HEADER LIGASE 17-JUN-09 3HWJ TITLE CRYSTAL STRUCTURE OF THE SECOND PHR DOMAIN OF MOUSE MYC-BINDING TITLE 2 PROTEIN 2 (MYCBP-2) COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE MYCBP2; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: SECOND PHR DOMAIN: UNP Q7TPH6 RESIDUES 1685-1845; COMPND 5 SYNONYM: MYC-BINDING PROTEIN 2, MYCBP-2, PROTEIN ASSOCIATED WITH MYC, COMPND 6 PAM/HIGHWIRE/RPM-1 PROTEIN; COMPND 7 EC: 6.3.2.-; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: MYCBP2, PAM, PHR1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-CODON+RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: MODIFIED PET26B; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: BC-PSGX3 (BC) KEYWDS MYC-BINDING PROTEIN 2, MYCBP2, PHR PROTEINS, PHR DOMAIN, PROBABLE E3 KEYWDS 2 UBIQUITIN-PROTEIN LIGASE MYCBP2, PROTEIN ASSOCIATED WITH MYC, PAM, KEYWDS 3 PHR1, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, NEW KEYWDS 4 YORK STRUCTURAL GENOMIX RESEARCH CONSORTIUM, NYSGXRC, ALTERNATIVE KEYWDS 5 SPLICING, LIGASE, METAL-BINDING, NUCLEUS, PHOSPHOPROTEIN, KEYWDS 6 TRANSCRIPTION, TRANSCRIPTION REGULATION, UBL CONJUGATION PATHWAY, KEYWDS 7 ZINC, ZINC-FINGER, NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL KEYWDS 8 GENOMICS EXPDTA X-RAY DIFFRACTION AUTHOR P.SAMPATHKUMAR,S.A.OZYURT,S.R.WASSERMAN,S.A.MILLER,K.T.BAIN, AUTHOR 2 M.E.RUTTER,T.GHEYI,R.L.KLEMKE,S.ATWELL,J.M.SAUDER,S.K.BURLEY,NEW AUTHOR 3 YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 7 27-DEC-23 3HWJ 1 SSBOND LINK REVDAT 6 22-NOV-23 3HWJ 1 REMARK REVDAT 5 06-SEP-23 3HWJ 1 REMARK REVDAT 4 10-FEB-21 3HWJ 1 AUTHOR JRNL REMARK SEQADV REVDAT 4 2 1 LINK REVDAT 3 21-NOV-18 3HWJ 1 AUTHOR REVDAT 2 07-APR-10 3HWJ 1 JRNL REVDAT 1 21-JUL-09 3HWJ 0 JRNL AUTH P.SAMPATHKUMAR,S.A.OZYURT,S.A.MILLER,K.T.BAIN,M.E.RUTTER, JRNL AUTH 2 T.GHEYI,B.ABRAMS,Y.WANG,S.ATWELL,J.G.LUZ,D.A.THOMPSON, JRNL AUTH 3 S.R.WASSERMAN,J.S.EMTAGE,E.C.PARK,C.RONGO,Y.JIN,R.L.KLEMKE, JRNL AUTH 4 J.M.SAUDER,S.K.BURLEY JRNL TITL STRUCTURES OF PHR DOMAINS FROM MUS MUSCULUS PHR1 (MYCBP2) JRNL TITL 2 EXPLAIN THE LOSS-OF-FUNCTION MUTATION (GLY1092-->GLU) OF THE JRNL TITL 3 C. ELEGANS ORTHOLOG RPM-1. JRNL REF J.MOL.BIOL. V. 397 883 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20156452 JRNL DOI 10.1016/J.JMB.2010.02.017 REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 18890 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) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 972 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) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.31 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1303 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2390 REMARK 3 BIN FREE R VALUE SET COUNT : 81 REMARK 3 BIN FREE R VALUE : 0.3570 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2248 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 124 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.59 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.02 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.02000 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): 0.248 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.217 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.167 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.639 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.905 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2365 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1553 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3227 ; 1.715 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3773 ; 0.967 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 312 ; 8.151 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 104 ;34.518 ;23.654 