HEADER FLUORESCENT PROTEIN 22-APR-13 4KAG TITLE CRYSTAL STRUCTURE ANALYSIS OF A SINGLE AMINO ACID DELETION MUTATION IN TITLE 2 EGFP COMPND MOL_ID: 1; COMPND 2 MOLECULE: GREEN FLUORESCENT PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AEQUOREA VICTORIA; SOURCE 3 ORGANISM_COMMON: JELLYFISH; SOURCE 4 ORGANISM_TAXID: 6100; SOURCE 5 GENE: GFP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-GOLD (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PNOM-XP3 KEYWDS BETA BARREL, FLUORESCENT PROTEIN, CHROMOPHORE CYCLISATION, SINGLE KEYWDS 2 AMINO ACID DELETION MUTATION EXPDTA X-RAY DIFFRACTION AUTHOR J.A.J.ARPINO,P.J.RIZKALLAH REVDAT 4 06-DEC-23 4KAG 1 REMARK REVDAT 3 20-SEP-23 4KAG 1 REMARK SEQADV LINK REVDAT 2 24-SEP-14 4KAG 1 JRNL REVDAT 1 06-AUG-14 4KAG 0 JRNL AUTH J.A.ARPINO,P.J.RIZKALLAH,D.D.JONES JRNL TITL STRUCTURAL AND DYNAMIC CHANGES ASSOCIATED WITH BENEFICIAL JRNL TITL 2 ENGINEERED SINGLE-AMINO-ACID DELETION MUTATIONS IN ENHANCED JRNL TITL 3 GREEN FLUORESCENT PROTEIN. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 70 2152 2014 JRNL REFN ISSN 0907-4449 JRNL PMID 25084334 JRNL DOI 10.1107/S139900471401267X REMARK 2 REMARK 2 RESOLUTION. 1.12 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) : 1.12 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 89439 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) : 0.145 REMARK 3 R VALUE (WORKING SET) : 0.144 REMARK 3 FREE R VALUE : 0.161 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4723 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) : 1.12 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4938 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 73.17 REMARK 3 BIN R VALUE (WORKING SET) : 0.2690 REMARK 3 BIN FREE R VALUE SET COUNT : 273 REMARK 3 BIN FREE R VALUE : 0.2820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1802 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 98 REMARK 3 SOLVENT ATOMS : 280 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.13000 REMARK 3 B22 (A**2) : 0.13000 REMARK 3 B33 (A**2) : -0.43000 REMARK 3 B12 (A**2) : 0.13000 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): 0.031 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.031 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.980 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.977 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2212 ; 0.030 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2096 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2998 ; 2.715 ; 1.990 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4841 ; 3.936 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 280 ; 7.925 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 100 ;34.795 ;25.100 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 371 ;13.130 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;19.681 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 319 ; 0.148 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2551 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 495 ; 0.024 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 2128 ;10.307 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2059 ; 1.217 ; 5.000 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 : 1 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 3 A 229 REMARK 3 ORIGIN FOR THE GROUP (A): -29.7223 24.1908 -8.8413 REMARK 3 T TENSOR REMARK 3 T11: 0.0000 T22: 0.0000 REMARK 3 T33: 0.0000 T12: 0.0000 REMARK 3 T13: 0.0000 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.0000 L22: 0.0000 REMARK 3 L33: 0.0000 L12: 0.0000 REMARK 3 L13: 0.0000 L23: 0.0000 REMARK 3 S TENSOR REMARK 3 S11: 0.0000 S12: 0.0000 S13: 0.0000 REMARK 3 S21: 0.0000 S22: 0.0000 S23: 0.0000 REMARK 3 S31: 0.0000 S32: 0.0000 S33: 0.0000 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 4KAG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1000079094. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97630 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : SCALA 0.1.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 91397 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.120 REMARK 200 RESOLUTION RANGE LOW (A) : 39.940 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 9.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: PHASER 2.3.0 REMARK 200 STARTING MODEL: PDB ENTRY 4EUL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M NA CACODYLATE, 0.2 M NACL, 1M NA REMARK 280 CITRATE, PH 6.5, VAPOR DIFFUSION, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 90.22000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 45.11000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 45.11000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 90.22000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 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 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 HOH A 518 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 680 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 MET A 0 REMARK 465 VAL A 1 REMARK 465 SER A 2 REMARK 465 LEU A 231 REMARK 465 GLY A 232 REMARK 465 MET A 233 REMARK 465 ASP A 234 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 OE1 GLN A 157 O1 TRS A 320 1.59 REMARK 500 O HOH A 601 O HOH A 671 1.71 REMARK 500 O ILE A 229 O HOH A 670 1.81 REMARK 500 O HOH A 662 O HOH A 666 1.82 REMARK 500 OE1 GLU A 222 O HOH A 669 1.87 REMARK 500 OD1 ASP A 180 C2 EDO A 312 1.99 REMARK 500 O2 SO4 A 316 O HOH A 465 2.00 REMARK 500 O HOH A 667 O HOH A 679 2.07 REMARK 500 OD1 ASP A 36 O HOH A 639 2.08 REMARK 500 OD2 ASP A 180 O1 EDO A 306 2.09 REMARK 500 O HOH A 638 O HOH A 641 2.12 REMARK 500 ND1 HIS A 139 O2 EDO A 321 2.14 REMARK 500 OG SER A 208 O HOH A 671 2.16 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 O HOH A 450 O HOH A 634 4465 1.68 REMARK 500 CE2 PHE A 223 O HOH A 598 4465 1.81 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 GLU A 17 CD GLU A 17 OE1 0.070 REMARK 500 GLU A 34 CB GLU A 34 CG -0.120 REMARK 500 GLU A 142 CD GLU A 142 OE1 -0.072 REMARK 500 TYR A 200 CZ TYR A 200 CE2 -0.080 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 ASP A 21 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 73 NE - CZ - NH1 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 73 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 73 NE - CZ - NH2 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 109 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ASP A 117 CB - CG - OD1 ANGL. DEV. = 9.8 DEGREES REMARK 500 ARG A 122 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 LYS A 166 CD - CE - NZ ANGL. DEV. = -17.0 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 HIS A 77 1.30 -66.72 