HEADER CELL ADHESION 25-SEP-16 5TFM TITLE CRYSTAL STRUCTURE OF HUMAN CADHERIN-23 EC6-8 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CADHERIN-23; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CADHERIN DOMAINS 6-8, RESIDUES 557-886; COMPND 5 SYNONYM: OTOCADHERIN; 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: CDH23, KIAA1774, KIAA1812, UNQ1894/PRO4340; 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: PET-21A 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 5TFM 1 LINK REVDAT 4 18-DEC-19 5TFM 1 REMARK REVDAT 3 19-SEP-18 5TFM 1 SOURCE JRNL REVDAT 2 01-AUG-18 5TFM 1 JRNL REVDAT 1 27-DEC-17 5TFM 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. 2.92 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) : 2.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 80.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 12825 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) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 648 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) : 2.92 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 939 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.3330 REMARK 3 BIN FREE R VALUE SET COUNT : 46 REMARK 3 BIN FREE R VALUE : 0.3590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2476 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 24 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 88.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.57000 REMARK 3 B22 (A**2) : 2.57000 REMARK 3 B33 (A**2) : -8.32000 REMARK 3 B12 (A**2) : 1.28000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.557 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.324 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.278 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 34.236 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.912 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2529 ; 0.009 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 2365 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3454 ; 1.428 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5453 ; 0.895 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 320 ; 6.102 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 113 ;39.891 ;24.867 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 404 ;16.305 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;13.538 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 410 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2863 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 543 ; 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): 1280 ; 1.542 ; 5.567 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1279 ; 1.541 ; 5.568 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1597 ; 2.576 ; 8.349 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1598 ; 2.576 ; 8.348 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1249 ; 1.536 ; 5.762 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1250 ; 1.535 ; 5.762 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1856 ; 2.633 ; 8.572 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2606 ; 4.118 ;64.112 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2605 ; 4.096 ;64.110 