PDB Short entry for 1W5J HEADER FOUR HELIX BUNDLE 07-AUG-04 1W5J TITLE AN ANTI-PARALLEL FOUR HELIX BUNDLE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GENERAL CONTROL PROTEIN GCN4; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: AMINO ACID BIOSYNTHESIS REGULATORY PROTEIN, PLI KYHC; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 4 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 5 ORGANISM_TAXID: 4932 KEYWDS FOUR HELIX BUNDLE, ANTIPARALLEL FOUR HELIX BUNDLE EXPDTA X-RAY DIFFRACTION AUTHOR M.K.YADAV,L.J.LEMAN,C.D.STOUT,M.R.GHADIRI REVDAT 5 08-MAY-19 1W5J 1 REMARK LINK REVDAT 4 24-FEB-09 1W5J 1 VERSN REVDAT 3 25-APR-06 1W5J 1 AUTHOR JRNL REVDAT 2 20-JUL-05 1W5J 1 JRNL REVDAT 1 24-SEP-04 1W5J 0 JRNL AUTH M.K.YADAV,L.J.LEMAN,D.J.PRICE,C.L.BROOKS,C.D.STOUT, JRNL AUTH 2 M.R.GHADIRI JRNL TITL COILED COILS AT THE EDGE OF CONFIGURATIONAL HETEROGENEITY. JRNL TITL 2 STRUCTURAL ANALYSES OF PARALLEL AND ANTIPARALLEL JRNL TITL 3 HOMOTETRAMERIC COILED COILS REVEAL CONFIGURATIONAL JRNL TITL 4 SENSITIVITY TO A SINGLE SOLVENT-EXPOSED AMINO ACID JRNL TITL 5 SUBSTITUTION. JRNL REF BIOCHEMISTRY V. 45 4463 2006 JRNL REFN ISSN 0006-2960 JRNL PMID 16584182 JRNL DOI 10.1021/BI060092Q REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 6718 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) : 0.231 REMARK 3 R VALUE (WORKING SET) : 0.228 REMARK 3 FREE R VALUE : 0.285 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 330 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 460 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1880 REMARK 3 BIN FREE R VALUE SET COUNT : 27 REMARK 3 BIN FREE R VALUE : 0.3040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1093 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 11 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.12000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : -0.27000 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): 0.361 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.261 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.168 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.478 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.919 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.894 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1114 ; 0.038 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1116 ; 0.008 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1479 ; 2.349 ; 2.016 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2551 ; 1.147 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 132 ; 5.145 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 168 ; 0.177 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1215 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 239 ; 0.006 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 260 ; 0.251 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1207 ; 0.278 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 677 ; 0.099 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 15 ; 