REMARK 500 ASP A 103 -159.37 -155.26 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 EDO A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 308 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 309 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 310 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 311 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 312 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 313 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 314 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 315 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 316 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 317 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 318 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 319 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRS A 320 REMARK 800 REMARK 800 SITE_IDENTIFIER: CC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 321 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4KA9 RELATED DB: PDB REMARK 900 RELATED ID: 4KEX RELATED DB: PDB DBREF 4KAG A 0 238 UNP P42212 GFP_AEQVI 1 238 SEQADV 4KAG VAL A 1 UNP P42212 INSERTION SEQADV 4KAG LEU A 64 UNP P42212 PHE 64 ENGINEERED MUTATION SEQADV 4KAG CRO A 66 UNP P42212 SER 65 CHROMOPHORE SEQADV 4KAG CRO A 66 UNP P42212 TYR 66 CHROMOPHORE SEQADV 4KAG CRO A 66 UNP P42212 GLY 67 CHROMOPHORE SEQADV 4KAG A UNP P42212 ASP 190 DELETION SEQADV 4KAG LEU A 231 UNP P42212 HIS 231 CONFLICT SEQRES 1 A 236 MET VAL SER LYS GLY GLU GLU LEU PHE THR GLY VAL VAL SEQRES 2 A 236 PRO ILE LEU VAL GLU LEU ASP GLY ASP VAL ASN GLY HIS SEQRES 3 A 236 LYS PHE SER VAL SER GLY GLU GLY GLU GLY ASP ALA THR SEQRES 4 A 236 TYR GLY LYS LEU THR LEU LYS PHE ILE CYS THR THR GLY SEQRES 5 A 236 LYS LEU PRO VAL PRO TRP PRO THR LEU VAL THR THR LEU SEQRES 6 A 236 CRO VAL GLN CYS PHE SER ARG TYR PRO ASP HIS MET LYS SEQRES 7 A 236 GLN HIS ASP PHE PHE LYS SER ALA MET PRO GLU GLY TYR SEQRES 8 A 236 VAL GLN GLU ARG THR ILE PHE PHE LYS ASP ASP GLY ASN SEQRES 9 A 236 TYR LYS THR ARG ALA GLU VAL LYS PHE GLU GLY ASP THR SEQRES 10 A 236 LEU VAL ASN ARG ILE GLU LEU LYS GLY ILE ASP PHE LYS SEQRES 11 A 236 GLU ASP GLY ASN ILE LEU GLY HIS LYS LEU GLU TYR ASN SEQRES 12 A 236 TYR ASN SER HIS ASN VAL TYR ILE MET ALA ASP LYS GLN SEQRES 13 A 236 LYS ASN GLY ILE LYS VAL ASN PHE LYS ILE ARG HIS ASN SEQRES 14 A 236 ILE GLU ASP GLY SER VAL GLN LEU ALA ASP HIS TYR GLN SEQRES 15 A 236 GLN ASN THR PRO ILE GLY GLY PRO VAL LEU LEU PRO ASP SEQRES 16 A 236 ASN HIS TYR LEU SER THR GLN SER ALA LEU SER LYS ASP SEQRES 17 A 236 PRO ASN GLU LYS ARG ASP HIS MET VAL LEU LEU GLU PHE SEQRES 18 A 236 VAL THR ALA ALA GLY ILE THR LEU GLY MET ASP GLU LEU SEQRES 19 A 236 TYR LYS MODRES 4KAG CRO A 66 GLY MODRES 4KAG CRO A 66 TYR MODRES 4KAG CRO A 66 GLY HET CRO A 66 22 HET EDO A 301 4 HET EDO A 302 4 HET EDO A 303 4 HET EDO A 304 4 HET EDO A 305 4 HET EDO A 306 4 HET EDO A 307 4 HET EDO A 308 4 HET EDO A 309 4 HET EDO A 310 4 HET EDO A 311 4 HET EDO A 312 4 HET EDO A 313 4 HET EDO A 314 4 HET EDO A 315 4 HET SO4 A 316 5 HET SO4 A 317 5 HET TRS A 318 8 HET TRS A 319 8 HET TRS A 320 8 HET EDO A 321 4 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 HETNAM EDO 1,2-ETHANEDIOL HETNAM SO4 SULFATE ION HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETSYN CRO PEPTIDE DERIVED CHROMOPHORE HETSYN EDO