PDB Short entry for 2OXJ HEADER UNKNOWN FUNCTION 20-FEB-07 2OXJ TITLE HELIX BUNDLE QUATERNARY STRUCTURE FROM ALPHA/BETA-PEPTIDE FOLDAMERS: TITLE 2 GCN4-P1 WITH BETA-RESIDUES AT B AND F HEPTAD POSITIONS. COMPND MOL_ID: 1; COMPND 2 MOLECULE: HYBRID ALPHA/BETA PEPTIDE BASED ON THE GCN4-P1 SEQUENCE; COMPND 3 HEPTAD POSITIONS B AND F SUBSTITUTED WITH BETA-AMINO ACIDS; COMPND 4 CHAIN: A, B, C; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: SYNTHETIC PEPTIDE KEYWDS HELIX BUNDLE, FOLDAMER, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR W.S.HORNE,J.L.PRICE,J.L.KECK,S.H.GELLMAN REVDAT 6 15-NOV-23 2OXJ 1 REMARK LINK ATOM REVDAT 5 13-JUL-11 2OXJ 1 VERSN REVDAT 4 06-MAY-08 2OXJ 1 SEQRES VERSN REVDAT 3 17-APR-07 2OXJ 1 JRNL REVDAT 2 10-APR-07 2OXJ 1 JRNL REVDAT 1 27-MAR-07 2OXJ 0 JRNL AUTH W.S.HORNE,J.L.PRICE,J.L.KECK,S.H.GELLMAN JRNL TITL HELIX BUNDLE QUATERNARY STRUCTURE FROM ALPHA/BETA-PEPTIDE JRNL TITL 2 FOLDAMERS. JRNL REF J.AM.CHEM.SOC. V. 129 4178 2007 JRNL REFN ISSN 0002-7863 JRNL PMID 17362016 JRNL DOI 10.1021/JA070396F REMARK 2 REMARK 2 RESOLUTION. 2.00 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 6169 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) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.283 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 303 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 415 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.28 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 14 REMARK 3 BIN FREE R VALUE : 0.2790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 806 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 80 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.57 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.97000 REMARK 3 B22 (A**2) : 0.17000 REMARK 3 B33 (A**2) : -3.14000 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): 0.262 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.220 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.167 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.005 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.919 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 819 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 618 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1079 ; 2.158 ; 2.219 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1524 ; 1.260 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 41 ; 5.852 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 24 ;41.796 ;24.583 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 144 ;18.518 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ; 7.173 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 120 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 724 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 131 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 147 ; 0.246 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 638 ; 0.225 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 302 ; 0.172 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 518 ; 0.094 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 53 ; 0.207 ; 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): 15 ; 0.201 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 52 ; 0.247 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.278 ; 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): 551 ; 1.299 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 218 ; 0.298 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 775 ; 1.741 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 350 ; 3.257 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 303 ; 5.151 ; 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 REMARK 4 REMARK 4 2OXJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1000041707. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-AUG-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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 : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GOBEL MIRRORS REMARK 200 OPTICS : CONFOCAL MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER SMART 6000 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : PROTEUM PLUS PLUS REMARK 200 DATA SCALING SOFTWARE : PROTEUM PLUS PLUS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6503 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 37.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 4.50000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 29.8000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.600 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 31.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.81 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM ACETATE, 0.1 M TRIS REMARK 280 HYDROCHLORIDE, 30% W/V PEG 4000, PH 8.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 12.86400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.25550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 18.82050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.25550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 12.86400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 18.82050 REMARK 290 SMTRY3 4 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 4420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 GLU B 32 REMARK 465 ARG B 33 REMARK 465 GLU C 32 REMARK 465 ARG C 33 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 1 CZ NH1 NH2 REMARK 470 B3K A 3 NZ REMARK 470 GLN A 4 CD OE1 NE2 REMARK 470 GLU A 6 OE1 OE2 REMARK 470 LYS A 8 CD CE NZ REMARK 470 GLU A 11 CG CD OE1 OE2 REMARK 470 ARG C 1 CZ NH1 NH2 REMARK 470 B3K C 3 CF NZ REMARK 470 LYS C 8 CE NZ REMARK 470 LYS C 27 NZ REMARK 470 B3K C 28 CD CE CF 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 H1 ACE A 0 O HOH A 54 1.48 REMARK 500 REMARK 500 REMARK: NULL 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 OD B3S A 14 O HOH B 138 3545 2.05 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 BAL B 31 C - N - CA ANGL. DEV. = 22.1 DEGREES REMARK 500 B3A C 24 CA - C - N ANGL. DEV. = 19.1 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 B3S A 14 -14.98 -92.50 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 B3K A 3 GLN A 4 141.84 REMARK 500 B3D A 7 LYS A 8 141.30 REMARK 500 B3E A 10 GLU A 11 142.06 REMARK 500 B3S A 14 LYS A 15 140.82 REMARK 500 B3Y A 17 HIS A 18 147.32 REMARK 500 B3X A 21 GLU A 22 142.54 REMARK 500 B3A A 24 ARG A 25 148.52 REMARK 500 B3K A 28 LEU A 29 143.81 REMARK 500 VAL A 30 BAL A 31 -135.52 REMARK 500 B3K B 3 GLN B 4 148.79 REMARK 500 B3D B 7 LYS B 8 146.17 REMARK 500 B3E B 10 GLU B 11 145.47 REMARK 500 B3S B 14 LYS B 15 146.17 REMARK 500 B3S B 14 LYS B 15 146.47 REMARK 500 B3Y B 17 HIS B 18 139.64 REMARK 500 B3X B 21 GLU B 22 145.65 REMARK 500 B3A B 24 ARG B 25 148.09 REMARK 500 B3K B 28 LEU B 29 142.14 REMARK 500 VAL B 30 BAL B 31 141.31 REMARK 500 B3K C 3 GLN C 4 143.66 REMARK 500 B3D C 7 LYS C 8 144.02 REMARK 500 B3E C 10 GLU C 11 143.52 REMARK 500 B3S C 14 LYS C 15 142.37 REMARK 500 B3Y C 17 HIS C 18 149.13 REMARK 500 B3X C 21 GLU C 22 146.89 REMARK 500 B3A C 24 ARG C 25 143.49 REMARK 500 B3K C 28 LEU C 29 145.08 REMARK 500 VAL C 30 BAL C 31 -146.