HEADER PROTEIN BINDING 22-APR-24 9F24 TITLE DARPIN EGFP COMPLEX DP4 (2G71) COMPND MOL_ID: 1; COMPND 2 MOLECULE: GREEN FLUORESCENT PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DARPIN DP4; COMPND 7 CHAIN: C; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AEQUOREA VICTORIA; SOURCE 3 ORGANISM_TAXID: 6100; SOURCE 4 GENE: GFP; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 9 ORGANISM_TAXID: 32630; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DARPIN, GFP, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR P.R.MITTL,D.WINKELVOSS REVDAT 2 12-NOV-25 9F24 1 JRNL REVDAT 1 23-OCT-24 9F24 0 JRNL AUTH D.WINKELVOSS,D.VUKOVIC,A.C.HANNY,L.RIERMEIER,A.UDOVCIC, JRNL AUTH 2 J.KOLIBIUS,A.HONEGGER,P.R.E.MITTL,E.MICHEL,S.HANSEN, JRNL AUTH 3 A.PLUCKTHUN JRNL TITL MOLECULAR FEATURES DEFINING THE EFFICIENCY OF BIOPROTACS. JRNL REF COMMUN BIOL V. 8 946 2025 JRNL REFN ESSN 2399-3642 JRNL PMID 40542219 JRNL DOI 10.1038/S42003-025-08352-W REMARK 2 REMARK 2 RESOLUTION. 2.06 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0419 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) : 2.06 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 40447 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2129 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.06 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.11 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2845 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.4530 REMARK 3 BIN FREE R VALUE SET COUNT : 149 REMARK 3 BIN FREE R VALUE : 0.4570 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2768 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 261 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.82 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.19000 REMARK 3 B22 (A**2) : -0.19000 REMARK 3 B33 (A**2) : 0.39000 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): 0.126 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.128 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.100 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.750 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 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): 2851 ; 0.010 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 2672 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3861 ; 1.708 ; 1.653 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6168 ; 0.565 ; 1.589 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 355 ; 7.256 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 16 ;10.896 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 485 ;15.295 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 425 ; 0.075 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3353 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 619 ; 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): 1423 ; 2.815 ; 2.752 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1423 ; 2.801 ; 2.752 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1777 ; 3.954 ; 4.923 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1778 ; 3.954 ; 4.924 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1428 ; 3.864 ; 3.103 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1429 ; 3.863 ; 3.104 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2085 ; 5.795 ; 5.526 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3097 ; 8.989 ;27.420 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3045 ; 8.966 ;26.090 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 234 REMARK 3 ORIGIN FOR THE GROUP (A): -25.1968 41.5719 -0.4018 REMARK 3 T TENSOR REMARK 3 T11: 0.2408 T22: 0.2461 REMARK 3 T33: 0.0107 T12: -0.1062 REMARK 3 T13: 0.0386 T23: -0.0148 REMARK 3 L TENSOR REMARK 3 L11: 2.9305 L22: 2.2601 REMARK 3 L33: 2.8137 L12: -0.0730 REMARK 3 L13: 0.6980 L23: -0.6586 REMARK 3 S TENSOR REMARK 3 S11: -0.0748 S12: -0.1603 S13: -0.0432 REMARK 3 S21: -0.0119 S22: 0.0022 S23: 0.0776 REMARK 3 S31: 0.3315 S32: -0.3721 S33: 0.0725 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 12 C 134 REMARK 3 ORIGIN FOR THE GROUP (A): -23.0911 55.1202 -24.8060 REMARK 3 T TENSOR REMARK 3 T11: 0.2056 T22: 0.2194 REMARK 3 T33: 0.0425 T12: -0.0438 REMARK 3 T13: 0.0108 T23: 0.0207 REMARK 3 L TENSOR REMARK 3 L11: 2.1260 L22: 3.7122 REMARK 3 L33: 2.4867 L12: 0.1865 REMARK 3 L13: -0.0753 L23: 0.1659 REMARK 3 S TENSOR REMARK 3 S11: -0.0026 S12: 0.1204 S13: 0.1798 REMARK 3 S21: -0.2023 S22: -0.0781 S23: -0.0614 REMARK 3 S31: -0.0008 S32: -0.1999 S33: 0.0807 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 9F24 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-APR-24. REMARK 100 THE DEPOSITION ID IS D_1292137940. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-SEP-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42465 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.057 REMARK 200 RESOLUTION RANGE LOW (A) : 43.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 8.500 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.7500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.06 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS, PH 8.5, 8% PEG 20000, 8% REMARK 280 PEG 550 MME, 0.2 M KBR, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 8555 Y+1/2,-X+1/2,Z+1/2 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 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 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 68.01300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 68.01300 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 37.60300 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 68.01300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 68.01300 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 37.60300 REMARK 290 SMTRY1 7 0.000000 -1.000000 0.000000 68.01300 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 68.01300 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 37.60300 REMARK 290 SMTRY1 8 0.000000 1.000000 0.000000 68.01300 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 68.01300 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 37.60300 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: 1630 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15540 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 GLY A -2 REMARK 465 SER A -1 REMARK 465 MET A 0 REMARK 465 GLU A 235 REMARK 465 LEU A 236 REMARK 465 TYR A 237 REMARK 465 LYS A 238 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 411 O HOH A 415 1.57 REMARK 500 O HOH A 309 O HOH A 430 1.71 REMARK 500 O HOH A 430 O HOH A 443 1.83 REMARK 500 C GLN C 134 O HOH C 230 1.86 REMARK 500 O HOH A 416 O HOH A 440 1.92 REMARK 500 OG SER C 91 O HOH C 201 2.01 REMARK 500 O HOH A 391 O HOH A 425 2.05 REMARK 500 O HOH C 261 O HOH C 305 2.07 REMARK 500 O HOH A 316 O HOH A 415 2.07 REMARK 500 OE1 GLU A 115 NH1 ARG A 122 2.07 REMARK 500 O HOH C 294 O HOH C 298 2.19 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 122 NE - CZ - NH1 ANGL. DEV. = -3.8 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 SER C 13 -157.16 -98.68 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLY A 232 MET A 233 148.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 168 0.14 SIDE CHAIN REMARK 500 ARG A 215 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 451 DISTANCE = 6.66 ANGSTROMS REMARK 525 HOH C 309 DISTANCE = 7.19 ANGSTROMS REMARK 525 HOH C 310 DISTANCE = 7.60 ANGSTROMS DBREF 9F24 A 2 238 UNP P42212 GFP_AEQVI 2 238 DBREF 9F24 C 12 134 PDB 9F24 9F24 12 134 SEQADV 9F24 GLY A -2 UNP P42212 EXPRESSION TAG SEQADV 9F24 SER A -1 UNP P42212 EXPRESSION TAG SEQADV 9F24 MET A 0 UNP P42212 EXPRESSION TAG SEQADV 9F24 VAL A 1 UNP P42212 EXPRESSION TAG SEQADV 9F24 LEU A 64 UNP P42212 PHE 64 ENGINEERED MUTATION SEQADV 9F24 CRO A 66 UNP P42212 SER 65 CHROMOPHORE SEQADV 9F24 CRO A 66 UNP P42212 TYR 66 CHROMOPHORE SEQADV 9F24 CRO A 66 UNP P42212 GLY 67 CHROMOPHORE SEQADV 9F24 LEU A 231 UNP P42212 HIS 231 ENGINEERED MUTATION SEQRES 1 A 239 GLY SER MET VAL SER LYS GLY GLU GLU LEU PHE THR GLY SEQRES 2 A 239 VAL VAL PRO ILE LEU VAL GLU LEU ASP GLY ASP VAL ASN SEQRES 3 A 239 GLY HIS LYS PHE SER VAL SER GLY GLU GLY GLU GLY ASP SEQRES 4 A 239 ALA THR TYR GLY LYS