HEADER SIGNALING PROTEIN 30-JAN-24 8RU4 TITLE CRYSTAL STRUCTURE OF HUMAN CATENIN BETA-1 IN COMPLEX WITH STITCHED TITLE 2 PEPTIDE INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: CATENIN BETA-1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BETA-CATENIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: AXIN-1; COMPND 8 CHAIN: C; COMPND 9 SYNONYM: AXIS INHIBITION PROTEIN 1,HAXIN; COMPND 10 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: CTNNB1, CTNNB, OK/SW-CL.35, PRO2286; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS PEPTIDOMETIC INHIBITOR OF CATENIN BETA-1, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.YESTE VAZQUEZ,C.I.R.KLINTROT,T.N.GROSSMANN,S.HENNIG REVDAT 3 20-NOV-24 8RU4 1 JRNL REVDAT 2 13-NOV-24 8RU4 1 REMARK REVDAT 1 04-SEP-24 8RU4 0 JRNL AUTH A.YESTE-VAZQUEZ,F.M.PAULUSSEN,M.WENDT,R.KLINTROT,C.SCHULTE, JRNL AUTH 2 K.WALLRAVEN,L.VAN GIJZEL,B.SIMEONOV,M.VAN DER GAAG,A.GERBER, JRNL AUTH 3 H.M.MARIC,S.HENNIG,T.N.GROSSMANN JRNL TITL STRUCTURE-BASED DESIGN OF BICYCLIC HELICAL PEPTIDES THAT JRNL TITL 2 TARGET THE ONCOGENE BETA-CATENIN. JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 63 11749 2024 JRNL REFN ESSN 1521-3773 JRNL PMID 39167026 JRNL DOI 10.1002/ANIE.202411749 REMARK 2 REMARK 2 RESOLUTION. 2.13 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0425 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) : 2.13 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 93.96 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 72.1 REMARK 3 NUMBER OF REFLECTIONS : 51110 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.895 REMARK 3 FREE R VALUE TEST SET COUNT : 2502 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) : 2.13 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.19 REMARK 3 REFLECTION IN BIN (WORKING SET) : 95 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 2.16 REMARK 3 BIN R VALUE (WORKING SET) : 0.2780 REMARK 3 BIN FREE R VALUE SET COUNT : 7 REMARK 3 BIN FREE R VALUE : 0.2760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7696 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 119 REMARK 3 SOLVENT ATOMS : 328 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.03 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.57000 REMARK 3 B22 (A**2) : -0.82700 REMARK 3 B33 (A**2) : 0.25700 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.348 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.238 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.183 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.764 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.952 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.933 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7958 ; 0.004 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 7897 