HEADER LIGASE 06-JUN-17 5O6C TITLE CRYSTAL STRUCTURE OF A THREONINE-SELECTIVE RCR E3 LIGASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE MYCBP2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MYC-BINDING PROTEIN 2,PAM/HIGHWIRE/RPM-1 PROTEIN,PROTEIN COMPND 5 ASSOCIATED WITH MYC,RING-TYPE E3 UBIQUITIN TRANSFERASE MYCBP2; COMPND 6 EC: 2.3.2.27; COMPND 7 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: MYCBP2, KIAA0916, PAM; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RING ZINC BINDING THREONINE E3 LIGASE, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR K.-C.PAO,K.Z.RAFIE,D.VAN AALTEN,S.VIRDEE REVDAT 3 02-MAY-18 5O6C 1 JRNL REVDAT 2 25-APR-18 5O6C 1 JRNL REVDAT 1 18-APR-18 5O6C 0 JRNL AUTH K.C.PAO,N.T.WOOD,A.KNEBEL,K.RAFIE,M.STANLEY,P.D.MABBITT, JRNL AUTH 2 R.SUNDARAMOORTHY,K.HOFMANN,D.M.F.VAN AALTEN,S.VIRDEE JRNL TITL ACTIVITY-BASED E3 LIGASE PROFILING UNCOVERS AN E3 LIGASE JRNL TITL 2 WITH ESTERIFICATION ACTIVITY. JRNL REF NATURE V. 556 381 2018 JRNL REFN ESSN 1476-4687 JRNL PMID 29643511 JRNL DOI 10.1038/S41586-018-0026-1 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 39140 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) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.100 REMARK 3 FREE R VALUE TEST SET COUNT : 823 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) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2726 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.16 REMARK 3 BIN R VALUE (WORKING SET) : 0.2630 REMARK 3 BIN FREE R VALUE SET COUNT : 49 REMARK 3 BIN FREE R VALUE : 0.2660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1980 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 257 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.18000 REMARK 3 B22 (A**2) : -0.18000 REMARK 3 B33 (A**2) : 0.59000 REMARK 3 B12 (A**2) : -0.09000 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): 0.083 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.083 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.061 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.927 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2063 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1905 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2775 ; 1.962 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4376 ; 0.979 ; 3.009 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 252 ; 6.447 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 96 ;29.625 ;22.917 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 339 ;13.666 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;19.889 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 289 ; 0.115 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2311 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 485 ; 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): 1008 ; 2.517 ; 2.570 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1007 ; 2.506 ; 2.566 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1257 ; 3.305 ; 3.840 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1258 ; 3.312 ; 3.844 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1055 ; 3.862 ; 2.936 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1056 ; 3.862 ; 2.939 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1518 ; 5.898 ; 4.249 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2526 ; 7.355 ;21.667 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2417 ; 7.320 ;21.185 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 : NULL 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 5O6C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1200005249. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAR-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2823 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40007 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 18.300 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.78 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.40400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXD REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: BIPYRAMIDAL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.63 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 23.3 MM NA2HPO4 23.3 MM (NH4)2SO4 23.3 REMARK 280 MM NANO3 18 % PEG500 MME 9 % PEG20000, PH 6.7, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 34.43433 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 68.86867 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 51.65150 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 86.08583 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 17.21717 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 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 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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 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 SER A 4378 REMARK 465 ARG A 4519 REMARK 465 CYS A 4520 REMARK 465 ASP A 4521 REMARK 465 ALA A 4522 REMARK 465 GLU A 4523 REMARK 465 ALA A 4524 REMARK 465 GLY A 4525 REMARK 465 ARG A 4526 REMARK 465 THR A 4639 REMARK 465 PHE A 4640 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 HIS A4638 CG ND1 CD2 CE1 NE2 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 OE1 GLU A 4558 NH1 ARG A 4635 2.03 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 A4419 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A4419 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ASP A4451 CB - CG - OD1 ANGL. DEV. = 6.4 DEGREES REMARK 500 ARG A4465 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 ARG A4465 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A4465 NE - CZ - NH2 ANGL. DEV. = -5.3 DEGREES REMARK 500 ARG A4465 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A4533 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 ARG A4533 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ASP A4542 CB - CG - OD1 ANGL. DEV. = 6.6 DEGREES REMARK 500 ASP A4542 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG A4588 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A4635 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A4635 NE - CZ - NH2 ANGL. DEV. = -3.4 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 PHE A4394 -27.49 69.57 REMARK 500 SER A4409 -8.40 92.86 REMARK 500 ARG A4424 -146.18 57.32 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 ALA A 4637 HIS A 4638 -48.90 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 ZN A4701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A4390 SG REMARK 620 2 CYS A4393 SG 110.4 REMARK 620 3 HIS A4413 ND1 97.8 103.2 REMARK 620 4 CYS A4416 SG 119.3 109.7 114.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A4702 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A4408 SG REMARK 620 2 HIS A4410 ND1 107.6 REMARK 620 3 CYS A4437 SG 106.8 113.2 REMARK 620 4 CYS A4440 SG 108.7 109.4 110.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A4703 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A4506 SG REMARK 620 2 CYS A4509 SG 108.4 REMARK 620 3 CYS A4537 SG 112.1 114.5 REMARK 620 4 CYS A4540 SG 109.4 110.0 102.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A4704 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A4549 SG REMARK 620 2 HIS A4552 ND1 110.1 REMARK 620 3 CYS A4631 SG 116.4 110.1 REMARK 620 4 CYS A4634 SG 105.1 99.3 114.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A4705 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A4561 SG REMARK 620 2 CYS A4564 SG 115.3 REMARK 620 3 CYS A4579 SG 109.8 102.1 REMARK 620 4 CYS A4582 SG 107.2 116.3 105.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A4706 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A4565 SG REMARK 620 2 CYS A4600 SG 116.0 REMARK 620 3 CYS A4614 SG 118.4 104.5 REMARK 620 4 HIS A4620 NE2 106.5 105.3 104.8 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 4701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 4702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 4703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 4704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 4705 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 4706 DBREF 5O6C A 4379 4638 UNP O75592 MYCB2_HUMAN 4379 4638 SEQADV 5O6C SER A 4378 UNP O75592 EXPRESSION TAG SEQADV 5O6C THR A 4639 UNP O75592 EXPRESSION TAG SEQADV 5O6C PHE A 4640 UNP O75592 EXPRESSION TAG SEQRES 1 A 263 SER ALA THR SER