HEADER SIGNALING PROTEIN, STRUCTURAL PROTEIN 30-JUN-09 2KL7 TITLE SOLUTION NMR STRUCTURE OF THE EGF-LIKE 1 DOMAIN OF HUMAN FIBULIN-4. TITLE 2 NORTHEAST STRUCTURAL GENOMICS TARGET HR6275 COMPND MOL_ID: 1; COMPND 2 MOLECULE: FIBULIN-4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: EGF-LIKE 1 DOMAIN; COMPND 5 SYNONYM: EGF-CONTAINING FIBULIN-LIKE EXTRACELLULAR MATRIX PROTEIN 2, COMPND 6 FIBL-4, PROTEIN UPH1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: EFEMP2, FBLN4, UNQ200/PRO226; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: NA KEYWDS SECRETED, CALCIUM, DISEASE MUTATION, DISULFIDE BOND, EGF-LIKE DOMAIN, KEYWDS 2 GLYCOPROTEIN, POLYMORPHISM, STRUCTURAL GENOMICS, PSI-2, PROTEIN KEYWDS 3 STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, KEYWDS 4 NESG, METAL BINDING PROTEIN, SIGNALING PROTEIN, STRUCTURAL PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR P.ROSSI,Y.CHIANG,S.ANDERSON,G.T.MONTELIONE,NORTHEAST STRUCTURAL AUTHOR 2 GENOMICS CONSORTIUM (NESG) REVDAT 2 26-FEB-20 2KL7 1 REMARK SEQADV REVDAT 1 21-JUL-09 2KL7 0 JRNL AUTH P.ROSSI,Y.CHIANG,S.ANDERSON,G.T.MONTELIONE JRNL TITL SOLUTION NMR STRUCTURE OF THE EGF-LIKE 1 DOMAIN OF HUMAN JRNL TITL 2 FIBULIN-4. NORTHEAST STRUCTURAL GENOMICS TARGET HR6275 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 3.0, CNS 1.3 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NOESY ASSIGNMENTS BY CYANA-3.0. 20 OF REMARK 3 100 STRUCTURES LOWEST TARGET FUNCTION SELECTED WITH CYANA-3.0. REMARK 3 SELECTED MODELS ARE FURTHER REFINED USING CNS IN EXPLICIT WATER REMARK 3 SHELL (NILGES PROTOCOL WITH PARAM19). STRUCTURE BASED ON 776 NOE, REMARK 3 106 DIHE. MAX NOE VIOLATION: 0.23 A (1MODEL); MAX DIHE REMARK 3 VIOLATION: 7.1 DEG. 1 TOTAL CLOSE CONTACTS PER 20 MODELS. REMARK 3 STRUCTURE QUALITY FACTOR (PSVS 1.3): ORDERED RESIDUES RANGES: 11- REMARK 3 34,53-66 (FINDCORE). SECONDARY STRUCTURE - BETA STRANDS: 17-21, REMARK 3 25-29, 61-63. RMSD(ANG): BACKBONE 1.0, ALL HEAVY ATOMS 1.3. REMARK 3 RAMA. DISTRIBUTION: 94.1/5.9/0.0/0.0. PROCHECK (PSI-PHI): -0.38/- REMARK 3 1.18 (RAW/Z), PROCHECK (ALL): -0.22/-1.30 (RAW/Z), MOLPROBITY REMARK 3 CLASH: 16.14/-1.24 (RAW/Z). RPF SCORES ALL ASSIGNED RESIDUES REMARK 3 (FIT OF NOESY PEAKLISTS TO STRUCTURE): RECALL: 0.880, PRECISION: REMARK 3 0.916, F-MEASURE: 0.898, DP-SCORE: 0.651. REMARK 4 REMARK 4 2KL7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000101258. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.15 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.6 MM [U-100% 13C; U-100% 15N] REMARK 210 PROTEIN, 150 MM SODIUM CHLORIDE, REMARK 210 20 MM MES, 50 UM DSS, 90% H2O/10% REMARK 210 D2O; 0.3 MM [U-100% 15N] REMARK 210 PROTEIN, 150 MM SODIUM CHLORIDE, REMARK 210 20 MM MES, 50 UM DSS, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D CBCA(CO)NH; 3D HNCACB; 3D REMARK 210 HNCO; 3D HBHA(CO)NH; 3D HN(CA)CO; REMARK 210 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 3D HCCH-TOCSY; 3D HCCH- REMARK 210 COSY; 3D CCH-TOCSY; 2D 1H-15N REMARK 210 HMQC; 2D 1H-15N HET_NOE; 1D 15N_ REMARK 210 T1 SERIES; 1D 15N_T2 SERIES REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, TOPSPIN 2.1, PSVS 1.3, REMARK 210 SPARKY 2.113, PINE, MOLMOL, REMARK 210 PYMOL, PDBSTAT 5.1 REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: REMARK 210 MONOMER BY GEL FILTRATION CHROMATOGRAPHY/LIGHT SCATTERING AND BY REMARK 210 NMR. T1/T2(CPMG) T1=664.9 MS T2=128.48 MS TAUC=4.8 NS. CONSISTENT REMARK 210 WITH MOLECULAR WEIGHT OF MONOMERIC UNIT. STRUCTURE DETERMINED BY REMARK 210 TRIPLE RESONANCE NMR SPECTROSCOPY. REMARK 210 ASSIGNMENT STATS (ALL RESIDUES INCLUDED): BACKBONE 91.89%, REMARK 210 SIDECHAIN 83.74%, AROMATIC (SC) 100%. UNAMBIGUOUS SIDECHAIN NH2 REMARK 210 100%. REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 1 CYS A 6 25.37 -75.55 REMARK 500 1 PRO A 10 43.91 -70.20 REMARK 500 1 ARG A 31 7.82 -69.43 REMARK 500 1 ILE A 36 -166.93 -121.39 REMARK 500 1 LEU A 39 51.11 -102.78 REMARK 500 2 ASP A 2 -76.24 -124.56 REMARK 500 2 PRO A 10 103.56 -37.80 REMARK 500 2 ILE A 36 -151.56 -125.60 REMARK 500 3 CYS A 6 4.42 -65.16 REMARK 500 3 PRO A 10 94.91 -61.63 REMARK 500 3 ARG A 31 0.46 -69.93 REMARK 500 3 ILE A 36 -161.95 -77.85 REMARK 500 3 HIS A 40 117.25 -173.73 REMARK 500 3 GLN A 52 -20.55 174.08 REMARK 500 3 SER A 68 103.28 58.90 REMARK 500 3 CYS A 69 105.01 -59.16 REMARK 500 3 VAL A 70 90.27 74.64 REMARK 500 4 ASP A 2 -79.96 -115.49 REMARK 500 4 CYS A 6 -37.61 69.61 REMARK 500 4 LEU A 7 35.65 -76.24 REMARK 500 4 PRO A 10 65.56 -65.16 REMARK 500 5 PRO A 10 79.77 -57.52 REMARK 500 5 VAL A 35 45.67 -80.57 REMARK 500 5 ILE A 36 -166.32 -68.74 REMARK 500 5 ASN A 37 -83.24 -75.27 REMARK 500 5 ASP A 38 114.85 -165.93 REMARK 500 5 LEU A 39 61.25 -110.61 REMARK 500 5 PRO A 47 86.30 -61.02 REMARK 500 6 PRO A 10 82.33 -55.61 REMARK 500 6 ASP A 38 115.19 60.60 REMARK 500 6 GLN A 52 31.15 -80.06 REMARK 500 6 PRO A 58 150.80 -49.10 REMARK 500 7 GLU A 5 -158.43 -92.04 REMARK 500 7 THR A 8 177.37 -58.98 REMARK 500 7 PRO A 10 72.14 -64.29 REMARK 500 7 VAL A 35 25.83 42.67 REMARK 500 7 HIS A 40 -6.18 67.79 REMARK 500 7 ALA A 51 115.57 -178.13 REMARK 500 7 GLN A 52 83.04 -69.54 REMARK 500 7 SER A 68 96.56 -61.81 REMARK 500 8 CYS A 6 31.38 -83.03 REMARK 500 8 PRO A 10 77.08 -65.61 REMARK 500 8 ASN A 37 88.92 -64.53 REMARK 500 9 PRO A 10 78.60 -67.66 REMARK 500 10 PRO A 10 77.40 -57.04 REMARK 500 10 PRO A 47 79.27 -63.93 REMARK 500 10 ALA A 51 34.89 -82.93 REMARK 500 11 GLU A 5 47.81 -76.60 REMARK 500 11 CYS A 6 -3.32 66.04 REMARK 500 11 PRO A 10 90.84 -60.38 REMARK 500 REMARK 500 THIS ENTRY HAS 93 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16386 RELATED DB: BMRB REMARK 900 RELATED ID: HR6275 RELATED DB: TARGETDB DBREF 2KL7 A 2 71 UNP O95967 FBLN4_HUMAN 54 123 SEQADV 2KL7 SER A 1 UNP O95967 EXPRESSION TAG SEQRES 1 A 71 SER ASP VAL ASN GLU CYS LEU THR ILE PRO GLU ALA CYS SEQRES 2 A 71 LYS GLY GLU MET LYS CYS ILE ASN HIS TYR GLY GLY TYR SEQRES 3 A 71 LEU CYS LEU PRO ARG SER ALA ALA VAL ILE ASN ASP LEU SEQRES 4 A 71 HIS GLY GLU GLY PRO PRO PRO PRO VAL PRO PRO ALA GLN SEQRES 5 A 71 HIS PRO ASN PRO CYS PRO PRO GLY TYR GLU PRO ASP ASP SEQRES 6 A 71 GLN ASP SER CYS VAL ASP SHEET 1 A 3 TYR A 26 PRO A 30 0 SHEET 2 A 3 GLU A 16 ASN A 21 -1 N MET A 17 O LEU A 29 SHEET 3 A 3 TYR A 61 ASP A 64 -1 O ASP A 64 N LYS A 18 SSBOND 1 CYS A 6 CYS A 69 1555 1555 2.03 SSBOND 2 CYS A 13 CYS A 28 1555 1555 2.03 SSBOND 3 CYS A 19 CYS A 57 1555 1555 2.03 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1