HEADER CELL ADHESION 11-SEP-18 6MFO TITLE CRYSTAL STRUCTURE OF HUMAN PROTOCADHERIN-15 EC1-3 G16D N369D Q370N COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTOCADHERIN-15; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 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: PCDH15; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 RIPL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS MECHANOTRANSDUCTION, CALCIUM-BINDING PROTEIN, STEREOCILIA, HAIR CELL, KEYWDS 2 TIP LINK, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR D.CHOUDHARY,M.SOTOMAYOR REVDAT 4 11-OCT-23 6MFO 1 REMARK REVDAT 3 07-OCT-20 6MFO 1 JRNL LINK REVDAT 2 18-DEC-19 6MFO 1 REMARK REVDAT 1 18-SEP-19 6MFO 0 JRNL AUTH D.CHOUDHARY,Y.NARUI,B.L.NEEL,L.N.WIMALASENA,C.F.KLANSECK, JRNL AUTH 2 P.DE-LA-TORRE,C.CHEN,R.ARAYA-SECCHI,E.TAMILSELVAN, JRNL AUTH 3 M.SOTOMAYOR JRNL TITL STRUCTURAL DETERMINANTS OF PROTOCADHERIN-15 MECHANICS AND JRNL TITL 2 FUNCTION IN HEARING AND BALANCE PERCEPTION. JRNL REF PROC.NATL.ACAD.SCI.USA 2020 JRNL REFN ESSN 1091-6490 JRNL PMID 32963095 JRNL DOI 10.1073/PNAS.1920444117 REMARK 2 REMARK 2 RESOLUTION. 3.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0230 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.99 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 8791 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) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 442 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) : 3.12 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.20 REMARK 3 REFLECTION IN BIN (WORKING SET) : 498 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 75.84 REMARK 3 BIN R VALUE (WORKING SET) : 0.2790 REMARK 3 BIN FREE R VALUE SET COUNT : 20 REMARK 3 BIN FREE R VALUE : 0.3630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2629 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 5 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 74.74 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.27000 REMARK 3 B22 (A**2) : -3.95000 REMARK 3 B33 (A**2) : 4.22000 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): 0.505 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.355 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 44.508 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.911 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.869 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2686 ; 0.009 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 2384 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3662 ; 1.361 ; 1.666 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5611 ; 0.817 ; 1.630 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 329 ; 8.673 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 150 ;35.187 ;23.067 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 439 ;17.252 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;21.728 