HEADER HYDROLASE 24-DEC-12 4IJX TITLE CRYSTAL STRUCTURE OF HUMAN AP4A HYDROLASE E58A MUTANT COMPLEXED WITH TITLE 2 DPO COMPND MOL_ID: 1; COMPND 2 MOLECULE: BIS(5'-NUCLEOSYL)-TETRAPHOSPHATASE [ASYMMETRICAL]; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DIADENOSINE 5',5'''-P1,P4-TETRAPHOSPHATE ASYMMETRICAL COMPND 5 HYDROLASE, AP4A HYDROLASE, AP4AASE, DIADENOSINE TETRAPHOSPHATASE, COMPND 6 NUCLEOSIDE DIPHOSPHATE-LINKED MOIETY X MOTIF 2, NUDIX MOTIF 2; COMPND 7 EC: 3.6.1.17; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: NUDT2, APAH1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS NUDIX FOLD, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR H.GE,X.CHEN REVDAT 2 08-NOV-23 4IJX 1 REMARK SEQADV REVDAT 1 20-MAR-13 4IJX 0 JRNL AUTH H.GE,X.CHEN,W.YANG,L.NIU,M.TENG JRNL TITL CRYSTAL STRUCTURE OF WILD-TYPE AND MUTANT HUMAN AP4A JRNL TITL 2 HYDROLASE. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 432 16 2013 JRNL REFN ISSN 0006-291X JRNL PMID 23384440 JRNL DOI 10.1016/J.BBRC.2013.01.095 REMARK 2 REMARK 2 RESOLUTION. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 20214 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) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1098 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1277 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.91 REMARK 3 BIN R VALUE (WORKING SET) : 0.2060 REMARK 3 BIN FREE R VALUE SET COUNT : 82 REMARK 3 BIN FREE R VALUE : 0.2530 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2334 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 121 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.32000 REMARK 3 B22 (A**2) : 0.32000 REMARK 3 B33 (A**2) : -0.64000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.176 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.115 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.654 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.927 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2472 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3357 ; 1.642 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 303 ; 6.226 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 125 ;35.609 ;24.320 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 435 ;16.117 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;16.644 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 365 ; 0.123 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1881 ; 0.006 ; 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 : 8 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 4 A 26 REMARK 3 ORIGIN FOR THE GROUP (A): -8.0638 23.2601 4.4822 REMARK 3 T TENSOR REMARK 3 T11: 0.1020 T22: 0.0264 REMARK 3 T33: 0.0592 T12: -0.0341 REMARK 3 T13: 0.0513 T23: -0.0278 REMARK 3 L TENSOR REMARK 3 L11: 0.4601 L22: 0.6212 REMARK 3 L33: 0.3229 L12: 0.5286 REMARK 3 L13: -0.3650 L23: -0.4006 REMARK 3 S TENSOR REMARK 3 S11: -0.1241 S12: 0.0731 S13: -0.1099 REMARK 3 S21: -0.1485 S22: 0.0754 S23: -0.1443 REMARK 3 S31: 0.0323 S32: -0.0475 S33: 0.0487 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 27 A 69 REMARK 3 ORIGIN FOR THE GROUP (A): -12.7863 34.4201 16.1955 REMARK 3 T TENSOR REMARK 3 T11: 0.0431 T22: 0.0819 REMARK 3 T33: 0.0315 T12: 0.0085 REMARK 3 T13: 0.0289 T23: -0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.6354 L22: 0.9964 REMARK 3 L33: 0.4087 L12: 0.4252 REMARK 3 L13: 0.0693 L23: 0.1044 REMARK 3 S TENSOR REMARK 3 S11: 0.0601 S12: -0.1228 S13: 0.0022 REMARK 3 S21: 0.1012 S22: -0.0116 S23: 0.0736 REMARK 3 S31: -0.0898 S32: -0.1095 S33: -0.0485 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 70 A 102 REMARK 3 ORIGIN FOR THE GROUP (A): -8.3481 36.2224 