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 358 ;15.773 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;15.641 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 367 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2713 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 497 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 426 ; 0.206 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1629 ; 0.202 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1126 ; 0.182 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1368 ; 0.091 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 151 ; 0.200 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): 1 ; 0.045 ; 0.200 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): 9 ; 0.253 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 31 ; 0.265 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 3 ; 0.056 ; 0.200 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): 1544 ; 1.170 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 631 ; 0.213 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2443 ; 1.803 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 936 ; 2.522 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 779 ; 3.842 ; 4.500 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 : NULL 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 RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3HWJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JUN-09. REMARK 100 THE DEPOSITION ID IS D_1000053668. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : DIAMOND REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18914 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 42.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.13000 REMARK 200 FOR THE DATA SET : 8.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.64300 REMARK 200 FOR SHELL : 3.700 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: POLY ALA BASED ON THE PDB CODE 3GBW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.07 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2000MM DL MALIC ACID, PH 7.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 41.52700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 41.52700 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 46.93850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.96100 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 46.93850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.96100 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 41.52700 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 46.93850 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.96100 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 41.52700 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 46.93850 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.96100 REMARK 290 SMTRY3 8 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 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 400 REMARK 400 COMPOUND REMARK 400 ONLY THE A CONFORMER FORMS A DISULFIDE BOND. 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 MSE A 1720 REMARK 465 SER A 1721 REMARK 465 ASP A 1777 REMARK 465 SER A 1778 REMARK 465 GLU A 1779 REMARK 465 HIS A 1780 REMARK 465 ALA A 1781 REMARK 465 GLY A 1782 REMARK 465 ASP A 1783 REMARK 465 SER A 1784 REMARK 465 THR A 1785 REMARK 465 HIS A 1786 REMARK 465 SER A 1787 REMARK 465 HIS A 1788 REMARK 465 GLU A 1883 REMARK 465 GLU A 1884 REMARK 465 GLY A 1885 REMARK 465 HIS A 1886 REMARK 465 HIS A 1887 REMARK 465 HIS A 1888 REMARK 465 HIS A 1889 REMARK 465 HIS A 1890 REMARK 465 HIS A 1891 REMARK 465 MSE B 1720 REMARK 465 SER B 1721 REMARK 465 LEU B 1722 REMARK 465 GLU B 1779 REMARK 465 HIS B 1780 REMARK 465 ALA B 1781 REMARK 