0.225 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 25 ; 0.255 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 107 ; 0.347 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.453 ; 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): 672 ; 1.603 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1071 ; 2.517 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 442 ; 4.282 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 408 ; 6.878 ; 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 1W5J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-AUG-04. REMARK 100 THE DEPOSITION ID IS D_1290020712. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-MAR-03 REMARK 200 TEMPERATURE (KELVIN) : 93.0 REMARK 200 PH : 5.60 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 RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.3922 REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : CONFOCAL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR (MSC/RIGAKU) REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR (MSC/RIGAKU) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7116 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 52.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 4.150 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.75 REMARK 200 R MERGE FOR SHELL (I) : 0.16000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 10.70 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: NULL REMARK 200 REMARK 200 REMARK: BEAM WAS INADVERTENTLY ALIGNED TO CU K BETA EDGE. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HANGING DROP, 1 UL OF 10 MG/ML PEPTIDE REMARK 280 IN WATER TO 1UL OF 0.07M TRI-SODIUM CITRATE DIHYDRATE PH 5.6 REMARK 280 0.7M AMMONIUM DIHYDROGEN PHOSPHATE %30 V/V GLYCEROL, HAMPTON REMARK 280 CRYSTAL SCREEN CRYO NUMBER 11, PH 5.60, VAPOR DIFFUSION, HANGING REMARK 280 DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 16.84550 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.59600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 16.84550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 18.59600 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 33.69100 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 33.69100 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED MUTATION IN CHAINS A, B, C, D: ARG 251 TO LYS REMARK 400 ENGINEERED MUTATION IN CHAINS A, B, C, D: ARG 256 TO LYS REMARK 400 ENGINEERED MUTATION IN CHAINS A, B, C, D: CYS 268 TO GLU REMARK 400 ENGINEERED MUTATION IN CHAINS A, B, C, D: ARG 275 TO LYS REMARK 400 ENGINEERED MUTATION IN CHAINS A, B, C, D: ARG 276 TO LYS 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 TYZ B 0 REMARK 465 TYZ C 0 REMARK 465 TYZ D 0 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 ARG A 29 CD NE CZ NH1 NH2 REMARK 470 ARG B 1 NE CZ NH1 NH2 REMARK 470 ARG B 3 CG CD NE CZ NH1 NH2 REMARK 470 HIS B 18 ND1 CD2 CE1 NE2 REMARK 470 GLU B 22 CD OE1 OE2 REMARK 470 GLU B 32 CD OE1 OE2 REMARK 470 ARG C 3 CD NE CZ NH1 NH2 REMARK 470 GLU C 11 CG