HEADER COMPLEMENT 16-AUG-01 1GKN TITLE STRUCTURE DETERMINATION AND RATIONAL MUTAGENESIS REVEAL BINDING TITLE 2 SURFACE OF IMMUNE ADHERENCE RECEPTOR, CR1 (CD35) COMPND MOL_ID: 1; COMPND 2 MOLECULE: COMPLEMENT RECEPTOR TYPE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MODULES 15 AND 16, OF SITE 2 RESIDUE 942-1065; COMPND 5 SYNONYM: CR1, C3B/C4B RECEPTOR, CD35, ANTIGEN; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 OTHER_DETAILS: FIRST TWO MODULES OF SITE 2 IN CR1. A C3B/C4B BINDING COMPND 9 SITE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PPIC9; SOURCE 8 OTHER_DETAILS: RECOMBINANT TECHNOLOGY USING HUMAN GENE (NOT SOURCE 9 SYNTHETIC) KEYWDS COMPLEMENT, MODULE, SCR EXPDTA SOLUTION NMR NUMMDL 24 AUTHOR B.O.SMITH,R.L.MALLIN,M.KRYCH-GOLDBERG,X.WANG,R.E.HAUHART,K.BROMEK, AUTHOR 2 D.UHRIN,J.P.ATKINSON,P.N.BARLOW REVDAT 3 23-OCT-24 1GKN 1 REMARK REVDAT 2 24-FEB-09 1GKN 1 VERSN REVDAT 1 18-APR-02 1GKN 0 JRNL AUTH B.O.SMITH,R.L.MALLIN,M.KRYCH-GOLDBERG,X.WANG,R.E.HAUHART, JRNL AUTH 2 K.BROMEK,D.UHRIN,J.P.ATKINSON,P.N.BARLOW JRNL TITL STRUCTURE OF THE C3B BINDING SITE OF CR1 (CD35), THE IMMUNE JRNL TITL 2 ADHERENCE RECEPTOR JRNL REF CELL(CAMBRIDGE,MASS.) V. 108 769 2002 JRNL REFN ISSN 0092-8674 JRNL PMID 11955431 JRNL DOI 10.1016/S0092-8674(02)00672-4 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : A.T.BRUNGER, P.D.ADAMS, G.M.CLORE, W.L.DELANO, REMARK 3 P.GROS, R.W.GROSSE-KUNSTLEVE,J.-S.JIANG, REMARK 3 J.KUSZEWSKI, M.NILGES, N.S.PANNU, R.J.READ, REMARK 3 L.M.RICE, T.SIMONSON,G.L.WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 JRNL CITATION ABOVE REMARK 4 REMARK 4 1GKN COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-AUG-01. REMARK 100 THE DEPOSITION ID IS D_1290008451. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 20MM NACL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D EXPERIMENTS:15N-HSQC; 13C REMARK 210 -HSQC; 3D HNCACB; CBCA(CO)NH; REMARK 210 HNCO; HN(CA)CO; HCCH-TOCSY; 13C- REMARK 210 EDITED NOESY; 15N-EDITED NOESY; REMARK 210 (HB)CB(CGCDCE)HE; (HB)CB(CGCD)HD REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; DRX REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS 1.0 REMARK 210 METHOD USED : MOLECULAR DYNAMICS SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 120 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 24 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY ON 13C, 15N-LABELED PROTEIN 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 400 REMARK 400 COMPOUND REMARK 400 CHAIN A ENGINEERED MUTATION ASN918THR (SWS NUMBER 959), REMARK 400 ASN987THR (SWS NUMBER 1028). GLYCOSYLATION SITE REMOVED. 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 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 ALA A 898 45.95 -174.13 REMARK 500 1 ALA A 900 143.32 70.47 REMARK 500 1 LEU A 909 -48.44 75.72 REMARK 500 1 THR A 918 44.21 -148.59 REMARK 500 1 THR A 926 121.48 -174.83 REMARK 500 1 GLU A 935 26.80 -73.77 REMARK 500 1 ARG A 939 164.36 46.71 REMARK 500 1 PHE A 941 -159.79 -95.57 REMARK 500 1 SER A 942 136.44 -171.86 REMARK 500 1 ASP A 947 -37.45 172.91 REMARK 500 1 LYS A 955 -145.11 -80.65 REMARK 500 1 MET A 973 146.71 -178.88 REMARK 500 1 THR A 978 -54.14 -144.72 REMARK 500 1 ASP A 979 -142.18 -158.64 REMARK 500 1 ILE A 980 37.51 -151.05 REMARK 500 1 VAL