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 370 ; 0.058 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3006 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 446 ; 0.001 ; 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): 1328 ; 2.781 ; 6.214 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1327 ; 2.780 ; 6.211 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1653 ; 4.520 ; 9.307 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1654 ; 4.520 ; 9.310 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1358 ; 2.848 ; 6.572 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1359 ; 2.847 ; 6.575 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2010 ; 4.727 ; 9.748 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2870 ; 7.000 ;73.435 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2870 ; 7.000 ;73.478 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 9 A 120 REMARK 3 RESIDUE RANGE : A 401 A 402 REMARK 3 ORIGIN FOR THE GROUP (A): -33.7444 -58.4602 34.9907 REMARK 3 T TENSOR REMARK 3 T11: 0.0587 T22: 0.2569 REMARK 3 T33: 0.1088 T12: 0.0251 REMARK 3 T13: -0.0555 T23: -0.0280 REMARK 3 L TENSOR REMARK 3 L11: 0.6149 L22: 3.9506 REMARK 3 L33: 1.0441 L12: -1.2574 REMARK 3 L13: 0.6645 L23: -1.4305 REMARK 3 S TENSOR REMARK 3 S11: 0.0340 S12: 0.0671 S13: -0.1836 REMARK 3 S21: 0.0186 S22: 0.0712 S23: 0.1879 REMARK 3 S31: -0.0992 S32: -0.0348 S33: -0.1053 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 121 A 238 REMARK 3 RESIDUE RANGE : A 403 A 403 REMARK 3 RESIDUE RANGE : A 405 A 405 REMARK 3 ORIGIN FOR THE GROUP (A): -34.8343 -15.0765 13.5346 REMARK 3 T TENSOR REMARK 3 T11: 0.0143 T22: 0.2966 REMARK 3 T33: 0.0252 T12: -0.0089 REMARK 3 T13: -0.0141 T23: 0.0135 REMARK 3 L TENSOR REMARK 3 L11: 0.3510 L22: 3.0051 REMARK 3 L33: 0.7378 L12: 1.0236 REMARK 3 L13: -0.3208 L23: -0.8871 REMARK 3 S TENSOR REMARK 3 S11: 0.0377 S12: 0.0041 S13: 0.0122 REMARK 3 S21: 0.1209 S22: 0.0780 S23: 0.0286 REMARK 3 S31: 0.0271 S32: 0.0207 S33: -0.1158 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 239 A 364 REMARK 3 RESIDUE RANGE : A 404 A 404 REMARK 3 ORIGIN FOR THE GROUP (A): -23.4792 30.5774 2.1663 REMARK 3 T TENSOR REMARK 3 T11: 0.2283 T22: 0.0715 REMARK 3 T33: 0.0409 T12: -0.0022 REMARK 3 T13: -0.0919 T23: 0.0073 REMARK 3 L TENSOR REMARK 3 L11: 0.3577 L22: 6.4704 REMARK 3 L33: 1.9861 L12: 0.4654 REMARK 3 L13: -0.7532 L23: -2.2594 REMARK 3 S TENSOR REMARK 3 S11: -0.0037 S12: -0.0516 S13: -0.0133 REMARK 3 S21: -0.0075 S22: -0.1129 S23: -0.1525 REMARK 3 S31: -0.1480 S32: 0.0870 S33: 0.1167 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 6MFO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-SEP-18. REMARK 100 THE DEPOSITION ID IS D_1000236829. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-NOV-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97920 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9312 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.150 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 9.000 REMARK 200 R MERGE (I) : 0.36200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.20 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.20 REMARK 200 R MERGE FOR SHELL (I) : 1.38400 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: PHASER REMARK 200 STARTING MODEL: 4APX, 5ULY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES PH 7.7, 66% MPD, 4% REMARK 280 GLYCEROL, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.94450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.94450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 43.94700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 58.25800 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 43.94700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 58.25800 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 49.94450 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 43.94700 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 58.25800 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 49.94450 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 43.94700 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 58.25800 REMARK 290 SMTRY3 8 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 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: A REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 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 0 REMARK 465 GLN A 1 REMARK 465 TYR A 2 REMARK 465 ASP A 3 REMARK 465 ASP A 4 REMARK 465 ASP A 5 REMARK 465 TRP A 6 REMARK 465 GLN A 7 REMARK 465 TYR A 8 REMARK 465 VAL A 248 REMARK 465 LEU A 249 REMARK 465 VAL A 250 REMARK 465 PRO A 251 REMARK 465 ASN A 252 REMARK 465 THR A 253 REMARK 465 ARG A 254 REMARK 465 ASP A 255 REMARK 465 CYS A 256 REMARK 465 ARG A 257 REMARK 465 PRO A 258 REMARK 465 LEU A 259 REMARK 465 GLU A 267 REMARK 465 LEU A 268 REMARK 465 ARG A 269 REMARK 465 THR A 270 REMARK 465 PRO A 271 REMARK 465 GLU A 272 REMARK 465 GLU A 273 REMARK 465 LEU A 274 REMARK 465 GLU A 330 REMARK 465 PRO A 331 REMARK 465 VAL A 332 REMARK 465 LEU A 365 REMARK 465 ASP A 366 REMARK 465 GLU A 367 REMARK 465 ASN A 368 REMARK 465 ASP A 369 REMARK 465 ASN A 370 REMARK 465 LEU A 371 REMARK 465 GLU A 372 REMARK 465 HIS A 373 REMARK 465 HIS A 374 REMARK 465 HIS A 375 REMARK 465 HIS A 376 REMARK 465 HIS A 377 REMARK 465 HIS A 378 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NH1 ARG A 198 OD2 ASP A 239 4555 2.17 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 CYS A 11 -7.97 87.08 REMARK 500 THR A 33 118.65 -39.89 REMARK 500 LEU A 40 66.22 69.31 REMARK 500 LYS A 42 123.21 -36.32 REMARK 500 TYR A 62 62.90 31.74 REMARK 500 PRO A 87 32.46 -99.69 REMARK 500 VAL A 97 78.47 -112.06 REMARK 500 LYS A 103 -70.83 -91.97 REMARK 500 ASN A 120 58.43 -97.80 REMARK 500 THR A 139 126.10 -34.24 REMARK 500 THR A 147 33.48 -141.75 REMARK 500 ASP A 176 72.24 -164.61 REMARK 500 ASN A 291 59.85 -147.19 REMARK 500 LEU A 306 -55.03 -124.47 REMARK 500 PRO A 310 150.44 -44.01 REMARK 500 ASP A 349 55.11 -108.69 REMARK 500 ASN A 350 32.64 -151.94 REMARK 500 LEU A 354 53.64 33.