CD OE1 OE2 REMARK 470 LYS C 15 CE NZ REMARK 470 ARG C 28 CD NE CZ NH1 NH2 REMARK 470 LEU C 29 CD1 CD2 REMARK 470 ARG D 1 CB CG CD NE CZ NH1 NH2 REMARK 470 ARG D 3 CG CD NE CZ NH1 NH2 REMARK 470 GLN D 4 CD OE1 NE2 REMARK 470 ARG D 8 CD NE CZ NH1 NH2 REMARK 470 ARG D 27 NE CZ NH1 NH2 REMARK 470 GLU D 32 CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 2003 O HOH A 2003 2655 1.82 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 ARG B 1 CG ARG B 1 CD 0.184 REMARK 500 ARG B 28 CZ ARG B 28 NH2 -0.080 REMARK 500 GLU C 6 CD GLU C 6 OE2 -0.074 REMARK 500 GLU C 22 CD GLU C 22 OE1 0.071 REMARK 500 TYR D 17 CZ TYR D 17 CE2 0.109 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 9 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ASP B 7 CB - CG - OD1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ARG B 25 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG B 27 NE - CZ - NH1 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG B 27 NE - CZ - NH2 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG B 33 NE - CZ - NH1 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG C 1 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG C 1 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP C 7 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CE9 RELATED DB: PDB REMARK 900 HELIX CAPPING IN THE GCN4 LEUCINE ZIPPER REMARK 900 RELATED ID: 1DGC RELATED DB: PDB REMARK 900 GCN4 LEUCINE ZIPPER COMPLEXED WITH SPECIFIC ATF/CREB SITE REMARK 900 DEOXYRIBONUCLEIC ACID REMARK 900 RELATED ID: 1ENV RELATED DB: PDB REMARK 900 ATOMIC STRUCTURE OF THE ECTODOMAIN FROM HIV -1 GP41 REMARK 900 RELATED ID: 1FAV RELATED DB: PDB REMARK 900 THE STRUCTURE OF AN HIV-1 SPECIFIC CELL ENTRY INHIBITOR INCOMPLEX REMARK 900 WITH THE HIV-1 GP41 TRIMERIC CORE REMARK 900 RELATED ID: 1GCL RELATED DB: PDB REMARK 900 GCN4 LEUCINE ZIPPER CORE MUTANT P-LI REMARK 900 RELATED ID: 1GCM RELATED DB: PDB REMARK 900 GCN4 LEUCINE ZIPPER CORE MUTANT P-LI REMARK 900 RELATED ID: 1GK6 RELATED DB: PDB REMARK 900 HUMAN VIMENTIN COIL 2B FRAGMENT LINKED TO GCN4 LEUCINE ZIPPER (Z2B) REMARK 900 RELATED ID: 1GZL RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF C14LINKMID/IQN17: A CROSS-LINKED INHIBITOR OF REMARK 900 HIV-1 ENTRY BOUND TO THE GP41 HYDROPHOBIC POCKET REMARK 900 RELATED ID: 1IHQ RELATED DB: PDB REMARK 900 GLYTM1BZIP: A CHIMERIC PEPTIDE MODEL OF THE N-TERMINUS OF ARAT REMARK 900 SHORT ALPHA TROPOMYOSIN WITH THE N-TERMINUS ENCODED BYEXON 1B REMARK 900 RELATED ID: 1IJ0 RELATED DB: PDB REMARK 900 COILED COIL TRIMER GCN4-PVLS SER AT BURIED D POSITION REMARK 900 RELATED ID: 1IJ1 RELATED DB: PDB REMARK 900 GCN4-PVLT COILED-COIL TRIMER WITH THREONINE AT THE D(12)POSITION REMARK 900 RELATED ID: 1IJ2 RELATED DB: PDB REMARK 900 GCN4-PVTL COILED-COIL TRIMER WITH THREONINE AT THE A(16)POSITION REMARK 900 RELATED ID: 1IJ3 RELATED DB: PDB REMARK 900 GCN4-PVSL COILED-COIL TRIMER WITH SERINE AT THE A(16)POSITION REMARK 900 RELATED ID: 1KQL RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE C-TERMINAL