HEADER CELL ADHESION 17-NOV-10 3PMR TITLE CRYSTAL STRUCTURE OF E2 DOMAIN OF HUMAN AMYLOID PRECURSOR-LIKE PROTEIN TITLE 2 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMYLOID-LIKE PROTEIN 1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: E2 DOMAIN (UNP RESIDUES 285-499); COMPND 5 SYNONYM: APLP, APLP-1, C30; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: APLP1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS HEPARIN BINDING, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR S.LEE,Y.XUE,J.HU,Y.WANG,X.LIU,B.DEMELER,Y.HA REVDAT 4 22-MAY-24 3PMR 1 REMARK REVDAT 3 31-MAY-23 3PMR 1 REMARK SEQADV REVDAT 2 29-JUN-11 3PMR 1 JRNL REVDAT 1 01-JUN-11 3PMR 0 JRNL AUTH S.LEE,Y.XUE,J.HU,Y.WANG,X.LIU,B.DEMELER,Y.HA JRNL TITL THE E2 DOMAINS OF APP AND APLP1 SHARE A CONSERVED MODE OF JRNL TITL 2 DIMERIZATION. JRNL REF BIOCHEMISTRY V. 50 5453 2011 JRNL REFN ISSN 0006-2960 JRNL PMID 21574595 JRNL DOI 10.1021/BI101846X REMARK 2 REMARK 2 RESOLUTION. 2.11 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 2.11 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.26 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.8 REMARK 3 NUMBER OF REFLECTIONS : 30452 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) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3033 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) : 2.11 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1846 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.2390 REMARK 3 BIN FREE R VALUE SET COUNT : 208 REMARK 3 BIN FREE R VALUE : 0.2890 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3043 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 277 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.02000 REMARK 3 B22 (A**2) : 1.57000 REMARK 3 B33 (A**2) : -0.55000 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): 0.189 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.123 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.326 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3109 ; 0.007 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4206 ; 1.062 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 391 ; 0.913 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 155 ;38.400 ;23.290 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 531 ;15.275 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;16.677 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 471 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2373 ; 0.008 ; 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): 1963 ; 5.752 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3120 ; 7.830 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1146 ;11.931 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1086 ;16.538 ; 4.500 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 354 A 441 REMARK 3 ORIGIN FOR THE GROUP (A): 16.9112 -22.5090 38.1738 REMARK 3 T TENSOR REMARK 3 T11: 0.1372 T22: 0.0828 REMARK 3 T33: 0.0574 T12: 0.0473 REMARK 3 T13: -0.0187 T23: -0.0128 REMARK 3 L TENSOR REMARK 3 L11: 0.2880 L22: 0.6075 REMARK 3 L33: 0.7200 L12: -0.0170 REMARK 3 L13: -0.0794 L23: -0.6845 REMARK 3 S TENSOR REMARK 3 S11: -0.0782 S12: -0.0823 S13: 0.0373 REMARK 3 S21: 0.0897 S22: 0.0571 S23: -0.0153 REMARK 3 S31: -0.0778 S32: -0.0495 