9.1461 REMARK 3 T TENSOR REMARK 3 T11: 0.0653 T22: 0.0185 REMARK 3 T33: 0.0311 T12: -0.0018 REMARK 3 T13: -0.0072 T23: -0.0088 REMARK 3 L TENSOR REMARK 3 L11: 0.1402 L22: 1.0972 REMARK 3 L33: 0.8772 L12: 0.3366 REMARK 3 L13: -0.1921 L23: -0.2018 REMARK 3 S TENSOR REMARK 3 S11: 0.0633 S12: -0.0252 S13: -0.0131 REMARK 3 S21: 0.0115 S22: -0.0789 S23: 0.0012 REMARK 3 S31: -0.1367 S32: -0.0039 S33: 0.0156 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 103 A 150 REMARK 3 ORIGIN FOR THE GROUP (A): -11.3676 29.3424 4.0932 REMARK 3 T TENSOR REMARK 3 T11: 0.0223 T22: 0.0380 REMARK 3 T33: 0.0152 T12: -0.0189 REMARK 3 T13: 0.0103 T23: -0.0161 REMARK 3 L TENSOR REMARK 3 L11: 1.1505 L22: 0.6816 REMARK 3 L33: 1.0815 L12: 0.0809 REMARK 3 L13: -0.6126 L23: -0.2884 REMARK 3 S TENSOR REMARK 3 S11: -0.0020 S12: 0.0968 S13: 0.0200 REMARK 3 S21: -0.0862 S22: 0.0116 S23: 0.0133 REMARK 3 S31: 0.0701 S32: -0.1339 S33: -0.0096 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 : B 3 B 23 REMARK 3 ORIGIN FOR THE GROUP (A): 9.1840 46.3498 -5.2131 REMARK 3 T TENSOR REMARK 3 T11: 0.0597 T22: 0.0547 REMARK 3 T33: 0.0685 T12: -0.0103 REMARK 3 T13: 0.0029 T23: 0.0003 REMARK 3 L TENSOR REMARK 3 L11: 1.1301 L22: 1.9032 REMARK 3 L33: 0.9261 L12: 0.3047 REMARK 3 L13: 0.9002 L23: -0.3541 REMARK 3 S TENSOR REMARK 3 S11: -0.1270 S12: -0.1615 S13: -0.0597 REMARK 3 S21: -0.0499 S22: 0.0532 S23: -0.2238 REMARK 3 S31: -0.1339 S32: -0.1443 S33: 0.0738 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 24 B 60 REMARK 3 ORIGIN FOR THE GROUP (A): 0.1902 51.9631 -11.7856 REMARK 3 T TENSOR REMARK 3 T11: 0.0862 T22: 0.0370 REMARK 3 T33: 0.0389 T12: 0.0189 REMARK 3 T13: 0.0190 T23: 0.0306 REMARK 3 L TENSOR REMARK 3 L11: 1.5395 L22: 1.6598 REMARK 3 L33: 0.1247 L12: 0.2888 REMARK 3 L13: 0.2476 L23: 0.2646 REMARK 3 S TENSOR REMARK 3 S11: 0.0953 S12: 0.1377 S13: 0.2228 REMARK 3 S21: -0.2012 S22: -0.1121 S23: 0.0173 REMARK 3 S31: -0.0588 S32: -0.0017 S33: 0.0168 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 61 B 117 REMARK 3 ORIGIN FOR THE GROUP (A): 3.1930 49.6753 -9.8684 REMARK 3 T TENSOR REMARK 3 T11: 0.0472 T22: 0.0215 REMARK 3 T33: 0.0067 T12: -0.0155 REMARK 3 T13: -0.0035 T23: -0.0044 REMARK 3 L TENSOR REMARK 3 L11: 1.3607 L22: 0.8042 REMARK 3 L33: 0.5347 L12: 0.1027 REMARK 3 L13: -0.2431 L23: 0.0773 REMARK 3 S TENSOR REMARK 3 S11: -0.0916 S12: 0.1286 S13: -0.0111 REMARK 3 S21: -0.0584 S22: 0.0425 S23: -0.0134 REMARK 3 S31: -0.0619 S32: -0.0547 S33: 0.0491 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 118 B 148 REMARK 3 ORIGIN FOR THE GROUP (A): 4.3363 46.4832 2.9432 REMARK 3 T TENSOR REMARK 3 T11: 0.0640 T22: 0.0338 REMARK 3 T33: 0.0322 T12: -0.0259 REMARK 3 T13: 0.0047 T23: 0.0005 REMARK 3 L TENSOR REMARK 3 L11: 1.7618 L22: 1.3779 REMARK 3 L33: 0.7016 L12: 0.3243 REMARK 3 L13: 0.4495 L23: -0.7940 REMARK 3 S TENSOR REMARK 3 S11: 0.0128 S12: -0.1479 S13: -0.0717 REMARK 3 S21: 0.1898 S22: -0.0039 S23: 0.0333 REMARK 3 S31: -0.1421 S32: -0.0272 S33: -0.0089 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4IJX COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-JAN-13. REMARK 100 THE DEPOSITION ID IS D_1000076845. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-JUN-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20214 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL 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) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: NULL REMARK 200 STARTING MODEL: 3U53 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS, 2.0M AMMONIUM PHOSPHATE REMARK 280 MONOBASIC, 5MM MAGNESIUM CHLORIDE, PH 8.4, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 285K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.68950 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 36.18450 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 36.18450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 100.03425 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 36.18450 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 36.18450 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 33.34475 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 36.18450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 36.18450 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 100.03425 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 36.18450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 36.18450 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 33.34475 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 66.68950 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 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 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 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 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 0.000000 1.000000 0.000000 -72.36900 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 ALA A 2 REMARK 465 LEU A 3 REMARK 465 HIS A 151 REMARK 465 HIS A 152 REMARK 465 HIS A 153 REMARK 465 HIS A 154 REMARK 465 HIS A 155 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 VAL B 19 REMARK 465 ASP B 20 REMARK 465 ASN B 21 REMARK 465 GLU B 149 REMARK 465 HIS B 150 REMARK 465 HIS B 151 REMARK 465 HIS B 152 REMARK 465 HIS B 153 REMARK 465 HIS B 154 REMARK 465 HIS B 155 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 LYS B 18 CG CD CE NZ 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 GLN A 124 NE2 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 TRP A 38 CE2 TRP A 38 CD2 0.074 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 115 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 ASP A 33 -164.58 -110.17 REMARK 500 GLN A 127 -60.01 69.94 REMARK 500 ARG B 85 5.78 81.67 REMARK 500 GLN B 127 -58.43 70.33 REMARK 500 REMARK 500 REMARK: NULL 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 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DPO A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 202 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3U53 RELATED DB: PDB REMARK 900 THE WILD-TYPE PROTEIN REMARK 900 RELATED ID: 4ICK RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN FREE FORM DBREF 4IJX A 1 147 UNP P50583 AP4A_HUMAN 1 147 DBREF 4IJX B 1 147 UNP P50583 AP4A_HUMAN 1 147 SEQADV 4IJX ALA A 58 UNP P50583 GLU 58 ENGINEERED MUTATION SEQADV 4IJX LEU A 148 UNP P50583 EXPRESSION TAG SEQADV 4IJX GLU A 149 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS A 150 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS A 151 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS A 152 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS A 153 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS A 154 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS A 155 UNP P50583 EXPRESSION TAG SEQADV 4IJX ALA B 58 UNP P50583 GLU 58 ENGINEERED MUTATION SEQADV 4IJX LEU B 148 UNP P50583 EXPRESSION TAG SEQADV 4IJX GLU B 149 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS B 150 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS B 151 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS B 152 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS B 153 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS B 154 UNP P50583 EXPRESSION TAG SEQADV 4IJX HIS B 155 UNP P50583 EXPRESSION TAG SEQRES 1 A 155 MET ALA LEU ARG ALA CYS GLY LEU ILE ILE