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 534 A 642 REMARK 3 RESIDUE RANGE : A 902 A 903 REMARK 3 ORIGIN FOR THE GROUP (A): 6.2503 17.7141 58.8874 REMARK 3 T TENSOR REMARK 3 T11: 0.1128 T22: 0.1672 REMARK 3 T33: 0.2968 T12: 0.0852 REMARK 3 T13: -0.0187 T23: 0.0627 REMARK 3 L TENSOR REMARK 3 L11: 2.2547 L22: 6.9277 REMARK 3 L33: 10.1776 L12: 2.0895 REMARK 3 L13: -2.0781 L23: -5.4872 REMARK 3 S TENSOR REMARK 3 S11: -0.1273 S12: -0.3641 S13: -0.2726 REMARK 3 S21: 0.5298 S22: 0.0092 S23: -0.0027 REMARK 3 S31: -0.5245 S32: -0.6058 S33: 0.1181 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 643 A 749 REMARK 3 RESIDUE RANGE : A 901 A 901 REMARK 3 RESIDUE RANGE : A 904 A 905 REMARK 3 ORIGIN FOR THE GROUP (A): 11.2597 35.9838 15.6401 REMARK 3 T TENSOR REMARK 3 T11: 0.1117 T22: 0.5247 REMARK 3 T33: 0.1486 T12: -0.1856 REMARK 3 T13: 0.0070 T23: -0.0317 REMARK 3 L TENSOR REMARK 3 L11: 0.9666 L22: 2.9413 REMARK 3 L33: 11.9931 L12: 1.3645 REMARK 3 L13: -3.2774 L23: -4.1172 REMARK 3 S TENSOR REMARK 3 S11: -0.2015 S12: 0.5619 S13: 0.0602 REMARK 3 S21: -0.3392 S22: 0.5546 S23: 0.0343 REMARK 3 S31: 0.3945 S32: -1.7190 S33: -0.3530 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 750 A 858 REMARK 3 RESIDUE RANGE : A 906 A 906 REMARK 3 ORIGIN FOR THE GROUP (A): 23.1440 51.2558 -31.6852 REMARK 3 T TENSOR REMARK 3 T11: 0.3799 T22: 0.3404 REMARK 3 T33: 0.2529 T12: -0.0850 REMARK 3 T13: 0.0981 T23: -0.0796 REMARK 3 L TENSOR REMARK 3 L11: 2.9023 L22: 3.8187 REMARK 3 L33: 8.4532 L12: 0.7295 REMARK 3 L13: -0.5959 L23: -2.6270 REMARK 3 S TENSOR REMARK 3 S11: 0.2677 S12: 0.2511 S13: 0.1480 REMARK 3 S21: -0.6146 S22: -0.4144 S23: -0.1814 REMARK 3 S31: 0.3065 S32: -0.1755 S33: 0.1467 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 5TFM 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_1000224140. 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 : 6.8 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 : 13518 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.920 REMARK 200 RESOLUTION RANGE LOW (A) : 80.890 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.0800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.59200 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: 5TFL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 70.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES PH 6.8, 1.2 M NACL, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 1 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -Y,-X,-Z+1/3 REMARK 290 5555 -X+Y,Y,-Z+2/3 REMARK 290 6555 X,X-Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 81.59067 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 40.79533 REMARK 290 SMTRY1 4 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 40.79533 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 81.59067 REMARK 290 SMTRY1 6 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 A1014 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 533 REMARK 465 SER A 567 REMARK 465 PRO A 568 REMARK 465 PRO A 569 REMARK 465 ASN A 570 REMARK 465 ASN A 571 REMARK 465 ASP A 859 REMARK 465 LEU A 860 REMARK 465 ASN A 861 REMARK 465 ASP A 862 REMARK 465 ASN A 863 REMARK 465 LEU A 864 REMARK 465 GLU A 865 REMARK 465 HIS A 866 