LEU THR LEU LYS PHE ILE CYS THR SEQRES 5 A 239 THR GLY LYS LEU PRO VAL PRO TRP PRO THR LEU VAL THR SEQRES 6 A 239 THR LEU CRO VAL GLN CYS PHE SER ARG TYR PRO ASP HIS SEQRES 7 A 239 MET LYS GLN HIS ASP PHE PHE LYS SER ALA MET PRO GLU SEQRES 8 A 239 GLY TYR VAL GLN GLU ARG THR ILE PHE PHE LYS ASP ASP SEQRES 9 A 239 GLY ASN TYR LYS THR ARG ALA GLU VAL LYS PHE GLU GLY SEQRES 10 A 239 ASP THR LEU VAL ASN ARG ILE GLU LEU LYS GLY ILE ASP SEQRES 11 A 239 PHE LYS GLU ASP GLY ASN ILE LEU GLY HIS LYS LEU GLU SEQRES 12 A 239 TYR ASN TYR ASN SER HIS ASN VAL TYR ILE MET ALA ASP SEQRES 13 A 239 LYS GLN LYS ASN GLY ILE LYS VAL ASN PHE LYS ILE ARG SEQRES 14 A 239 HIS ASN ILE GLU ASP GLY SER VAL GLN LEU ALA ASP HIS SEQRES 15 A 239 TYR GLN GLN ASN THR PRO ILE GLY ASP GLY PRO VAL LEU SEQRES 16 A 239 LEU PRO ASP ASN HIS TYR LEU SER THR GLN SER ALA LEU SEQRES 17 A 239 SER LYS ASP PRO ASN GLU LYS ARG ASP HIS MET VAL LEU SEQRES 18 A 239 LEU GLU PHE VAL THR ALA ALA GLY ILE THR LEU GLY MET SEQRES 19 A 239 ASP GLU LEU TYR LYS SEQRES 1 C 123 GLY SER ASP LEU GLY LYS LYS LEU LEU GLU ALA ALA ARG SEQRES 2 C 123 ALA GLY GLN GLY ASP GLU VAL ARG ILE LEU MET ALA ASN SEQRES 3 C 123 GLY ALA ASP VAL ASN ALA GLU ASP LEU HIS GLY SER THR SEQRES 4 C 123 PRO LEU HIS LEU ALA ALA LEU ILE GLY HIS LEU GLU ILE SEQRES 5 C 123 VAL GLU VAL LEU LEU LYS TYR GLY ALA ASP VAL ASN ALA SEQRES 6 C 123 SER ASP MET TRP GLY ASN THR PRO LEU HIS LEU ALA ALA SEQRES 7 C 123 TRP SER GLY HIS LEU GLU ILE VAL GLU VAL LEU LEU LYS SEQRES 8 C 123 ASN GLY ALA ASP VAL ASN ALA GLN ASP LYS PHE GLY LYS SEQRES 9 C 123 THR ALA PHE ASP ILE SER ILE ASP ASN GLY ASN GLU ASP SEQRES 10 C 123 LEU ALA GLU ILE LEU GLN MODRES 9F24 CRO A 66 SER CHROMOPHORE MODRES 9F24 CRO A 66 TYR CHROMOPHORE MODRES 9F24 CRO A 66 GLY CHROMOPHORE HET CRO A 66 22 HETNAM CRO {2-[(1R,2R)-1-AMINO-2-HYDROXYPROPYL]-4-(4- HETNAM 2 CRO HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1- HETNAM 3 CRO YL}ACETIC ACID HETSYN CRO PEPTIDE DERIVED CHROMOPHORE FORMUL 1 CRO C15 H17 N3 O5 FORMUL 3 HOH *261(H2 O) HELIX 1 AA1 SER A 2 THR A 9 5 8 HELIX 2 AA2 PRO A 56 VAL A 61 1 6 HELIX 3 AA3 VAL A 68 SER A 72 5 5 HELIX 4 AA4 PRO A 75 HIS A 81 5 7 HELIX 5 AA5 ASP A 82 ALA A 87 1 6 HELIX 6 AA6 LYS A 156 ASN A 159 5 4 HELIX 7 AA7 SER C 13 ALA C 25 1 13 HELIX 8 AA8 GLN C 27 ASN C 37 1 11 HELIX 9 AA9 THR C 50 GLY C 59 1 10 HELIX 10 AB1 HIS C 60 TYR C 70 1 11 HELIX 11 AB2 THR C 83 SER C 91 1 9 HELIX 12 AB3 HIS C 93 ASN C 103 1 11 HELIX 13 AB4 THR C 116 ASN C 124 1 9 HELIX 14 AB5 ASN C 126 GLN C 134 1 9 SHEET 1 AA112 VAL A 11 VAL A 22 0 SHEET 2 AA112 HIS A 25 ASP A 36 -1 O PHE A 27 N GLY A 20 SHEET 3 AA112 LYS A 41 CYS A 48 -1 O LYS A 41 N ASP A 36 SHEET 4 AA112 HIS A 217 GLY A 228 -1 O MET A 218 N PHE A 46 SHEET 5 AA112 HIS A 199 SER A 208 -1 N SER A 202 O THR A 225 SHEET 6 AA112 ASN A 149 ASP A 155 -1 N VAL A 150 O LEU A 201 SHEET 7 AA112 GLY A 160 ASN A 170 -1 O GLY A 160 N ASP A 155 SHEET 8 AA112 VAL A 176 PRO A 187 -1 O HIS A 181 N PHE A 165 SHEET 9 AA112 TYR A 92 PHE A 100 -1 N VAL A 93 O THR A 186 SHEET 10 AA112 ASN A 105 GLU A 115 -1 O TYR A 106 N ILE A 98 SHEET 11 AA112 THR A 118 ILE A 128 -1 O VAL A 120 N LYS A 113 SHEET 12 AA112 VAL A 11 VAL A 22 1 N ASP A 21 O GLY A 127 LINK C LEU A 64 N1 CRO A 66 1555 1555 1.50 LINK C3 CRO A 66 N VAL A 68 1555 1555 1.57 CISPEP 1 MET A 88 PRO A 89 0 4.14 CRYST1 136.026 136.026 75.206 90.00 90.00 90.00 I 4 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 0.007352 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007352 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013297 0.00000 CONECT 471 477 CONECT 477 471 478 CONECT 478 477 479 482 CONECT 479 478 480 481 CONECT 480 479 CONECT 481 479 CONECT 482 478 483 484 CONECT 483 482 487 CONECT 484 482 485 488 CONECT 485 484 486 487 CONECT 486 485 CONECT 487 483 485 491 CONECT 488 484 489 CONECT 489 488 490 499 CONECT 490 489 CONECT 491 487 492 CONECT 492 491 493 494 CONECT 493 492 495 CONECT 494 492 496 CONECT 495 493 497 CONECT 496 494 497 CONECT 497 495 496 498 CONECT 498 497 CONECT 499 489 MASTER 407 0 1 14 12 0 0 6 3029 2 24 29 END