HEADER CELL ADHESION 25-SEP-16 5TFK TITLE CRYSTAL STRUCTURE OF MOUSE CADHERIN-23 EC19-21 WT COMPND MOL_ID: 1; COMPND 2 MOLECULE: CADHERIN-23; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CADHERIN DOMAINS 19-21, RESIDUES 1949-2289; COMPND 5 SYNONYM: OTOCADHERIN; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: CDH23; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 RIPL KEYWDS HEARING, MECHANOTRANSDUCTION, ADHESION, CALCIUM-BINDING PROTEIN, CELL KEYWDS 2 ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR A.JAIGANESH,M.SOTOMAYOR REVDAT 5 04-OCT-23 5TFK 1 LINK REVDAT 4 18-DEC-19 5TFK 1 REMARK REVDAT 3 19-SEP-18 5TFK 1 SOURCE JRNL REVDAT 2 01-AUG-18 5TFK 1 JRNL REVDAT 1 27-DEC-17 5TFK 0 JRNL AUTH A.JAIGANESH,P.DE-LA-TORRE,A.A.PATEL,D.J.TERMINE, JRNL AUTH 2 F.VELEZ-CORTES,C.CHEN,M.SOTOMAYOR JRNL TITL ZOOMING IN ON CADHERIN-23: STRUCTURAL DIVERSITY AND JRNL TITL 2 POTENTIAL MECHANISMS OF INHERITED DEAFNESS. JRNL REF STRUCTURE V. 26 1210 2018 JRNL REFN ISSN 1878-4186 JRNL PMID 30033219 JRNL DOI 10.1016/J.STR.2018.06.003 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0155 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 111.51 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 13110 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) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 706 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 822 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 81.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.3670 REMARK 3 BIN FREE R VALUE SET COUNT : 37 REMARK 3 BIN FREE R VALUE : 0.3730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2561 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 10 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 81.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 10.87000 REMARK 3 B33 (A**2) : -11.08000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.40000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.558 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.312 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.285 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 36.304 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2614 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2470 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3590 ; 1.546 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5693 ; 0.865 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 336 ; 8.366 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 119 ;44.685 ;25.966 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 406 ;16.950 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;11.042 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 446 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2981 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 532 ; 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): 