ETHYLENE GLYCOL HETSYN TRS TRIS BUFFER FORMUL 1 CRO C15 H17 N3 O5 FORMUL 2 EDO 16(C2 H6 O2) FORMUL 17 SO4 2(O4 S 2-) FORMUL 19 TRS 3(C4 H12 N O3 1+) FORMUL 23 HOH *280(H2 O) HELIX 1 1 LYS A 3 THR A 9 5 7 HELIX 2 2 PRO A 56 VAL A 61 5 6 HELIX 3 3 VAL A 68 SER A 72 5 5 HELIX 4 4 PRO A 75 HIS A 81 5 7 HELIX 5 5 ASP A 82 ALA A 87 1 6 SHEET 1 A12 VAL A 11 VAL A 22 0 SHEET 2 A12 HIS A 25 ASP A 36 -1 O PHE A 27 N GLY A 20 SHEET 3 A12 LYS A 41 CYS A 48 -1 O LYS A 41 N ASP A 36 SHEET 4 A12 HIS A 217 GLY A 228 -1 O MET A 218 N PHE A 46 SHEET 5 A12 HIS A 199 SER A 208 -1 N GLN A 204 O PHE A 223 SHEET 6 A12 HIS A 148 ALA A 154 -1 N HIS A 148 O THR A 203 SHEET 7 A12 ILE A 161 ASN A 170 -1 O LYS A 162 N MET A 153 SHEET 8 A12 VAL A 176 PRO A 187 -1 O GLN A 177 N HIS A 169 SHEET 9 A12 TYR A 92 PHE A 100 -1 N VAL A 93 O THR A 186 SHEET 10 A12 ASN A 105 GLU A 115 -1 O VAL A 112 N TYR A 92 SHEET 11 A12 THR A 118 ILE A 128 -1 O VAL A 120 N LYS A 113 SHEET 12 A12 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 1.27 LINK C3 CRO A 66 N VAL A 68 1555 1555 1.27 CISPEP 1 MET A 88 PRO A 89 0 4.45 CISPEP 2 ILE A 229 THR A 230 0 27.69 SITE 1 AC1 8 LYS A 101 ASP A 102 VAL A 176 GLN A 177 SITE 2 AC1 8 LEU A 178 HOH A 612 HOH A 668 HOH A 673 SITE 1 AC2 6 MET A 78 HIS A 81 ASP A 197 GLY A 228 SITE 2 AC2 6 SO4 A 317 HOH A 665 SITE 1 AC3 5 ARG A 73 PRO A 75 ASP A 76 HOH A 428 SITE 2 AC3 5 HOH A 672 SITE 1 AC4 7 PHE A 99 LYS A 101 LEU A 178 ASP A 180 SITE 2 AC4 7 EDO A 306 HOH A 452 HOH A 562 SITE 1 AC5 7 GLU A 34 ASP A 36 LYS A 41 LEU A 42 SITE 2 AC5 7 THR A 43 HOH A 569 HOH A 625 SITE 1 AC6 5 PHE A 99 LYS A 156 ASP A 180 TYR A 182 SITE 2 AC6 5 EDO A 304 SITE 1 AC7 7 ARG A 96 THR A 97 LYS A 107 THR A 108 SITE 2 AC7 7 TRS A 319 TRS A 320 HOH A 581 SITE 1 AC8 7 GLU A 17 LEU A 18 ASP A 19 SER A 28 SITE 2 AC8 7 VAL A 29 SER A 30 THR A 49 SITE 1 AC9 4 ARG A 109 GLU A 111 ARG A 122 GLU A 124 SITE 1 BC1 6 GLN A 80 HIS A 81 GLU A 115 GLY A 116 SITE 2 BC1 6 ASP A 117 ASP A 197 SITE 1 BC2 3 HOH A 521 HOH A 643 HOH A 654 SITE 1 BC3 6 ASN A 164 PHE A 165 LYS A 166 ASP A 180 SITE 2 BC3 6 HIS A 181 HOH A 531 SITE 1 BC4 9 SER A 86 ALA A 87 MET A 88 GLU A 90 SITE 2 BC4 9 GLY A 189 GLY A 191 VAL A 193 HOH A 431 SITE 3 BC4 9 HOH A 495 SITE 1 BC5 8 GLY A 191 ASP A 210 GLU A 213 LYS A 214 SITE 2 BC5 8 ARG A 215 HIS A 217 HOH A 493 HOH A 644 SITE 1 BC6 5 THR A 225 ALA A 227 HOH A 466 HOH A 510 SITE 2 BC6 5 HOH A 655 SITE 1 BC7 9 SER A 147 HIS A 148 ASN A 149 ARG A 168 SITE 2 BC7 9 ASN A 170 HOH A 418 HOH A 464 HOH A 465 SITE 3 BC7 9 HOH A 507 SITE 1 BC8 7 HIS A 77 MET A 78 PRO A 89 PHE A 114 SITE 2 BC8 7 GLY A 116 EDO A 302 HOH A 663 SITE 1 BC9 7 ASP A 19 GLY A 20 ASP A 21 GLU A 124 SITE 2 BC9 7 LEU A 125 TRS A 319 HOH A 551 SITE 1 CC1 9 LYS A 107 THR A 108 ARG A 109 GLU A 124 SITE 2 CC1 9 LYS A 126 EDO A 307 TRS A 318 HOH A 497 SITE 3 CC1 9 HOH A 520 SITE 1 CC2 10 GLU A 95 ARG A 96 THR A 97 GLN A 157 SITE 2 CC2 10 LYS A 162 TYR A 182 GLN A 183 GLN A 184 SITE 3 CC2 10 EDO A 307 HOH A 543 SITE 1 CC3 8 PRO A 56 TRP A 57 HIS A 139 HOH A 424 SITE 2 CC3 8 HOH A 642 HOH A 677 HOH A 678 HOH A 679 CRYST1 57.140 57.140 135.330 90.00 90.00 120.00 P 32 2 1 6 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.017501 0.010104 0.000000 0.00000 SCALE2 0.000000 0.020208 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007389 0.00000