REGION OF STRIATEDMUSCLE ALPHA- REMARK 900 TROPOMYOSIN AT 2.7 ANGSTROM RESOLUTION REMARK 900 RELATED ID: 1LD4 RELATED DB: PDB REMARK 900 PLACEMENT OF THE STRUCTURAL PROTEINS IN SINDBIS VIRUS REMARK 900 RELATED ID: 1LLM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A ZIF23-GCN4 CHIMERA BOUND TO DNA REMARK 900 RELATED ID: 1NKN RELATED DB: PDB REMARK 900 VISUALIZING AN UNSTABLE COILED COIL: THE CRYSTAL STRUCTUREOF AN N- REMARK 900 TERMINAL SEGMENT OF THE SCALLOP MYOSIN ROD REMARK 900 RELATED ID: 1PIQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF GCN4-PIQ, A TRIMERIC COILED COIL WITH BURIED REMARK 900 POLAR RESIDUES REMARK 900 RELATED ID: 1RB1 RELATED DB: PDB REMARK 900 GCN4-LEUCINE ZIPPER CORE MUTANT AS N16A TRIGONAL AUTOMATICSOLUTION REMARK 900 RELATED ID: 1RB4 RELATED DB: PDB REMARK 900 ANTIPARALLEL TRIMER OF GCN4-LEUCINE ZIPPER CORE MUTANT ASN16A REMARK 900 TETRAGONAL AUTOMATIC SOLUTION REMARK 900 RELATED ID: 1RB5 RELATED DB: PDB REMARK 900 ANTIPARALLEL TRIMER OF GCN4-LEUCINE ZIPPER CORE MUTANT ASN16A REMARK 900 TRIGONAL FORM REMARK 900 RELATED ID: 1RB6 RELATED DB: PDB REMARK 900 ANTIPARALLEL TRIMER OF GCN4-LEUCINE ZIPPER CORE MUTANT ASN16A REMARK 900 TETRAGONAL FORM REMARK 900 RELATED ID: 1SWI RELATED DB: PDB REMARK 900 GCN4-LEUCINE ZIPPER CORE MUTANT AS N16A COMPLEXED WITH BENZENE REMARK 900 RELATED ID: 1TMZ RELATED DB: PDB REMARK 900 TMZIP: A CHIMERIC PEPTIDE MODEL OF THE N- TERMINUS OF ALPHA REMARK 900 TROPOMYOSIN, NMR, 15 STRUCTURES REMARK 900 RELATED ID: 1M6T RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF B562RIL, A REDESIGNED FOUR HELIX BUNDLE REMARK 900 RELATED ID: 1UNT RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UNU RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UNV RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UNW RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UNX RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UNY RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UNZ RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UO0 RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UO1 RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UO2 RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UO3 RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UO4 RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1UO5 RELATED DB: PDB REMARK 900 STRUCTURE BASED ENGINEERING OF INTERNAL MOLECULAR SURFACES OF FOUR REMARK 900 HELIX BUNDLES REMARK 900 RELATED ID: 1VZL RELATED DB: PDB REMARK 900 AN ANTI-PARALLEL FOUR HELIX BUNDLE MUTANT PLI-E20C REMARK 900 RELATED ID: 1YSA RELATED DB: PDB REMARK 900 GCN4 (BASIC REGION, LEUCINE ZIPPER) COMPLEX WITH AP-1 REMARK 900 DEOXYRIBONUCLEIC ACID REMARK 900 RELATED ID: 1ZII RELATED DB: PDB REMARK 900 GCN4-LEUCINE ZIPPER CORE MUTANT ASN16ABA IN THE DIMERIC STATE REMARK 900 RELATED ID: 1ZIJ RELATED DB: PDB REMARK 900 GCN4-LEUCINE ZIPPER CORE MUTANT ASN16ABA IN THE TRIMERIC STATE REMARK 900 RELATED ID: 1ZIK RELATED DB: PDB REMARK 900 GCN4-LEUCINE ZIPPER CORE MUTANT