S33: 0.0211 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 442 A 548 REMARK 3 ORIGIN FOR THE GROUP (A): 36.9145 -57.1368 40.3639 REMARK 3 T TENSOR REMARK 3 T11: 0.1111 T22: 0.0984 REMARK 3 T33: 0.0966 T12: 0.0132 REMARK 3 T13: 0.0614 T23: 0.0177 REMARK 3 L TENSOR REMARK 3 L11: 0.1630 L22: 0.6193 REMARK 3 L33: 0.8221 L12: -0.0123 REMARK 3 L13: -0.2482 L23: -0.4515 REMARK 3 S TENSOR REMARK 3 S11: -0.1182 S12: 0.0637 S13: -0.0788 REMARK 3 S21: 0.0590 S22: -0.0410 S23: -0.0600 REMARK 3 S31: 0.0214 S32: -0.0928 S33: 0.1592 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 : B 354 B 441 REMARK 3 ORIGIN FOR THE GROUP (A): 37.2252 -44.2525 21.1981 REMARK 3 T TENSOR REMARK 3 T11: 0.0696 T22: 0.1220 REMARK 3 T33: 0.0652 T12: 0.0367 REMARK 3 T13: 0.0118 T23: 0.0360 REMARK 3 L TENSOR REMARK 3 L11: 1.4042 L22: 0.5296 REMARK 3 L33: 0.3792 L12: -0.6301 REMARK 3 L13: 0.6017 L23: -0.0387 REMARK 3 S TENSOR REMARK 3 S11: 0.0351 S12: 0.0013 S13: 0.0334 REMARK 3 S21: -0.0193 S22: -0.0456 S23: -0.0598 REMARK 3 S31: 0.0124 S32: -0.0573 S33: 0.0105 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 : B 442 B 551 REMARK 3 ORIGIN FOR THE GROUP (A): 3.6543 -21.1622 19.9589 REMARK 3 T TENSOR REMARK 3 T11: 0.0584 T22: 0.0555 REMARK 3 T33: 0.1180 T12: -0.0014 REMARK 3 T13: 0.0130 T23: -0.0224 REMARK 3 L TENSOR REMARK 3 L11: 1.8442 L22: 0.6501 REMARK 3 L33: 0.7519 L12: -0.0782 REMARK 3 L13: 0.9348 L23: 0.0208 REMARK 3 S TENSOR REMARK 3 S11: 0.0281 S12: -0.0296 S13: 0.0880 REMARK 3 S21: 0.1007 S22: -0.0869 S23: 0.1693 REMARK 3 S31: 0.0687 S32: 0.0054 S33: 0.0587 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3PMR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-NOV-10. REMARK 100 THE DEPOSITION ID IS D_1000062563. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.075 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32194 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 9.400 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.5000 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) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.40200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.4M NA/K PHOSPHATE, PH 5.6, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 298K 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 37.44250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 44.83500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.63450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.83500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.44250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.63450 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23790 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -41.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 GLY A 343 REMARK 465 SER A 344 REMARK 465 HIS A 345 REMARK 465 MET A 346 REMARK 465 THR A 347 REMARK 465 PRO A 348 REMARK 465 THR A 349 REMARK 465 PRO A 350 REMARK 465 ARG A 351 REMARK 465 PRO A 352 REMARK 465 THR A 353 REMARK 465 SER A 549 REMARK 465 GLU A 550 REMARK 465 HIS A 551 REMARK 465 LEU A 552 REMARK 465 GLY A 553 REMARK 465 PRO A 554 REMARK 465 SER A 555 REMARK 465 GLU A 556 REMARK 465 LEU A 557 REMARK 465 GLU A 558 REMARK 465 ALA A 559 REMARK 465 PRO A 560 REMARK 465 ALA A 561 REMARK 465 GLY B 343 REMARK 