PDB Short entry for 1L3Y HEADER CELL ADHESION 03-MAR-02 1L3Y TITLE INTEGRIN EGF-LIKE MODULE 3 FROM THE BETA-2 SUBUNIT COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTEGRIN BETA-2:CYSTEINE-RICH MODULE 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 535-574; COMPND 5 SYNONYM: CELL SURFACE ADHESION GLYCOPROTEINS LFA-1/CR3/P150,95, CD18, COMPND 6 BETA-SUBUNIT, COMPLEMENT RECEPTOR C3 BETA-SUBUNIT; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS INTEGRIN, BETA-2 SUBUNIT, CELL ADHESION, CYSTEINE-RICH MODULE, EGF- KEYWDS 2 LIKE MODULE EXPDTA SOLUTION NMR NUMMDL 15 AUTHOR N.BEGLOVA,S.C.BLACKLOW,J.TAKAGI,T.A.SPRINGER REVDAT 3 23-FEB-22 1L3Y 1 REMARK SEQADV REVDAT 2 24-FEB-09 1L3Y 1 VERSN REVDAT 1 01-APR-02 1L3Y 0 JRNL AUTH N.BEGLOVA,S.C.BLACKLOW,J.TAKAGI,T.A.SPRINGER JRNL TITL CYSTEINE-RICH MODULE STRUCTURE REVEALS A FULCRUM FOR JRNL TITL 2 INTEGRIN REARRANGEMENT UPON ACTIVATION. JRNL REF NAT.STRUCT.BIOL. V. 9 282 2002 JRNL REFN ISSN 1072-8368 JRNL PMID 11896403 JRNL DOI 10.1038/NSB779 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : GIFA 4.3, CNS 1.0 REMARK 3 AUTHORS : DELSUC, M.A. (GIFA), BRUNGER, A (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1L3Y COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-MAR-02. REMARK 100 THE DEPOSITION ID IS D_1000015624. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.2 REMARK 210 IONIC STRENGTH : 5MM NAPO4 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM I-EGF3 U-15N, 5 MM NAPO4; 1 REMARK 210 MM I-EGF3, 5 MM NAPO4 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_TOCSY; HMQC-J; 1H- REMARK 210 NOESY; 1H-TOCSY; DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY 1.3.13, CNS 1.0 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY,STRUCTURES REMARK 210 WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL 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: CLOSE CONTACTS 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 HE1 TYR A 10 HB2 GLN A 13 1.28 REMARK 500 H PHE A 24 O LYS A 27 1.46 REMARK 500 O PHE A 24 H LYS A 27 1.54 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 1 CYS A 7 133.25 -29.20 REMARK 500 1 ASN A 11 -86.14 -155.45 REMARK 500 1 GLN A 13 -116.11 -106.58 REMARK 500 1 VAL A 14 111.50 -168.65 REMARK 500 1 CYS A 15 40.08 71.70 REMARK 500 1 CYS A 25 90.53 -32.27 REMARK 500 1 GLU A 35 -83.11 -155.07 REMARK 500 1 ALA A 38 -80.46 -143.71 REMARK 500 1 CYS A 39 41.37 -155.96 REMARK 500 2 ASP A 3 -124.79 -175.28 REMARK 500 2 ILE A 5 80.39 -156.30 REMARK 500 2 ASN A 11 49.76 -156.05 REMARK 500 2 GLN A 13 -165.05 -105.05 REMARK 500 2 CYS A 15 46.15 74.70 REMARK 500 2 PHE A 24 -97.43 -156.06 REMARK 500 2 GLU A 35 -83.53 -155.14 REMARK 500 2 ALA A 38 -80.35 -145.18 REMARK 500 2 CYS A 39 40.67 -155.99 REMARK 500 3 CYS A 2 -164.53 43.93 REMARK 500 3 ASP A 3 -118.72 80.02 REMARK 500 3 TYR A 10 -149.26 -88.37 REMARK 500 3 CYS A 15 43.69 84.36 REMARK 500 3 CYS A 25 102.51 -37.46 REMARK 500 3 GLU A 35 -152.98 -155.40 REMARK 500 3 ALA A 38 -81.39 -140.84 REMARK 500 3 CYS A 39 39.33 -157.10 REMARK 500 4 CYS A 2 -36.34 -177.10 REMARK 500 4 CYS A 7 136.61 -18.85 REMARK 500 4 ASN A 11 -79.96 -156.14 REMARK 500 4 VAL A 14 106.16 43.59 REMARK 500 4 CYS A 15 40.13 80.28 REMARK 500 4 LEU A 22 -150.08 -104.10 REMARK 500 4 PHE A 24 -102.72 -156.45 REMARK 500 4 CYS A 25 77.31 -56.08 REMARK 500 4 GLU A 35 -90.28 -154.33 REMARK 500 4 ALA A 38 -81.96 -136.84 REMARK 500 4 CYS A 39 42.40 -156.13 REMARK 500 5 ASP A 3 -148.81 178.72 REMARK 500 5 ILE A 5 67.22 -155.45 REMARK 500 5 TYR A 10 -146.19 -92.16 REMARK 500 5 GLN A 13 -156.81 -149.57 REMARK 500 5 ARG A 20 -42.45 -155.13 REMARK 500 5 CYS A 25 72.76 -55.04 REMARK 500 5 GLU A 35 -102.65 -155.44 REMARK 500 5 ALA A 38 -73.62 -138.56 REMARK 500 5 CYS A 39 20.21 -157.35 REMARK 500 6 CYS A 2 -32.04 -177.48 REMARK 500 6 ASP A 3 -155.61 -167.56 REMARK 500 6 ASN A 6 53.52 -93.89 REMARK 500 6 CYS A 7 135.16 -7.77 REMARK 500 REMARK 500 THIS ENTRY HAS 142 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1L3Y A 1 40 UNP P05107 ITB2_HUMAN 535 574 SEQADV 1L3Y ALA A 41 UNP P05107 CLONING ARTIFACT SEQRES 1 A 41 GLU CYS ASP THR ILE ASN CYS GLU ARG TYR ASN GLY GLN SEQRES 2 A 41 VAL CYS GLY GLY PRO GLY ARG GLY LEU CYS PHE CYS GLY SEQRES 3 A 41 LYS CYS ARG CYS HIS PRO GLY PHE GLU GLY SER ALA CYS SEQRES 4 A 41 GLN ALA HELIX 1 1 GLY A 16 ARG A 20 1 5 SHEET 1 A 2 GLY A 21 PHE A 24 0 SHEET 2 A 2 LYS A 27 CYS A 30 -1 O LYS A 27 N PHE A 24 SSBOND 1 CYS A 2 CYS A 25 1555 1555 2.03 SSBOND 2 CYS A 7 CYS A 23 1555 1555 2.03 SSBOND 3 CYS A 15 CYS A 28 1555 1555 2.03 SSBOND 4 CYS A 30 CYS A 39 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