HEADER GROWTH FACTOR 26-FEB-93 1FGA TITLE REFINEMENT OF THE STRUCTURE OF HUMAN BASIC FIBROBLAST GROWTH FACTOR AT TITLE 2 1.6 ANGSTROMS RESOLUTION AND ANALYSIS OF PRESUMED HEPARIN BINDING TITLE 3 SITES BY SELENATE SUBSTITUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: BASIC FIBROBLAST GROWTH FACTOR; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606 KEYWDS GROWTH FACTOR EXPDTA X-RAY DIFFRACTION AUTHOR A.E.ERIKSSON,B.W.MATTHEWS REVDAT 4 22-JUL-20 1FGA 1 REMARK LINK REVDAT 3 29-NOV-17 1FGA 1 HELIX REVDAT 2 24-FEB-09 1FGA 1 VERSN REVDAT 1 15-JUL-93 1FGA 0 JRNL AUTH A.E.ERIKSSON,L.S.COUSENS,B.W.MATTHEWS JRNL TITL REFINEMENT OF THE STRUCTURE OF HUMAN BASIC FIBROBLAST GROWTH JRNL TITL 2 FACTOR AT 1.6 A RESOLUTION AND ANALYSIS OF PRESUMED HEPARIN JRNL TITL 3 BINDING SITES BY SELENATE SUBSTITUTION. JRNL REF PROTEIN SCI. V. 2 1274 1993 JRNL REFN ISSN 0961-8368 JRNL PMID 7691311 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.E.ERIKSSON,L.S.COUSENS,L.H.WEAVER,B.W.MATTHEWS REMARK 1 TITL THREE-DIMENSIONAL STRUCTURE OF HUMAN BASIC FIBROBLAST GROWTH REMARK 1 TITL 2 FACTOR REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 88 3441 1991 REMARK 1 REFN ISSN 0027-8424 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT REMARK 3 AUTHORS : TRONRUD,TEN EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : NULL REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.138 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1001 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 18 REMARK 3 SOLVENT ATOMS : 65 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : 0.018 ; NULL ; NULL REMARK 3 BOND ANGLES (DEGREES) : 3.200 ; NULL ; NULL REMARK 3 TORSION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES (A) : NULL ; NULL ; NULL REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS (A) : NULL ; NULL ; NULL REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : NULL REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1FGA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000173272. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 298 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING-ANODE X-RAY TUBE 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) : NULL REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : XUONG-HAMLIN REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : AREA DETECTOR REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : XENGEN (HOWARD, NIELSEN, XUONG) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL 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: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 32.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.82 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 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 PRO A 1 REMARK 465 ALA A 2 REMARK 465 LEU A 3 REMARK 465 PRO A 4 REMARK 465 GLU A 5 REMARK 465 ASP A 6 REMARK 465 GLY A 7 REMARK 465 GLY A 8 REMARK 465 SER A 9 REMARK 465 GLY A 10 REMARK 465 ALA A 11 REMARK 465 PHE A 12 REMARK 465 PRO A 13 REMARK 465 PRO A 14 REMARK 465 GLY A 15 REMARK 465 HIS A 16 REMARK 465 PHE A 17 REMARK 465 LYS A 18 REMARK 465 ASP A 19 REMARK 465 ALA A 144 REMARK 465 LYS A 145 REMARK 465 SER A 146 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 45 CD GLU A 45 OE1 0.067 REMARK 500 GLU A 91 CD GLU A 91 OE1 0.068 REMARK 500 GLU A 96 CD GLU A 96 OE2 0.088 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 TYR A 24 CB - CG - CD2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG A 39 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ASP A 41 CB - CG - OD1 ANGL. DEV. = 