1341 ; 1.830 ; 4.841 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1340 ; 1.827 ; 4.842 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1675 ; 2.892 ; 7.264 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1676 ; 2.892 ; 7.264 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1273 ; 1.681 ; 4.984 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1274 ; 1.680 ; 4.984 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1915 ; 2.767 ; 7.420 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3263 ; 4.382 ;75.397 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3262 ; 4.439 ;75.414 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 1929 A 2040 REMARK 3 RESIDUE RANGE : A 2301 A 2303 REMARK 3 ORIGIN FOR THE GROUP (A): 165.8140 -46.1690 129.5430 REMARK 3 T TENSOR REMARK 3 T11: 0.0253 T22: 0.3449 REMARK 3 T33: 0.4035 T12: 0.0429 REMARK 3 T13: -0.0506 T23: 0.0208 REMARK 3 L TENSOR REMARK 3 L11: 1.2034 L22: 3.9413 REMARK 3 L33: 11.2759 L12: -0.9596 REMARK 3 L13: 0.0659 L23: -1.4812 REMARK 3 S TENSOR REMARK 3 S11: -0.1064 S12: 0.0105 S13: -0.0914 REMARK 3 S21: 0.0242 S22: -0.2669 S23: -0.0510 REMARK 3 S31: -0.0061 S32: 0.0354 S33: 0.3732 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2041 A 2145 REMARK 3 RESIDUE RANGE : A 2305 A 2307 REMARK 3 ORIGIN FOR THE GROUP (A): 155.6060 -63.0550 174.6330 REMARK 3 T TENSOR REMARK 3 T11: 0.3313 T22: 0.3471 REMARK 3 T33: 0.4260 T12: -0.0421 REMARK 3 T13: -0.0453 T23: 0.0173 REMARK 3 L TENSOR REMARK 3 L11: 1.3193 L22: 0.7459 REMARK 3 L33: 10.6094 L12: 0.7323 REMARK 3 L13: -3.6676 L23: -1.9401 REMARK 3 S TENSOR REMARK 3 S11: -0.0243 S12: 0.1745 S13: 0.0264 REMARK 3 S21: -0.1737 S22: 0.0968 S23: -0.0072 REMARK 3 S31: 0.3211 S32: -0.4193 S33: -0.0725 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 2146 A 2263 REMARK 3 RESIDUE RANGE : A 2308 A 2308 REMARK 3 ORIGIN FOR THE GROUP (A): 149.4010 -74.8770 222.1900 REMARK 3 T TENSOR REMARK 3 T11: 0.0386 T22: 0.1296 REMARK 3 T33: 0.4344 T12: -0.0311 REMARK 3 T13: -0.0101 T23: -0.0473 REMARK 3 L TENSOR REMARK 3 L11: 4.3332 L22: 2.0956 REMARK 3 L33: 10.0782 L12: 0.1747 REMARK 3 L13: 0.0918 L23: -2.0689 REMARK 3 S TENSOR REMARK 3 S11: -0.2263 S12: 0.0111 S13: -0.4326 REMARK 3 S21: 0.1593 S22: 0.0351 S23: -0.0526 REMARK 3 S31: 0.1110 S32: -1.0454 S33: 0.1912 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 5TFK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1000224115. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUL-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 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-E REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14163 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 111.510 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.50400 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: PHASER REMARK 200 STARTING MODEL: 5I8D REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CACODYLATE PH 6.2, 0.075 REMARK 280 M CALCIUM ACETATE, 28% MPD, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 38.70400 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.46600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 38.70400 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 33.46600 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 TOTAL BURIED SURFACE AREA: 290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A2410 LIES ON A SPECIAL POSITION. 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 1925 REMARK 465 LEU A 1926 REMARK 465 ALA A 1927 REMARK 465 ASP A 1928 REMARK 465 ASN A 2264 REMARK 465 ASP A 2265 REMARK 465 ASN A 2266 REMARK 465 LEU A 2267 REMARK 465 GLU A 2268 REMARK 465 HIS A 2269 REMARK 465 HIS A 2270 REMARK 465 HIS A 2271 REMARK 465 HIS A 2272 REMARK 465 HIS A 2273 REMARK 465 HIS A 2274 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 A1930 59.88 -104.08 REMARK 500 ASN A1959 76.12 -114.64 REMARK 500 ASP A1970 -131.50 63.37 REMARK 500 PRO A2012 46.46 -80.97 REMARK 500 GLN A2025 31.05 73.05 REMARK 500 VAL A2065 -61.20 -97.02 REMARK 500 ASP A2195 155.72 -47.37 REMARK 500 ASN A2224 124.19 -170.08 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 A2301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A1930 OD1 REMARK 620 2 ASN A1932 O 82.5 REMARK 620 3 ASP A1966 OD1 143.6 86.2 REMARK 620 4 ASP A1966 OD2 164.1 90.7 49.2 REMARK 620 5 ASP A1968 OD2 70.4 77.3 73.4 122.2 REMARK 620 6 TYR A1972 O 106.1 160.1 76.3 85.0 88.6 REMARK 620 7 ASP A2022 OD2 76.5 86.1 137.1 88.8 144.5 113.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A2302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A1947 OE2 REMARK 620 2 ASP A2005 OD1 93.6 REMARK 620 3 GLU A2007 OE1 80.9 81.0 REMARK 620 4 ASP A2041 OD2 103.5 159.0 89.5 REMARK 620 5 HOH A2409 O 153.4 80.0 72.6 79.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A2303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A1947 OE1 REMARK 620 2 GLU A2007 OE1 81.9 REMARK 620 3 GLU A2007 OE2 100.7 44.0 REMARK 620 4 ASP A2038 OD1 95.5 129.0 87.7 REMARK 620 5 ASP A2039 O 79.8 137.3 178.8 91.2 REMARK 620 6 ASP A2041 OD1 84.4 64.3 105.5 166.6 75.6 REMARK 620 7 ASP A2074 OD1 156.8 85.8 83.6 107.6 96.3 72.5 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A2305 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A2040 OD1 REMARK 620 2 ASN A2042 O 123.4 REMARK 620 3 ASP A2072 OD1 145.0 75.5 REMARK 620 4 ASP A2072 OD2 149.8 82.5 48.8 REMARK 620 5 ASP A2074 OD2 81.4 80.3 72.8 121.6 REMARK 620 6 ASN A2078 O 85.2 150.6 76.4 72.5 99.6 REMARK 620 7 ASP A2125 OD2 77.0 105.9 129.7 81.1 157.3 85.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A2306 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A2057 OE1 REMARK 620 2 ASP A2110 OD1 83.8 REMARK 620 3 GLU A2112 OE2 99.9 100.2 REMARK 620 4 ASP A2146 OD1 94.4 172.2 72.7 REMARK 620 5 ASP A2146 OD2 73.5 133.1 123.5 52.7 REMARK 620 6 HOH A2401 O 55.5 72.4 154.3 112.7 60.