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10809 ; 1.196 ; 1.836 REMARK 3 BOND ANGLES OTHERS (DEGREES): 18090 ; 0.437 ; 1.757 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1052 ; 4.019 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 53 ; 3.207 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1379 ;13.300 ;10.102 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1345 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 9222 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1684 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1805 ; 0.197 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 68 ; 0.139 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4021 ; 0.158 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 267 ; 0.150 ; 0.200 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): 4089 ; 7.354 ; 4.605 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 4088 ; 7.345 ; 4.604 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5097 ;10.156 ; 8.242 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 5097 ;10.158 ; 8.243 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3869 ; 8.622 ; 5.192 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3867 ; 8.617 ; 5.193 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 5712 ;12.041 ; 9.303 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 5713 ;12.040 ; 9.304 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 153 A 663 NULL REMARK 3 1 A 153 A 663 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.10 REMARK 3 ION PROBE RADIUS : 0.70 REMARK 3 SHRINKAGE RADIUS : 0.70 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 8RU4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-JAN-24. REMARK 100 THE DEPOSITION ID IS D_1292135964. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-SEP-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9212 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : STARANISO REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51113 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.129 REMARK 200 RESOLUTION RANGE LOW (A) : 93.961 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 200 DATA REDUNDANCY : 13.70 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.13 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 64.9 REMARK 200 DATA REDUNDANCY IN SHELL : 14.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MRBUMP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM TRIS PH 8.75, 2%(W/V) PEG-6000, REMARK 280 CRYOPROTECTED IN 30% (W/V) GLUCOSE., VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 32.28350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 93.96150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.80850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 