PDB Short entry for 4DHN HEADER PROTEIN BINDING/INHIBITOR 30-JAN-12 4DHN TITLE SMALL-MOLECULE INHIBITORS OF 14-3-3 PROTEIN-PROTEIN INTERACTIONS FROM TITLE 2 VIRTUAL SCREENING COMPND MOL_ID: 1; COMPND 2 MOLECULE: 14-3-3 PROTEIN SIGMA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-231; COMPND 5 SYNONYM: EPITHELIAL CELL MARKER PROTEIN 1, STRATIFIN; COMPND 6 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: HME1, SFN; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PPROEX HTB KEYWDS HELICAL PROTEIN, ADAPTER PROTEIN, PHOSPHOPROTEIN BINDING, PROTEIN KEYWDS 2 BINDING-INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.THIEL,L.ROEGLIN,O.KOHLBACHER,C.OTTMANN REVDAT 3 28-FEB-24 4DHN 1 REMARK SEQADV LINK REVDAT 2 04-SEP-13 4DHN 1 JRNL REVDAT 1 31-JUL-13 4DHN 0 JRNL AUTH P.THIEL,L.ROGLIN,N.MEISSNER,S.HENNIG,O.KOHLBACHER,C.OTTMANN JRNL TITL VIRTUAL SCREENING AND EXPERIMENTAL VALIDATION REVEAL NOVEL JRNL TITL 2 SMALL-MOLECULE INHIBITORS OF 14-3-3 PROTEIN-PROTEIN JRNL TITL 3 INTERACTIONS. JRNL REF CHEM.COMMUN.(CAMB.) V. 49 8468 2013 JRNL REFN ISSN 1359-7345 JRNL PMID 23939230 JRNL DOI 10.1039/C3CC44612C REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.41 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 26775 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) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1339 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1741 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1840 REMARK 3 BIN FREE R VALUE SET COUNT : 91 REMARK 3 BIN FREE R VALUE : 0.2400 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1798 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 346 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.64 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.68000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.69000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.105 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.058 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.778 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2120 ; 0.024 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2913 ; 1.904 ; 1.998 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 304 ; 4.866 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 104 ;37.593 ;25.096 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 426 ;14.614 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;17.607 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 325 ; 0.146 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1629 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 1272 ; 1.139 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2084 ; 1.822 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 848 ; 3.078 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 789 ; 4.968 ; 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 : 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4DHN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000070340. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-MAY-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : CURVED MULTILAYER MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE, XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26775 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 45.410 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 5.020 REMARK 200 R MERGE (I) : 0.03400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 32.4000 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) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.10000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 