 HOH A2249 SITE 1 AC3 24 PRO A 9 THR A 31 GLY A 32 ARG A 36 SITE 2 AC3 24 MET A 53 GLU A 57 VAL A 59 THR A 64 SITE 3 AC3 24 GLY A 85 PHE A 86 ARG A 88 GLN A 92 SITE 4 AC3 24 ARG A 127 ARG A 160 ASP A 162 ARG A 171 SITE 5 AC3 24 ADP A1215 HOH A2010 HOH A2054 HOH A2094 SITE 6 AC3 24 HOH A2101 HOH A2134 HOH A2135 HOH A2181 CRYST1 46.917 63.341 70.457 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 0.021314 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015788 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014193 0.00000