PDB Short entry for 4OM5 HEADER TOXIN 26-JAN-14 4OM5 TITLE CRYSTAL STRUCTURE OF CTX A4 FROM TAIWAN COBRA (NAJA NAJA ATRA) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOTOXIN 4; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 22-81; COMPND 5 SYNONYM: CARDIOTOXIN ANALOG IV, CTX IV, CARDIOTOXIN-A4, CTX-4, CTX-A4 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NAJA ATRA; SOURCE 3 ORGANISM_COMMON: TAIWAN COBRA; SOURCE 4 ORGANISM_TAXID: 8656; SOURCE 5 SECRETION: VENOM KEYWDS FIVE BETA SHEETS, THREE FUNCTIONAL LOOPS, ENDOCYTOSIS, HEPARIN, KEYWDS 2 HEPARAN SULFATE, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR C.C.LIN,C.I.CHANG,W.G.WU REVDAT 4 22-NOV-17 4OM5 1 REMARK REVDAT 3 30-JUL-14 4OM5 1 JRNL REVDAT 2 02-JUL-14 4OM5 1 JRNL REVDAT 1 11-JUN-14 4OM5 0 JRNL AUTH S.C.LEE,C.C.LIN,C.H.WANG,P.L.WU,H.W.HUANG,C.I.CHANG,W.G.WU JRNL TITL ENDOCYTOTIC ROUTES OF COBRA CARDIOTOXINS DEPEND ON SPATIAL JRNL TITL 2 DISTRIBUTION OF POSITIVELY CHARGED AND HYDROPHOBIC DOMAINS JRNL TITL 3 TO TARGET DISTINCT TYPES OF SULFATED GLYCOCONJUGATES ON CELL JRNL TITL 4 SURFACE. JRNL REF J.BIOL.CHEM. V. 289 20170 2014 JRNL REFN ISSN 0021-9258 JRNL PMID 24898246 JRNL DOI 10.1074/JBC.M114.557157 REMARK 2 REMARK 2 RESOLUTION. 2.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 2.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 12947 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) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.215 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 675 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) : 2.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.62 REMARK 3 REFLECTION IN BIN (WORKING SET) : 932 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2980 REMARK 3 BIN FREE R VALUE SET COUNT : 44 REMARK 3 BIN FREE R VALUE : 0.5130 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1872 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) : 42.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.15000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : -0.49000 REMARK 3 B12 (A**2) : 0.15000 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): 0.343 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.264 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.174 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.426 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.931 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.903 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1920 ; 0.017 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 1952 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2596 ; 1.907 ; 1.997 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4472 ; 0.866 ; 3.014 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 236 ; 7.888 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 64 ;22.157 ;23.125 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 368 ;17.967 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;20.228 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 296 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2072 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 404 ; 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): 956 ; 1.559 ; 1.957 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 955 ; 1.558 ; 1.956 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1188 ; 2.608 ; 2.931 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 963 ; 1.931 ; 2.058 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 60 REMARK 3 ORIGIN FOR THE GROUP (A): 25.2702 2.1708 16.3539 REMARK 3 T TENSOR REMARK 3 T11: 0.3037 T22: 0.1918 REMARK 3 T33: 