HEADER IMMUNE SYSTEM 16-AUG-07 2QZF TITLE SCR1 OF DAF FROM 1OJV FITTED INTO CRYOEM DENSITY COMPND MOL_ID: 1; COMPND 2 MOLECULE: COMPLEMENT DECAY-ACCELERATING FACTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SCR1 DOMAIN; COMPND 5 SYNONYM: CD55 ANTIGEN; COMPND 6 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; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SCR1 OF DAF FROM STRUCTURE 1OJV FITTED INTO CRYOEM DENSITY, BLOOD KEYWDS 2 GROUP ANTIGEN, COMPLEMENT PATHWAY, GLYCOPROTEIN, GPI-ANCHOR, IMMUNE KEYWDS 3 RESPONSE, INNATE IMMUNITY, LIPOPROTEIN, MEMBRANE, SUSHI, IMMUNE KEYWDS 4 SYSTEM EXPDTA ELECTRON MICROSCOPY AUTHOR S.HAFENSTEIN,V.D.BOWMAN,P.R.CHIPMAN,C.M.BATOR KELLY,F.LIN,M.E.MEDOF, AUTHOR 2 M.G.ROSSMANN REVDAT 5 18-JUL-18 2QZF 1 REMARK REVDAT 4 30-MAY-12 2QZF 1 REMARK VERSN REVDAT 3 24-FEB-09 2QZF 1 VERSN REVDAT 2 04-DEC-07 2QZF 1 JRNL AUTHOR REVDAT 1 30-OCT-07 2QZF 0 JRNL AUTH S.HAFENSTEIN,V.D.BOWMAN,P.R.CHIPMAN,C.M.KELLY,F.LIN, JRNL AUTH 2 M.E.MEDOF,M.G.ROSSMANN JRNL TITL INTERACTION OF DECAY-ACCELERATING FACTOR WITH COXSACKIEVIRUS JRNL TITL 2 B3. JRNL REF J.VIROL. V. 81 12927 2007 JRNL REFN ISSN 0022-538X JRNL PMID 17804498 JRNL DOI 10.1128/JVI.00931-07 REMARK 2 REMARK 2 RESOLUTION. 14.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : EM3DR, EMPFT REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 1OJV REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 14.00 REMARK 3 NUMBER OF PARTICLES : 2269 REMARK 3 CTF CORRECTION METHOD : NULL REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 2QZF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-SEP-07. REMARK 100 THE DEPOSITION ID IS D_1000044237. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : VITREOUS ICE (CRYO EM) REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : COXSACKIEVIRUS B3, RD STRAIN, REMARK 245 COMPLEXED WITH DECAY- REMARK 245 ACCELERATING FACTOR; COMPLEMENT REMARK 245 DECAY-ACCELERATING FACTOR REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 2.00 REMARK 245 SAMPLE SUPPORT DETAILS : QUANTIFOILS REMARK 245 SAMPLE VITRIFICATION DETAILS : BLOT BEFORE PLUNGING REMARK 245 SAMPLE BUFFER : 50MM MES REMARK 245 PH : 6.00 REMARK 245 SAMPLE DETAILS : ONE DAF BINDS EACH BINDING REMARK 245 SITE, ONE PER EACH PROTOMER REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : 06-AUG-04 REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : 93.00 REMARK 245 MICROSCOPE MODEL : FEI/PHILIPS CM300FEG/T REMARK 245 DETECTOR TYPE : KODAK SO-163 FILM REMARK 245 MINIMUM DEFOCUS (NM) : 1.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 4.60 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : 0.00 REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.00 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 24.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 45000 REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : TUNGSTEN HAIRPIN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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 GLN A1002 32.14 -58.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-1412 RELATED DB: EMDB DBREF 2QZF A 1003 1062 UNP P08174 DAF_HUMAN 35 94 SEQADV 2QZF MET A 1001 UNP P08174 INSERTION SEQADV 2QZF GLN A 1002 UNP P08174 INSERTION SEQRES 1 A 62 MET GLN ASP CYS GLY LEU PRO PRO ASP VAL PRO ASN ALA SEQRES 2 A 62 GLN PRO ALA LEU GLU GLY ARG THR SER PHE PRO GLU ASP SEQRES 3 A 62 THR VAL ILE THR TYR LYS CYS GLU GLU SER PHE VAL LYS SEQRES 4 A 62 ILE PRO GLY GLU LYS ASP SER VAL ILE CYS LEU LYS GLY SEQRES 5 A 62 SER GLN TRP SER ASP ILE GLU GLU PHE CYS SHEET 1 A 2 ASP A1003 CYS A1004 0 SHEET 2 A 2 PHE A1023 PRO A1024 -1 O PHE A1023 N CYS A1004 SHEET 1 B 4 ALA A1013 PRO A1015 0 SHEET 2 B 4 VAL A1028 CYS A1033 -1 O LYS A1032 N GLN A1014 SHEET 3 B 4 SER A1046 LEU A1050 -1 O VAL A1047 N ILE A1029 SHEET 4 B 4 GLN A1054 TRP A1055 -1 O GLN A1054 N LEU A1050 SSBOND 1 CYS A 1004 CYS A 1049 1555 1555 2.03 SSBOND 2 CYS A 1033 CYS A 1062 1555 1555 2.04 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