93.96150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.28350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.80850 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2310 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL 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 GLY A 143 REMARK 465 PRO A 144 REMARK 465 ASP A 145 REMARK 465 ALA A 146 REMARK 465 GLU A 147 REMARK 465 LEU A 148 REMARK 465 ALA A 149 REMARK 465 THR A 150 REMARK 465 ARG A 151 REMARK 465 THR A 551 REMARK 465 SER A 552 REMARK 465 MET A 553 REMARK 465 GLY A 554 REMARK 465 GLY A 555 REMARK 465 THR A 556 REMARK 465 GLN A 557 REMARK 465 GLN A 558 REMARK 465 GLN A 559 REMARK 465 ASP A 665 REMARK 465 GLY B 143 REMARK 465 PRO B 144 REMARK 465 ASP B 145 REMARK 465 ALA B 146 REMARK 465 GLU B 147 REMARK 465 LEU B 148 REMARK 465 ALA B 149 REMARK 465 THR B 150 REMARK 465 ARG B 151 REMARK 465 ALA B 152 REMARK 465 THR B 551 REMARK 465 SER B 552 REMARK 465 MET B 553 REMARK 465 GLY B 554 REMARK 465 GLY B 555 REMARK 465 THR B 556 REMARK 465 GLN B 557 REMARK 465 GLN B 558 REMARK 465 GLN B 559 REMARK 465 ASP B 665 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 LYS A 158 CG CD CE NZ REMARK 470 ARG A 190 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 225 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 226 CG CD OE1 OE2 REMARK 470 GLU A 267 CG CD OE1 OE2 REMARK 470 ARG A 550 CG CD NE CZ NH1 NH2 REMARK 470 PHE A 560 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU A 664 CG CD OE1 OE2 REMARK 470 GLU B 155 CG CD OE1 OE2 REMARK 470 LEU B 159 CG CD1 CD2 REMARK 470 LEU B 160 CG CD1 CD2 REMARK 470 SER B 179 OG REMARK 470 LYS B 180 CG CD CE NZ REMARK 470 LYS B 181 CG CD CE NZ REMARK 470 GLU B 182 CG CD OE1 OE2 REMARK 470 ARG B 185 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 190 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 193 CG CD OE1 NE2 REMARK 470 ARG B 212 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 549 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 550 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 664 CG CD OE1 OE2 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 ALA A 581 5.27 -68.91 REMARK 500 ARG B 185 -54.43 -131.04 REMARK 500 THR B 205 -47.29 -131.82 REMARK 500 ASN B 206 -6.13 72.26 REMARK 500 ALA B 581 3.75 -68.95 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 NA A 707 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 903 O REMARK 620 2 HOH A 930 O 114.1 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 707 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU B 368 O REMARK 620 2 THR B 371 OG1 148.3 REMARK 620 3 HOH B 904 O 80.2 68.1 REMARK 620 4 HOH B 957 O 92.7 116.5 157.6 REMARK 620 N 1 2 3 DBREF 8RU4 A 145 665 UNP P35222 CTNB1_HUMAN 145 665 DBREF 8RU4 B 145 665 UNP P35222 CTNB1_HUMAN 145 