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 298 0.11 SIDE CHAIN 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 CA A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 27 OE1 REMARK 620 2 GLU A 28 OE1 94.3 REMARK 620 3 ASP A 83 OD1 105.8 88.2 REMARK 620 4 ASP A 85 OD2 97.5 166.2 95.4 REMARK 620 5 ASP A 121 OD1 82.5 109.7 160.0 65.1 REMARK 620 6 ASP A 121 OD2 104.9 70.8 143.8 99.2 43.9 REMARK 620 7 HOH A 501 O 171.0 89.5 82.5 77.8 88.5 68.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 27 OE2 REMARK 620 2 ASP A 85 OD1 99.6 REMARK 620 3 ASP A 85 OD2 91.5 53.6 REMARK 620 4 ASP A 118 OD1 77.9 74.4 124.5 REMARK 620 5 ARG A 119 O 93.7 141.3 162.4 73.1 REMARK 620 6 ASP A 121 OD1 87.0 137.2 84.2 147.4 79.3 REMARK 620 7 ASP A 159 OD1 174.9 80.3 92.5 97.2 83.4 96.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 120 OD1 REMARK 620 2 ASN A 122 O 102.2 REMARK 620 3 ASP A 157 OD1 149.3 100.1 REMARK 620 4 ASP A 157 OD2 144.6 89.3 55.8 REMARK 620 5 ASP A 159 OD2 75.4 78.6 88.7 140.1 REMARK 620 6 ASN A 163 O 80.4 174.0 75.5 91.5 97.0 REMARK 620 7 ASP A 215 OD2 68.0 88.3 133.7 79.2 137.3 97.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 405 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 137 OE2 REMARK 620 2 ASP A 236 OD1 94.6 REMARK 620 3 GLY A 237 O 88.1 81.9 REMARK 620 4 ASP A 239 OD1 91.6 158.0 77.3 REMARK 620 5 ASP A 289 OD1 153.8 97.7 71.0 69.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 404 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 238 OD1 REMARK 620 2 LEU A 240 O 93.6 REMARK 620 3 ASP A 287 OD1 157.5 77.3 REMARK 620 4 ASP A 287 OD2 136.5 123.0 45.9 REMARK 620 5 ASP A 289 OD2 108.8 74.5 88.8 103.5 REMARK 620 6 GLN A 348 OE1 85.9 79.4 72.3 79.6 150.6 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 CA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 405 DBREF1 6MFO A 1 371 UNP A0A087X1T6_HUMAN DBREF2 6MFO A A0A087X1T6 27 396 SEQADV 6MFO MET A 0 UNP A0A087X1T INITIATING METHIONINE SEQADV 6MFO ASP A 16 UNP A0A087X1T GLY 42 ENGINEERED MUTATION SEQADV 6MFO ASP A 369 UNP A0A087X1T ASN 395 ENGINEERED MUTATION SEQADV 6MFO ASN A 370 UNP A0A087X1T GLN 396 ENGINEERED MUTATION SEQADV 6MFO LEU A 371 UNP A0A087X1T EXPRESSION TAG SEQADV 6MFO GLU A 372 UNP A0A087X1T EXPRESSION TAG SEQADV 6MFO HIS A 373 UNP A0A087X1T EXPRESSION TAG SEQADV 6MFO HIS A 374 UNP A0A087X1T EXPRESSION TAG SEQADV 6MFO HIS A 375 UNP A0A087X1T EXPRESSION TAG SEQADV 6MFO HIS A 376 UNP A0A087X1T EXPRESSION TAG SEQADV 6MFO HIS A 377 UNP A0A087X1T EXPRESSION TAG SEQADV 6MFO HIS A 378 UNP A0A087X1T EXPRESSION TAG SEQRES 1 A 379 MET GLN TYR ASP ASP ASP TRP GLN TYR GLU ASP CYS