465 SER B 344 REMARK 465 HIS B 345 REMARK 465 MET B 346 REMARK 465 THR B 347 REMARK 465 PRO B 348 REMARK 465 THR B 349 REMARK 465 PRO B 350 REMARK 465 ARG B 351 REMARK 465 PRO B 352 REMARK 465 THR B 353 REMARK 465 LEU B 552 REMARK 465 GLY B 553 REMARK 465 PRO B 554 REMARK 465 SER B 555 REMARK 465 GLU B 556 REMARK 465 LEU B 557 REMARK 465 GLU B 558 REMARK 465 ALA B 559 REMARK 465 PRO B 560 REMARK 465 ALA B 561 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 GLU A 365 CG CD OE1 OE2 REMARK 470 GLU A 370 CG CD OE1 OE2 REMARK 470 ARG A 374 CD NE CZ NH1 NH2 REMARK 470 GLU A 389 CD OE1 OE2 REMARK 470 GLN A 400 CD OE1 NE2 REMARK 470 LYS A 402 CG CD CE NZ REMARK 470 LEU A 404 CD1 CD2 REMARK 470 LYS A 406 CG CD CE NZ REMARK 470 GLU A 414 CG CD OE1 OE2 REMARK 470 GLU A 436 CD OE1 OE2 REMARK 470 ASP A 464 CG OD1 OD2 REMARK 470 GLN A 467 CG CD OE1 NE2 REMARK 470 GLU A 469 CG CD OE1 OE2 REMARK 470 GLU A 502 CG CD OE1 OE2 REMARK 470 LYS A 503 CD CE NZ REMARK 470 GLN A 506 CD OE1 NE2 REMARK 470 GLU A 519 CD OE1 OE2 REMARK 470 GLU A 520 CD OE1 OE2 REMARK 470 ASP A 530 CG OD1 OD2 REMARK 470 GLN A 531 CG CD OE1 NE2 REMARK 470 HIS A 534 CG ND1 CD2 CE1 NE2 REMARK 470 ILE A 543 CG1 CG2 CD1 REMARK 470 GLN A 544 CG CD OE1 NE2 REMARK 470 GLU A 545 CG CD OE1 OE2 REMARK 470 LEU A 546 CG CD1 CD2 REMARK 470 LEU A 547 CG CD1 CD2 REMARK 470 HIS A 548 CG ND1 CD2 CE1 NE2 REMARK 470 ASP B 354 CG OD1 OD2 REMARK 470 GLU B 365 CG CD OE1 OE2 REMARK 470 GLU B 370 CG CD OE1 OE2 REMARK 470 ARG B 374 CD NE CZ NH1 NH2 REMARK 470 GLN B 400 CD OE1 NE2 REMARK 470 LYS B 406 CD CE NZ REMARK 470 GLN B 410 CD OE1 NE2 REMARK 470 GLU B 436 CD OE1 OE2 REMARK 470 ASP B 448 CG OD1 OD2 REMARK 470 ASP B 464 CG OD1 OD2 REMARK 470 GLU B 469 CD OE1 OE2 REMARK 470 ARG B 470 CD NE CZ NH1 NH2 REMARK 470 ARG B 480 CZ NH1 NH2 REMARK 470 GLU B 502 CG CD OE1 OE2 REMARK 470 LYS B 503 CD CE NZ REMARK 470 GLN B 510 OE1 NE2 REMARK 470 GLU B 519 CD OE1 OE2 REMARK 470 HIS B 534 CG ND1 CD2 CE1 NE2 REMARK 470 GLN B 537 CG CD OE1 NE2 REMARK 470 GLU B 538 CD OE1 OE2 REMARK 470 ARG B 540 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 545 CD OE1 OE2 REMARK 470 HIS B 548 CG ND1 CD2 CE1 NE2 REMARK 470 GLU B 550 CD OE1 OE2 REMARK 470 HIS B 551 CG ND1 CD2 CE1 NE2 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 GLN A 400 33.24 -85.97 REMARK 500 SER A 401 5.98 -156.80 REMARK 500 ASP A 500 62.19 -158.62 REMARK 500 ASP A 530 -5.03 -52.36 REMARK 500 GLU B 365 3.36 -68.33 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 PO4 A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 4 DBREF 3PMR A 347 561 UNP P51693 APLP1_HUMAN 285 499 DBREF 3PMR B 347 561 UNP P51693 APLP1_HUMAN 285 499 SEQADV 3PMR GLY A 343 UNP P51693 EXPRESSION TAG SEQADV 3PMR SER A 344 UNP P51693 EXPRESSION TAG SEQADV 3PMR HIS A 345 UNP P51693 EXPRESSION TAG SEQADV 3PMR MET A 346 UNP P51693 EXPRESSION TAG SEQADV 3PMR GLY B 343 UNP P51693 EXPRESSION TAG SEQADV 3PMR SER B 344 UNP P51693 EXPRESSION TAG SEQADV 3PMR HIS B 345 UNP P51693 EXPRESSION TAG SEQADV 3PMR MET B 346 UNP P51693 EXPRESSION TAG SEQRES 1 A 219 GLY SER HIS MET THR PRO THR PRO ARG PRO THR ASP GLY SEQRES 2 A 219 VAL ASP ILE TYR PHE GLY MET PRO GLY GLU ILE SER GLU SEQRES 3 A 219 HIS GLU GLY PHE LEU ARG ALA LYS MET ASP LEU GLU GLU SEQRES 4 A 219 ARG ARG