665 DBREF 8RU4 C 2 12 UNP O15169 AXIN1_HUMAN 469 479 SEQADV 8RU4 GLY A 143 UNP P35222 EXPRESSION TAG SEQADV 8RU4 PRO A 144 UNP P35222 EXPRESSION TAG SEQADV 8RU4 GLY B 143 UNP P35222 EXPRESSION TAG SEQADV 8RU4 PRO B 144 UNP P35222 EXPRESSION TAG SEQADV 8RU4 ACE C 1 UNP O15169 ACETYLATION SEQADV 8RU4 MH8 C 2 UNP O15169 SER 469 ENGINEERED MUTATION SEQADV 8RU4 B5I C 6 UNP O15169 GLU 473 ENGINEERED MUTATION SEQADV 8RU4 LEU C 8 UNP O15169 VAL 475 ENGINEERED MUTATION SEQADV 8RU4 MH8 C 9 UNP O15169 GLN 476 ENGINEERED MUTATION SEQADV 8RU4 TRP C 12 UNP O15169 LEU 479 ENGINEERED MUTATION SEQADV 8RU4 NH2 C 13 UNP O15169 AMIDATION SEQRES 1 A 523 GLY PRO ASP ALA GLU LEU ALA THR ARG ALA ILE PRO GLU SEQRES 2 A 523 LEU THR LYS LEU LEU ASN ASP GLU ASP GLN VAL VAL VAL SEQRES 3 A 523 ASN LYS ALA ALA VAL MET VAL HIS GLN LEU SER LYS LYS SEQRES 4 A 523 GLU ALA SER ARG HIS ALA ILE MET ARG SER PRO GLN MET SEQRES 5 A 523 VAL SER ALA ILE VAL ARG THR MET GLN ASN THR ASN ASP SEQRES 6 A 523 VAL GLU THR ALA ARG CYS THR ALA GLY THR LEU HIS ASN SEQRES 7 A 523 LEU SER HIS HIS ARG GLU GLY LEU LEU ALA ILE PHE LYS SEQRES 8 A 523 SER GLY GLY ILE PRO ALA LEU VAL LYS MET LEU GLY SER SEQRES 9 A 523 PRO VAL ASP SER VAL LEU PHE TYR ALA ILE THR THR LEU SEQRES 10 A 523 HIS ASN LEU LEU LEU HIS GLN GLU GLY ALA LYS MET ALA SEQRES 11 A 523 VAL ARG LEU ALA GLY GLY LEU GLN LYS MET VAL ALA LEU SEQRES 12 A 523 LEU ASN LYS THR ASN VAL LYS PHE LEU ALA ILE THR THR SEQRES 13 A 523 ASP CYS LEU GLN ILE LEU ALA TYR GLY ASN GLN GLU SER SEQRES 14 A 523 LYS LEU ILE ILE LEU ALA SER GLY GLY PRO GLN ALA LEU SEQRES 15 A 523 VAL ASN ILE MET ARG THR TYR THR TYR GLU LYS LEU LEU SEQRES 16 A 523 TRP THR THR SER ARG VAL LEU LYS VAL LEU SER VAL CYS SEQRES 17 A 523 SER SER ASN LYS PRO ALA ILE VAL GLU ALA GLY GLY MET SEQRES 18 A 523 GLN ALA LEU GLY LEU HIS LEU THR ASP PRO SER GLN ARG SEQRES 19 A 523 LEU VAL GLN ASN CYS LEU TRP THR LEU ARG ASN LEU SER SEQRES 20 A 523 ASP ALA ALA THR LYS GLN GLU GLY MET GLU GLY LEU LEU SEQRES 21 A 523 GLY THR LEU VAL GLN LEU LEU GLY SER ASP ASP ILE ASN SEQRES 22 A 523 VAL VAL THR CYS ALA ALA GLY ILE LEU SER ASN LEU THR SEQRES 23 A 523 CYS ASN ASN TYR LYS ASN LYS MET MET VAL CYS GLN VAL SEQRES 24 A 523 GLY GLY ILE GLU ALA LEU VAL ARG THR VAL LEU ARG ALA SEQRES 25 A 523 GLY ASP ARG GLU ASP ILE THR GLU PRO ALA ILE CSO ALA SEQRES 26 A 523 LEU ARG HIS LEU THR SER ARG HIS GLN GLU ALA GLU MET SEQRES 27 A 523 ALA GLN ASN ALA VAL ARG LEU HIS TYR GLY LEU PRO VAL SEQRES 28 A 523 VAL VAL LYS LEU LEU HIS PRO PRO SER HIS TRP PRO LEU SEQRES 29 A 523 ILE LYS ALA THR VAL GLY LEU ILE ARG ASN LEU ALA LEU SEQRES 30 A 523 CYS PRO ALA ASN HIS ALA PRO LEU ARG GLU GLN GLY ALA SEQRES 31 A 523 ILE PRO ARG LEU VAL GLN LEU LEU VAL ARG ALA HIS GLN SEQRES 32 A 523 ASP THR GLN ARG ARG THR SER MET GLY GLY THR GLN GLN