LYS SEQRES 2 A 379 LEU ALA ARG ASP GLY PRO PRO ALA THR ILE VAL ALA ILE SEQRES 3 A 379 ASP GLU GLU SER ARG ASN GLY THR ILE LEU VAL ASP ASN SEQRES 4 A 379 MET LEU ILE LYS GLY THR ALA GLY GLY PRO ASP PRO THR SEQRES 5 A 379 ILE GLU LEU SER LEU LYS ASP ASN VAL ASP TYR TRP VAL SEQRES 6 A 379 LEU MET ASP PRO VAL LYS GLN MET LEU PHE LEU ASN SER SEQRES 7 A 379 THR GLY ARG VAL LEU ASP ARG ASP PRO PRO MET ASN ILE SEQRES 8 A 379 HIS SER ILE VAL VAL GLN VAL GLN CYS ILE ASN LYS LYS SEQRES 9 A 379 VAL GLY THR ILE ILE TYR HIS GLU VAL ARG ILE VAL VAL SEQRES 10 A 379 ARG ASP ARG ASN ASP ASN SER PRO THR PHE LYS HIS GLU SEQRES 11 A 379 SER TYR TYR ALA THR VAL ASN GLU LEU THR PRO VAL GLY SEQRES 12 A 379 THR THR ILE PHE THR GLY PHE SER GLY ASP ASN GLY ALA SEQRES 13 A 379 THR ASP ILE ASP ASP GLY PRO ASN GLY GLN ILE GLU TYR SEQRES 14 A 379 VAL ILE GLN TYR ASN PRO ASP ASP PRO THR SER ASN ASP SEQRES 15 A 379 THR PHE GLU ILE PRO LEU MET LEU THR GLY ASN ILE VAL SEQRES 16 A 379 LEU ARG LYS ARG LEU ASN TYR GLU ASP LYS THR ARG TYR SEQRES 17 A 379 PHE VAL ILE ILE GLN ALA ASN ASP ARG ALA GLN ASN LEU SEQRES 18 A 379 ASN GLU ARG ARG THR THR THR THR THR LEU THR VAL ASP SEQRES 19 A 379 VAL LEU ASP GLY ASP ASP LEU GLY PRO MET PHE LEU PRO SEQRES 20 A 379 CYS VAL LEU VAL PRO ASN THR ARG ASP CYS ARG PRO LEU SEQRES 21 A 379 THR TYR GLN ALA ALA ILE PRO GLU LEU ARG THR PRO GLU SEQRES 22 A 379 GLU LEU ASN PRO ILE ILE VAL THR PRO PRO ILE GLN ALA SEQRES 23 A 379 ILE ASP GLN ASP ARG ASN ILE GLN PRO PRO SER ASP ARG SEQRES 24 A 379 PRO GLY ILE LEU TYR SER ILE LEU VAL GLY THR PRO GLU SEQRES 25 A 379 ASP TYR PRO ARG PHE PHE HIS MET HIS PRO ARG THR ALA SEQRES 26 A 379 GLU LEU SER LEU LEU GLU PRO VAL ASN ARG ASP PHE HIS SEQRES 27 A 379 GLN LYS PHE ASP LEU VAL ILE LYS ALA GLU GLN ASP ASN SEQRES 28 A 379 GLY HIS PRO LEU PRO ALA PHE ALA GLY LEU HIS ILE GLU SEQRES 29 A 379 ILE LEU ASP GLU ASN ASP ASN LEU GLU HIS HIS HIS HIS SEQRES 30 A 379 HIS HIS HET CA A 401 1 HET CA A 402 1 HET CA A 403 1 HET CA A 404 1 HET CA A 405 1 HETNAM CA CALCIUM ION FORMUL 2 CA 5(CA 2+) FORMUL 7 HOH *5(H2 O) HELIX 1 AA1 ASN A 59 TYR A 62 5 4 HELIX 2 AA2 ASP A 160 GLY A 164 5 5 HELIX 3 AA3 THR A 178 THR A 182 1 5 HELIX 4 AA4 ASN A 219 ARG A 223 5 5 HELIX 5 AA5 PRO A 294 ARG A 298 5 5 HELIX 6 AA6 ASP A 312 ARG A 315 5 4 SHEET 1 AA1 4 ALA A 20 ASP A 26 0 SHEET 2 AA1 4 ILE A 107 ARG A 117 1 O VAL A 115 N VAL A 23 SHEET 3 AA1 4 SER A 92 ASN A 101 -1 N ILE A 93 O ILE A 114 SHEET 4 AA1 4 ILE A 52 LYS A 57 -1 N GLU A 53 O ILE A 100 SHEET 1 AA2 3 ILE A 34 VAL A 36 0 SHEET 2 AA2 3 MET A 72 LEU A 75 -1 O LEU A 73 N LEU A 35 SHEET 3 AA2 3 VAL A 64 ASP A 67 -1 N ASP A 67 O MET A 72 SHEET 1 AA3 2 THR A 125 PHE A 126 0 SHEET 2 AA3 2 ALA A 155 THR A 156 -1 O THR A 156 N THR A 125 SHEET 1 AA4 4 TYR A 131 ASN A 136 0 SHEET 2 AA4 4 THR A 225 LEU A 235 1 O LEU A 235 N VAL A 135 SHEET 3 AA4 4 ARG A 206 ASP A 215 -1 N VAL A 209 O LEU A 230 SHEET 4 