12.03 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.2.1 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.095M HEPES NA, 0.19M CALCIUM REMARK 280 CHLORIDE, 5% GLYCEROL, 28% PEG400, PH 7.3, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K 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 31.20000 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 31.20000 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 41.09000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.90000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 41.09000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.90000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 31.20000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 41.09000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 55.90000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 31.20000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 41.09000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 55.90000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3460 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -73.0 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 MG MG A 301 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 730 LIES ON A SPECIAL POSITION. 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 GLU A 71 REMARK 465 GLU A 72 REMARK 465 GLY A 73 REMARK 465 SER A 74 REMARK 465 GLU A 75 REMARK 465 GLU A 76 REMARK 465 LYS A 77 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 OD1 ASP A 104 O HOH A 602 1.47 REMARK 500 OE1 GLU A 210 O HOH A 562 1.98 REMARK 500 OE2 GLU A 161 O HOH A 670 2.09 REMARK 500 O HOH A 523 O HOH A 640 2.10 REMARK 500 O HOH A 594 O HOH A 635 2.11 REMARK 500 O HOH A 669 O HOH A 696 2.14 REMARK 500 O HOH A 505 O HOH A 667 2.15 REMARK 500 OE2 GLU A 153 O HOH A 608 2.16 REMARK 500 N ALA A -3 O HOH A 439 2.18 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 CYS A 38 CB CYS A 38 SG -0.112 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 A 85 NE - CZ - NH1 ANGL. DEV. = 3.7 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 ARG A 18 75.80 -105.04 REMARK 500 HIS A 106 37.94 -143.26 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 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 2 OE1 REMARK 620 2 HOH A 425 O 83.6 REMARK 620 3 HOH A 489 O 77.7 73.6 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 35 OE1 REMARK 620 2 GLU A 35 OE2 49.7 REMARK 620 3 GLU A 110 O 86.6 88.2 REMARK 620 4 HOH A 561 O 79.9 129.7 89.2 REMARK 620 5 HOH A 586 O 160.7 145.0 103.7 83.9 REMARK 620 6 HOH A 597 O 83.5 86.2 170.1 88.1 85.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 86 OE2 REMARK 620 2 GLU A 86 OE1 53.9 REMARK 620 3 GLU A 89 OE2 89.9 98.0 REMARK 620 4 HOH A 644 O 133.7 80.0 93.6 REMARK 620 5 HOH A 705 O 89.3 143.2 79.6 136.7 REMARK 620 6 HOH A 705 O 161.0 145.1 87.7 65.2 71.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0KC A 307 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3T0L RELATED DB: PDB REMARK 900 RELATED ID: 3T0M RELATED DB: PDB REMARK 900 RELATED ID: 3U9X RELATED DB: PDB REMARK 900 RELATED ID: 4DHM RELATED DB: PDB REMARK 900 RELATED ID: 4DHO RELATED DB: PDB REMARK 900 RELATED ID: 4DHP RELATED DB: PDB REMARK 900 RELATED ID: 4DHQ RELATED DB: PDB REMARK 900 RELATED ID: 4DHR RELATED DB: PDB REMARK 900 RELATED ID: 4DHS RELATED DB: PDB REMARK 900 RELATED ID: 4DHT RELATED DB: PDB REMARK 900 RELATED ID: 4DHU RELATED DB: PDB DBREF 4DHN A 1 231 UNP P31947 1433S_HUMAN 1 231 SEQADV 4DHN ALA A -3 UNP P31947 