SEQRES 33 A 523 GLN PHE VAL GLU GLY VAL ARG MET GLU GLU ILE VAL GLU SEQRES 34 A 523 GLY CYS THR GLY ALA LEU HIS ILE LEU ALA ARG ASP VAL SEQRES 35 A 523 HIS ASN ARG ILE VAL ILE ARG GLY LEU ASN THR ILE PRO SEQRES 36 A 523 LEU PHE VAL GLN LEU LEU TYR SER PRO ILE GLU ASN ILE SEQRES 37 A 523 GLN ARG VAL ALA ALA GLY VAL LEU CYS GLU LEU ALA GLN SEQRES 38 A 523 ASP LYS GLU ALA ALA GLU ALA ILE GLU ALA GLU GLY ALA SEQRES 39 A 523 THR ALA PRO LEU THR GLU LEU LEU HIS SER ARG ASN GLU SEQRES 40 A 523 GLY VAL ALA THR TYR ALA ALA ALA VAL LEU PHE ARG MET SEQRES 41 A 523 SER GLU ASP SEQRES 1 B 523 GLY PRO ASP ALA GLU LEU ALA THR ARG ALA ILE PRO GLU SEQRES 2 B 523 LEU THR LYS LEU LEU ASN ASP GLU ASP GLN VAL VAL VAL SEQRES 3 B 523 ASN LYS ALA ALA VAL MET VAL HIS GLN LEU SER LYS LYS SEQRES 4 B 523 GLU ALA SER ARG HIS ALA ILE MET ARG SER PRO GLN MET SEQRES 5 B 523 VAL SER ALA ILE VAL ARG THR MET GLN ASN THR ASN ASP SEQRES 6 B 523 VAL GLU THR ALA ARG CYS THR ALA GLY THR LEU HIS ASN SEQRES 7 B 523 LEU SER HIS HIS ARG GLU GLY LEU LEU ALA ILE PHE LYS SEQRES 8 B 523 SER GLY GLY ILE PRO ALA LEU VAL LYS MET LEU GLY SER SEQRES 9 B 523 PRO VAL ASP SER VAL LEU PHE TYR ALA ILE THR THR LEU SEQRES 10 B 523 HIS ASN LEU LEU LEU HIS GLN GLU GLY ALA LYS MET ALA SEQRES 11 B 523 VAL ARG LEU ALA GLY GLY LEU GLN LYS MET VAL ALA LEU SEQRES 12 B 523 LEU ASN LYS THR ASN VAL LYS PHE LEU ALA ILE THR THR SEQRES 13 B 523 ASP CYS LEU GLN ILE LEU ALA TYR GLY ASN GLN GLU SER SEQRES 14 B 523 LYS LEU ILE ILE LEU ALA SER GLY GLY PRO GLN ALA LEU SEQRES 15 B 523 VAL ASN ILE MET ARG THR TYR THR TYR GLU LYS LEU LEU SEQRES 16 B 523 TRP THR THR SER ARG VAL LEU LYS VAL LEU SER VAL CYS SEQRES 17 B 523 SER SER ASN LYS PRO ALA ILE VAL GLU ALA GLY GLY MET SEQRES 18 B 523 GLN ALA LEU GLY LEU HIS LEU THR ASP PRO SER GLN ARG SEQRES 19 B 523 LEU VAL GLN ASN CYS LEU TRP THR LEU ARG ASN LEU SER SEQRES 20 B 523 ASP ALA ALA THR LYS GLN GLU GLY MET GLU GLY LEU LEU SEQRES 21 B 523 GLY THR LEU VAL GLN LEU LEU GLY SER ASP ASP ILE ASN SEQRES 22 B 523 VAL VAL THR CYS ALA ALA GLY ILE LEU SER ASN LEU THR SEQRES 23 B 523 CYS ASN ASN TYR LYS ASN LYS MET MET VAL CYS GLN VAL SEQRES 24 B 523 GLY GLY ILE GLU ALA LEU VAL ARG THR VAL LEU ARG ALA SEQRES 25 B 523 GLY ASP ARG GLU ASP ILE THR GLU PRO ALA ILE CSO ALA SEQRES 26 B 523 LEU ARG HIS LEU THR SER ARG HIS GLN GLU ALA GLU MET SEQRES 27 B 523 ALA GLN ASN ALA VAL ARG LEU HIS TYR GLY LEU PRO VAL SEQRES 28 B 523 VAL VAL LYS LEU LEU HIS PRO PRO SER HIS TRP PRO LEU SEQRES 29 B 523 ILE LYS ALA THR VAL GLY LEU ILE ARG ASN LEU ALA LEU SEQRES 30 B 523 CYS PRO ALA ASN HIS ALA PRO LEU ARG GLU GLN GLY ALA SEQRES 31 B 523 ILE PRO ARG LEU VAL GLN LEU LEU VAL ARG ALA HIS GLN SEQRES 32 B 523 ASP THR GLN ARG ARG THR SER MET GLY GLY THR GLN GLN SEQRES 33 B 523 GLN PHE VAL GLU GLY VAL ARG MET GLU