HEADER TRANSCRIPTION 04-SEP-25 9WNJ TITLE [M322I] MENIN COMPLEXED WITH KO-539 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MENIN; COMPND 3 CHAIN: A, B; COMPND 4 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: MEN1, SCG2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HUMAN MENIN, TRANSCRIPTION, M322I MUTANT INHIBITOR COMPLEX, DS1594 EXPDTA X-RAY DIFFRACTION AUTHOR S.BIJPURIA,B.M.MCKEEVER,G.M.MCGEEHAN REVDAT 1 29-APR-26 9WNJ 0 JRNL AUTH S.BIJPURIA,B.M.MCKEEVER,G.M.MCGEEHAN JRNL TITL [M322I] MENIN COMPLEXED WITH KO-539 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 64083 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) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3429 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4669 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1950 REMARK 3 BIN FREE R VALUE SET COUNT : 256 REMARK 3 BIN FREE R VALUE : 0.2660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7235 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 108 REMARK 3 SOLVENT ATOMS : 372 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.57 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.14000 REMARK 3 B22 (A**2) : -1.42000 REMARK 3 B33 (A**2) : 1.56000 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): 0.165 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.147 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.095 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.406 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.938 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7646 ; 0.010 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 7188 ; 0.001 ; 0.015 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10411 ; 1.617 ; 1.635 REMARK 3 BOND ANGLES OTHERS (DEGREES): 16524 ; 1.423 ; 1.575 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 940 ; 6.229 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 402 ;30.326 ;21.716 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1243 ;14.095 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 54 ;16.048 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 961 ; 0.260 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8678 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1802 ; 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): 3736 ; 2.583 ; 2.723 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3735 ; 2.581 ; 2.722 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4684 ; 3.806 ; 4.056 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 4685 ; 3.806 ; 4.057 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3910 ; 3.356 ; 3.037 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3906 ; 3.357 ; 3.038 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 5728 ; 5.195 ; 4.422 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 8724 ; 6.733 ;31.265 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 8671 ; 6.720 ;31.165 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 : NULL 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 9WNJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-SEP-25. REMARK 100 THE DEPOSITION ID IS D_1300063056. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-DEC-22 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 : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95374 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 92224 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 47.780 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.50 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 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: MOLREP REMARK 200 STARTING MODEL: 8E90 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19%(W/V) PEG3350, 0.2M POTASIUM REMARK 280 THIOCYANATE, 0.1M MES PH=6.2, 20%(V/V) ETHYLENE GLYCOL, PH 6.2, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K 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 29.33300 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 101.87300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 41.05700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 101.87300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.33300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 41.05700 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 ASN A 51 REMARK 465 ARG A 52 REMARK 465 VAL A 53 REMARK 465 ILE A 54 REMARK 465 PRO A 55 REMARK 465 THR A 56 REMARK 465 ASN A 57 REMARK 465 VAL A 58 REMARK 465 PRO A 59 REMARK 465 GLU A 60 REMARK 465 LEU A 61 REMARK 465 THR A 62 REMARK 465 PHE A 63 REMARK 465 GLN A 64 REMARK 465 PRO A 65 REMARK 465 SER A 66 REMARK 465 GLU A 388 REMARK 465 ARG A 389 REMARK 465 PRO A 390 REMARK 465 GLY A 391 REMARK 465 GLU A 392 REMARK 465 GLN A 393 REMARK 465 SER A 394 REMARK 465 GLN A 395 REMARK 465 GLY A 396 REMARK 465 THR A 397 REMARK 465 GLN A 398 REMARK 465 SER A 399 REMARK 465 GLN A 400 REMARK 465 VAL B 53 REMARK 465 ILE B 54 REMARK 465 PRO B 55 REMARK 465 THR B 56 REMARK 465 ASN B 57 REMARK 465 VAL B 58 REMARK 465 PRO B 59 REMARK 465 GLU B 60 REMARK 465 LEU B 61 REMARK 465 THR B 62 REMARK 465 PHE B 63 REMARK 465 GLN B 64 REMARK 465 PRO B 65 REMARK 465 SER B 66 REMARK 465 PRO B 67 REMARK 465 GLU B 388 REMARK 465 ARG B 389 REMARK 465 PRO B 390 REMARK 465 GLY B 391 REMARK 465 GLU B 392 REMARK 465 GLN B 393 REMARK 465 SER B 394 REMARK 465 GLN B 395 REMARK 465 GLY B 396 REMARK 465 THR B 397 REMARK 465 GLN B 398 REMARK 465 SER B 399 REMARK 465 GLN B 400 REMARK 465 SER B 489 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 4 CG CD CE NZ REMARK 470 LYS A 119 CG CD CE NZ REMARK 470 LYS A 201 CG CD CE NZ REMARK 470 LEU A 249 CG CD1 CD2 REMARK 470 LYS B 201 CG CD CE NZ REMARK 470 LEU B 249 CG CD1 CD2 REMARK 470 HIS B 250 CG ND1 CD2 CE1 NE2 REMARK 470 GLU B 387 CG CD OE1 OE2 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 OE2 GLU A 217 O HOH A 601 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 469 CD GLU A 469 OE1 0.075 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 SER A 489 CA - C - O ANGL. DEV. = -14.4 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 ALA A 49 -53.63 -120.96 REMARK 500 ASP A 180 10.03 -144.37 REMARK 500 LYS A 201 -92.11 -102.61 REMARK 500 SER A 226 48.59 -90.94 REMARK 500 GLU A 290 82.49 -156.94 REMARK 500 ASP A 370 -58.84 -140.91 REMARK 500 SER B 178 -164.66 -100.29 REMARK 500 ASP B 180 12.72 -147.71 REMARK 500 SER B 226 45.96 -88.70 REMARK 500 GLU B 290 83.88 -155.65 REMARK 500 ASP B 370 -59.05 -140.16 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 MG A 504 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 351 O REMARK 620 2 TRP A 423 O 84.9 REMARK 620 3 GLU A 425 O 150.9 84.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 502 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR B 351 O REMARK 620 2 LYS B 422 O 120.2 REMARK 620 3 TRP B 423 O 80.0 71.2 REMARK 620 4 GLU B 425 O 150.7 77.3 85.0 REMARK 620 5 HOH B 664 O 88.4 88.3 146.4 117.0 REMARK 620 N 1 2 3 4 DBREF 9WNJ A 2 457 UNP O00255 MEN1_HUMAN 2 457 DBREF 9WNJ A 458 489 UNP O00255 MEN1_HUMAN 551 583 DBREF 9WNJ B 2 457 UNP O00255 MEN1_HUMAN 2 457 DBREF 9WNJ B 458 489 UNP O00255 MEN1_HUMAN 551 583 SEQADV 9WNJ THR A 5 UNP O00255 ALA 5 ENGINEERED MUTATION SEQADV 9WNJ ILE A 322 UNP O00255 MET 322 ENGINEERED MUTATION SEQADV 9WNJ THR B 5 UNP O00255 ALA 5 ENGINEERED MUTATION SEQADV 9WNJ ILE B 322 UNP O00255 MET 322 ENGINEERED MUTATION SEQRES 1 A 488 GLY LEU LYS THR ALA GLN LYS THR LEU PHE PRO LEU ARG SEQRES 2 A 488 SER ILE ASP ASP VAL VAL ARG LEU PHE ALA ALA GLU LEU SEQRES 3 A 488 GLY ARG GLU GLU PRO ASP LEU VAL LEU LEU SER LEU VAL SEQRES 4 A 488 LEU GLY PHE VAL GLU HIS PHE LEU ALA VAL ASN ARG VAL SEQRES 5 A 488 ILE PRO THR ASN VAL PRO GLU LEU THR PHE GLN PRO SER SEQRES 6 A 488 PRO ALA PRO ASP PRO PRO GLY GLY LEU THR TYR PHE PRO SEQRES 7 A 488 VAL ALA ASP LEU SER ILE ILE ALA ALA LEU TYR ALA ARG SEQRES 8 A 488 PHE THR ALA GLN ILE ARG GLY ALA VAL ASP LEU SER LEU SEQRES 9 A 488 TYR PRO ARG GLU GLY GLY VAL SER SER ARG GLU LEU VAL SEQRES 10 A 488 LYS LYS VAL SER ASP VAL ILE TRP ASN SER LEU SER ARG SEQRES 11 A 488 SER TYR PHE LYS ASP ARG ALA HIS ILE GLN SER LEU PHE SEQRES 12 A 488 SER PHE ILE THR GLY THR LYS LEU ASP SER SER GLY VAL SEQRES 13 A 488 ALA PHE ALA VAL VAL GLY ALA CYS GLN ALA LEU GLY LEU SEQRES 14 A 488 ARG ASP VAL HIS LEU ALA LEU SER GLU ASP HIS ALA TRP SEQRES 15 A 488 VAL VAL PHE GLY PRO ASN GLY GLU GLN THR ALA GLU VAL SEQRES 16 A 488 THR TRP HIS GLY LYS GLY ASN GLU ASP ARG ARG GLY GLN SEQRES 17 A 488 THR VAL ASN ALA GLY VAL ALA GLU ARG SER TRP LEU TYR SEQRES 18 A 488 LEU LYS GLY SER TYR MET ARG CYS ASP ARG LYS MET GLU SEQRES 19 A 488 VAL ALA PHE MET VAL CYS ALA ILE ASN PRO SER ILE ASP SEQRES 20 A 488 LEU HIS THR ASP SER LEU GLU LEU LEU GLN LEU GLN GLN SEQRES 21 A 488 LYS LEU LEU TRP LEU LEU TYR ASP LEU GLY HIS LEU GLU SEQRES 22 A 488 ARG TYR PRO MET ALA LEU GLY ASN LEU ALA ASP LEU GLU SEQRES 23 A 488 GLU LEU GLU PRO THR PRO GLY ARG PRO ASP PRO LEU THR SEQRES 24 A 488 LEU TYR HIS LYS GLY ILE ALA SER ALA LYS THR TYR TYR SEQRES 25 A 488 ARG ASP GLU HIS ILE TYR PRO TYR ILE TYR LEU ALA GLY SEQRES 26 A 488 TYR HIS CYS ARG ASN ARG ASN VAL ARG GLU ALA LEU GLN SEQRES 27 A 488 ALA TRP ALA ASP THR ALA THR VAL ILE GLN ASP TYR ASN SEQRES 28 A 488 TYR CYS ARG GLU ASP GLU GLU ILE