465 GLY B 1782 REMARK 465 ASP B 1783 REMARK 465 SER B 1784 REMARK 465 THR B 1785 REMARK 465 HIS B 1786 REMARK 465 SER B 1787 REMARK 465 HIS B 1788 REMARK 465 GLU B 1883 REMARK 465 GLU B 1884 REMARK 465 GLY B 1885 REMARK 465 HIS B 1886 REMARK 465 HIS B 1887 REMARK 465 HIS B 1888 REMARK 465 HIS B 1889 REMARK 465 HIS B 1890 REMARK 465 HIS B 1891 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 LEU A1722 CG CD1 CD2 REMARK 470 GLN A1730 CG CD OE1 NE2 REMARK 470 ARG A1789 CG CD NE CZ NH1 NH2 REMARK 470 LYS B1750 CG CD CE NZ REMARK 470 GLU B1768 CG CD OE1 OE2 REMARK 470 ASP B1777 CG OD1 OD2 REMARK 470 ARG B1789 CG CD NE CZ NH1 NH2 REMARK 470 LYS B1816 CG CD CE NZ REMARK 470 LYS B1821 CG CD CE NZ REMARK 470 LYS B1825 CG CD CE NZ 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 SER B 1805 O HOH B 104 2.09 REMARK 500 O SER A 1807 O HOH A 124 2.12 REMARK 500 O THR B 1802 O HOH B 104 2.14 REMARK 500 OD2 ASP A 1851 OH TYR A 1879 2.18 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 A1724 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES REMARK 500 ARG A1724 NE - CZ - NH2 ANGL. DEV. = -7.6 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 GLU A1794 134.26 -170.13 REMARK 500 ILE A1874 70.04 62.61 REMARK 500 ASN B1823 41.64 31.77 REMARK 500 ASP B1841 -159.91 -151.56 REMARK 500 ASP B1851 -17.18 -23.24 REMARK 500 ILE B1874 63.47 60.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY B 1840 ASP B 1841 146.24 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS B 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3GBW RELATED DB: PDB REMARK 900 RELATED ID: NYSGXRC-13170A RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AUTHORS STATE THAT THE PRESENCE OF ARG IS CONFIRMED BY THE REMARK 999 ELECTRON DENSITY MAPS. ALSO MOST OTHER PAM HOMOLOGUES LIKE HUMAN, REMARK 999 DOG, CHICKEN, FISH, ETC. HAVE AN ARG AT THIS POSITION. DBREF 3HWJ A 1723 1883 UNP Q7TPH6 MYCB2_MOUSE 1685 1845 DBREF 3HWJ B 1723 1883 UNP Q7TPH6 MYCB2_MOUSE 1685 1845 SEQADV 3HWJ MSE A 1720 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ SER A 1721 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ LEU A 1722 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ ARG A 1831 UNP Q7TPH6 SER 1793 SEE REMARK 999 SEQADV 3HWJ GLU A 1884 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ GLY A 1885 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS A 1886 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS A 1887 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS A 1888 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS A 1889 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS A 1890 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS A 1891 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ MSE B 1720 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ SER B 1721 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ LEU B 1722 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ ARG B 1831 UNP Q7TPH6 SER 1793 SEE REMARK 999 SEQADV 3HWJ GLU B 1884 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ GLY B 1885 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS B 1886 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS B 1887 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS B 1888 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS B 1889 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS B 1890 UNP Q7TPH6 EXPRESSION TAG SEQADV 3HWJ HIS B 1891 UNP Q7TPH6 EXPRESSION TAG SEQRES 1 A 172 MSE SER LEU ASN ARG PHE THR LYS THR SER GLN GLY ARG SEQRES 2 A 172 SER TRP ASN THR GLY ASN GLY SER PRO ASP ALA ILE CYS SEQRES 3 A 172 PHE ALA VAL ASP LYS PRO GLY ILE VAL VAL VAL GLY PHE SEQRES 4 A 172 ALA VAL TYR GLY GLY GLY GLY ILE HIS GLU TYR GLU LEU SEQRES 5 A 172 GLU