ASN16LYS IN THE DIMERIC STATE REMARK 900 RELATED ID: 1ZIL RELATED DB: PDB REMARK 900 GCN4-LEUCINE ZIPPER CORE MUTANT ASN16GLN IN THE DIMERIC STATE REMARK 900 RELATED ID: 1ZIM RELATED DB: PDB REMARK 900 GCN4-LEUCINE ZIPPER CORE MUTANT ASN16GLN IN THE TRIMERIC STATE REMARK 900 RELATED ID: 1ZTA RELATED DB: PDB REMARK 900 LEUCINE ZIPPER MONOMER (NMR, 20 STRUCTURES) REMARK 900 RELATED ID: 2DGC RELATED DB: PDB REMARK 900 GCN4 BASIC DOMAIN, LEUCINE ZIPPER COMPLEXED WITH ATF/CREB SITE REMARK 900 DEOXYRIBONUCLEIC ACID REMARK 900 RELATED ID: 2ZTA RELATED DB: PDB REMARK 900 GCN4 LEUCINE ZIPPER REMARK 900 RELATED ID: 1W5G RELATED DB: PDB REMARK 900 AN ANTI-PARALLEL FOUR HELIX BUNDLE. REMARK 900 RELATED ID: 1W5H RELATED DB: PDB REMARK 900 AN ANTI-PARALLEL FOUR HELIX BUNDLE. REMARK 900 RELATED ID: 1W5I RELATED DB: PDB REMARK 900 ABA DOES NOT AFFECT TOPOLOGY OF PLI. REMARK 900 RELATED ID: 1W5K RELATED DB: PDB REMARK 900 AN ANTI-PARALLEL FOUR HELIX BUNDLE REMARK 900 RELATED ID: 1W5L RELATED DB: PDB REMARK 900 AN ANTI-PARALLEL TO PARALLEL SWITCH. DBREF 1W5J A 1 1 PDB 1W5J 1W5J 1 1 DBREF 1W5J A 2 34 UNP P03069 GCN4_YEAST 249 281 DBREF 1W5J B 0 0 PDB 1W5J 1W5J 0 0 DBREF 1W5J B 1 33 UNP P03069 GCN4_YEAST 249 281 DBREF 1W5J C 0 0 PDB 1W5J 1W5J 0 0 DBREF 1W5J C 1 33 UNP P03069 GCN4_YEAST 249 281 DBREF 1W5J D 0 0 PDB 1W5J 1W5J 0 0 DBREF 1W5J D 1 33 UNP P03069 GCN4_YEAST 249 281 SEQADV 1W5J ARG A 4 UNP P03069 LYS 251 ENGINEERED MUTATION SEQADV 1W5J ILE A 6 UNP P03069 LEU 253 CONFLICT SEQADV 1W5J ARG A 9 UNP P03069 LYS 256 ENGINEERED MUTATION SEQADV 1W5J LEU A 10 UNP P03069 VAL 257 CONFLICT SEQADV 1W5J ILE A 13 UNP P03069 LEU 260 CONFLICT SEQADV 1W5J LYS A 16 UNP P03069 ASN 264 CONFLICT SEQADV 1W5J ILE A 20 UNP P03069 LEU 267 CONFLICT SEQADV 1W5J CYS A 21 UNP P03069 GLU 268 ENGINEERED MUTATION SEQADV 1W5J LEU A 24 UNP P03069 VAL 271 CONFLICT SEQADV 1W5J ILE A 27 UNP P03069 LEU 274 CONFLICT SEQADV 1W5J ARG A 28 UNP P03069 LYS 275 ENGINEERED MUTATION SEQADV 1W5J ARG A 29 UNP P03069 LYS 276 ENGINEERED MUTATION SEQADV 1W5J LEU A 31 UNP P03069 VAL 278 CONFLICT SEQADV 1W5J ARG B 3 UNP P03069 LYS 251 ENGINEERED MUTATION SEQADV 1W5J ILE B 5 UNP P03069 LEU 253 CONFLICT SEQADV 1W5J ARG B 8 UNP P03069 LYS 256 ENGINEERED MUTATION SEQADV 1W5J LEU B 9 UNP P03069 VAL 257 CONFLICT SEQADV 1W5J ILE B 12 UNP P03069 LEU 260 CONFLICT SEQADV 1W5J LYS B 15 UNP P03069 ASN 264 CONFLICT SEQADV 1W5J ILE B 19 UNP P03069 LEU 267 CONFLICT SEQADV 1W5J CYS B 20 UNP P03069 GLU 268 ENGINEERED MUTATION SEQADV 1W5J LEU B 23 UNP P03069 VAL 271 CONFLICT SEQADV 1W5J ILE B 26 UNP P03069 LEU 274 CONFLICT SEQADV 1W5J ARG B 27 UNP P03069 LYS 275 ENGINEERED MUTATION SEQADV 1W5J ARG B 28 UNP P03069 LYS 276 ENGINEERED MUTATION SEQADV 1W5J LEU B 30 UNP P03069 VAL 278 CONFLICT SEQADV 1W5J ARG C 3 UNP P03069 LYS 251 ENGINEERED MUTATION SEQADV 1W5J ILE C 5 UNP P03069 LEU 253 CONFLICT SEQADV 1W5J ARG C 8 UNP P03069 LYS 256 ENGINEERED MUTATION SEQADV 1W5J LEU C 9 UNP P03069 VAL 257 CONFLICT SEQADV 1W5J ILE C 12 UNP P03069 LEU 260 CONFLICT