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 B3K A 3 -19.32 REMARK 500 B3D A 7 -18.90 REMARK 500 B3E A 10 -18.16 REMARK 500 B3S A 14 -20.74 REMARK 500 B3Y A 17 -17.04 REMARK 500 B3X A 21 -18.83 REMARK 500 B3A A 24 -18.66 REMARK 500 B3K A 28 -18.36 REMARK 500 B3K B 3 -16.92 REMARK 500 B3D B 7 -16.66 REMARK 500 B3E B 10 -20.76 REMARK 500 B3S B 14 -17.47 REMARK 500 B3Y B 17 -20.05 REMARK 500 B3X B 21 -17.13 REMARK 500 B3A B 24 -17.64 REMARK 500 B3K B 28 -19.57 REMARK 500 B3K C 3 -20.40 REMARK 500 B3D C 7 -18.57 REMARK 500 B3E C 10 -18.17 REMARK 500 B3S C 14 -18.46 REMARK 500 B3Y C 17 -15.84 REMARK 500 B3X C 21 -16.11 REMARK 500 B3A C 24 -21.75 REMARK 500 B3K C 28 -17.58 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 ACT B 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2OXK RELATED DB: PDB DBREF 2OXJ A 1 33 PDB 2OXJ 2OXJ 1 33 DBREF 2OXJ B 1 33 PDB 2OXJ 2OXJ 1 33 DBREF 2OXJ C 1 33 PDB 2OXJ 2OXJ 1 33 SEQRES 1 A 34 ACE ARG MET B3K GLN LEU GLU B3D LYS VAL B3E GLU LEU SEQRES 2 A 34 LEU B3S LYS ASN B3Y HIS LEU GLU B3X GLU VAL B3A ARG SEQRES 3 A 34 LEU LYS B3K LEU VAL BAL GLU ARG SEQRES 1 B 34 ACE ARG MET B3K GLN LEU GLU B3D LYS VAL B3E GLU LEU SEQRES 2 B 34 LEU B3S LYS ASN B3Y HIS LEU GLU B3X GLU VAL B3A ARG SEQRES 3 B 34 LEU LYS B3K LEU VAL BAL GLU ARG SEQRES 1 C 34 ACE ARG MET B3K GLN LEU GLU B3D LYS VAL B3E GLU LEU SEQRES 2 C 34 LEU B3S LYS ASN B3Y HIS LEU GLU B3X GLU VAL B3A ARG SEQRES 3 C 34 LEU LYS B3K LEU VAL BAL GLU ARG MODRES 2OXJ B3K A 3 LYS (3S)-3,7-DIAMINOHEPTANOIC ACID MODRES 2OXJ B3D A 7 ASP 3-AMINOPENTANEDIOIC ACID MODRES 2OXJ B3E A 10 GLU (3S)-3-AMINOHEXANEDIOIC ACID MODRES 2OXJ B3S A 14 SER (3R)-3-AMINO-4-HYDROXYBUTANOIC ACID MODRES 2OXJ B3Y A 17 TYR MODRES 2OXJ B3X A 21 ASN (3S)-3,5-DIAMINO-5-OXOPENTANOIC ACID MODRES 2OXJ B3A A 24 ALA (3S)-3-AMINOBUTANOIC ACID MODRES 2OXJ B3K A 28 LYS (3S)-3,7-DIAMINOHEPTANOIC ACID MODRES 2OXJ BAL A 31 ALA BETA-ALANINE MODRES 2OXJ B3K B 3 LYS (3S)-3,7-DIAMINOHEPTANOIC ACID MODRES 2OXJ B3D B 7 ASP 3-AMINOPENTANEDIOIC ACID MODRES 2OXJ B3E B 10 GLU (3S)-3-AMINOHEXANEDIOIC ACID MODRES 2OXJ B3S B 14 SER (3R)-3-AMINO-4-HYDROXYBUTANOIC ACID MODRES 2OXJ B3Y B 17 TYR MODRES 2OXJ B3X B 21 ASN (3S)-3,5-DIAMINO-5-OXOPENTANOIC ACID MODRES 2OXJ B3A B 24 ALA (3S)-3-AMINOBUTANOIC ACID MODRES 2OXJ B3K B 28 LYS (3S)-3,7-DIAMINOHEPTANOIC ACID MODRES 2OXJ BAL B 31 ALA BETA-ALANINE MODRES 2OXJ B3K C 3 LYS (3S)-3,7-DIAMINOHEPTANOIC ACID MODRES 2OXJ B3D C 7 ASP 3-AMINOPENTANEDIOIC ACID MODRES 2OXJ B3E C 10 GLU (3S)-3-AMINOHEXANEDIOIC ACID MODRES 2OXJ B3S C 14 SER (3R)-3-AMINO-4-HYDROXYBUTANOIC ACID MODRES 2OXJ B3Y C 17 TYR MODRES 2OXJ B3X C 21 ASN (3S)-3,5-DIAMINO-5-OXOPENTANOIC ACID MODRES 2OXJ B3A C 24 ALA (3S)-3-AMINOBUTANOIC ACID MODRES 2OXJ B3K C 28 LYS (3S)-3,7-DIAMINOHEPTANOIC ACID MODRES 2OXJ BAL C 31 ALA BETA-ALANINE HET ACE A 0 6 HET B3K A 3 21 HET B3D A 7 15 HET B3E A 10 18 HET B3S A 14 14 HET B3Y A 17 24 HET B3X A 21 17 HET B3A A 24 13 HET B3K A 28 24 HET BAL A 31 10 HET ACE B 0 6 HET B3K B 3 24 HET B3D B 7 15 HET B3E B 10 18 HET B3S B 14 14 HET B3Y B 17 24 HET B3X B 21 17 HET B3A B 24 13 HET B3K B 28 24 HET BAL B 31 10 HET ACE C 0 6 HET B3K C 3 18 HET B3D C 7 15 HET B3E C 10 18 HET B3S C 14 14 HET B3Y C 17 24 HET B3X C 21 17 HET B3A C 24 13 HET B3K C 28 12 HET BAL C 31 10 HET ACT B 101 7 HETNAM ACE ACETYL GROUP HETNAM B3K (3S)-3,7-DIAMINOHEPTANOIC ACID HETNAM B3D 3-AMINOPENTANEDIOIC ACID HETNAM B3E (3S)-3-AMINOHEXANEDIOIC ACID HETNAM B3S (3R)-3-AMINO-4-HYDROXYBUTANOIC ACID