TYR LYS GLU PHE PHE SEQRES 29 A 488 GLU VAL ALA ASN ASP VAL ILE PRO ASN LEU LEU LYS GLU SEQRES 30 A 488 ALA ALA SER LEU LEU GLU ALA GLY GLU GLU ARG PRO GLY SEQRES 31 A 488 GLU GLN SER GLN GLY THR GLN SER GLN GLY SER ALA LEU SEQRES 32 A 488 GLN ASP PRO GLU CYS PHE ALA HIS LEU LEU ARG PHE TYR SEQRES 33 A 488 ASP GLY ILE CYS LYS TRP GLU GLU GLY SER PRO THR PRO SEQRES 34 A 488 VAL LEU HIS VAL GLY TRP ALA THR PHE LEU VAL GLN SER SEQRES 35 A 488 LEU GLY ARG PHE GLU GLY GLN VAL ARG GLN LYS VAL ARG SEQRES 36 A 488 ILE THR PHE GLN SER GLU LYS MET LYS GLY MET LYS GLU SEQRES 37 A 488 LEU LEU VAL ALA THR LYS ILE ASN SER SER ALA ILE LYS SEQRES 38 A 488 LEU GLN LEU THR ALA GLN SER SEQRES 1 B 488 GLY LEU LYS THR ALA GLN LYS THR LEU PHE PRO LEU ARG SEQRES 2 B 488 SER ILE ASP ASP VAL VAL ARG LEU PHE ALA ALA GLU LEU SEQRES 3 B 488 GLY ARG GLU GLU PRO ASP LEU VAL LEU LEU SER LEU VAL SEQRES 4 B 488 LEU GLY PHE VAL GLU HIS PHE LEU ALA VAL ASN ARG VAL SEQRES 5 B 488 ILE PRO THR ASN VAL PRO GLU LEU THR PHE GLN PRO SER SEQRES 6 B 488 PRO ALA PRO ASP PRO PRO GLY GLY LEU THR TYR PHE PRO SEQRES 7 B 488 VAL ALA ASP LEU SER ILE ILE ALA ALA LEU TYR ALA ARG SEQRES 8 B 488 PHE THR ALA GLN ILE ARG GLY ALA VAL ASP LEU SER LEU SEQRES 9 B 488 TYR PRO ARG GLU GLY GLY VAL SER SER ARG GLU LEU VAL SEQRES 10 B 488 LYS LYS VAL SER ASP VAL ILE TRP ASN SER LEU SER ARG SEQRES 11 B 488 SER TYR PHE LYS ASP ARG ALA HIS ILE GLN SER LEU PHE SEQRES 12 B 488 SER PHE ILE THR GLY THR LYS LEU ASP SER SER GLY VAL SEQRES 13 B 488 ALA PHE ALA VAL VAL GLY ALA CYS GLN ALA LEU GLY LEU SEQRES 14 B 488 ARG ASP VAL HIS LEU ALA LEU SER GLU ASP HIS ALA TRP SEQRES 15 B 488 VAL VAL PHE GLY PRO ASN GLY GLU GLN THR ALA GLU VAL SEQRES 16 B 488 THR TRP HIS GLY LYS GLY ASN GLU ASP ARG ARG GLY GLN SEQRES 17 B 488 THR VAL ASN ALA GLY VAL ALA GLU ARG SER TRP LEU TYR SEQRES 18 B 488 LEU LYS GLY SER TYR MET ARG CYS ASP ARG LYS MET GLU SEQRES 19 B 488 VAL ALA PHE MET VAL CYS ALA ILE ASN PRO SER ILE ASP SEQRES 20 B 488 LEU HIS THR ASP SER LEU GLU LEU LEU GLN LEU GLN GLN SEQRES 21 B 488 LYS LEU LEU TRP LEU LEU TYR ASP LEU GLY HIS LEU GLU SEQRES 22 B 488 ARG TYR PRO MET ALA LEU GLY ASN LEU ALA ASP LEU GLU SEQRES 23 B 488 GLU LEU GLU PRO THR PRO GLY ARG PRO ASP PRO LEU THR SEQRES 24 B 488 LEU TYR HIS LYS GLY ILE ALA SER ALA LYS THR TYR TYR SEQRES 25 B 488 ARG ASP GLU HIS ILE TYR PRO TYR ILE TYR LEU ALA GLY SEQRES 26 B 488 TYR HIS CYS ARG ASN ARG ASN VAL ARG GLU ALA LEU GLN SEQRES 27 B 488 ALA TRP ALA ASP THR ALA THR VAL ILE GLN ASP TYR ASN SEQRES 28 B 488 TYR CYS ARG GLU ASP GLU GLU ILE TYR LYS GLU PHE PHE SEQRES 29 B 488 GLU VAL ALA ASN ASP VAL ILE PRO ASN LEU LEU LYS GLU SEQRES 30 B 488 ALA ALA SER LEU LEU GLU ALA GLY GLU GLU ARG PRO GLY SEQRES 31 B 488 GLU GLN SER GLN GLY THR GLN SER GLN GLY SER ALA LEU SEQRES 32 B 488 GLN ASP PRO GLU CYS PHE ALA HIS LEU LEU ARG PHE TYR SEQRES 33 B 488 ASP GLY ILE CYS LYS TRP GLU GLU GLY SER PRO THR PRO SEQRES 34 B 488 VAL LEU HIS VAL GLY TRP ALA THR PHE LEU VAL GLN SER SEQRES 35 B 488 LEU GLY ARG PHE GLU GLY GLN VAL ARG GLN LYS VAL ARG SEQRES 36 B 488 ILE THR PHE GLN SER