A 982 30.66 -63.91 REMARK 500 1 HIS A 999 -122.17 -154.08 REMARK 500 1 SER A1000 -46.08 -168.31 REMARK 500 1 ILE A1005 -159.73 -135.75 REMARK 500 1 PRO A1018 -150.79 -64.88 REMARK 500 1 ILE A1019 -158.60 -136.91 REMARK 500 2 LEU A 909 -43.01 75.00 REMARK 500 2 LYS A 914 -36.85 -138.54 REMARK 500 2 THR A 918 -47.74 -159.48 REMARK 500 2 PRO A 934 64.75 -63.44 REMARK 500 2 GLU A 935 2.31 -174.85 REMARK 500 2 ARG A 939 171.04 45.79 REMARK 500 2 SER A 942 143.09 -172.89 REMARK 500 2 ASP A 947 -40.52 172.74 REMARK 500 2 ASN A 948 34.95 -83.50 REMARK 500 2 ASP A 956 77.89 56.99 REMARK 500 2 VAL A 957 -30.02 -149.31 REMARK 500 2 CYS A 958 62.97 -151.60 REMARK 500 2 MET A 973 135.74 173.94 REMARK 500 2 ILE A 977 -47.46 71.83 REMARK 500 2 THR A 978 -60.09 -148.38 REMARK 500 2 ASP A 979 -152.89 -155.01 REMARK 500 2 ILE A 980 22.93 -148.64 REMARK 500 2 VAL A 982 90.97 -49.95 REMARK 500 2 HIS A 999 -132.51 -78.30 REMARK 500 2 SER A1000 -29.89 -174.25 REMARK 500 2 SER A1007 -32.36 -149.99 REMARK 500 2 PRO A1018 -157.47 -59.75 REMARK 500 3 ALA A 898 134.29 -170.27 REMARK 500 3 GLU A 899 -154.89 -67.46 REMARK 500 3 ASP A 906 -137.09 26.05 REMARK 500 3 LYS A 914 27.61 -154.75 REMARK 500 3 THR A 915 -111.59 -69.96 REMARK 500 3 GLN A 916 34.78 -169.13 REMARK 500 3 THR A 926 127.26 -175.23 REMARK 500 REMARK 500 THIS ENTRY HAS 615 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1GKG RELATED DB: PDB REMARK 900 STRUCTURE DETERMINATION AND RATIONAL MUTAGENESIS REVEAL BINDING REMARK 900 SURFACE OF IMMUNE ADHERENCE RECEPTOR, CR1 (CD35) DBREF 1GKN A 897 900 PDB 1GKN 1GKN 897 900 DBREF 1GKN A 901 1024 UNP P17927 CR1_HUMAN 942 1065 SEQADV 1GKN THR A 918 UNP P17927 ASN 959 ENGINEERED MUTATION SEQADV 1GKN THR A 987 UNP P17927 ASN 1028 ENGINEERED MUTATION SEQRES 1 A 128 GLU ALA GLU ALA HIS CYS GLN ALA PRO ASP HIS PHE LEU SEQRES 2 A 128 PHE ALA LYS LEU LYS THR GLN THR THR ALA SER ASP PHE SEQRES 3 A 128 PRO ILE GLY THR SER LEU LYS TYR GLU CYS ARG PRO GLU SEQRES 4 A 128 TYR TYR GLY ARG PRO PHE SER ILE THR CYS LEU ASP ASN SEQRES 5 A 128 LEU VAL TRP SER SER PRO LYS ASP VAL CYS LYS ARG LYS SEQRES 6 A 128 SER CYS LYS THR PRO PRO ASP PRO VAL ASN GLY MET VAL SEQRES 7 A 128 HIS VAL ILE THR ASP ILE GLN VAL GLY SER ARG ILE THR SEQRES 8 A 128 TYR SER CYS THR THR GLY HIS ARG LEU ILE GLY HIS SER SEQRES 9 A 128 SER ALA GLU CYS ILE LEU SER GLY ASN THR ALA HIS TRP SEQRES 10 A 128 SER THR LYS PRO PRO ILE CYS GLN ARG ILE PRO SHEET 1 AA 2 HIS A 901 CYS A 902 0 SHEET 2 AA 2 PHE A 922 PRO A 923 -1 O PHE A 922 N CYS A 902 SHEET 1 AB 3 ALA A 911 LEU A 913 0 SHEET 2 AB 3 SER A 927 CYS A 932 -1 O GLU A 931 N LYS A 912 SHEET 3 AB 3 PHE A 941 THR A 944 -1 O PHE A 941 N TYR A 930 SHEET 1 AC 2 TYR A 936 TYR A 937 0 SHEET 2 AC 2 LYS A 959 ARG A 960 -1 O LYS A 959 N TYR A 937 SHEET 1 AD 4 GLY A 972 VAL A 976 0 SHEET 2 AD 4 ARG A 985 CYS A 990 -1 O THR A 987 N HIS A 975 SHEET 3 AD 4 SER A1001 LEU A1006 -1 O ALA A1002 N ILE A 986 SHEET 4 AD 4 ALA A1011 TRP A1013 -1 O HIS A1012 N ILE A1005 SHEET 1 AE 2 HIS A 994 ARG A 995 0 SHEET 2 AE 2 GLN A1021 ARG A1022 -1 O GLN A1021 N ARG A 995 SSBOND 1 CYS A 902 CYS A 945 1555 1555 2.03 SSBOND 2 CYS A 932 CYS A 958 1555 1555 2.03 SSBOND 3 CYS A 963 CYS A 1004 1555 1555 2.03 SSBOND 4 CYS A 990 CYS A 1020 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