HEADER STRUCTURAL PROTEIN 10-JUL-03 1PZ9 TITLE MODULATION OF AGRIN FUNCTION BY ALTERNATIVE SPLICING AND TITLE 2 CA2+ BINDING COMPND MOL_ID: 1; COMPND 2 MOLECULE: AGRIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 FRAGMENT: BASAL LAMINA DOMAIN; SOURCE 3 ORGANISM_SCIENTIFIC: GALLUS GALLUS; SOURCE 4 ORGANISM_COMMON: CHICKEN; SOURCE 5 ORGANISM_TAXID: 9031; SOURCE 6 GENE: AGRN; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS AGRIN, STRUCTURAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.STETEFELD,A.T.ALEXANDRESCU,M.W.MACIEJEWSKI,M.JENNY, AUTHOR 2 K.RATHGEB-SZABO,T.SCHULTHESS,R.LANDWEHR,S.FRANK,M.A.RUEGG, AUTHOR 3 R.A.KAMMERER REVDAT 2 24-FEB-09 1PZ9 1 VERSN REVDAT 1 13-APR-04 1PZ9 0 JRNL AUTH J.STETEFELD,A.T.ALEXANDRESCU,M.W.MACIEJEWSKI, JRNL AUTH 2 M.JENNY,K.RATHGEB-SZABO,T.SCHULTHESS,R.LANDWEHR, JRNL AUTH 3 S.FRANK,M.A.RUEGG,R.A.KAMMERER JRNL TITL MODULATION OF AGRIN FUNCTION BY ALTERNATIVE JRNL TITL 2 SPLICING AND CA2+ BINDING. JRNL REF STRUCTURE V. 12 503 2004 JRNL REFN ISSN 0969-2126 JRNL PMID 15016366 JRNL DOI 10.1016/J.STR.2004.02.001 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 8056 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) : 0.240 REMARK 3 R VALUE (WORKING SET) : 0.238 REMARK 3 FREE R VALUE : 0.271 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 394 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) : 574 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3350 REMARK 3 BIN FREE R VALUE SET COUNT : 37 REMARK 3 BIN FREE R VALUE : 0.3610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2873 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 75 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.41000 REMARK 3 B22 (A**2) : 0.95000 REMARK 3 B33 (A**2) : -4.88000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -3.60000 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): 0.467 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.593 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 29.275 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.897 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2932 ; 0.016 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2652 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3975 ; 1.605 ; 1.946 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6167 ; 0.808 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 368 ; 2.383 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 512 ;16.994 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 453 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3264 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 570 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 687 ; 0.277 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2803 ; 0.261 ; 0.300 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): 203 ; 0.158 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): 7 ; 0.165 ; 0.500 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): 58 ; 0.258 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 134 ; 0.308 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.318 ; 0.500 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): 1839 ; 0.756 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2948 ; 1.386 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1093 ; 1.600 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1027 ; 2.724 ; 4.500 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 : 2 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 12 A 30 REMARK 3 RESIDUE RANGE : A 45 A 204 REMARK 3 ORIGIN FOR THE GROUP (A): 18.4420 8.0650 2.1660 REMARK 3 T TENSOR REMARK 3 T11: 0.0251 T22: 0.3917 REMARK 3 T33: 0.7505 T12: -0.0615 REMARK 3 T13: 0.1138 T23: -0.0403 REMARK 3 L TENSOR REMARK 3 L11: 1.0754 L22: 0.4367 REMARK 3 L33: 2.1634 L12: -0.1796 REMARK 3 L13: -0.2299 L23: -1.2178 REMARK 3 S TENSOR REMARK 3 S11: 0.0201 S12: -0.0920 S13: 0.0614 REMARK 3 S21: -0.1765 S22: 0.0446 S23: 0.0360 REMARK 3 S31: 0.2115 S32: 0.0107 S33: -0.0646 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 : B 12 B 30 REMARK 3 RESIDUE RANGE : B 45 B 204 REMARK 3 ORIGIN FOR THE GROUP (A): 2.7780 17.5130 37.4850 REMARK 3 T TENSOR REMARK 3 T11: 0.0362 T22: 0.3332 REMARK 3 T33: 0.7050 T12: -0.0398 REMARK 3 T13: 0.1457 T23: -0.0250 REMARK 3 L TENSOR REMARK 3 L11: 1.4322 L22: 0.3637 REMARK 3 L33: 1.8810 L12: -0.6450 REMARK 3 L13: -0.6150 L23: 0.6605 REMARK 3 S TENSOR REMARK 3 S11: 0.0238 S12: 0.1326 S13: 0.0362 REMARK 3 S21: 0.0341 S22: -0.0598 S23: -0.0305 REMARK 3 S31: 0.2263 S32: -0.1356 S33: 0.0360 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: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 1PZ9 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JUL-03. REMARK 100 THE RCSB ID CODE IS RCSB019720. 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 : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8472 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.780 REMARK 200 RESOLUTION RANGE LOW (A) : 30.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10200 REMARK 200 FOR THE DATA SET : 13.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, PH 6.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 276K 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 51.08450 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.37550 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 51.08450 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 28.37550 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 GLU A 1 REMARK 465 LYS A 2 REMARK 465 VAL A 3 REMARK 465 ILE A 4 REMARK 465 ILE A 5 REMARK 465 GLU A 6 REMARK 465 LYS A 7 REMARK 465 ALA A 8 REMARK 465 ALA A 9 REMARK 465 SER A 35 REMARK 465 ASN A 36 REMARK 465 GLU A 37 REMARK 465 ILE A 38 REMARK 465 PRO A 39 REMARK 465 ALA A 200 REMARK 465 LYS A 201 REMARK 465 GLU B 1 REMARK 465 LYS B 2 REMARK 465 VAL B 3 REMARK 465 ILE B 4 REMARK 465 ILE B 5 REMARK 465 GLU B 6 REMARK 465 LYS B 7 REMARK 465 ALA B 8 REMARK 465 ALA B 9 REMARK 465 GLY B 10 REMARK 465 SER B 35 REMARK 465 ASN B 36 REMARK 465 GLU B 37 REMARK 465 ILE B 38 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 PRO B 39 CD REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 