HEADER CELL ADHESION PROTEIN 30-SEP-95 1FNF TITLE FRAGMENT OF HUMAN FIBRONECTIN ENCOMPASSING TYPE-III REPEATS 7 THROUGH TITLE 2 10 COMPND MOL_ID: 1; COMPND 2 MOLECULE: FIBRONECTIN; 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; SOURCE 5 CELL_LINE: BL21; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 AND 834(DE4); SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET11B; SOURCE 10 OTHER_DETAILS: T7 EXPRESSION SYSTEM OF W. STUDIER KEYWDS RGD, EXTRACELLULAR MATRIX, CELL ADHESION PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR D.J.LEAHY,I.AUKHIL,H.P.ERICKSON REVDAT 3 07-FEB-24 1FNF 1 REMARK REVDAT 2 24-FEB-09 1FNF 1 VERSN REVDAT 1 29-JAN-96 1FNF 0 JRNL AUTH D.J.LEAHY,I.AUKHIL,H.P.ERICKSON JRNL TITL 2.0 A CRYSTAL STRUCTURE OF A FOUR-DOMAIN SEGMENT OF HUMAN JRNL TITL 2 FIBRONECTIN ENCOMPASSING THE RGD LOOP AND SYNERGY REGION. JRNL REF CELL(CAMBRIDGE,MASS.) V. 84 155 1996 JRNL REFN ISSN 0092-8674 JRNL PMID 8548820 JRNL DOI 10.1016/S0092-8674(00)81002-8 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.J.LEAHY,H.P.ERICKSON,I.AUKHIL,P.JOSHI,W.A.HENDRICKSON REMARK 1 TITL CRYSTALLIZATION OF A FRAGMENT OF HUMAN FIBRONECTIN: REMARK 1 TITL 2 INTRODUCTION OF METHIONINE BY SITE-DIRECTED MUTAGENESIS TO REMARK 1 TITL 3 ALLOW PHASING VIA SELENOMETHIONINE REMARK 1 REF PROTEINS V. 19 48 1994 REMARK 1 REFN ISSN 0887-3585 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 6.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 21904 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.308 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2820 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 259 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.70 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 2.000 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.56 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.320 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1FNF 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_1000173350. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : OCT-94 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9871, 0.9793, 0.9790, 0.9686 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : FUJI REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28425 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.04300 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR 3.1 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 5.8 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 30.33500 REMARK 290 SMTRY3 2 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 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 THR A1157 122.70 -31.96 REMARK 500 ASN A1183 -0.67 66.13 REMARK 500 ASN A1205 44.09 -173.49 REMARK 500 ASP A1221 -121.30 58.17 REMARK 500 SER A1261 41.96 36.64 REMARK 500 ASN A1266 -176.09 172.46 REMARK 500 ASN A1276 57.38 -144.75 REMARK 500 GLU A1312 -99.00 63.83 REMARK 500 THR A1339 -158.67 -125.28 REMARK 500 ALA A1428 142.03 -171.51 REMARK 500 THR A1431 18.69 -142.47 REMARK 500 ALA A1441 46.97 -73.14 REMARK 500 ASN A1457 -15.39 74.86 REMARK 500 LEU A1477 -176.10 -61.86 REMARK 500 REMARK 500 REMARK: NULL DBREF 1FNF A 1142 1509 UNP P02751 FINC_HUMAN 1173 1540 SEQRES 1 A 368 PRO LEU SER PRO PRO THR ASN LEU HIS LEU GLU ALA ASN SEQRES 2 A 368 PRO ASP THR GLY VAL LEU THR VAL SER TRP GLU ARG SER SEQRES 3 A 368 THR THR PRO ASP ILE THR GLY TYR ARG ILE THR THR THR SEQRES 4 A 368 PRO THR