EXPRESSION TAG SEQADV 4DHN MET A -2 UNP P31947 EXPRESSION TAG SEQADV 4DHN GLY A -1 UNP P31947 EXPRESSION TAG SEQADV 4DHN SER A 0 UNP P31947 EXPRESSION TAG SEQRES 1 A 235 ALA MET GLY SER MET GLU ARG ALA SER LEU ILE GLN LYS SEQRES 2 A 235 ALA LYS LEU ALA GLU GLN ALA GLU ARG TYR GLU ASP MET SEQRES 3 A 235 ALA ALA PHE MET LYS GLY ALA VAL GLU LYS GLY GLU GLU SEQRES 4 A 235 LEU SER CYS GLU GLU ARG ASN LEU LEU SER VAL ALA TYR SEQRES 5 A 235 LYS ASN VAL VAL GLY GLY GLN ARG ALA ALA TRP ARG VAL SEQRES 6 A 235 LEU SER SER ILE GLU GLN LYS SER ASN GLU GLU GLY SER SEQRES 7 A 235 GLU GLU LYS GLY PRO GLU VAL ARG GLU TYR ARG GLU LYS SEQRES 8 A 235 VAL GLU THR GLU LEU GLN GLY VAL CYS ASP THR VAL LEU SEQRES 9 A 235 GLY LEU LEU ASP SER HIS LEU ILE LYS GLU ALA GLY ASP SEQRES 10 A 235 ALA GLU SER ARG VAL PHE TYR LEU LYS MET LYS GLY ASP SEQRES 11 A 235 TYR TYR ARG TYR LEU ALA GLU VAL ALA THR GLY ASP ASP SEQRES 12 A 235 LYS LYS ARG ILE ILE ASP SER ALA ARG SER ALA TYR GLN SEQRES 13 A 235 GLU ALA MET ASP ILE SER LYS LYS GLU MET PRO PRO THR SEQRES 14 A 235 ASN PRO ILE ARG LEU GLY LEU ALA LEU ASN PHE SER VAL SEQRES 15 A 235 PHE HIS TYR GLU ILE ALA ASN SER PRO GLU GLU ALA ILE SEQRES 16 A 235 SER LEU ALA LYS THR THR PHE ASP GLU ALA MET ALA ASP SEQRES 17 A 235 LEU HIS THR LEU SER GLU ASP SER TYR LYS ASP SER THR SEQRES 18 A 235 LEU ILE MET GLN LEU LEU ARG ASP ASN LEU THR LEU TRP SEQRES 19 A 235 THR HET MG A 301 1 HET MG A 302 1 HET MG A 303 1 HET CL A 304 1 HET CL A 305 1 HET GOL A 306 6 HET 0KC A 307 20 HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETNAM 0KC {2-[2-(CYCLOPENTYLAMINO)-2-OXOETHOXY]PHENYL}PHOSPHONIC HETNAM 2 0KC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 MG 3(MG 2+) FORMUL 5 CL 2(CL 1-) FORMUL 7 GOL C3 H8 O3 FORMUL 8 0KC C13 H18 N O5 P FORMUL 9 HOH *346(H2 O) HELIX 1 1 GLU A 2 ALA A 16 1 15 HELIX 2 2 ARG A 18 GLU A 31 1 14 HELIX 3 3 SER A 37 ASN A 70 1 34 HELIX 4 4 PRO A 79 SER A 105 1 27 HELIX 5 5 HIS A 106 ALA A 111 1 6 HELIX 6 6 ASP A 113 ALA A 135 1 23 HELIX 7 7 ASP A 139 MET A 162 1 24 HELIX 8 8 ASN A 166 ILE A 183 1 18 HELIX 9 9 SER A 186 LEU A 205 1 20 HELIX 10 10 HIS A 206 LEU A 208 5 3 HELIX 11 11 SER A 209 THR A 231 1 23 LINK OE1 GLU A 2 MG MG A 301 1555 1555 2.40 LINK OE1 GLU A 35 MG MG A 302 1555 1555 2.27 LINK OE2 GLU A 35 MG MG A 302 1555 1555 2.75 LINK OE2BGLU A 86 MG MG A 303 1555 1555 2.40 LINK OE1BGLU A 86 MG MG A 303 1555 1555 2.47 LINK OE2 GLU A 89 MG MG A 303 1555 1555 2.48 LINK O GLU A 110 MG MG A 302 1555 1555 2.24 LINK MG MG A 301 O HOH A 425 1555 1555 2.55 LINK MG MG A 301 O HOH A 489 1555 1555 2.35 LINK MG MG A 302 O HOH A 561 1555 1555 2.12 LINK MG MG A 302 O HOH A 586 1555 1555 2.23 LINK MG MG A 302 O HOH A 597 1555 1555 2.34 LINK MG MG A 303 O HOH A 644 1555 1555 2.09 LINK MG MG A 303 O AHOH A 705 1555 1555 1.90 LINK MG MG A 303 O BHOH A 705 1555 1555 2.40 CISPEP 1 SER A 105 HIS A 106 0 10.71 SITE 1 AC1 3 GLU A 2 HOH A 425 HOH A 489 SITE 1 AC2 6 GLU A 35 GLU A 110 GLU A 188 HOH A 561 SITE 2 AC2 6 HOH A 586 HOH A 597 SITE 1 AC3 4 GLU A 86 GLU A 89 HOH A 644 HOH A 705 SITE 1 AC4 4 LYS A 9 LYS A 87 HOH A 453 HOH A 512 SITE 1 AC5 1 LYS A 109 SITE 1 AC6 4 GLU A 110 MET A 202 TYR A 213 THR A 217 SITE 1 AC7 11 GLY A 53 ARG A 56 ARG A 60 ARG A 129 SITE 2 AC7 11 TYR A 130 ASN A 175 HOH A 498 HOH A 552 SITE 3 AC7 11 HOH A 599 HOH A 617 HOH A 656 CRYST1 82.180 111.800 62.400 90.00 90.00 90.00 C 2 2 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 0.012168 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008945 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016026 0.00000