GLU LYS MET LYS GLY MET LYS GLU SEQRES 37 B 488 LEU LEU VAL ALA THR LYS ILE ASN SER SER ALA ILE LYS SEQRES 38 B 488 LEU GLN LEU THR ALA GLN SER HET EDO A 501 4 HET EDO A 502 4 HET K5O A 503 49 HET MG A 504 1 HET K5O B 501 49 HET MG B 502 1 HETNAM EDO 1,2-ETHANEDIOL HETNAM K5O ZIFTOMENIB HETNAM MG MAGNESIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 3 EDO 2(C2 H6 O2) FORMUL 5 K5O 2(C33 H42 F3 N9 O2 S2) FORMUL 6 MG 2(MG 2+) FORMUL 9 HOH *372(H2 O) HELIX 1 AA1 LYS A 4 THR A 9 1 6 HELIX 2 AA2 SER A 15 GLY A 28 1 14 HELIX 3 AA3 ASP A 33 ALA A 49 1 17 HELIX 4 AA4 ASP A 82 VAL A 101 1 20 HELIX 5 AA5 ASP A 102 TYR A 106 5 5 HELIX 6 AA6 SER A 114 LEU A 129 1 16 HELIX 7 AA7 SER A 142 THR A 150 1 9 HELIX 8 AA8 ASP A 153 LEU A 168 1 16 HELIX 9 AA9 GLY A 187 GLU A 191 5 5 HELIX 10 AB1 VAL A 211 GLU A 217 1 7 HELIX 11 AB2 SER A 219 SER A 226 5 8 HELIX 12 AB3 ASP A 231 ALA A 242 1 12 HELIX 13 AB4 SER A 253 GLY A 271 1 19 HELIX 14 AB5 TYR A 276 GLU A 290 1 15 HELIX 15 AB6 ASP A 297 TYR A 313 1 17 HELIX 16 AB7 ILE A 318 ASN A 331 1 14 HELIX 17 AB8 ASN A 333 GLN A 349 1 17 HELIX 18 AB9 ASP A 357 ASP A 370 1 14 HELIX 19 AC1 ASP A 370 GLY A 386 1 17 HELIX 20 AC2 SER A 402 GLN A 405 5 4 HELIX 21 AC3 ASP A 406 GLU A 425 1 20 HELIX 22 AC4 HIS A 433 GLY A 435 5 3 HELIX 23 AC5 TRP A 436 ARG A 446 1 11 HELIX 24 AC6 GLU A 448 GLN A 453 1 6 HELIX 25 AC7 SER A 461 GLY A 466 1 6 HELIX 26 AC8 MET A 467 ALA A 473 1 7 HELIX 27 AC9 ASN A 477 ALA A 487 1 11 HELIX 28 AD1 LYS B 4 THR B 9 1 6 HELIX 29 AD2 SER B 15 GLY B 28 1 14 HELIX 30 AD3 ASP B 33 VAL B 50 1 18 HELIX 31 AD4 ASP B 82 VAL B 101 1 20 HELIX 32 AD5 ASP B 102 TYR B 106 5 5 HELIX 33 AD6 SER B 114 SER B 128 1 15 HELIX 34 AD7 SER B 142 THR B 150 1 9 HELIX 35 AD8 ASP B 153 LEU B 168 1 16 HELIX 36 AD9 GLY B 187 GLU B 191 5 5 HELIX 37 AE1 VAL B 211 GLU B 217 1 7 HELIX 38 AE2 SER B 219 SER B 226 5 8 HELIX 39 AE3 ASP B 231 ILE B 243 1 13 HELIX 40 AE4 SER B 253 GLY B 271 1 19 HELIX 41 AE5 TYR B 276 GLU B 290 1 15 HELIX 42 AE6 ASP B 297 TYR B 313 1 17 HELIX 43 AE7 ILE B 318 ASN B 331 1 14 HELIX 44 AE8 ASN B 333 GLN B 349 1 17 HELIX 45 AE9 ASP B 357 ASP B 370 1 14 HELIX 46 AF1 ASP B 370 GLU B 387 1 18 HELIX 47 AF2 SER B 402 GLN B 405 5 4 HELIX 48 AF3 ASP B 406 GLU B 425 1 20 HELIX 49 AF4 GLY B 435 ARG B 446 1 12 HELIX 50 AF5 GLU B 448 GLN B 453 1 6 HELIX 51 AF6 SER B 461 GLY B 466 1 6 HELIX 52 AF7 MET B 467 ALA B 473 1 7 HELIX 53 AF8 ASN B 477 ALA B 487 1 11 SHEET 1 AA1 4 GLN A 192 ALA A 194 0 SHEET 2 AA1 4 ALA A 182 PHE A 186 -1 N PHE A 186 O GLN A 192 SHEET 3 AA1 4 HIS A 174 LEU A 177 -1 N HIS A 174 O VAL A 185 SHEET 4 AA1 4 MET A 228 ARG A 229 -1 O MET A 228 N LEU A 177 SHEET 1 AA2 4 GLN B 192 ALA B 194 0 SHEET 2 AA2 4 ALA B 182 PHE B 186 -1 N PHE B 186 O GLN B 192 SHEET 3 AA2 4 HIS B 174 LEU B 177 -1 N ALA B 176 O TRP B 183 SHEET 4 AA2 4 MET B 228 ARG B 229 -1 O MET B 228 N LEU B 177 LINK O TYR A 351 MG MG A 504 1555 1555 2.71 LINK O TRP A 423 MG MG A 504 1555 1555 2.67 LINK O GLU A 425 MG MG A 504 1555 1555 2.73 LINK O TYR B 351 MG MG B 502 1555 1555 2.67 LINK O LYS B 422 MG MG B 502 1555 1555 2.87 LINK