LEU LYS GLN ASP ALA ASP ASP MET CYS SEQRES 2 A 263 MET ILE CYS PHE THR GLU ALA LEU SER ALA ALA PRO ALA SEQRES 3 A 263 ILE GLN LEU ASP CYS SER HIS ILE PHE HIS LEU GLN CYS SEQRES 4 A 263 CYS ARG ARG VAL LEU GLU ASN ARG TRP LEU GLY PRO ARG SEQRES 5 A 263 ILE THR PHE GLY PHE ILE SER CYS PRO ILE CYS LYS ASN SEQRES 6 A 263 LYS ILE ASN HIS ILE VAL LEU LYS ASP LEU LEU ASP PRO SEQRES 7 A 263 ILE LYS GLU LEU TYR GLU ASP VAL ARG ARG LYS ALA LEU SEQRES 8 A 263 MET ARG LEU GLU TYR GLU GLY LEU HIS LYS SER GLU ALA SEQRES 9 A 263 ILE THR THR PRO GLY VAL ARG PHE TYR ASN ASP PRO ALA SEQRES 10 A 263 GLY TYR ALA MET ASN ARG TYR ALA TYR TYR VAL CYS TYR SEQRES 11 A 263 LYS CYS ARG LYS ALA TYR PHE GLY GLY GLU ALA ARG CYS SEQRES 12 A 263 ASP ALA GLU ALA GLY ARG GLY ASP ASP TYR ASP PRO ARG SEQRES 13 A 263 GLU LEU ILE CYS GLY ALA CYS SER ASP VAL SER ARG ALA SEQRES 14 A 263 GLN MET CYS PRO LYS HIS GLY THR ASP PHE LEU GLU TYR SEQRES 15 A 263 LYS CYS ARG TYR CYS CYS SER VAL ALA VAL PHE PHE CYS SEQRES 16 A 263 PHE GLY THR THR HIS PHE CYS ASN ALA CYS HIS ASP ASP SEQRES 17 A 263 PHE GLN ARG MET THR SER ILE PRO LYS GLU GLU LEU PRO SEQRES 18 A 263 HIS CYS PRO ALA GLY PRO LYS GLY LYS GLN LEU GLU GLY SEQRES 19 A 263 THR GLU CYS PRO LEU HIS VAL VAL HIS PRO PRO THR GLY SEQRES 20 A 263 GLU GLU PHE ALA LEU GLY CYS GLY VAL CYS ARG ASN ALA SEQRES 21 A 263 HIS THR PHE HET ZN A4701 1 HET ZN A4702 1 HET ZN A4703 1 HET ZN A4704 1 HET ZN A4705 1 HET ZN A4706 1 HETNAM ZN ZINC ION FORMUL 2 ZN 6(ZN 2+) FORMUL 8 HOH *257(H2 O) HELIX 1 AA1 ALA A 4397 ALA A 4401 5 5 HELIX 2 AA2 LEU A 4414 ARG A 4424 1 11 HELIX 3 AA3 PHE A 4432 SER A 4436 5 5 HELIX 4 AA4 HIS A 4446 VAL A 4448 5 3 HELIX 5 AA5 LEU A 4449 GLU A 4474 1 26 HELIX 6 AA6 SER A 4479 THR A 4484 1 6 HELIX 7 AA7 ASP A 4492 ARG A 4500 1 9 HELIX 8 AA8 ASP A 4531 LEU A 4535 5 5 HELIX 9 AA9 GLY A 4538 ASP A 4542 5 5 HELIX 10 AB1 CYS A 4579 ASP A 4585 1 7 HELIX 11 AB2 ASP A 4585 ILE A 4592 1 8 HELIX 12 AB3 PRO A 4593 LEU A 4597 5 5 HELIX 13 AB4 PRO A 4604 GLY A 4606 5 3 HELIX 14 AB5 VAL A 4633 ALA A 4637 5 5 SHEET 1 AA1 2 ALA A4403 GLN A4405 0 SHEET 2 AA1 2 ILE A4411 HIS A4413 -1 O PHE A4412 N ILE A4404 SHEET 1 AA2 2 TYR A4501 VAL A4505 0 SHEET 2 AA2 2 ALA A4512 GLU A4517 -1 O GLY A4515 N ALA A4502 SHEET 1 AA3 2 LEU A4557 TYR A4559 0 SHEET 2 AA3 2 ALA A4628 CYS A4631 -1 O LEU A4629 N GLU A4558 SHEET 1 AA4 2 PHE A4570 CYS A4572 0 SHEET 2 AA4 2 THR A4576 PHE A4578 -1 O THR A4576 N CYS A4572 SHEET 1 AA5 2 ALA A4602 GLY A4603 0 SHEET 2 AA5 2 LYS A4607 GLN A4608 -1 O LYS A4607 N GLY A4603 LINK SG CYS A4390 ZN ZN A4701 1555 1555 2.30 LINK SG CYS A4393 ZN ZN A4701 1555 1555 2.31 LINK SG CYS A4408 ZN ZN A4702 1555 1555 2.27 LINK ND1 HIS A4410 ZN ZN A4702 1555 1555 2.14 LINK ND1 HIS A4413 ZN ZN A4701 1555 1555 2.12 LINK SG CYS A4416 ZN ZN A4701 1555 1555 2.33 LINK SG CYS A4437 ZN ZN A4702 1555 1555 2.33 LINK SG CYS A4440 ZN ZN A4702 1555 1555 2.33 LINK SG CYS A4506 ZN ZN A4703 1555 1555 2.31 LINK SG CYS A4509 ZN ZN A4703 1555 1555 2.33 LINK SG CYS A4537 ZN ZN A4703 1555 1555 2.36 LINK SG CYS A4540 ZN ZN A4703 1555 1555 2.31 LINK SG CYS A4549 ZN ZN A4704 1555 1555 2.35 LINK ND1 HIS A4552 ZN ZN A4704 1555 1555 2.12 LINK SG CYS A4561 ZN ZN A4705 1555 1555 2.33 LINK SG CYS A4564 ZN ZN A4705 1555 1555 2.32 LINK SG CYS A4565 ZN ZN A4706 1555 1555 2.29 LINK SG CYS A4579 ZN ZN A4705 1555 1555 2.37 LINK SG CYS A4582 ZN ZN A4705 1555 1555 2.33 LINK SG CYS A4600 ZN ZN A4706 1555 1555 2.34 LINK SG CYS A4614 ZN ZN A4706 1555 1555 2.33 LINK NE2 HIS A4620 ZN ZN A4706 1555 1555 2.10 LINK SG CYS A4631 ZN ZN A4704 1555 1555 2.30 LINK SG CYS A4634 ZN ZN A4704 1555 1555 2.30 CISPEP 1 CYS A 4600 PRO A 4601 0 -5.11 SITE 1 AC1 4 CYS A4390 CYS A4393 HIS A4413 CYS A4416 SITE 1 AC2 4 CYS A4408 HIS A4410 CYS A4437 CYS A4440 SITE 1 AC3 4 CYS A4506 CYS A4509 CYS A4537 CYS A4540 SITE 1 AC4 4 CYS A4549 HIS A4552 CYS A4631 CYS A4634 SITE 1 AC5 4 CYS A4561 CYS A4564 CYS A4579 CYS A4582 SITE 1 AC6 4 CYS A4565 CYS A4600 CYS A4614 HIS A4620 CRYST1 82.578 82.578 103.303 90.00 90.00 120.00 P 61 6 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 0.012110 0.006992 0.000000 0.00000 SCALE2 0.000000 0.013983 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009680 0.00000