235 O HOH B 236 1.99 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 81 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 175 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 ASP B 11 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 PRO B 39 N - CA - CB ANGL. DEV. = 8.3 DEGREES REMARK 500 ASP B 81 CB - CG - OD2 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP B 179 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 11 -118.60 79.17 REMARK 500 ARG A 20 14.33 -145.05 REMARK 500 HIS A 26 -62.22 -97.36 REMARK 500 ASN A 27 108.29 61.28 REMARK 500 ALA A 28 77.79 95.48 REMARK 500 VAL A 29 132.78 173.01 REMARK 500 THR A 30 122.50 -40.00 REMARK 500 LYS A 31 -15.81 -144.06 REMARK 500 SER A 32 -85.25 167.48 REMARK 500 HIS A 33 -122.36 -86.85 REMARK 500 GLU A 41 177.19 -48.29 REMARK 500 ALA A 43 77.84 -115.36 REMARK 500 LYS A 93 153.26 80.09 REMARK 500 TRP A 108 129.52 -31.68 REMARK 500 GLN A 117 -95.99 63.83 REMARK 500 GLU A 127 169.30 -45.66 REMARK 500 ALA A 138 161.24 -49.55 REMARK 500 THR A 139 -6.92 -144.62 REMARK 500 GLU A 153 -85.82 -54.26 REMARK 500 ARG A 154 103.41 -55.83 REMARK 500 SER A 156 -53.83 -25.74 REMARK 500 VAL A 157 44.86 -67.15 REMARK 500 LYS A 163 -30.81 -38.64 REMARK 500 VAL A 186 -74.83 -64.02 REMARK 500 ASN A 192 68.92 33.58 REMARK 500 HIS A 197 -178.08 -64.17 REMARK 500 ALA B 12 100.97 -20.76 REMARK 500 ASN B 27 96.51 15.00 REMARK 500 ALA B 28 98.85 100.22 REMARK 500 VAL B 29 128.82 156.43 REMARK 500 THR B 30 141.39 -35.70 REMARK 500 LYS B 31 -33.74 -155.78 REMARK 500 SER B 32 -44.31 173.52 REMARK 500 HIS B 33 -139.10 -132.59 REMARK 500 ALA B 40 -83.70 -83.95 REMARK 500 GLU B 70 -32.63 -33.24 REMARK 500 ASP B 81 23.04 42.01 REMARK 500 SER B 92 37.28 -144.80 REMARK 500 LYS B 93 144.16 81.83 REMARK 500 ASN B 106 18.98 31.58 REMARK 500 GLN B 117 -116.87 51.34 REMARK 500 GLU B 127 -174.32 -65.19 REMARK 500 ALA B 138 133.20 -39.20 REMARK 500 GLU B 153 -49.85 -28.49 REMARK 500 ARG B 154 25.20 -55.25 REMARK 500 SER B 156 35.50 -147.89 REMARK 500 LEU B 185 -57.86 -29.23 REMARK 500 VAL B 186 -74.04 -75.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B 225 DISTANCE = 5.32 ANGSTROMS REMARK 525 HOH A 228 DISTANCE = 5.38 ANGSTROMS REMARK 525 HOH A 231 DISTANCE = 6.64 ANGSTROMS REMARK 525 HOH A 232 DISTANCE = 8.42 ANGSTROMS REMARK 525 HOH B 232 DISTANCE = 6.44 ANGSTROMS REMARK 525 HOH A 234 DISTANCE = 5.20 ANGSTROMS REMARK 525 HOH B 235 DISTANCE = 7.62 ANGSTROMS REMARK 525 HOH A 236 DISTANCE = 5.18 ANGSTROMS REMARK 525 HOH B 236 DISTANCE = 8.13 ANGSTROMS REMARK 525 HOH A 237 DISTANCE = 6.12 ANGSTROMS REMARK 525 HOH B 237 DISTANCE = 10.64 ANGSTROMS REMARK 525 HOH A 238 DISTANCE = 6.50 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PZ7 RELATED DB: PDB REMARK 900 G3 DOMAIN OF AGRIN WITH B11 INSERT AND WITH CALCIUM REMARK 900 RELATED ID: 1PZ8 RELATED DB: PDB REMARK 900 G3 DOMAIN OF AGRIN WITH B8 INSERT AND WITH CALCIUM REMARK 900 RELATED ID: 1Q56 RELATED DB: PDB REMARK 900 NMR STRUCTURE OF THE B0 ISOFORM OF THE AGRIN G3 DOMAIN IN REMARK 900 ITS CA2+ BOUND STATE REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE C-TERMINAL AGRIN DOMAIN HAS ALTERNATIVE SPLICE REMARK 999 VARIANTS, WE SOLVED THE STRUCTURE OF B11 (1PZ7) AND REMARK 999 B8 WITH (1PZ8) AND WITHOUT (1PZ9) CALCIUM, THEREFORE REMARK 999 THE SEQUENCE-FILE CONATINS EITHER 11 OR 8 RESIDUES REMARK 999 MORE THAN THE SO CALLED B0-INSERT, THE INSERT STARTS REMARK 999 AT TKS- AND ENDS AT EKA, B11:PDALDYPAEPS B8:HLSNEIPA REMARK 999 HOWEVER, NOT ALL THE SPLICE-RESIDUES ARE DETECTABLE REMARK 999 IN THE ELECTRON DENSITY MAP DBREF 1PZ9 A 1 201 UNP P31696 AGRN_CHICK 1752 1955 DBREF 1PZ9 B 1 201 UNP P31696 AGRN_CHICK 1752 1955 SEQADV 1PZ9 HIS A 33 UNP P31696 PRO 1784 SEE REMARK 999 SEQADV 1PZ9 LEU A 34 UNP P31696 ASP 1785 SEE REMARK 999 SEQADV 1PZ9 SER A 35 UNP P31696 ALA 1786 SEE REMARK 999 SEQADV 1PZ9 ASN A 36 UNP P31696 LEU 1787 SEE REMARK 999 SEQADV 1PZ9 GLU A 37 UNP P31696 ASP 1788 SEE REMARK 999 SEQADV 1PZ9 ILE A 38 UNP P31696 TYR 1789 SEE REMARK 999 SEQADV 1PZ9 A 42 UNP P31696 PRO 1793 SEE REMARK 999 SEQADV 1PZ9 A 43 UNP P31696 SER 1794 SEE REMARK 999 SEQADV 1PZ9 A 44 UNP P31696 GLU 1795 SEE REMARK 999 SEQADV 1PZ9 HIS B 33 UNP P31696 PRO 1784 SEE REMARK 999 SEQADV 1PZ9 LEU B 34 UNP P31696 ASP 1785 SEE REMARK 999 SEQADV 1PZ9 SER B 35 UNP P31696 ALA 1786 SEE REMARK 999 SEQADV 1PZ9 ASN B 36 UNP P31696 LEU 1787 SEE REMARK 999 SEQADV 1PZ9 GLU B 37 UNP P31696 ASP 1788 SEE REMARK 999 SEQADV 1PZ9 ILE B 38 UNP P31696 TYR 1789 SEE REMARK 999 SEQADV 1PZ9 B 42 UNP P31696 PRO 1793 SEE REMARK 999 SEQADV 1PZ9 B 43 UNP P31696 SER 1794 SEE REMARK 999 SEQADV 1PZ9 B 44 UNP P31696 GLU 1795 SEE REMARK 999 SEQRES 1 A 201 GLU LYS VAL ILE ILE GLU LYS ALA ALA GLY ASP ALA GLU SEQRES 2 A 201 ALA ILE ALA PHE ASP GLY ARG THR TYR MET GLU TYR HIS SEQRES 3 A 201 ASN ALA VAL THR LYS SER HIS LEU SER ASN GLU ILE PRO SEQRES 4 A 201 ALA GLU LYS ALA LEU GLN SER ASN HIS PHE GLU LEU SER SEQRES 5 A 201 ILE LYS THR GLU ALA THR GLN GLY LEU ILE LEU TRP SER SEQRES 6 A 201 GLY LYS GLY LEU GLU ARG SER ASP TYR ILE ALA LEU ALA SEQRES 7 A 201 ILE VAL ASP GLY PHE VAL GLN MET MET TYR ASP LEU GLY SEQRES 8 A 201 SER LYS PRO VAL VAL LEU ARG SER THR VAL PRO ILE ASN SEQRES 9 A 201 THR ASN HIS TRP THR HIS ILE LYS ALA TYR ARG VAL GLN SEQRES 10 A 201 ARG GLU GLY SER LEU GLN VAL GLY ASN GLU ALA PRO ILE SEQRES 11 A 201 THR GLY SER SER PRO LEU GLY ALA THR GLN LEU ASP THR SEQRES 12 A 201 ASP GLY ALA LEU TRP LEU GLY GLY MET GLU ARG LEU SER SEQRES 13 A 201 VAL ALA HIS LYS LEU PRO LYS ALA TYR SER THR GLY PHE SEQRES 14 A 201 ILE GLY CYS ILE ARG ASP VAL ILE VAL ASP ARG GLN GLU SEQRES 15 A 201 LEU HIS LEU VAL GLU ASP ALA LEU ASN ASN PRO THR ILE SEQRES 16 A 201 LEU HIS CYS SER ALA LYS SEQRES 1 B 201 GLU LYS VAL ILE ILE GLU LYS ALA ALA GLY ASP ALA GLU SEQRES 2 B 201 ALA ILE ALA PHE ASP GLY ARG THR TYR MET GLU TYR HIS SEQRES 3 B 201 ASN ALA VAL THR LYS SER HIS LEU SER ASN GLU ILE PRO SEQRES 4 B 201 ALA GLU LYS ALA LEU GLN SER ASN HIS PHE GLU LEU SER SEQRES 5 B 201 ILE LYS THR GLU ALA THR GLN GLY LEU ILE LEU TRP SER SEQRES 6 B 201 GLY LYS GLY LEU GLU ARG SER ASP TYR ILE ALA LEU ALA SEQRES 7 B 201 ILE VAL ASP GLY