0.1548 T12: -0.0589 REMARK 3 T13: 0.0079 T23: 0.0029 REMARK 3 L TENSOR REMARK 3 L11: 1.2606 L22: 0.9621 REMARK 3 L33: 2.5087 L12: 0.6267 REMARK 3 L13: 0.1166 L23: 0.5851 REMARK 3 S TENSOR REMARK 3 S11: 0.1605 S12: -0.0118 S13: -0.0535 REMARK 3 S21: 0.1568 S22: -0.2605 S23: -0.0486 REMARK 3 S31: 0.1060 S32: 0.2117 S33: 0.1000 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 60 REMARK 3 ORIGIN FOR THE GROUP (A): 30.4936 22.0318 4.2796 REMARK 3 T TENSOR REMARK 3 T11: 0.4088 T22: 0.2292 REMARK 3 T33: 0.0986 T12: -0.1475 REMARK 3 T13: 0.0219 T23: 0.0336 REMARK 3 L TENSOR REMARK 3 L11: 0.8423 L22: 2.4196 REMARK 3 L33: 2.4360 L12: -0.1731 REMARK 3 L13: 0.8581 L23: 1.6287 REMARK 3 S TENSOR REMARK 3 S11: -0.1077 S12: 0.0323 S13: -0.0047 REMARK 3 S21: -0.3336 S22: 0.0649 S23: -0.0076 REMARK 3 S31: -0.3864 S32: 0.2889 S33: 0.0428 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 60 REMARK 3 ORIGIN FOR THE GROUP (A): 7.7772 -7.8923 1.9850 REMARK 3 T TENSOR REMARK 3 T11: 0.2635 T22: 0.1538 REMARK 3 T33: 0.2130 T12: -0.0415 REMARK 3 T13: -0.0430 T23: 0.0121 REMARK 3 L TENSOR REMARK 3 L11: 0.9869 L22: 0.9426 REMARK 3 L33: 2.1520 L12: 0.1083 REMARK 3 L13: -0.0153 L23: 0.4685 REMARK 3 S TENSOR REMARK 3 S11: 0.2514 S12: 0.0505 S13: -0.1413 REMARK 3 S21: 0.0900 S22: -0.0700 S23: 0.0728 REMARK 3 S31: 0.1998 S32: -0.1401 S33: -0.1814 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 60 REMARK 3 ORIGIN FOR THE GROUP (A): 12.6016 25.6784 22.6290 REMARK 3 T TENSOR REMARK 3 T11: 0.1827 T22: 0.2855 REMARK 3 T33: 0.3896 T12: -0.0893 REMARK 3 T13: -0.0280 T23: -0.1558 REMARK 3 L TENSOR REMARK 3 L11: 1.6118 L22: 1.8846 REMARK 3 L33: 2.3344 L12: -0.3655 REMARK 3 L13: 1.2730 L23: 1.1587 REMARK 3 S TENSOR REMARK 3 S11: 0.1419 S12: -0.2434 S13: -0.0563 REMARK 3 S21: -0.0476 S22: -0.2727 S23: 0.4140 REMARK 3 S31: 0.1421 S32: -0.2491 S33: 0.1308 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 4OM5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-JAN-14. REMARK 100 THE DEPOSITION ID IS D_1000084666. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 200 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : FIXED EXIT DOUBLE CRYSTAL REMARK 200 SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-225 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13697 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.550 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 41.10 REMARK 200 R MERGE (I) : 0.15000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 41.80 REMARK 200 R MERGE FOR SHELL (I) : 0.90600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.3 M AMMONIUM SULFATE, 100 MM TRIS REMARK 280 -HCL, 200 MM LITHIUM SULFATE, PH 8.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 166.28133 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 83.14067 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 124.71100 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 41.57033 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 207.85167 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 166.28133 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 83.14067 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 41.57033 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 124.71100 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 207.85167 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS AN OLIGOMER. 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 A 123 LIES ON A SPECIAL POSITION. REMARK 375 HOH C 119 LIES ON A SPECIAL POSITION. 