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A2307 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A2057 OE2 REMARK 620 2 GLU A2112 OE1 106.3 REMARK 620 3 GLU A2112 OE2 106.9 50.4 REMARK 620 4 ASP A2143 OD1 86.9 75.4 125.8 REMARK 620 5 ILE A2144 O 80.9 157.0 149.5 83.4 REMARK 620 6 ASP A2146 OD1 94.9 121.6 71.6 161.2 78.5 REMARK 620 7 ASP A2179 OD1 168.4 85.0 82.2 93.5 87.6 81.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A2308 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A2145 OD1 REMARK 620 2 SER A2147 O 127.5 REMARK 620 3 ASP A2177 OD1 119.5 88.2 REMARK 620 4 ASP A2177 OD2 151.6 80.8 50.6 REMARK 620 5 ASP A2179 OD2 70.0 76.8 75.1 121.4 REMARK 620 6 ASP A2239 OD2 77.3 155.2 78.3 74.5 118.6 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 2301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 2302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 2303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 2304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 2305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 2306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 2307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 2308 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5TFM RELATED DB: PDB REMARK 900 RELATED ID: 5TFL RELATED DB: PDB DBREF 5TFK A 1926 2266 UNP Q99PF4 CAD23_MOUSE 1949 2289 SEQADV 5TFK MET A 1925 UNP Q99PF4 INITIATING METHIONINE SEQADV 5TFK LEU A 2267 UNP Q99PF4 EXPRESSION TAG SEQADV 5TFK GLU A 2268 UNP Q99PF4 EXPRESSION TAG SEQADV 5TFK HIS A 2269 UNP Q99PF4 EXPRESSION TAG SEQADV 5TFK HIS A 2270 UNP Q99PF4 EXPRESSION TAG SEQADV 5TFK HIS A 2271 UNP Q99PF4 EXPRESSION TAG SEQADV 5TFK HIS A 2272 UNP Q99PF4 EXPRESSION TAG SEQADV 5TFK HIS A 2273 UNP Q99PF4 EXPRESSION TAG SEQADV 5TFK HIS A 2274 UNP Q99PF4 EXPRESSION TAG SEQRES 1 A 350 MET LEU ALA ASP GLU ASN ASP ASN HIS PRO LEU PHE THR SEQRES 2 A 350 GLU GLY THR TYR GLN ALA GLU VAL MET GLU ASN SER PRO SEQRES 3 A 350 ALA GLY THR PRO LEU THR VAL LEU ASN GLY PRO ILE LEU SEQRES 4 A 350 ALA LEU ASP ALA ASP GLU ASP VAL TYR ALA VAL VAL THR SEQRES 5 A 350 TYR GLN LEU LEU GLY THR HIS SER ASP LEU PHE VAL ILE SEQRES 6 A 350 ASP ASN SER THR GLY VAL VAL THR VAL ARG SER GLY ILE SEQRES 7 A 350 ILE ILE ASP ARG GLU ALA PHE SER PRO PRO PHE LEU GLU SEQRES 8 A 350 LEU LEU LEU LEU ALA GLU ASP ILE GLY GLN LEU ASN GLY SEQRES 9 A 350 THR ALA HIS LEU PHE ILE THR ILE LEU ASP ASP ASN ASP SEQRES 10 A 350 ASN TRP PRO THR PHE SER PRO PRO THR TYR THR VAL HIS SEQRES 11 A 350 LEU LEU GLU ASN CYS PRO PRO GLY PHE SER VAL LEU GLN SEQRES 12 A 350 VAL THR ALA THR ASP GLU ASP SER GLY LEU ASN GLY GLU SEQRES 13 A 350 LEU VAL TYR ARG ILE GLU ALA GLY ALA GLN ASP ARG PHE SEQRES 14 A 350 LEU ILE HIS PRO VAL THR GLY VAL ILE ARG VAL GLY ASN SEQRES 15 A 350 ALA THR ILE