MET ARG GLN ILE ASN GLU VAL MET ARG GLU TRP SEQRES 5 A 219 ALA MET ALA ASP ASN GLN SER LYS ASN LEU PRO LYS ALA SEQRES 6 A 219 ASP ARG GLN ALA LEU ASN GLU HIS PHE GLN SER ILE LEU SEQRES 7 A 219 GLN THR LEU GLU GLU GLN VAL SER GLY GLU ARG GLN ARG SEQRES 8 A 219 LEU VAL GLU THR HIS ALA THR ARG VAL ILE ALA LEU ILE SEQRES 9 A 219 ASN ASP GLN ARG ARG ALA ALA LEU GLU GLY PHE LEU ALA SEQRES 10 A 219 ALA LEU GLN ALA ASP PRO PRO GLN ALA GLU ARG VAL LEU SEQRES 11 A 219 LEU ALA LEU ARG ARG TYR LEU ARG ALA GLU GLN LYS GLU SEQRES 12 A 219 GLN ARG HIS THR LEU ARG HIS TYR GLN HIS VAL ALA ALA SEQRES 13 A 219 VAL ASP PRO GLU LYS ALA GLN GLN MET ARG PHE GLN VAL SEQRES 14 A 219 HIS THR HIS LEU GLN VAL ILE GLU GLU ARG VAL ASN GLN SEQRES 15 A 219 SER LEU GLY LEU LEU ASP GLN ASN PRO HIS LEU ALA GLN SEQRES 16 A 219 GLU LEU ARG PRO GLN ILE GLN GLU LEU LEU HIS SER GLU SEQRES 17 A 219 HIS LEU GLY PRO SER GLU LEU GLU ALA PRO ALA SEQRES 1 B 219 GLY SER HIS MET THR PRO THR PRO ARG PRO THR ASP GLY SEQRES 2 B 219 VAL ASP ILE TYR PHE GLY MET PRO GLY GLU ILE SER GLU SEQRES 3 B 219 HIS GLU GLY PHE LEU ARG ALA LYS MET ASP LEU GLU GLU SEQRES 4 B 219 ARG ARG MET ARG GLN ILE ASN GLU VAL MET ARG GLU TRP SEQRES 5 B 219 ALA MET ALA ASP ASN GLN SER LYS ASN LEU PRO LYS ALA SEQRES 6 B 219 ASP ARG GLN ALA LEU ASN GLU HIS PHE GLN SER ILE LEU SEQRES 7 B 219 GLN THR LEU GLU GLU GLN VAL SER GLY GLU ARG GLN ARG SEQRES 8 B 219 LEU VAL GLU THR HIS ALA THR ARG VAL ILE ALA LEU ILE SEQRES 9 B 219 ASN ASP GLN ARG ARG ALA ALA LEU GLU GLY PHE LEU ALA SEQRES 10 B 219 ALA LEU GLN ALA ASP PRO PRO GLN ALA GLU ARG VAL LEU SEQRES 11 B 219 LEU ALA LEU ARG ARG TYR LEU ARG ALA GLU GLN LYS GLU SEQRES 12 B 219 GLN ARG HIS THR LEU ARG HIS TYR GLN HIS VAL ALA ALA SEQRES 13 B 219 VAL ASP PRO GLU LYS ALA GLN GLN MET ARG PHE GLN VAL SEQRES 14 B 219 HIS THR HIS LEU GLN VAL ILE GLU GLU ARG VAL ASN GLN SEQRES 15 B 219 SER LEU GLY LEU LEU ASP GLN ASN PRO HIS LEU ALA GLN SEQRES 16 B 219 GLU LEU ARG PRO GLN ILE GLN GLU LEU LEU HIS SER GLU SEQRES 17 B 219 HIS LEU GLY PRO SER GLU LEU GLU ALA PRO ALA HET PO4 A 2 5 HET PO4 A 3 5 HET PO4 B 1 5 HET PO4 B 4 5 HETNAM PO4 PHOSPHATE ION FORMUL 3 PO4 4(O4 P 3-) FORMUL 7 HOH *277(H2 O) HELIX 1 1 ASP A 354 GLY A 361 1 8 HELIX 2 2 SER A 367 GLN A 400 1 34 HELIX 3 3 PRO A 405 GLN A 462 1 58 HELIX 4 4 GLN A 467 ASP A 500 1 34 HELIX 5 5 ASP A 500 GLN A 505 1 6 HELIX 6 6 MET A 507 ASP A 530 1 24 HELIX 7 7 ASN A 532 HIS A 548 1 17 HELIX 8 8 ASP B 354 GLY B 361 1 8 HELIX 9 9 SER B 367 ASN B 399 1 33 HELIX 10 10 GLN B 400 LEU B 404 5 5 HELIX 11 11 PRO B 405 GLN B 462 1 58 HELIX 12 12 GLN B 467 ASP B 500 1 34 HELIX 13 13 ASP B 500 ASP B 530 1 31 HELIX 14 14 ASN B 532 GLU B 550 1 19 CISPEP 1 ASP A 464 PRO A 465 0 0.71 CISPEP 2 ASP B 464 PRO B 465 0 0.00 SITE 1 AC1 5 HOH A 24 HOH A 173 LYS A 484 ARG A 487 SITE 2 AC1 5 ARG A 491 SITE 1 AC2 7 HOH A 92 HOH A 156 HOH A 207 GLU A 380 SITE 2 AC2 7 ARG A 431 GLN B 494 HIS B 495 SITE 1 AC3 4 GLN A 494 HIS A 495 GLU B 380 ARG B 431 SITE 1 AC4 6 HOH B 19 HOH B 52 HOH B 109 LYS B 484 SITE 2 AC4 6 ARG B 487 ARG B 491 CRYST1 74.885 81.269 89.670 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 0.013354 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012305 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011152 0.00000