HEADER CELL CYCLE 19-MAY-18 5ZXE TITLE STRUCTURE OF A CONSENSUS SEQUENCE DERIVED FROM THE FGF FAMILY COMPND MOL_ID: 1; COMPND 2 MOLECULE: CONSENSUS SEQUENCE BASED BASIC FORM OF FIBROBLAST GROWTH COMPND 3 FACTOR; COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI K-12; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 83333 KEYWDS FGF, BASIC FORM, CELL CYCLE EXPDTA X-RAY DIFFRACTION AUTHOR S.K.TRIPATHI,V.MANDALAPARTHY,S.RAMASWAMY,S.GOSAVI REVDAT 3 22-NOV-23 5ZXE 1 REMARK REVDAT 2 22-JAN-20 5ZXE 1 REMARK REVDAT 1 24-JUL-19 5ZXE 0 JRNL AUTH S.K.TRIPATHI,V.MANDALAPARTHY,S.GOSAVI JRNL TITL STRUCTURE OF A CONSENSUS SEQUENCE DERIVED FROM THE FGF JRNL TITL 2 FAMILY JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.R.YUN,J.E.WON,E.JEON,S.LEE,W.KANG,H.JO,J.H.JANG,U.S.SHIN, REMARK 1 AUTH 2 H.W.KIM REMARK 1 TITL FIBROBLAST GROWTH FACTORS: BIOLOGY, FUNCTION, AND REMARK 1 TITL 2 APPLICATION FOR TISSUE REGENERATION REMARK 1 REF J TISSUE ENG V.2010 18142 2010 REMARK 1 REFN ISSN 2041-7314 REMARK 1 PMID 21350642 REMARK 1 DOI 10.4061/2010/218142 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14_3260: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.44 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 3 NUMBER OF REFLECTIONS : 36301 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.120 REMARK 3 FREE R VALUE TEST SET COUNT : 1134 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 45.4628 - 2.5999 0.99 4749 154 0.1502 0.1725 REMARK 3 2 2.5999 - 2.0636 0.95 4384 141 0.1820 0.1878 REMARK 3 3 2.0636 - 1.8027 0.95 4329 140 0.1791 0.2148 REMARK 3 4 1.8027 - 1.6379 1.00 4512 145 0.1507 0.2160 REMARK 3 5 1.6379 - 1.5205 1.00 4497 145 0.1572 0.2255 REMARK 3 6 1.5205 - 1.4308 0.98 4399 142 0.2281 0.2719 REMARK 3 7 1.4308 - 1.3592 0.99 4445 143 0.2406 0.2791 REMARK 3 8 1.3592 - 1.3000 0.86 3852 124 0.2497 0.3305 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.790 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.005 1128 REMARK 3 ANGLE : 0.770 1517 REMARK 3 CHIRALITY : 0.078 154 REMARK 3 PLANARITY : 0.004 196 REMARK 3 DIHEDRAL : 16.609 448 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5ZXE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-MAY-18. REMARK 100 THE DEPOSITION ID IS D_1300007769. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-MAR-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9660 REMARK 200 MONOCHROMATOR : SI REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.6.2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42829 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.240 REMARK 200 RESOLUTION RANGE LOW (A) : 45.910 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.24 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.94800 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 2.7.17 REMARK 200 STARTING MODEL: 2FGF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, AMMONIUM SULPHATE, PH 7.4, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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,Y+1/2,-Z+1/2 REMARK 290 4555 -X,-Y+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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.95500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.43500 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 