6.8 DEGREES REMARK 500 ASP A 48 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 48 CB - CG - OD2 ANGL. DEV. = -6.6 DEGREES REMARK 500 ARG A 60 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 CYS A 87 CB - CA - C ANGL. DEV. = 7.2 DEGREES REMARK 500 THR A 89 N - CA - CB ANGL. DEV. = -13.3 DEGREES REMARK 500 ASP A 90 CB - CG - OD1 ANGL. DEV. = -6.3 DEGREES REMARK 500 PHE A 95 CB - CA - C ANGL. DEV. = -13.7 DEGREES REMARK 500 TYR A 103 N - CA - CB ANGL. DEV. = 10.9 DEGREES REMARK 500 TYR A 103 CB - CG - CD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 TYR A 103 CB - CG - CD1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG A 109 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG A 109 NE - CZ - NH2 ANGL. DEV. = -4.9 DEGREES REMARK 500 PRO A 132 C - N - CA ANGL. DEV. = 9.8 DEGREES REMARK 500 PRO A 132 C - N - CD ANGL. DEV. = -13.3 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 ASP A 41 -166.35 -172.67 REMARK 500 HIS A 50 10.83 -68.08 REMARK 500 TYR A 111 66.27 -100.49 REMARK 500 THR A 112 -34.64 -22.76 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 SE4 A 147 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SE4 A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BME A 303 DBREF 1FGA A 1 146 UNP P09038 FGF2_HUMAN 10 155 SEQRES 1 A 146 PRO ALA LEU PRO GLU ASP GLY GLY SER GLY ALA PHE PRO SEQRES 2 A 146 PRO GLY HIS PHE LYS ASP PRO LYS ARG LEU TYR CYS LYS SEQRES 3 A 146 ASN GLY GLY PHE PHE LEU ARG ILE HIS PRO ASP GLY ARG SEQRES 4 A 146 VAL ASP GLY VAL ARG GLU LYS SER ASP PRO HIS ILE LYS SEQRES 5 A 146 LEU GLN LEU GLN ALA GLU GLU ARG GLY VAL VAL SER ILE SEQRES 6 A 146 LYS GLY VAL CYS ALA ASN ARG TYR LEU ALA MET LYS GLU SEQRES 7 A 146 ASP GLY ARG LEU LEU ALA SER LYS CYS VAL THR ASP GLU SEQRES 8 A 146 CYS PHE PHE PHE GLU ARG LEU GLU SER ASN ASN TYR ASN SEQRES 9 A 146 THR TYR ARG SER ARG LYS TYR THR SER TRP TYR VAL ALA SEQRES 10 A 146 LEU LYS ARG THR GLY GLN TYR LYS LEU GLY SER LYS THR SEQRES 11 A 146 GLY PRO GLY GLN LYS ALA ILE LEU PHE LEU PRO MET SER SEQRES 12 A 146 ALA LYS SER HET SE4 A 147 5 HET SE4 A 301 5 HET BME A 302 4 HET BME A 303 4 HETNAM SE4 SELENATE ION HETNAM BME BETA-MERCAPTOETHANOL FORMUL 2 SE4 2(O4 SE 2-) FORMUL 4 BME 2(C2 H6 O S) FORMUL 6 HOH *65(H2 O) HELIX 1 1 ASP A 48 ILE A 51 5 4 HELIX 2 2 LEU A 126 THR A 130 5 5 HELIX 3 3 GLN A 134 ILE A 137 5 4 SHEET 1 S1 4 ARG A 39 VAL A 43 0 SHEET 2 S1 4 PHE A 30 HIS A 35 -1 N PHE A 31 O VAL A 43 SHEET 3 S1 4 ARG A 22 CYS A 25 -1 N CYS A 25 O PHE A 30 SHEET 4 S1 4 LEU A 138 MET A 142 -1 N LEU A 140 O TYR A 24 SHEET 1 S2 4 GLY A 80 LYS A 86 0 SHEET 2 S2 4 ARG A 72 GLU A 78 -1 O TYR A 73 N SER A 85 SHEET 3 S2 4 VAL A 62 VAL A 68 -1 N GLY A 67 O ARG A 72 SHEET 4 S2 4 LYS A 52 GLU A 58 -1 N GLU A 58 O VAL A 62 SHEET 1 S3 4 GLN A 123 LYS A 125 0 SHEET 2 S3 4 TRP A 114 LYS A 119 -1 N LYS A 119 O GLN A 123 SHEET 3 S3 4 TYR A 103 ARG A 109 -1 O TYR A 106 N VAL A 116 SHEET 4 S3 4 PHE A 93 GLU A 99 -1 O PHE A 93 N ARG A 109 LINK SG CYS A 69 S2 BME A 302 1555 1555 2.09 LINK SG ACYS A 92 S2 BME A 303 1555 1555 2.02 SITE 1 AC1 6 ASN A 27 LYS A 119 ARG A 120 LYS A 125 SITE 2 AC1 6 HOH A 158 BME A 302 SITE 1 AC2 6 LYS A 52 GLU A 59 ARG A 120 LYS A 135 SITE 2 AC2 6 HOH A 183 HOH A 219 SITE 1 AC3 4 CYS A 69 ARG A 109 ARG A 120 SE4 A 147 SITE 1 AC4 7 ARG A 44 GLN A 56 GLU A 58 SER A 64 SITE 2 AC4 7 VAL A 88 CYS A 92 PHE A 93 CRYST1 30.800 33.500 35.800 58.80 72.40 76.10 P 1 1 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 0.032467 -0.008035 -0.007338 0.00000 SCALE2 0.000000 0.030751 -0.016888 0.00000 SCALE3 0.000000 0.000000 0.033433 0.00000