REMARK 465 HIS A 867 REMARK 465 HIS A 868 REMARK 465 HIS A 869 REMARK 465 HIS A 870 REMARK 465 HIS A 871 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 556 67.21 -153.58 REMARK 500 ALA A 623 32.96 -87.89 REMARK 500 ASN A 660 47.21 -95.00 REMARK 500 ASP A 712 98.45 -160.44 REMARK 500 GLU A 820 60.03 -107.14 REMARK 500 CYS A 840 42.67 -108.52 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 902 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 549 OE2 REMARK 620 2 GLU A 607 OE1 85.3 REMARK 620 3 GLU A 607 OE2 121.1 51.0 REMARK 620 4 ASP A 640 OD1 85.4 109.7 77.2 REMARK 620 5 GLU A 641 O 76.6 158.3 150.2 81.0 REMARK 620 6 ASP A 643 OD1 79.4 73.6 114.5 164.2 91.2 REMARK 620 7 ASP A 676 OD1 147.5 100.2 85.1 121.4 89.2 71.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 903 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 549 OE1 REMARK 620 2 ASP A 605 OD1 95.1 REMARK 620 3 GLU A 607 OE1 80.5 89.4 REMARK 620 4 ASP A 643 OD1 93.0 153.2 66.8 REMARK 620 5 ASP A 643 OD2 95.1 159.6 109.7 43.2 REMARK 620 6 HOH A1006 O 153.7 89.2 73.6 72.8 89.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 901 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 642 OD1 REMARK 620 2 ASN A 644 O 105.5 REMARK 620 3 ASP A 674 OD1 154.9 84.2 REMARK 620 4 ASP A 674 OD2 151.7 81.1 51.4 REMARK 620 5 ASP A 676 OD2 74.6 79.0 84.9 133.5 REMARK 620 6 TYR A 681 O 86.9 164.1 80.5 92.7 95.2 REMARK 620 7 ASP A 727 OD2 73.0 85.8 131.6 80.3 138.8 107.7 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 904 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 659 OE2 REMARK 620 2 ASP A 712 OD1 114.1 REMARK 620 3 GLU A 714 OE2 71.0 90.7 REMARK 620 4 ASP A 750 OD2 93.9 151.0 91.4 REMARK 620 5 HOH A1009 O 151.8 75.0 82.6 76.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 905 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 659 OE1 REMARK 620 2 GLU A 714 OE1 105.6 REMARK 620 3 GLU A 714 OE2 89.6 50.7 REMARK 620 4 ASP A 747 OD1 81.6 82.2 127.6 REMARK 620 5 ILE A 748 O 86.6 155.5 152.6 78.6 REMARK 620 6 ASP A 750 OD1 87.7 121.4 73.2 156.2 79.6 REMARK 620 7 ASP A 783 OD1 169.9 81.5 89.4 106.9 89.7 82.4 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 906 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 749 OD1 REMARK 620 2 ASN A 751 O 106.7 REMARK 620 3 ASP A 781 OD1 152.9 90.5 REMARK 620 4 ASP A 781 OD2 152.2 79.2 50.4 REMARK 620 5 ASP A 783 OD2 80.3 85.7 80.2 127.5 REMARK 620 6 ASN A 787 O 90.0 162.1 76.7 83.0 103.9 REMARK 620 7 ASP A 839 OD2 76.1 90.6 125.6 76.6 154.0 87.0 REMARK 620 N 1 2 3 4 5 6 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 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 904 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 905 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 906 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5TFK RELATED DB: PDB REMARK 900 RELATED ID: 5TFL RELATED DB: PDB DBREF 5TFM A 534 863 UNP Q9H251 CAD23_HUMAN 557 886 SEQADV 5TFM MET A 533 UNP Q9H251 INITIATING METHIONINE SEQADV 5TFM LEU A 864 UNP Q9H251 EXPRESSION TAG SEQADV 5TFM GLU A 865 UNP Q9H251 EXPRESSION TAG SEQADV 5TFM HIS A 866 UNP Q9H251 EXPRESSION TAG SEQADV 5TFM HIS A 867 UNP Q9H251 EXPRESSION TAG SEQADV 5TFM HIS A 868 UNP