ASP ARG GLU GLU GLN GLU SER TYR ARG LEU SEQRES 16 A 350 THR VAL VAL ALA THR ASP ARG GLY THR VAL PRO LEU SER SEQRES 17 A 350 GLY THR ALA ILE VAL THR ILE LEU ILE ASP ASP ILE ASN SEQRES 18 A 350 ASP SER ARG PRO GLU PHE LEU ASN PRO ILE GLN THR VAL SEQRES 19 A 350 SER VAL LEU GLU SER ALA GLU PRO GLY THR ILE ILE ALA SEQRES 20 A 350 ASN VAL THR ALA ILE ASP LEU ASP LEU ASN PRO LYS LEU SEQRES 21 A 350 GLU TYR HIS ILE ILE SER ILE VAL ALA LYS ASP ASP THR SEQRES 22 A 350 ASP ARG LEU VAL PRO ASP GLN GLU ASP ALA PHE ALA VAL SEQRES 23 A 350 ASN ILE ASN THR GLY SER VAL MET VAL LYS SER PRO LEU SEQRES 24 A 350 ASN ARG GLU LEU VAL ALA THR TYR GLU VAL THR LEU SER SEQRES 25 A 350 VAL ILE ASP ASN ALA SER ASP LEU PRO GLU HIS SER VAL SEQRES 26 A 350 SER VAL PRO ASN ALA LYS LEU THR VAL ASN ILE LEU ASP SEQRES 27 A 350 VAL ASN ASP ASN LEU GLU HIS HIS HIS HIS HIS HIS HET CA A2301 1 HET CA A2302 1 HET CA A2303 1 HET CA A2304 1 HET CA A2305 1 HET CA A2306 1 HET CA A2307 1 HET CA A2308 1 HETNAM CA CALCIUM ION FORMUL 2 CA 8(CA 2+) FORMUL 10 HOH *10(H2 O) HELIX 1 AA1 GLU A 1969 VAL A 1974 5 6 HELIX 2 AA2 GLY A 1981 ASP A 1985 5 5 HELIX 3 AA3 ASP A 2005 PHE A 2009 5 5 HELIX 4 AA4 SER A 2075 GLY A 2079 5 5 HELIX 5 AA5 LEU A 2244 SER A 2248 5 5 SHEET 1 AA1 2 LEU A1935 PHE A1936 0 SHEET 2 AA1 2 ALA A1964 LEU A1965 -1 O LEU A1965 N LEU A1935 SHEET 1 AA2 5 THR A1956 VAL A1957 0 SHEET 2 AA2 5 THR A1940 MET A1946 -1 N GLU A1944 O THR A1956 SHEET 3 AA2 5 ASN A2027 LEU A2037 1 O HIS A2031 N TYR A1941 SHEET 4 AA2 5 PHE A2013 GLU A2021 -1 N LEU A2014 O ILE A2034 SHEET 5 AA2 5 THR A1976 LEU A1980 -1 N LEU A1980 O LEU A2017 SHEET 1 AA3 2 PHE A1987 ILE A1989 0 SHEET 2 AA3 2 VAL A1996 VAL A1998 -1 O THR A1997 N VAL A1988 SHEET 1 AA4 2 THR A2045 PHE A2046 0 SHEET 2 AA4 2 ALA A2070 THR A2071 -1 O THR A2071 N THR A2045 SHEET 1 AA5 4 THR A2050 LEU A2056 0 SHEET 2 AA5 4 SER A2132 ASP A2142 1 O THR A2138 N TYR A2051 SHEET 3 AA5 4 SER A2116 ASP A2125 -1 N TYR A2117 O ILE A2139 SHEET 4 AA5 4 LEU A2081 ALA A2087 -1 N ARG A2084 O VAL A2122 SHEET 1 AA6 3 SER A2064 GLN A2067 0 SHEET 2 AA6 3 VAL A2101 VAL A2104 -1 O ILE A2102 N LEU A2066 SHEET 3 AA6 3 PHE A2093 ILE A2095 -1 N LEU A2094 O ARG A2103 SHEET 1 AA7 2 GLU A2150 PHE A2151 0 SHEET 2 AA7 2 ALA A2175 ILE A2176 -1 O ILE A2176 N GLU A2150 SHEET 1 AA8 5 ILE A2155 LEU A2161 0 SHEET 2 AA8 5 ALA A2254 LEU A2261 1 O THR A2257 N GLN A2156 SHEET 3 AA8 5 THR A2230 ASP A2239 -1 N TYR A2231 O VAL A2258 SHEET 4 AA8 5 LEU A2184 LYS A2194 -1 N SER A2190 O THR A2234 SHEET 5 AA8 5 LEU A2200 VAL A2201 -1 O VAL A2201 N ALA A2193 SHEET 1 AA9 3 ILE A2169 ASN A2172 0 SHEET 2 AA9 3 SER A2216 VAL A2219 -1 O VAL A2217 N ALA A2171 SHEET 3 AA9 3 PHE A2208 VAL A2210 -1 N ALA A2209 O MET A2218 LINK OD1 ASN A1930 CA CA A2301 1555 1555 2.28 LINK O ASN A1932 CA CA A2301 1555 1555 2.48 LINK OE2 GLU A1947 CA CA A2302 1555 1555 2.58 LINK OE1 GLU A1947 CA CA A2303 1555 1555 2.28 