AA4 4 ILE A 166 GLN A 171 -1 N VAL A 169 O GLN A 212 SHEET 1 AA5 3 THR A 144 PHE A 146 0 SHEET 2 AA5 3 ILE A 193 LEU A 195 -1 O ILE A 193 N ILE A 145 SHEET 3 AA5 3 PHE A 183 GLU A 184 -1 N GLU A 184 O VAL A 194 SHEET 1 AA6 4 TYR A 261 ALA A 264 0 SHEET 2 AA6 4 ALA A 356 GLU A 363 1 O HIS A 361 N TYR A 261 SHEET 3 AA6 4 LYS A 339 GLN A 348 -1 N ILE A 344 O ALA A 358 SHEET 4 AA6 4 ILE A 301 THR A 309 -1 N LEU A 302 O GLU A 347 SHEET 1 AA7 2 PHE A 317 MET A 319 0 SHEET 2 AA7 2 LEU A 326 LEU A 328 -1 O SER A 327 N HIS A 318 SSBOND 1 CYS A 11 CYS A 99 1555 1555 2.05 LINK OE1 GLU A 27 CA CA A 401 1555 1555 2.27 LINK OE2 GLU A 27 CA CA A 402 1555 1555 2.31 LINK OE1 GLU A 28 CA CA A 401 1555 1555 2.47 LINK OD1 ASP A 83 CA CA A 401 1555 1555 2.15 LINK OD2 ASP A 85 CA CA A 401 1555 1555 2.31 LINK OD1 ASP A 85 CA CA A 402 1555 1555 2.59 LINK OD2 ASP A 85 CA CA A 402 1555 1555 2.29 LINK OD1 ASP A 118 CA CA A 402 1555 1555 2.24 LINK O ARG A 119 CA CA A 402 1555 1555 2.42 LINK OD1 ASN A 120 CA CA A 403 1555 1555 2.33 LINK OD1 ASP A 121 CA CA A 401 1555 1555 3.18 LINK OD2 ASP A 121 CA CA A 401 1555 1555 2.38 LINK OD1 ASP A 121 CA CA A 402 1555 1555 2.25 LINK O ASN A 122 CA CA A 403 1555 1555 2.25 LINK OE2 GLU A 137 CA CA A 405 1555 1555 2.32 LINK OD1 ASP A 157 CA CA A 403 1555 1555 2.25 LINK OD2 ASP A 157 CA CA A 403 1555 1555 2.47 LINK OD1 ASP A 159 CA CA A 402 1555 1555 2.26 LINK OD2 ASP A 159 CA CA A 403 1555 1555 2.50 LINK O ASN A 163 CA CA A 403 1555 1555 2.38 LINK OD2 ASP A 215 CA CA A 403 1555 1555 2.50 LINK OD1 ASP A 236 CA CA A 405 1555 1555 2.19 LINK O GLY A 237 CA CA A 405 1555 1555 2.49 LINK OD1 ASP A 238 CA CA A 404 1555 1555 2.10 LINK OD1 ASP A 239 CA CA A 405 1555 1555 2.41 LINK O LEU A 240 CA CA A 404 1555 1555 2.38 LINK OD1 ASP A 287 CA CA A 404 1555 1555 2.48 LINK OD2 ASP A 287 CA CA A 404 1555 1555 3.06 LINK OD2 ASP A 289 CA CA A 404 1555 1555 2.39 LINK OD1 ASP A 289 CA CA A 405 1555 1555 1.97 LINK OE1 GLN A 348 CA CA A 404 1555 1555 2.55 LINK CA CA A 401 O HOH A 501 1555 1555 2.29 CISPEP 1 PRO A 86 PRO A 87 0 6.30 CISPEP 2 LEU A 245 PRO A 246 0 8.50 CISPEP 3 ASN A 275 PRO A 276 0 -8.07 CISPEP 4 THR A 280 PRO A 281 0 -14.87 CISPEP 5 GLN A 293 PRO A 294 0 -11.00 CISPEP 6 THR A 309 PRO A 310 0 -21.19 SITE 1 AC1 6 GLU A 27 GLU A 28 ASP A 83 ASP A 85 SITE 2 AC1 6 ASP A 121 HOH A 501 SITE 1 AC2 7 GLU A 27 ASP A 85 ASP A 118 ARG A 119 SITE 2 AC2 7 ASP A 121 ASN A 122 ASP A 159 SITE 1 AC3 6 ASN A 120 ASN A 122 ASP A 157 ASP A 159 SITE 2 AC3 6 ASN A 163 ASP A 215 SITE 1 AC4 5 ASP A 238 LEU A 240 ASP A 287 ASP A 289 SITE 2 AC4 5 GLN A 348 SITE 1 AC5 5 GLU A 137 ASP A 236 GLY A 237 ASP A 239 SITE 2 AC5 5 ASP A 289 CRYST1 87.894 116.516 99.889 90.00 90.00 90.00 C 2 2 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 0.011377 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008583 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010011 0.00000