SEQADV 1W5J LYS C 15 UNP P03069 ASN 264 CONFLICT SEQADV 1W5J ILE C 19 UNP P03069 LEU 267 CONFLICT SEQADV 1W5J CYS C 20 UNP P03069 GLU 268 ENGINEERED MUTATION SEQADV 1W5J LEU C 23 UNP P03069 VAL 271 CONFLICT SEQADV 1W5J ILE C 26 UNP P03069 LEU 274 CONFLICT SEQADV 1W5J ARG C 27 UNP P03069 LYS 275 ENGINEERED MUTATION SEQADV 1W5J ARG C 28 UNP P03069 LYS 276 ENGINEERED MUTATION SEQADV 1W5J LEU C 30 UNP P03069 VAL 278 CONFLICT SEQADV 1W5J ARG D 3 UNP P03069 LYS 251 ENGINEERED MUTATION SEQADV 1W5J ILE D 5 UNP P03069 LEU 253 CONFLICT SEQADV 1W5J ARG D 8 UNP P03069 LYS 256 ENGINEERED MUTATION SEQADV 1W5J LEU D 9 UNP P03069 VAL 257 CONFLICT SEQADV 1W5J ILE D 12 UNP P03069 LEU 260 CONFLICT SEQADV 1W5J LYS D 15 UNP P03069 ASN 264 CONFLICT SEQADV 1W5J ILE D 19 UNP P03069 LEU 267 CONFLICT SEQADV 1W5J CYS D 20 UNP P03069 GLU 268 ENGINEERED MUTATION SEQADV 1W5J LEU D 23 UNP P03069 VAL 271 CONFLICT SEQADV 1W5J ILE D 26 UNP P03069 LEU 274 CONFLICT SEQADV 1W5J ARG D 27 UNP P03069 LYS 275 ENGINEERED MUTATION SEQADV 1W5J ARG D 28 UNP P03069 LYS 276 ENGINEERED MUTATION SEQADV 1W5J LEU D 30 UNP P03069 VAL 278 CONFLICT SEQRES 1 A 34 TYZ ARG MET ARG GLN ILE GLU ASP ARG LEU GLU GLU ILE SEQRES 2 A 34 LEU SER LYS LEU TYR HIS ILE CYS ASN GLU LEU ALA ARG SEQRES 3 A 34 ILE ARG ARG LEU LEU GLY GLU ARG SEQRES 1 B 34 TYZ ARG MET ARG GLN ILE GLU ASP ARG LEU GLU GLU ILE SEQRES 2 B 34 LEU SER LYS LEU TYR HIS ILE CYS ASN GLU LEU ALA ARG SEQRES 3 B 34 ILE ARG ARG LEU LEU GLY GLU ARG SEQRES 1 C 34 TYZ ARG MET ARG GLN ILE GLU ASP ARG LEU GLU GLU ILE SEQRES 2 C 34 LEU SER LYS LEU TYR HIS ILE CYS ASN GLU LEU ALA ARG SEQRES 3 C 34 ILE ARG ARG LEU LEU GLY GLU ARG SEQRES 1 D 34 TYZ ARG MET ARG GLN ILE GLU ASP ARG LEU GLU GLU ILE SEQRES 2 D 34 LEU SER LYS LEU TYR HIS ILE CYS ASN GLU LEU ALA ARG SEQRES 3 D 34 ILE ARG ARG LEU LEU GLY GLU ARG HET TYZ A 1 12 HETNAM TYZ PARA ACETAMIDO BENZOIC ACID FORMUL 1 TYZ C9 H9 N O3 FORMUL 5 HOH *11(H2 O) HELIX 1 1 ARG A 2 GLU A 33 1 32 HELIX 2 2 ARG B 1 ARG B 33 1 33 HELIX 3 3 ARG C 1 GLU C 32 1 32 HELIX 4 4 ARG D 1 GLU D 32 1 32 LINK O1 TYZ A 1 N ARG A 2 1555 1555 1.83 LINK C7 TYZ A 1 N ARG A 2 1555 1555 1.31 CRYST1 33.691 37.192 103.991 90.00 90.00 90.00 P 21 21 2 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 0.029682 0.000000 0.000000 0.00000 SCALE2 0.000000 0.026888 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009616 0.00000 HETATM 1 O1 TYZ A 1 16.169 8.329 42.943 1.00 45.03 O HETATM 2 C7 TYZ A 1 15.899 9.200 42.072 1.00 45.90 C HETATM 3 C3 TYZ A 1 16.910 10.131 41.579 1.00 46.44 C HETATM 4 C4 TYZ A 1 16.665 10.798 40.411 1.00 48.44 C HETATM 5 C5 TYZ A 1 17.697 11.628 39.969 1.00 53.14 C HETATM 6 C6 TYZ A 1 18.947 11.777 40.618 1.00 54.23 C HETATM 7 C1 TYZ A 1 19.199 11.098 41.791 1.00 52.09 C HETATM 8 C2 TYZ A 1 18.196 10.254 42.248 1.00 49.23 C HETATM 9 C8 TYZ A 1 19.713 13.534 39.128 1.00 59.76 C HETATM 10 N TYZ A 1 19.910 12.645 40.166 1.00 57.83 N HETATM 11 O4 TYZ A 1 20.633 14.220 38.632 1.00 60.68 O HETATM 12 C9 TYZ A 1 18.325 13.699 38.533 1.00 57.34 C