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 OG SER B 28 OG SER B 28 10665 1.23 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 ARG C 36 NE - CZ - NH1 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP C 57 CB - CG - OD1 ANGL. DEV. = 5.9 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 SER A 28 -13.37 72.92 REMARK 500 ASN A 29 75.37 -103.10 REMARK 500 LEU A 30 31.87 -79.45 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4OM4 RELATED DB: PDB DBREF 4OM5 A 1 60 UNP P01443 CTXA4_NAJAT 22 81 DBREF 4OM5 B 1 60 UNP P01443 CTXA4_NAJAT 22 81 DBREF 4OM5 C 1 60 UNP P01443 CTXA4_NAJAT 22 81 DBREF 4OM5 D 1 60 UNP P01443 CTXA4_NAJAT 22 81 SEQRES 1 A 60 ARG LYS CYS ASN LYS LEU VAL PRO LEU PHE TYR LYS THR SEQRES 2 A 60 CYS PRO ALA GLY LYS ASN LEU CYS TYR LYS MET PHE MET SEQRES 3 A 60 VAL SER ASN LEU THR VAL PRO VAL LYS ARG GLY CYS ILE SEQRES 4 A 60 ASP VAL CYS PRO LYS ASN SER ALA LEU VAL LYS TYR VAL SEQRES 5 A 60 CYS CYS ASN THR ASP ARG CYS ASN SEQRES 1 B 60 ARG LYS CYS ASN LYS LEU VAL PRO LEU PHE TYR LYS THR SEQRES 2 B 60 CYS PRO ALA GLY LYS ASN LEU CYS TYR LYS MET PHE MET SEQRES 3 B 60 VAL SER ASN LEU THR VAL PRO VAL LYS ARG GLY CYS ILE SEQRES 4 B 60 ASP VAL CYS PRO LYS ASN SER ALA LEU VAL LYS TYR VAL SEQRES 5 B 60 CYS CYS ASN THR ASP ARG CYS ASN SEQRES 1 C 60 ARG LYS CYS ASN LYS LEU VAL PRO LEU PHE TYR LYS THR SEQRES 2 C 60 CYS PRO ALA GLY LYS ASN LEU CYS TYR LYS MET PHE MET SEQRES 3 C 60 VAL SER ASN LEU THR VAL PRO VAL LYS ARG GLY CYS ILE SEQRES 4 C 60 ASP VAL CYS PRO LYS ASN SER ALA LEU VAL LYS TYR VAL SEQRES 5 C 60 CYS CYS ASN THR ASP ARG CYS ASN SEQRES 1 D 60 ARG LYS CYS ASN LYS LEU VAL PRO LEU PHE TYR LYS THR SEQRES 2 D 60 CYS PRO ALA GLY LYS ASN LEU CYS TYR LYS MET PHE MET SEQRES 3 D 60 VAL SER ASN LEU THR VAL PRO VAL LYS ARG GLY CYS ILE SEQRES 4 D 60 ASP VAL CYS PRO LYS ASN SER ALA LEU VAL LYS TYR VAL SEQRES 5 D 60 CYS CYS ASN THR ASP ARG CYS ASN FORMUL 5 HOH *75(H2 O) SHEET 1 A 2 LYS A 2 ASN A 4 0 SHEET 2 A 2 TYR A 11 THR A 13 -1 O LYS A 12 N CYS A 3 SHEET 1 B 3 LYS A 35 ILE A 39 0 SHEET 2 B 3 LEU A 20 MET A 26 -1 N MET A 24 O LYS A 35 SHEET 3 B 3 VAL A 49 CYS A 54 -1 O LYS A 50 N PHE A 25 SHEET 1 C 2 LYS B 2 ASN B 4 0 SHEET 2 C 2 TYR B 11 THR B 13 -1 O LYS B 12 N CYS B 3 SHEET 1 D 3 LYS B 35 ILE B 39 0 SHEET 2 D 3 LEU B 20 MET B 26 -1 N LEU B 20 O ILE B 39 SHEET 3 D 3 VAL B 49 CYS B 54 -1 O CYS B 54 N CYS B 21 SHEET 1 E 2 LYS C 2 ASN C 4 0 SHEET 2 E 2 TYR C 11 THR C 13 -1 O LYS C 12 N CYS C 3 SHEET 1 F 3 LYS C 35 ILE C 39 0 SHEET 2 F 3 LEU C 20 MET C 26 -1 N MET C 24 O LYS C 35 SHEET 3 F 3 VAL C 49 CYS C 54 -1 O LYS C 50 N PHE C 25 SHEET 1 G 2 LYS D 2 ASN D 4 0 SHEET 2 G 2 TYR D 11 THR D 13 -1 O LYS D 12 N CYS D 3 SHEET 1 H 3 LYS D 35 ILE D 39 0 SHEET 2 H 3 LEU D 20 MET D 26 -1 N MET D 24 O LYS D 35 SHEET 3 H 3 VAL D 49 CYS D 54 -1 O LYS D 50 N PHE D 25 SSBOND 1 CYS A 3 CYS A 21 1555 1555 2.06 SSBOND 2 CYS A 14 CYS A 38 1555 1555 2.13 SSBOND 3 CYS A 42 CYS A 53 1555 1555 2.21 SSBOND 4 CYS A 54 CYS A 59 1555 1555 2.04 SSBOND 5 CYS B 3 CYS B 21 1555 1555 2.05 SSBOND 6 CYS B 14 CYS B 38 1555 1555 2.10 SSBOND 7 CYS B 42 CYS B 53 1555 1555 2.15 SSBOND 8 CYS B 54 CYS B 59 1555 1555 2.01 SSBOND 9 CYS C 3 CYS C 21 1555 1555 2.01 SSBOND 10 CYS C 14 CYS C 38 1555 1555 2.11 SSBOND 11 CYS C 42 CYS C 53 1555 1555 2.17 SSBOND 12 CYS C 54 CYS C 59 1555 1555 1.98 SSBOND 13 CYS D 3 CYS D 21 1555 1555 2.03 SSBOND 14 CYS D 14 CYS D 38 1555 1555 2.09 SSBOND 15 CYS D 42 CYS D 53 1555 1555 2.10 SSBOND 16 CYS D 54 CYS D 59 1555 1555 2.00 CRYST1 72.933 72.933 249.422 90.00 90.00 120.00 P 65 2 2 48 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 0.013711 0.007916 0.000000 0.00000 SCALE2 0.000000 0.015832 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004009 0.00000