LINK OD1 ASP A1966 CA CA A2301 1555 1555 2.70 LINK OD2 ASP A1966 CA CA A2301 1555 1555 2.49 LINK OD2 ASP A1968 CA CA A2301 1555 1555 2.35 LINK O TYR A1972 CA CA A2301 1555 1555 2.44 LINK OD1 ASP A2005 CA CA A2302 1555 1555 2.30 LINK OE1 GLU A2007 CA CA A2302 1555 1555 2.45 LINK OE1 GLU A2007 CA CA A2303 1555 1555 2.98 LINK OE2 GLU A2007 CA CA A2303 1555 1555 2.87 LINK OD2 ASP A2022 CA CA A2301 1555 1555 2.36 LINK OD1 ASP A2038 CA CA A2303 1555 1555 2.43 LINK O ASP A2039 CA CA A2303 1555 1555 2.38 LINK OD1 ASN A2040 CA CA A2305 1555 1555 2.26 LINK OD2 ASP A2041 CA CA A2302 1555 1555 2.08 LINK OD1 ASP A2041 CA CA A2303 1555 1555 2.32 LINK O ASN A2042 CA CA A2305 1555 1555 2.39 LINK OE1 GLU A2057 CA CA A2306 1555 1555 2.52 LINK OE2 GLU A2057 CA CA A2307 1555 1555 2.30 LINK OD1 ASP A2072 CA CA A2305 1555 1555 2.82 LINK OD2 ASP A2072 CA CA A2305 1555 1555 2.39 LINK OD1 ASP A2074 CA CA A2303 1555 1555 2.47 LINK OD2 ASP A2074 CA CA A2305 1555 1555 2.55 LINK O ASN A2078 CA CA A2305 1555 1555 2.55 LINK OD1 ASP A2110 CA CA A2306 1555 1555 2.17 LINK OE2 GLU A2112 CA CA A2306 1555 1555 2.34 LINK OE1 GLU A2112 CA CA A2307 1555 1555 2.77 LINK OE2 GLU A2112 CA CA A2307 1555 1555 2.23 LINK OD2 ASP A2125 CA CA A2305 1555 1555 2.33 LINK OD1 ASP A2143 CA CA A2307 1555 1555 2.29 LINK O ILE A2144 CA CA A2307 1555 1555 2.26 LINK OD1 ASN A2145 CA CA A2308 1555 1555 2.53 LINK OD1 ASP A2146 CA CA A2306 1555 1555 2.41 LINK OD2 ASP A2146 CA CA A2306 1555 1555 2.49 LINK OD1 ASP A2146 CA CA A2307 1555 1555 2.56 LINK O SER A2147 CA CA A2308 1555 1555 2.13 LINK OE2 GLU A2162 CA CA A2304 1555 1555 2.61 LINK OD1 ASP A2177 CA CA A2308 1555 1555 2.43 LINK OD2 ASP A2177 CA CA A2308 1555 1555 2.60 LINK OD1 ASP A2179 CA CA A2307 1555 1555 2.28 LINK OD2 ASP A2179 CA CA A2308 1555 1555 2.64 LINK OD2 ASP A2239 CA CA A2308 1555 1555 2.42 LINK CA CA A2302 O HOH A2409 1555 1555 2.32 LINK CA CA A2306 O HOH A2401 1555 1555 2.15 CISPEP 1 SER A 2010 PRO A 2011 0 13.39 CISPEP 2 SER A 2047 PRO A 2048 0 -5.63 CISPEP 3 VAL A 2251 PRO A 2252 0 4.55 SITE 1 AC1 6 ASN A1930 ASN A1932 ASP A1966 ASP A1968 SITE 2 AC1 6 TYR A1972 ASP A2022 SITE 1 AC2 5 GLU A1947 ASP A2005 GLU A2007 ASP A2041 SITE 2 AC2 5 HOH A2409 SITE 1 AC3 6 GLU A1947 GLU A2007 ASP A2038 ASP A2039 SITE 2 AC3 6 ASP A2041 ASP A2074 SITE 1 AC4 2 GLU A2162 ASP A2262 SITE 1 AC5 6 ASN A2040 ASN A2042 ASP A2072 ASP A2074 SITE 2 AC5 6 ASN A2078 ASP A2125 SITE 1 AC6 6 GLU A2057 ASP A2110 GLU A2112 ASP A2146 SITE 2 AC6 6 CA A2307 HOH A2401 SITE 1 AC7 7 GLU A2057 GLU A2112 ASP A2143 ILE A2144 SITE 2 AC7 7 ASP A2146 ASP A2179 CA A2306 SITE 1 AC8 5 ASN A2145 SER A2147 ASP A2177 ASP A2179 SITE 2 AC8 5 ASP A2239 CRYST1 77.408 66.932 112.815 90.00 98.72 90.00 C 1 2 1 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 0.012919 0.000000 0.001981 0.00000 SCALE2 0.000000 0.014941 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008968 0.00000