O TRP B 423 MG MG B 502 1555 1555 2.82 LINK O GLU B 425 MG MG B 502 1555 1555 2.58 LINK MG MG B 502 O HOH B 664 1555 1555 2.20 CISPEP 1 PHE A 11 PRO A 12 0 -4.18 CISPEP 2 PHE B 11 PRO B 12 0 3.90 CRYST1 58.666 82.114 203.746 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 0.017046 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012178 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004908 0.00000 CONECT 2642 7410 CONECT 3144 7410 CONECT 3167 7410 CONECT 6346 7460 CONECT 6816 7460 CONECT 6825 7460 CONECT 6848 7460 CONECT 7353 7354 7355 CONECT 7354 7353 CONECT 7355 7353 7356 CONECT 7356 7355 CONECT 7357 7358 7359 CONECT 7358 7357 CONECT 7359 7357 7360 CONECT 7360 7359 CONECT 7361 7362 CONECT 7362 7361 7363 CONECT 7363 7362 7364 7409 CONECT 7364 7363 7365 CONECT 7365 7364 7366 7399 CONECT 7366 7365 7367 CONECT 7367 7366 7368 7398 CONECT 7368 7367 7369 CONECT 7369 7368 7370 CONECT 7370 7369 7371 7397 CONECT 7371 7370 7372 CONECT 7372 7371 7373 7393 CONECT 7373 7372 7374 CONECT 7374 7373 7375 CONECT 7375 7374 7376 7392 CONECT 7376 7375 7377 7390 CONECT 7377 7376 7378 CONECT 7378 7377 7379 7380 CONECT 7379 7378 CONECT 7380 7378 7381 7385 CONECT 7381 7380 7382 CONECT 7382 7381 7383 CONECT 7383 7382 7384 7386 CONECT 7384 7383 7385 CONECT 7385 7380 7384 CONECT 7386 7383 7387 7388 7389 CONECT 7387 7386 CONECT 7388 7386 CONECT 7389 7386 CONECT 7390 7376 7391 7395 CONECT 7391 7390 7392 CONECT 7392 7375 7391 7393 CONECT 7393 7372 7392 7394 CONECT 7394 7393 CONECT 7395 7390 7396 CONECT 7396 7395 CONECT 7397 7370 7398 CONECT 7398 7367 7397 CONECT 7399 7365 7400 7408 CONECT 7400 7399 7401 CONECT 7401 7400 7402 7407 CONECT 7402 7401 7403 CONECT 7403 7402 7404 7405 7406 CONECT 7404 7403 CONECT 7405 7403 CONECT 7406 7403 CONECT 7407 7401 7408 CONECT 7408 7399 7407 7409 CONECT 7409 7363 7408 CONECT 7410 2642 3144 3167 CONECT 7411 7412 CONECT 7412 7411 7413 CONECT 7413 7412 7414 7459 CONECT 7414 7413 7415 CONECT 7415 7414 7416 7449 CONECT 7416 7415 7417 CONECT 7417 7416 7418 7448 CONECT 7418 7417 7419 CONECT 7419 7418 7420 CONECT 7420 7419 7421 7447 CONECT 7421 7420 7422 CONECT 7422 7421 7423 7443 CONECT 7423 7422 7424 CONECT 7424 7423 7425 CONECT 7425 7424 7426 7442 CONECT 7426 7425 7427 7440 CONECT 7427 7426 7428 CONECT 7428 7427 7429 7430 CONECT 7429 7428 CONECT 7430 7428 7431 7435 CONECT 7431 7430 7432 CONECT 7432 7431 7433 CONECT 7433 7432 7434 7436 CONECT 7434 7433 7435 CONECT 7435 7430 7434 CONECT 7436 7433 7437 7438 7439 CONECT 7437 7436 CONECT 7438 7436 CONECT 7439 7436 CONECT 7440 7426 7441 7445 CONECT 7441 7440 7442 CONECT 7442 7425 7441 7443 CONECT 7443 7422 7442 7444 CONECT 7444 7443 CONECT 7445 7440 7446 CONECT 7446 7445 CONECT 7447 7420 7448 CONECT 7448 7417 7447 CONECT 7449 7415 7450 7458 CONECT 7450 7449 7451 CONECT 7451 7450 7452 7457 CONECT 7452 7451 7453 CONECT 7453 7452 7454 7455 7456 CONECT 7454 7453 CONECT 7455 7453 CONECT 7456 7453 CONECT 7457 7451 7458 CONECT 7458 7449 7457 7459 CONECT 7459 7413 7458 CONECT 7460 6346 6816 6825 6848 CONECT 7460 7709 CONECT 7709 7460 MASTER 419 0 6 53 8 0 0 6 7715 2 117 76 END