GLU ILE VAL GLU SEQRES 34 B 523 GLY CYS THR GLY ALA LEU HIS ILE LEU ALA ARG ASP VAL SEQRES 35 B 523 HIS ASN ARG ILE VAL ILE ARG GLY LEU ASN THR ILE PRO SEQRES 36 B 523 LEU PHE VAL GLN LEU LEU TYR SER PRO ILE GLU ASN ILE SEQRES 37 B 523 GLN ARG VAL ALA ALA GLY VAL LEU CYS GLU LEU ALA GLN SEQRES 38 B 523 ASP LYS GLU ALA ALA GLU ALA ILE GLU ALA GLU GLY ALA SEQRES 39 B 523 THR ALA PRO LEU THR GLU LEU LEU HIS SER ARG ASN GLU SEQRES 40 B 523 GLY VAL ALA THR TYR ALA ALA ALA VAL LEU PHE ARG MET SEQRES 41 B 523 SER GLU ASP SEQRES 1 C 13 ACE MH8 ILE LEU ASP B5I HIS LEU MH8 ARG VAL TRP NH2 MODRES 8RU4 CSO A 466 CYS MODIFIED RESIDUE MODRES 8RU4 CSO B 466 CYS MODIFIED RESIDUE HET CSO A 466 7 HET CSO B 466 7 HET ACE C 1 3 HET MH8 C 2 10 HET B5I C 6 10 HET MH8 C 9 10 HET NH2 C 13 1 HET GLC A 701 12 HET TRS A 702 8 HET TRS A 703 8 HET GLC A 704 12 HET GLC A 705 12 HET CL A 706 1 HET NA A 707 1 HET TRS B 701 8 HET TRS B 702 8 HET GLC B 703 12 HET GLC B 704 12 HET GLC B 705 12 HET GLC B 706 12 HET NA B 707 1 HETNAM CSO S-HYDROXYCYSTEINE HETNAM ACE ACETYL GROUP HETNAM MH8 (2S)-2-AMINO-2-METHYLHEPT-6-ENOIC ACID HETNAM B5I 2-PROPYL-L-NORVALINE HETNAM NH2 AMINO GROUP HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE HETSYN TRS TRIS BUFFER FORMUL 1 CSO 2(C3 H7 N O3 S) FORMUL 3 ACE C2 H4 O FORMUL 3 MH8 2(C8 H15 N O2) FORMUL 3 B5I C8 H17 N O2 FORMUL 3 NH2 H2 N FORMUL 4 GLC 7(C6 H12 O6) FORMUL 5 TRS 4(C4 H12 N O3 1+) FORMUL 9 CL CL 1- FORMUL 10 NA 2(NA 1+) FORMUL 18 HOH *328(H2 O) HELIX 1 AA1 ALA A 152 ASN A 161 1 10 HELIX 2 AA2 ASP A 164 SER A 179 1 16 HELIX 3 AA3 LYS A 181 SER A 191 1 11 HELIX 4 AA4 GLN A 193 THR A 205 1 13 HELIX 5 AA5 ASP A 207 SER A 222 1 16 HELIX 6 AA6 HIS A 224 SER A 234 1 11 HELIX 7 AA7 GLY A 235 MET A 243 1 9 HELIX 8 AA8 LEU A 244 SER A 246 5 3 HELIX 9 AA9 VAL A 248 GLN A 266 1 19 HELIX 10 AB1 GLY A 268 ALA A 276 1 9 HELIX 11 AB2 GLY A 277 LEU A 285 1 9 HELIX 12 AB3 LEU A 286 LYS A 288 5 3 HELIX 13 AB4 ASN A 290 TYR A 306 1 17 HELIX 14 AB5 ASN A 308 SER A 318 1 11 HELIX 15 AB6 GLY A 319 TYR A 331 1 13 HELIX 16 AB7 TYR A 333 SER A 348 1 16 HELIX 17 AB8 SER A 352 ALA A 360 1 9 HELIX 18 AB9 GLY A 361 LEU A 368 1 8 HELIX 19 AC1 SER A 374 SER A 389 1 16 HELIX 20 AC2 ASP A 390 ALA A 392 5 3 HELIX 21 AC3 MET A 398 LEU A 409 1 12 HELIX 22 AC4 ASP A 413 CYS A 429 1 17 HELIX 23 AC5 ASN A 431 VAL A 441 1 11 HELIX 24 AC6 GLY A 442 GLY A 455 1 14 HELIX 25 AC7 ARG A 457 THR A 472 1 16 HELIX 26 AC8 GLU A 477 HIS A 488 1 12 HELIX 27 AC9 GLY A 490 LEU A 497 1 8 HELIX 28 AD1 HIS A 503 ALA A 518 1 16 HELIX 29 AD2 LEU A 519 ALA A 522 5 4 HELIX 30 AD3 ASN A 523 GLN A 530 1 8 HELIX 31 AD4 GLY A 531 ARG A 550 1 20 HELIX 32 AD5 PHE A 560 VAL A 564 5 5 HELIX 33 AD6 ARG A 565 ALA A 581 1 17 HELIX 34 AD7 ASP A 583 LEU A 593 1 11 HELIX 35 AD8 THR A 595 LEU A 602 