HETNAM B3Y (3S)-3-AMINO-4-(4-HYDROXYPHENYL)BUTANOIC ACID HETNAM B3X (3S)-3,5-DIAMINO-5-OXOPENTANOIC ACID HETNAM B3A (3S)-3-AMINOBUTANOIC ACID HETNAM BAL BETA-ALANINE HETNAM ACT ACETATE ION HETSYN B3D BETA-HOMOASPARTATE FORMUL 1 ACE 3(C2 H4 O) FORMUL 1 B3K 6(C7 H16 N2 O2) FORMUL 1 B3D 3(C5 H9 N O4) FORMUL 1 B3E 3(C6 H11 N O4) FORMUL 1 B3S 3(C4 H9 N O3) FORMUL 1 B3Y 3(C10 H13 N O3) FORMUL 1 B3X 3(C5 H10 N2 O3) FORMUL 1 B3A 3(C4 H9 N O2) FORMUL 1 BAL 3(C3 H7 N O2) FORMUL 4 ACT C2 H3 O2 1- FORMUL 5 HOH *80(H2 O) HELIX 1 1 ARG A 1 BAL A 31 1 31 HELIX 2 2 ARG B 1 BAL B 31 1 31 HELIX 3 3 ARG C 1 BAL C 31 1 31 LINK C ACE A 0 N ARG A 1 1555 1555 1.34 LINK C MET A 2 N B3K A 3 1555 1555 1.33 LINK C B3K A 3 N GLN A 4 1555 1555 1.33 LINK C GLU A 6 N B3D A 7 1555 1555 1.35 LINK C B3D A 7 N LYS A 8 1555 1555 1.34 LINK C VAL A 9 N B3E A 10 1555 1555 1.35 LINK C B3E A 10 N GLU A 11 1555 1555 1.34 LINK C LEU A 13 N B3S A 14 1555 1555 1.30 LINK C B3S A 14 N LYS A 15 1555 1555 1.32 LINK C ASN A 16 N B3Y A 17 1555 1555 1.34 LINK C B3Y A 17 N HIS A 18 1555 1555 1.31 LINK C GLU A 20 N B3X A 21 1555 1555 1.33 LINK C B3X A 21 N GLU A 22 1555 1555 1.32 LINK C VAL A 23 N B3A A 24 1555 1555 1.32 LINK C B3A A 24 N ARG A 25 1555 1555 1.32 LINK C LYS A 27 N B3K A 28 1555 1555 1.34 LINK C B3K A 28 N LEU A 29 1555 1555 1.33 LINK C VAL A 30 N BAL A 31 1555 1555 1.30 LINK C BAL A 31 N GLU A 32 1555 1555 1.35 LINK C ACE B 0 N ARG B 1 1555 1555 1.30 LINK C MET B 2 N B3K B 3 1555 1555 1.32 LINK C B3K B 3 N GLN B 4 1555 1555 1.34 LINK C GLU B 6 N B3D B 7 1555 1555 1.33 LINK C B3D B 7 N LYS B 8 1555 1555 1.34 LINK C VAL B 9 N B3E B 10 1555 1555 1.33 LINK C B3E B 10 N GLU B 11 1555 1555 1.33 LINK C LEU B 13 N B3S B 14 1555 1555 1.32 LINK C B3S B 14 N LYS B 15 1555 1555 1.36 LINK C ASN B 16 N B3Y B 17 1555 1555 1.31 LINK C B3Y B 17 N HIS B 18 1555 1555 1.29 LINK C GLU B 20 N B3X B 21 1555 1555 1.32 LINK C B3X B 21 N GLU B 22 1555 1555 1.33 LINK C VAL B 23 N B3A B 24 1555 1555 1.31 LINK C B3A B 24 N ARG B 25 1555 1555 1.31 LINK C LYS B 27 N B3K B 28 1555 1555 1.32 LINK C B3K B 28 N LEU B 29 1555 1555 1.33 LINK C VAL B 30 N BAL B 31 1555 1555 1.33 LINK C ACE C 0 N ARG C 1 1555 1555 1.33 LINK C MET C 2 N B3K C 3 1555 1555 1.34 LINK C B3K C 3 N GLN C 4 1555 1555 1.29 LINK C GLU C 6 N B3D C 7 1555 1555 1.34 LINK C B3D C 7 N LYS C 8 1555 1555 1.34 LINK C VAL C 9 N B3E C 10 1555 1555 1.31 LINK C B3E C 10 N GLU C 11 1555 1555 1.32 LINK C LEU C 13 N B3S C 14 1555 1555 1.33 LINK C B3S C 14 N LYS C 15 1555 1555 1.36 LINK C ASN C 16 N B3Y C 17 1555 1555 1.33 LINK C B3Y C 17 N HIS C 18 1555 1555 1.34 LINK C GLU C 20 N B3X C 21 1555 1555 1.35 LINK C B3X C 21 N GLU C 22 1555 1555 1.32 LINK C VAL C 23 N B3A C 24 1555 1555 1.36 LINK C B3A C 24 N ARG C 25 1555 1555 1.33 LINK C LYS C 27 N B3K C 28 1555 1555 1.31 LINK C B3K C 28 N LEU C 29 1555 1555 1.33 LINK C VAL C 30 N BAL C 31 1555 1555 1.34 SITE 1 AC1 8 B3K A 28 GLU A 32 ARG A 33 B3Y B 17 SITE 2 AC1 8 HOH B 113 HOH B 116 HOH B 128 B3Y C 17 CRYST1 25.728 37.641 92.511 90.00 90.00 90.00 P 21 21 21 12 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 0.038868 0.000000 0.000000 0.00000 SCALE2 0.000000 0.026567 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010810 0.00000 HETATM 1 C ACE A 0 -0.523 -2.780 -9.434 1.00 45.39 C HETATM 2 O ACE A 0 -0.078 -3.226 -8.374 1.00 45.66 O HETATM 3 CH3 ACE A 0 -0.358 -3.551 -10.722 1.00 45.24 C HETATM 4 H1 ACE A 0 -1.352 -3.805 -11.051 0.00 2.00 H HETATM 5 H2 ACE A 0 0.188 -4.512 -10.504 0.00 2.00 H HETATM 6 H3 ACE A 0 0.188 -3.018 -11.473 0.00 45.15 H