PHE VAL GLN MET MET TYR ASP LEU GLY SEQRES 8 B 201 SER LYS PRO VAL VAL LEU ARG SER THR VAL PRO ILE ASN SEQRES 9 B 201 THR ASN HIS TRP THR HIS ILE LYS ALA TYR ARG VAL GLN SEQRES 10 B 201 ARG GLU GLY SER LEU GLN VAL GLY ASN GLU ALA PRO ILE SEQRES 11 B 201 THR GLY SER SER PRO LEU GLY ALA THR GLN LEU ASP THR SEQRES 12 B 201 ASP GLY ALA LEU TRP LEU GLY GLY MET GLU ARG LEU SER SEQRES 13 B 201 VAL ALA HIS LYS LEU PRO LYS ALA TYR SER THR GLY PHE SEQRES 14 B 201 ILE GLY CYS ILE ARG ASP VAL ILE VAL ASP ARG GLN GLU SEQRES 15 B 201 LEU HIS LEU VAL GLU ASP ALA LEU ASN ASN PRO THR ILE SEQRES 16 B 201 LEU HIS CYS SER ALA LYS FORMUL 3 HOH *75(H2 O) HELIX 1 1 PRO A 162 THR A 167 1 6 HELIX 2 2 HIS A 184 ALA A 189 1 6 HELIX 3 3 PRO B 162 THR B 167 5 6 HELIX 4 4 HIS B 184 ALA B 189 1 6 SHEET 1 A 6 ILE A 15 ASP A 18 0 SHEET 2 A 6 ILE A 170 VAL A 178 -1 O GLY A 171 N PHE A 17 SHEET 3 A 6 SER A 46 LYS A 54 -1 N GLU A 50 O ILE A 177 SHEET 4 A 6 THR A 109 VAL A 116 -1 O ALA A 113 N PHE A 49 SHEET 5 A 6 GLU A 119 VAL A 124 -1 O GLU A 119 N VAL A 116 SHEET 6 A 6 ILE A 130 SER A 133 -1 O ILE A 130 N LEU A 122 SHEET 1 B 3 ILE A 15 ASP A 18 0 SHEET 2 B 3 ILE A 170 VAL A 178 -1 O GLY A 171 N PHE A 17 SHEET 3 B 3 GLN A 181 GLU A 182 -1 O GLN A 181 N VAL A 178 SHEET 1 C 6 MET A 23 TYR A 25 0 SHEET 2 C 6 LEU A 147 LEU A 149 -1 O LEU A 149 N MET A 23 SHEET 3 C 6 GLN A 59 GLY A 66 -1 N TRP A 64 O TRP A 148 SHEET 4 C 6 TYR A 74 VAL A 80 -1 O ILE A 79 N GLY A 60 SHEET 5 C 6 PHE A 83 ASP A 89 -1 O GLN A 85 N ALA A 78 SHEET 6 C 6 VAL A 95 ARG A 98 -1 O LEU A 97 N MET A 86 SHEET 1 D 2 ALA A 43 LEU A 44 0 SHEET 2 D 2 LEU A 141 ASP A 142 -1 O LEU A 141 N LEU A 44 SHEET 1 E 6 ILE B 130 SER B 133 0 SHEET 2 E 6 GLU B 119 LEU B 122 -1 N LEU B 122 O ILE B 130 SHEET 3 E 6 THR B 109 VAL B 116 -1 N TYR B 114 O SER B 121 SHEET 4 E 6 SER B 46 LYS B 54 -1 N PHE B 49 O ALA B 113 SHEET 5 E 6 ILE B 170 VAL B 178 -1 O ILE B 177 N GLU B 50 SHEET 6 E 6 GLN B 181 GLU B 182 -1 O GLN B 181 N VAL B 178 SHEET 1 F 7 ILE B 130 SER B 133 0 SHEET 2 F 7 GLU B 119 LEU B 122 -1 N LEU B 122 O ILE B 130 SHEET 3 F 7 THR B 109 VAL B 116 -1 N TYR B 114 O SER B 121 SHEET 4 F 7 SER B 46 LYS B 54 -1 N PHE B 49 O ALA B 113 SHEET 5 F 7 ILE B 170 VAL B 178 -1 O ILE B 177 N GLU B 50 SHEET 6 F 7 ALA B 14 ASP B 18 -1 N PHE B 17 O GLY B 171 SHEET 7 F 7 HIS B 197 CYS B 198 -1 O CYS B 198 N ALA B 14 SHEET 1 G 6 MET B 23 TYR B 25 0 SHEET 2 G 6 LEU B 147 LEU B 149 -1 O LEU B 147 N TYR B 25 SHEET 3 G 6 GLY B 60 SER B 65 -1 N TRP B 64 O TRP B 148 SHEET 4 G 6 TYR B 74 VAL B 80 -1 O ILE B 79 N GLY B 60 SHEET 5 G 6 PHE B 83 ASP B 89 -1 O MET B 87 N ALA B 76 SHEET 6 G 6 VAL B 95 ARG B 98 -1 O LEU B 97 N MET B 86 SHEET 1 H 2 LYS B 42 LEU B 44 0 SHEET 2 H 2 LEU B 141 THR B 143 -1 O LEU B 141 N LEU B 44 SSBOND 1 CYS A 172 CYS A 198 1555 1555 2.04 SSBOND 2 CYS B 172 CYS B 198 1555 1555 2.06 CRYST1 102.169 56.751 74.889 90.00 127.04 90.00 C 1 2 1 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 0.009788 0.000000 0.007385 0.00000 SCALE2 0.000000 0.017621 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016727 0.00000