VAL LEU VAL ASP ASP SER GLU HIS ALA GLY ASP SER SEQRES 6 A 172 THR HIS SER HIS ARG TRP THR SER LEU GLU LEU VAL LYS SEQRES 7 A 172 GLY THR TYR THR THR ASP ASP SER PRO SER ASP ILE ALA SEQRES 8 A 172 GLU ILE ARG LEU ASP LYS VAL VAL PRO LEU LYS GLU ASN SEQRES 9 A 172 VAL LYS TYR ALA VAL ARG LEU ARG ASN TYR GLY SER ARG SEQRES 10 A 172 THR ALA ASN GLY ASP GLY GLY MSE THR THR VAL GLN CYS SEQRES 11 A 172 PRO ASP GLY VAL THR PHE THR PHE SER THR CYS SER LEU SEQRES 12 A 172 SER SER ASN GLY THR ASN GLN THR ARG GLY GLN ILE PRO SEQRES 13 A 172 GLN ILE LEU TYR TYR ARG SER GLU GLU GLY HIS HIS HIS SEQRES 14 A 172 HIS HIS HIS SEQRES 1 B 172 MSE SER LEU ASN ARG PHE THR LYS THR SER GLN GLY ARG SEQRES 2 B 172 SER TRP ASN THR GLY ASN GLY SER PRO ASP ALA ILE CYS SEQRES 3 B 172 PHE ALA VAL ASP LYS PRO GLY ILE VAL VAL VAL GLY PHE SEQRES 4 B 172 ALA VAL TYR GLY GLY GLY GLY ILE HIS GLU TYR GLU LEU SEQRES 5 B 172 GLU VAL LEU VAL ASP ASP SER GLU HIS ALA GLY ASP SER SEQRES 6 B 172 THR HIS SER HIS ARG TRP THR SER LEU GLU LEU VAL LYS SEQRES 7 B 172 GLY THR TYR THR THR ASP ASP SER PRO SER ASP ILE ALA SEQRES 8 B 172 GLU ILE ARG LEU ASP LYS VAL VAL PRO LEU LYS GLU ASN SEQRES 9 B 172 VAL LYS TYR ALA VAL ARG LEU ARG ASN TYR GLY SER ARG SEQRES 10 B 172 THR ALA ASN GLY ASP GLY GLY MSE THR THR VAL GLN CYS SEQRES 11 B 172 PRO ASP GLY VAL THR PHE THR PHE SER THR CYS SER LEU SEQRES 12 B 172 SER SER ASN GLY THR ASN GLN THR ARG GLY GLN ILE PRO SEQRES 13 B 172 GLN ILE LEU TYR TYR ARG SER GLU GLU GLY HIS HIS HIS SEQRES 14 B 172 HIS HIS HIS MODRES 3HWJ MSE A 1844 MET SELENOMETHIONINE MODRES 3HWJ MSE B 1844 MET SELENOMETHIONINE HET MSE A1844 8 HET MSE B1844 8 HET DMS A 2 4 HET DMS B 1 4 HET DMS B 3 4 HETNAM MSE SELENOMETHIONINE HETNAM DMS DIMETHYL SULFOXIDE FORMUL 1 MSE 2(C5 H11 N O2 SE) FORMUL 3 DMS 3(C2 H6 O S) FORMUL 6 HOH *124(H2 O) HELIX 1 1 THR A 1736 SER A 1740 5 5 HELIX 2 2 THR B 1736 SER B 1740 5 5 SHEET 1 A 2 PHE A1725 THR A1728 0 SHEET 2 A 2 GLY A1840 GLY A1843 -1 O ASP A1841 N LYS A1727 SHEET 1 B 6 THR A1791 TYR A1800 0 SHEET 2 B 6 HIS A1767 VAL A1775 -1 N VAL A1773 O LEU A1793 SHEET 3 B 6 TYR A1826 TYR A1833 -1 O ALA A1827 N LEU A1774 SHEET 4 B 6 ASP A1742 VAL A1748 -1 N ASP A1742 O LEU A1830 SHEET 5 B 6 THR A1854 SER A1858 -1 O SER A1858 N CYS A1745 SHEET 6 B 6 THR A1846 GLN A1848 -1 N VAL A1847 O PHE A1855 SHEET 1 C 3 ILE A1809 PRO A1819 0 SHEET 2 C 3 ILE A1753 TYR A1761 -1 N VAL A1755 O VAL A1818 SHEET 3 C 3 GLN A1876 ARG A1881 -1 O LEU A1878 N GLY A1757 SHEET 1 D 2 LYS B1727 THR B1728 0 SHEET 2 D 2 GLY B1840 ASP B1841 -1 O ASP B1841 N LYS B1727 SHEET 1 E 6 TRP B1790 TYR B1800 0 SHEET 2 E 6 HIS B1767 ASP B1776 -1 N VAL B1773 O GLU B1794 SHEET 3 E 6 TYR B1826 TYR B1833 -1 O ALA B1827 N LEU B1774 SHEET 4 E 6 ASP B1742 VAL B1748 -1 N ASP B1742 O LEU B1830 SHEET 5 E 6 THR B1854 SER B1858 -1 O SER B1858 N CYS B1745 SHEET 6 E 6 THR B1846 GLN B1848 -1 N VAL B1847 O PHE B1855 SHEET 1 F 3 ILE B1809 LEU B1820 0 SHEET 2 F 3 ILE B1753 TYR B1761 -1 N ILE B1753 O LEU B1820 SHEET 3 F 3 GLN B1876 ARG B1881 -1 O LEU B1878 N GLY B1757 SSBOND 1 CYS A 1745 CYS A 1860 1555 1555 2.09 SSBOND 2 CYS B 1745 CYS B 1860 1555 1555 2.08 LINK C GLY A1843 N MSE A1844 1555 1555 1.32 LINK C MSE A1844 N THR A1845 1555 1555 1.32 LINK C GLY B1843 N MSE B1844 1555 1555 1.34 LINK C MSE B1844 N THR B1845 1555 1555 1.33 SITE 1 AC1 6 HOH A 86 LEU A1722 VAL A1847 PHE A1857 SITE 2 AC1 6 GLN A1876 ILE A1877 SITE 1 AC2 4 SER B1733 TRP B1734 ASN B1735 ASN B1865 SITE 1 AC3 4 ASN B1723 GLN B1876 ILE B1877 TYR B1879 CRYST1 93.877 99.922 83.054 90.00 90.00 90.00 C 2 2 21 16 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 0.010652 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010008 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012040 0.00000