Q9H251 EXPRESSION TAG SEQADV 5TFM HIS A 869 UNP Q9H251 EXPRESSION TAG SEQADV 5TFM HIS A 870 UNP Q9H251 EXPRESSION TAG SEQADV 5TFM HIS A 871 UNP Q9H251 EXPRESSION TAG SEQRES 1 A 339 MET ASN VAL PRO THR PHE GLN LYS ASP ALA TYR VAL GLY SEQRES 2 A 339 ALA LEU ARG GLU ASN GLU PRO SER VAL THR GLN LEU VAL SEQRES 3 A 339 ARG LEU ARG ALA THR ASP GLU ASP SER PRO PRO ASN ASN SEQRES 4 A 339 GLN ILE THR TYR SER ILE VAL SER ALA SER ALA PHE GLY SEQRES 5 A 339 SER TYR PHE ASP ILE SER LEU TYR GLU GLY TYR GLY VAL SEQRES 6 A 339 ILE SER VAL SER ARG PRO LEU ASP TYR GLU GLN ILE SER SEQRES 7 A 339 ASN GLY LEU ILE TYR LEU THR VAL MET ALA MET ASP ALA SEQRES 8 A 339 GLY ASN PRO PRO LEU ASN SER THR VAL PRO VAL THR ILE SEQRES 9 A 339 GLU VAL PHE ASP GLU ASN ASP ASN PRO PRO THR PHE SER SEQRES 10 A 339 LYS PRO ALA TYR PHE VAL SER VAL VAL GLU ASN ILE MET SEQRES 11 A 339 ALA GLY ALA THR VAL LEU PHE LEU ASN ALA THR ASP LEU SEQRES 12 A 339 ASP ARG SER ARG GLU TYR GLY GLN GLU SER ILE ILE TYR SEQRES 13 A 339 SER LEU GLU GLY SER THR GLN PHE ARG ILE ASN ALA ARG SEQRES 14 A 339 SER GLY GLU ILE THR THR THR SER LEU LEU ASP ARG GLU SEQRES 15 A 339 THR LYS SER GLU TYR ILE LEU ILE VAL ARG ALA VAL ASP SEQRES 16 A 339 GLY GLY VAL GLY HIS ASN GLN LYS THR GLY ILE ALA THR SEQRES 17 A 339 VAL ASN ILE THR LEU LEU ASP ILE ASN ASP ASN HIS PRO SEQRES 18 A 339 THR TRP LYS ASP ALA PRO TYR TYR ILE ASN LEU VAL GLU SEQRES 19 A 339 MET THR PRO PRO ASP SER ASP VAL THR THR VAL VAL ALA SEQRES 20 A 339 VAL ASP PRO ASP LEU GLY GLU ASN GLY THR LEU VAL TYR SEQRES 21 A 339 SER ILE GLN PRO PRO ASN LYS PHE TYR SER LEU ASN SER SEQRES 22 A 339 THR THR GLY LYS ILE ARG THR THR HIS ALA MET LEU ASP SEQRES 23 A 339 ARG GLU ASN PRO ASP PRO HIS GLU ALA GLU LEU MET ARG SEQRES 24 A 339 LYS ILE VAL VAL SER VAL THR ASP CYS GLY ARG PRO PRO SEQRES 25 A 339 LEU LYS ALA THR SER SER ALA THR VAL PHE VAL ASN LEU SEQRES 26 A 339 LEU ASP LEU ASN ASP ASN LEU GLU HIS HIS HIS HIS HIS SEQRES 27 A 339 HIS HET CA A 901 1 HET CA A 902 1 HET CA A 903 1 HET NA A 904 1 HET CA A 905 1 HET CA A 906 1 HETNAM CA CALCIUM ION HETNAM NA SODIUM ION FORMUL 2 CA 5(CA 2+) FORMUL 5 NA NA 1+ FORMUL 8 HOH *24(H2 O) HELIX 1 AA1 PHE A 583 SER A 585 5 3 HELIX 2 AA2 ASP A 605 ASN A 611 5 7 HELIX 3 AA3 GLY A 682 ILE A 686 5 5 HELIX 4 AA4 VAL A 730 GLN A 734 5 5 HELIX 5 AA5 LEU A 784 THR A 789 1 6 HELIX 6 AA6 ASP A 823 LEU A 829 1 7 SHEET 1 AA1 2 THR A 537 PHE A 538 0 SHEET 2 AA1 2 ALA A 562 THR A 563 -1 O THR A 563 N THR A 537 SHEET 1 AA2 4 TYR A 543 ARG A 548 0 SHEET 2 AA2 4 ASN A 629 PHE A 639 1 O GLU A 637 N GLY A 545 SHEET 3 AA2 4 LEU A 613 MET A 621 -1 N ILE A 614 O ILE A 636 SHEET 4 AA2 4 THR A 574 ALA A 580 -1 N VAL A 578 O THR A 617 SHEET 1 AA3 3 VAL A 554 LEU A 560 0 SHEET 2 AA3 3 TYR A 595 VAL A 600 -1 O GLY A 596 N LEU A 560 SHEET 3 AA3 3 PHE A 587 TYR A 592 -1 N ASP A 588 O SER A 599 SHEET 1 AA4 2 THR A 647 PHE A 648 0 SHEET 2 AA4 2 ALA A 672 THR A 673 -1 O THR A 673 N THR A 647 SHEET 1 AA5 4 ALA A 652 VAL A 658 0 SHEET 2 AA5 4 THR A 736 LEU A 746 1 O ASN A 742 N TYR A 653 SHEET 3 AA5 4 GLU A 718 VAL A 726 -1 N VAL A 723 O ALA A 739 SHEET 4 AA5 4 ILE A 687 GLU A 691 -1 N GLU A 691 O ILE A 722 SHEET 1 AA6 3 THR A 666 PHE A 669 0 SHEET 2 AA6 3 GLU A 704 THR A 707 -1 