PHE ARG ARG SEQRES 2 A 155 CYS LEU ILE PRO LYS VAL ASP ASN ASN ALA ILE GLU PHE SEQRES 3 A 155 LEU LEU LEU GLN ALA SER ASP GLY ILE HIS HIS TRP THR SEQRES 4 A 155 PRO PRO LYS GLY HIS VAL GLU PRO GLY GLU ASP ASP LEU SEQRES 5 A 155 GLU THR ALA LEU ARG ALA THR GLN GLU GLU ALA GLY ILE SEQRES 6 A 155 GLU ALA GLY GLN LEU THR ILE ILE GLU GLY PHE LYS ARG SEQRES 7 A 155 GLU LEU ASN TYR VAL ALA ARG ASN LYS PRO LYS THR VAL SEQRES 8 A 155 ILE TYR TRP LEU ALA GLU VAL LYS ASP TYR ASP VAL GLU SEQRES 9 A 155 ILE ARG LEU SER HIS GLU HIS GLN ALA TYR ARG TRP LEU SEQRES 10 A 155 GLY LEU GLU GLU ALA CYS GLN LEU ALA GLN PHE LYS GLU SEQRES 11 A 155 MET LYS ALA ALA LEU GLN GLU GLY HIS GLN PHE LEU CYS SEQRES 12 A 155 SER ILE GLU ALA LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 155 MET ALA LEU ARG ALA CYS GLY LEU ILE ILE PHE ARG ARG SEQRES 2 B 155 CYS LEU ILE PRO LYS VAL ASP ASN ASN ALA ILE GLU PHE SEQRES 3 B 155 LEU LEU LEU GLN ALA SER ASP GLY ILE HIS HIS TRP THR SEQRES 4 B 155 PRO PRO LYS GLY HIS VAL GLU PRO GLY GLU ASP ASP LEU SEQRES 5 B 155 GLU THR ALA LEU ARG ALA THR GLN GLU GLU ALA GLY ILE SEQRES 6 B 155 GLU ALA GLY GLN LEU THR ILE ILE GLU GLY PHE LYS ARG SEQRES 7 B 155 GLU LEU ASN TYR VAL ALA ARG ASN LYS PRO LYS THR VAL SEQRES 8 B 155 ILE TYR TRP LEU ALA GLU VAL LYS ASP TYR ASP VAL GLU SEQRES 9 B 155 ILE ARG LEU SER HIS GLU HIS GLN ALA TYR ARG TRP LEU SEQRES 10 B 155 GLY LEU GLU GLU ALA CYS GLN LEU ALA GLN PHE LYS GLU SEQRES 11 B 155 MET LYS ALA ALA LEU GLN GLU GLY HIS GLN PHE LEU CYS SEQRES 12 B 155 SER ILE GLU ALA LEU GLU HIS HIS HIS HIS HIS HIS HET MG A 201 1 HET DPO A 202 9 HET GOL A 203 6 HET PO4 B 201 5 HET PO4 B 202 5 HETNAM MG MAGNESIUM ION HETNAM DPO DIPHOSPHATE HETNAM GOL GLYCEROL HETNAM PO4 PHOSPHATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MG MG 2+ FORMUL 4 DPO O7 P2 4- FORMUL 5 GOL C3 H8 O3 FORMUL 6 PO4 2(O4 P 3-) FORMUL 8 HOH *121(H2 O) HELIX 1 1 ASP A 50 GLY A 64 1 15 HELIX 2 2 GLU A 66 GLY A 68 5 3 HELIX 3 3 GLY A 118 GLN A 127 1 10 HELIX 4 4 PHE A 128 HIS A 150 1 23 HELIX 5 5 ASP B 50 GLY B 64 1 15 HELIX 6 6 GLU B 66 GLY B 68 5 3 HELIX 7 7 GLY B 118 GLN B 127 1 10 HELIX 8 8 PHE B 128 LEU B 148 1 21 SHEET 1 A 5 TRP A 38 THR A 39 0 SHEET 2 A 5 ILE A 24 ALA A 31 -1 N LEU A 29 O THR A 39 SHEET 3 A 5 ALA A 5 ARG A 13 -1 N ARG A 12 O GLU A 25 SHEET 4 A 5 LYS A 87 VAL A 98 1 O TRP A 94 N ILE A 9 SHEET 5 A 5 LEU A 70 ALA A 84 -1 N LEU A 80 O VAL A 91 SHEET 1 B 4 LYS A 42 HIS A 44 0 SHEET 2 B 4 ALA A 5 ARG A 13 -1 N CYS A 6 O GLY A 43 SHEET 3 B 4 ILE A 24 ALA A 31 -1 O GLU A 25 N ARG A 12 SHEET 4 B 4 HIS A 111 LEU A 117 -1 O LEU A 117 N PHE A 26 SHEET 1 C 5 TRP B 38 THR B 39 0 SHEET 2 C 5 ILE B 24 ALA B 31 -1 N LEU B 29 O THR B 39 SHEET 3 C 5 ARG B 4 ARG B 13 -1 N ARG B 12 O GLU B 25 SHEET 4 C 5 PRO B 88 VAL B 98 1 O TRP B 94 N ILE B 9 SHEET 5 C 5 LEU B 70 VAL B 83 -1 N TYR B 82 O LYS B 89 SHEET 1 D 4 LYS B 42 HIS B 44 0 SHEET 2 D 4 ARG B 4 ARG B 13 -1 N CYS B 6 O GLY B 43 SHEET 3 D 4 ILE B 24 ALA B 31 -1 O GLU B 25 N ARG B 12 SHEET 4 D 4 HIS B 111 LEU B 117 -1 O LEU B 117 N PHE B 26 SITE 1 AC1 5 ASP A 50 GLU A 53 GLN A 140 LYS B 77 SITE 2 AC1 5 TRP B 94 SITE 1 AC2 3 LYS A 42 TYR A 82 LYS A 89 SITE 1 AC3 7 ASN A 22 ALA A 23 ILE A 24 GLY A 118 SITE 2 AC3 7 LEU A 119 HIS A 139 HOH A 337 SITE 1 AC4 9 ARG A 12 TRP A 116 HOH A 311 TYR B 114 SITE 2 AC4 9 TRP B 116 HOH B 304 HOH B 307 HOH B 312 SITE 3 AC4 9 HOH B 352 SITE 1 AC5 3 LYS B 42 TYR B 82 LYS B 89 CRYST1 72.369 72.369 133.379 90.00 90.00 90.00 P 43 21 2 16 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 0.013818 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013818 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007497 0.00000