ASN GLY GLN GLN GLY ASN SER LEU GLU GLU VAL SEQRES 5 A 368 VAL HIS ALA ASP GLN SER SER CYS THR PHE ASP ASN LEU SEQRES 6 A 368 SER PRO GLY LEU GLU TYR ASN VAL SER VAL TYR THR VAL SEQRES 7 A 368 LYS ASP ASP LYS GLU SER VAL PRO ILE SER ASP THR ILE SEQRES 8 A 368 ILE PRO ALA VAL PRO PRO PRO THR ASP LEU ARG PHE THR SEQRES 9 A 368 ASN ILE GLY PRO ASP THR MET ARG VAL THR TRP ALA PRO SEQRES 10 A 368 PRO PRO SER ILE ASP LEU THR ASN PHE LEU VAL ARG TYR SEQRES 11 A 368 SER PRO VAL LYS ASN GLU GLU ASP VAL ALA GLU LEU SER SEQRES 12 A 368 ILE SER PRO SER ASP ASN ALA VAL VAL LEU THR ASN LEU SEQRES 13 A 368 LEU PRO GLY THR GLU TYR VAL VAL SER VAL SER SER VAL SEQRES 14 A 368 TYR GLU GLN HIS GLU SER THR PRO LEU ARG GLY ARG GLN SEQRES 15 A 368 LYS THR GLY LEU ASP SER PRO THR GLY ILE ASP PHE SER SEQRES 16 A 368 ASP ILE THR ALA ASN SER PHE THR VAL HIS TRP ILE ALA SEQRES 17 A 368 PRO ARG ALA THR ILE THR GLY TYR ARG ILE ARG HIS HIS SEQRES 18 A 368 PRO GLU HIS PHE SER GLY ARG PRO ARG GLU ASP ARG VAL SEQRES 19 A 368 PRO HIS SER ARG ASN SER ILE THR LEU THR ASN LEU THR SEQRES 20 A 368 PRO GLY THR GLU TYR VAL VAL SER ILE VAL ALA LEU ASN SEQRES 21 A 368 GLY ARG GLU GLU SER PRO LEU LEU ILE GLY GLN GLN SER SEQRES 22 A 368 THR VAL SER ASP VAL PRO ARG ASP LEU GLU VAL VAL ALA SEQRES 23 A 368 ALA THR PRO THR SER LEU LEU ILE SER TRP ASP ALA PRO SEQRES 24 A 368 ALA VAL THR VAL ARG TYR TYR ARG ILE THR TYR GLY GLU SEQRES 25 A 368 THR GLY GLY ASN SER PRO VAL GLN GLU PHE THR VAL PRO SEQRES 26 A 368 GLY SER LYS SER THR ALA THR ILE SER GLY LEU LYS PRO SEQRES 27 A 368 GLY VAL ASP TYR THR ILE THR VAL TYR ALA VAL THR GLY SEQRES 28 A 368 ARG GLY ASP SER PRO ALA SER SER LYS PRO ILE SER ILE SEQRES 29 A 368 ASN TYR ARG THR FORMUL 2 HOH *259(H2 O) SHEET 1 A 3 HIS A1150 ALA A1153 0 SHEET 2 A 3 LEU A1160 SER A1163 -1 N SER A1163 O HIS A1150 SHEET 3 A 3 SER A1200 THR A1202 -1 N CYS A1201 O VAL A1162 SHEET 1 B 4 LEU A1190 VAL A1194 0 SHEET 2 B 4 GLY A1174 PRO A1181 -1 N THR A1179 O LEU A1190 SHEET 3 B 4 GLU A1211 VAL A1219 -1 N VAL A1219 O GLY A1174 SHEET 4 B 4 ILE A1228 ILE A1233 -1 N ILE A1232 O TYR A1212 SHEET 1 C 3 ARG A1243 THR A1245 0 SHEET 2 C 3 MET A1252 THR A1255 -1 N THR A1255 O ARG A1243 SHEET 3 C 3 ALA A1291 LEU A1294 -1 N LEU A1294 O MET A1252 SHEET 1 D 4 LEU A1319 LYS A1324 0 SHEET 2 D 4 GLU A1302 VAL A1310 -1 N VAL A1307 O LEU A1319 SHEET 3 D 4 ASN A1266 PRO A1273 -1 N SER A1272 O VAL A1304 SHEET 4 D 4 ASN A1276 ILE A1285 -1 N ILE A1285 O PHE A1267 SHEET 1 E 3 ASP A1334 SER A1336 0 SHEET 2 E 3 SER A1342 HIS A1346 -1 N HIS A1346 O ASP A1334 SHEET 3 E 3 SER A1381 THR A1385 -1 N LEU A1384 O PHE A1343 SHEET 1 F 4 ARG A1371 PRO A1376 0 SHEET 2 F 4 GLY A1356 HIS A1362 -1 N HIS A1361 O ARG A1371 SHEET 3 F 4 GLU A1392 LEU A1400 -1 N LEU A1400 O GLY A1356 SHEET 4 F 4 LEU A1409 SER A1414 -1 N GLN A1413 O TYR A1393 SHEET 1 G 3 THR A1471 ILE A1474 0 SHEET 2 G 3 SER A1432 SER A1436 -1 N ILE A1435 O ALA A1472 SHEET 3 G 3 GLU A1424 THR A1429 -1 N THR A1429 O SER A1432 SHEET 1 H 4 GLN A1461 PRO A1466 0 SHEET 2 H 4 TYR A1446 GLU A1453 -1 N TYR A1451 O GLN A1461 SHEET 3 H 4 TYR A1483 VAL A1490 -1 N VAL A1490 O TYR A1446 SHEET 4 H 4 ILE A1503 TYR A1507 -1 N TYR A1507 O TYR A1483 CRYST1 64.050 60.670 58.440 90.00 103.00 90.00 P 1 21 1 2 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 0.015613 0.000000 0.003604 0.00000 SCALE2 0.000000 0.016483 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017562 0.00000