1 8 HELIX 36 AD9 LEU A 603 SER A 605 5 3 HELIX 37 AE1 ILE A 607 ALA A 622 1 16 HELIX 38 AE2 ASP A 624 GLU A 634 1 11 HELIX 39 AE3 ALA A 636 LEU A 644 1 9 HELIX 40 AE4 ASN A 648 SER A 663 1 16 HELIX 41 AE5 PRO B 154 LEU B 159 1 6 HELIX 42 AE6 VAL B 167 LYS B 181 1 15 HELIX 43 AE7 ARG B 185 SER B 191 1 7 HELIX 44 AE8 MET B 194 ASN B 204 1 11 HELIX 45 AE9 ASP B 207 SER B 222 1 16 HELIX 46 AF1 HIS B 224 SER B 234 1 11 HELIX 47 AF2 GLY B 235 MET B 243 1 9 HELIX 48 AF3 LEU B 244 SER B 246 5 3 HELIX 49 AF4 VAL B 248 GLN B 266 1 19 HELIX 50 AF5 GLY B 268 ALA B 276 1 9 HELIX 51 AF6 GLY B 277 LEU B 285 1 9 HELIX 52 AF7 LEU B 286 LYS B 288 5 3 HELIX 53 AF8 ASN B 290 TYR B 306 1 17 HELIX 54 AF9 ASN B 308 SER B 318 1 11 HELIX 55 AG1 GLY B 319 TYR B 331 1 13 HELIX 56 AG2 TYR B 333 SER B 348 1 16 HELIX 57 AG3 SER B 352 ALA B 360 1 9 HELIX 58 AG4 GLY B 361 LEU B 368 1 8 HELIX 59 AG5 SER B 374 SER B 389 1 16 HELIX 60 AG6 ASP B 390 ALA B 392 5 3 HELIX 61 AG7 MET B 398 LEU B 409 1 12 HELIX 62 AG8 ASP B 413 CYS B 429 1 17 HELIX 63 AG9 ASN B 431 VAL B 441 1 11 HELIX 64 AH1 GLY B 442 GLY B 455 1 14 HELIX 65 AH2 ARG B 457 THR B 472 1 16 HELIX 66 AH3 GLU B 477 HIS B 488 1 12 HELIX 67 AH4 GLY B 490 LEU B 497 1 8 HELIX 68 AH5 HIS B 503 ALA B 518 1 16 HELIX 69 AH6 LEU B 519 ALA B 522 5 4 HELIX 70 AH7 ASN B 523 GLN B 530 1 8 HELIX 71 AH8 GLY B 531 ARG B 550 1 20 HELIX 72 AH9 ARG B 565 ALA B 581 1 17 HELIX 73 AI1 ASP B 583 LEU B 593 1 11 HELIX 74 AI2 THR B 595 LEU B 602 1 8 HELIX 75 AI3 LEU B 603 SER B 605 5 3 HELIX 76 AI4 ILE B 607 ALA B 622 1 16 HELIX 77 AI5 ASP B 624 GLU B 634 1 11 HELIX 78 AI6 ALA B 636 LEU B 644 1 9 HELIX 79 AI7 ASN B 648 GLU B 664 1 17 HELIX 80 AI8 MH8 C 2 TRP C 12 1 11 LINK C ILE A 465 N CSO A 466 1555 1555 1.34 LINK C CSO A 466 N ALA A 467 1555 1555 1.34 LINK C ILE B 465 N CSO B 466 1555 1555 1.34 LINK C CSO B 466 N ALA B 467 1555 1555 1.34 LINK C ACE C 1 N MH8 C 2 1555 1555 1.35 LINK C MH8 C 2 N ILE C 3 1555 1555 1.34 LINK CZ MH8 C 2 CE B5I C 6 1555 1555 1.51 LINK C ASP C 5 N B5I C 6 1555 1555 1.32 LINK C B5I C 6 N HIS C 7 1555 1555 1.31 LINK CH B5I C 6 CZ MH8 C 9 1555 1555 1.51 LINK C LEU C 8 N MH8 C 9 1555 1555 1.34 LINK C MH8 C 9 N ARG C 10 1555 1555 1.34 LINK C TRP C 12 N NH2 C 13 1555 1555 1.32 LINK NA NA A 707 O HOH A 903 1555 1555 2.62 LINK NA NA A 707 O HOH A 930 1555 1555 2.33 LINK O LEU B 368 NA NA B 707 1555 1555 2.66 LINK OG1 THR B 371 NA NA B 707 1555 1555 2.40 LINK NA NA B 707 O HOH B 904 1555 1555 2.80 LINK NA NA B 707 O HOH B 957 1555 1555 2.58 CISPEP 1 PRO A 500 PRO A 501 0 5.85 CISPEP 2 PRO B 500 PRO B 501 0 6.88 CRYST1 64.567 103.617 187.923 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.015488 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009651 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005321 0.00000