O ILE A 705 N LEU A 668 SHEET 3 AA6 3 PHE A 696 ILE A 698 -1 N ARG A 697 O THR A 706 SHEET 1 AA7 2 THR A 754 TRP A 755 0 SHEET 2 AA7 2 ALA A 779 VAL A 780 -1 O VAL A 780 N THR A 754 SHEET 1 AA8 4 TYR A 760 LEU A 764 0 SHEET 2 AA8 4 ALA A 851 LEU A 857 1 O PHE A 854 N TYR A 760 SHEET 3 AA8 4 LYS A 832 ASP A 839 -1 N VAL A 835 O ALA A 851 SHEET 4 AA8 4 LEU A 790 ILE A 794 -1 N SER A 793 O SER A 836 SHEET 1 AA9 3 ASP A 773 THR A 776 0 SHEET 2 AA9 3 LYS A 809 THR A 812 -1 O ILE A 810 N VAL A 774 SHEET 3 AA9 3 TYR A 801 LEU A 803 -1 N SER A 802 O ARG A 811 LINK OE2 GLU A 549 CA CA A 902 1555 1555 2.36 LINK OE1 GLU A 549 CA CA A 903 1555 1555 2.31 LINK OD1 ASP A 605 CA CA A 903 1555 1555 1.99 LINK OE1 GLU A 607 CA CA A 902 1555 1555 2.74 LINK OE2 GLU A 607 CA CA A 902 1555 1555 2.19 LINK OE1 GLU A 607 CA CA A 903 1555 1555 2.32 LINK OD1 ASP A 640 CA CA A 902 1555 1555 2.12 LINK O GLU A 641 CA CA A 902 1555 1555 2.29 LINK OD1 ASN A 642 CA CA A 901 1555 1555 2.31 LINK OD1 ASP A 643 CA CA A 902 1555 1555 2.42 LINK OD1 ASP A 643 CA CA A 903 1555 1555 3.17 LINK OD2 ASP A 643 CA CA A 903 1555 1555 2.36 LINK O ASN A 644 CA CA A 901 1555 1555 2.38 LINK OE2 GLU A 659 NA NA A 904 1555 1555 2.40 LINK OE1 GLU A 659 CA CA A 905 1555 1555 2.24 LINK OD1 ASP A 674 CA CA A 901 1555 1555 2.56 LINK OD2 ASP A 674 CA CA A 901 1555 1555 2.40 LINK OD2 ASP A 676 CA CA A 901 1555 1555 2.38 LINK OD1 ASP A 676 CA CA A 902 1555 1555 2.27 LINK O TYR A 681 CA CA A 901 1555 1555 2.25 LINK OD1 ASP A 712 NA NA A 904 1555 1555 2.16 LINK OE2 GLU A 714 NA NA A 904 1555 1555 2.71 LINK OE1 GLU A 714 CA CA A 905 1555 1555 2.36 LINK OE2 GLU A 714 CA CA A 905 1555 1555 2.71 LINK OD2 ASP A 727 CA CA A 901 1555 1555 2.55 LINK OD1 ASP A 747 CA CA A 905 1555 1555 2.19 LINK O ILE A 748 CA CA A 905 1555 1555 2.47 LINK OD1 ASN A 749 CA CA A 906 1555 1555 2.30 LINK OD2 ASP A 750 NA NA A 904 1555 1555 2.22 LINK OD1 ASP A 750 CA CA A 905 1555 1555 2.22 LINK O ASN A 751 CA CA A 906 1555 1555 2.40 LINK OD1 ASP A 781 CA CA A 906 1555 1555 2.57 LINK OD2 ASP A 781 CA CA A 906 1555 1555 2.54 LINK OD1 ASP A 783 CA CA A 905 1555 1555 2.34 LINK OD2 ASP A 783 CA CA A 906 1555 1555 2.56 LINK O ASN A 787 CA CA A 906 1555 1555 2.41 LINK OD2 ASP A 839 CA CA A 906 1555 1555 2.91 LINK CA CA A 903 O HOH A1006 1555 1555 2.23 LINK NA NA A 904 O HOH A1009 1555 1555 2.35 CISPEP 1 ASN A 625 PRO A 626 0 -3.74 CISPEP 2 ALA A 758 PRO A 759 0 0.92 CISPEP 3 GLN A 795 PRO A 796 0 -4.43 CISPEP 4 ARG A 842 PRO A 843 0 -2.51 SITE 1 AC1 6 ASN A 642 ASN A 644 ASP A 674 ASP A 676 SITE 2 AC1 6 TYR A 681 ASP A 727 SITE 1 AC2 6 GLU A 549 GLU A 607 ASP A 640 GLU A 641 SITE 2 AC2 6 ASP A 643 ASP A 676 SITE 1 AC3 5 GLU A 549 ASP A 605 GLU A 607 ASP A 643 SITE 2 AC3 5 HOH A1006 SITE 1 AC4 5 GLU A 659 ASP A 712 GLU A 714 ASP A 750 SITE 2 AC4 5 HOH A1009 SITE 1 AC5 6 GLU A 659 GLU A 714 ASP A 747 ILE A 748 SITE 2 AC5 6 ASP A 750 ASP A 783 SITE 1 AC6 6 ASN A 749 ASN A 751 ASP A 781 ASP A 783 SITE 2 AC6 6 ASN A 787 ASP A 839 CRYST1 93.407 93.407 122.386 90.00 90.00 120.00 P 32 1 2 6 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 0.010706 0.006181 0.000000 0.00000 SCALE2 0.000000 0.012362 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008171 0.00000