22.95500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 45.43500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL 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 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 OG SER A 85 O1 GOL A 202 2.15 REMARK 500 OD1 ASP A 46 O HOH A 301 2.18 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 ASN A 47 66.78 -100.61 REMARK 500 ASN A 47 62.87 -100.61 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 478 DISTANCE = 6.80 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 204 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 46 O REMARK 620 2 SER A 48 OG 111.7 REMARK 620 3 HOH A 302 O 57.9 154.3 REMARK 620 4 HOH A 381 O 94.3 102.3 101.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 205 DBREF 5ZXE A 18 147 PDB 5ZXE 5ZXE 18 147 SEQRES 1 A 130 MET ARG LEU ARG ARG LEU TYR CYS ARG THR GLY GLY PHE SEQRES 2 A 130 HIS LEU GLN ILE LEU PRO ASP GLY ARG VAL ASP GLY THR SEQRES 3 A 130 ARG GLU ASP ASN SER PRO TYR SER LEU LEU GLU ILE ARG SEQRES 4 A 130 ALA VAL GLU VAL GLY VAL VAL ALA ILE LYS GLY VAL LYS SEQRES 5 A 130 SER GLY ARG TYR LEU ALA MET ASN LYS LYS GLY ARG LEU SEQRES 6 A 130 TYR GLY SER LYS HIS PHE THR ASP GLU CYS LYS PHE LYS SEQRES 7 A 130 GLU ARG LEU LEU GLU ASN GLY TYR ASN THR TYR SER SER SEQRES 8 A 130 ALA LYS TYR ARG ARG GLY TRP TYR VAL ALA LEU ASN LYS SEQRES 9 A 130 ASN GLY ARG PRO LYS LYS GLY ASN ARG THR ARG ARG THR SEQRES 10 A 130 GLN LYS ALA THR HIS PHE LEU PRO LEU PRO VAL SER GLY HET GOL A 201 6 HET GOL A 202 6 HET SO4 A 203 5 HET NA A 204 1 HET CL A 205 1 HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 2(C3 H8 O3) FORMUL 4 SO4 O4 S 2- FORMUL 5 NA NA 1+ FORMUL 6 CL CL 1- FORMUL 7 HOH *178(H2 O) HELIX 1 AA1 SER A 48 SER A 51 5 4 HELIX 2 AA2 THR A 89 CYS A 92 5 4 HELIX 3 AA3 LYS A 127 THR A 131 5 5 HELIX 4 AA4 GLN A 135 THR A 138 5 4 SHEET 1 AA1 2 ARG A 21 CYS A 25 0 SHEET 2 AA1 2 PHE A 140 PRO A 144 -1 O LEU A 143 N ARG A 22 SHEET 1 AA2 2 HIS A 31 ILE A 34 0 SHEET 2 AA2 2 VAL A 40 THR A 43 -1 O ASP A 41 N GLN A 33 SHEET 1 AA3 4 LEU A 53 GLU A 59 0 SHEET 2 AA3 4 VAL A 62 GLY A 67 -1 O LYS A 66 N GLU A 54 SHEET 3 AA3 4 ARG A 72 MET A 76 -1 O ARG A 72 N GLY A 67 SHEET 4 AA3 4 LEU A 82 SER A 85 -1 O SER A 85 N TYR A 73 SHEET 1 AA4 4 LEU A 53 GLU A 59 0 SHEET 2 AA4 4 VAL A 62 GLY A 67 -1 O LYS A 66 N GLU A 54 SHEET 3 AA4 4 PHE A 94 LEU A 98 -1 O PHE A 94 N VAL A 63 SHEET 4 AA4 4 ASN A 104 SER A 108 -1 O SER A 107 N LYS A 95 LINK O ASP A 46 NA NA A 204 1555 1555 2.35 LINK OG BSER A 48 NA NA A 204 1555 1555 2.55 LINK NA NA A 204 O HOH A 302 1555 1555 2.53 LINK NA NA A 204 O HOH A 381 1555 1555 2.66 SITE 1 AC1 4 ARG A 26 ASN A 101 HOH A 319 HOH A 346 SITE 1 AC2 7 SER A 85 LYS A 86 HIS A 87 THR A 89 SITE 2 AC2 7 HOH A 304 HOH A 306 HOH A 407 SITE 1 AC3 6 ARG A 26 LYS A 69 LYS A 136 HOH A 318 SITE 2 AC3 6 HOH A 405 HOH A 412 SITE 1 AC4 8 ARG A 22 HIS A 31 GLU A 45 ASP A 46 SITE 2 AC4 8 SER A 48 SER A 51 HOH A 302 HOH A 381 SITE 1 AC5 5 LYS A 126 LYS A 127 ARG A 130 HOH A 425 SITE 2 AC5 5 HOH A 459 CRYST1 35.718 45.910 90.870 90.00 90.00 90.00 P 2 21 21 4 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 0.027997 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021782 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011005 0.00000