HEADER PROTEIN TRANSPORT 03-NOV-11 3J0R TITLE MODEL OF A TYPE III SECRETION SYSTEM NEEDLE BASED ON A 7 ANGSTROM TITLE 2 RESOLUTION CRYOEM MAP COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN MXIH; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TYPE III SECRETION NEEDLE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SHIGELLA FLEXNERI; SOURCE 3 ORGANISM_TAXID: 623 KEYWDS HELICAL ASSEMBLY, PROTEIN TRANSPORT EXPDTA ELECTRON MICROSCOPY AUTHOR T.FUJII,M.CHEUNG,A.BLANCO,T.KATO,A.J.BLOCKER,K.NAMBA REVDAT 5 21-FEB-24 3J0R 1 REMARK REVDAT 4 04-APR-12 3J0R 1 JRNL REVDAT 3 21-MAR-12 3J0R 1 REMARK REVDAT 2 14-MAR-12 3J0R 1 JRNL REVDAT 1 29-FEB-12 3J0R 0 JRNL AUTH T.FUJII,M.CHEUNG,A.BLANCO,T.KATO,A.J.BLOCKER,K.NAMBA JRNL TITL STRUCTURE OF A TYPE III SECRETION NEEDLE AT 7-A RESOLUTION JRNL TITL 2 PROVIDES INSIGHTS INTO ITS ASSEMBLY AND SIGNALING JRNL TITL 3 MECHANISMS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 109 4461 2012 JRNL REFN ISSN 0027-8424 JRNL PMID 22388746 JRNL DOI 10.1073/PNAS.1116126109 REMARK 2 REMARK 2 RESOLUTION. 7.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : REAL 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) : 7.700 REMARK 3 NUMBER OF PARTICLES : NULL 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 3J0R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-NOV-11. REMARK 100 THE DEPOSITION ID IS D_1000160105. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : HELICAL REMARK 245 SPECIMEN TYPE : VITREOUS ICE (CRYO EM) REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : FILAMENT REMARK 245 PARTICLE TYPE : HELICAL REMARK 245 NAME OF SAMPLE : TYPE III SECRETION NEEDLE REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : QUANTIFOIL HOLEY CARBON REMARK 245 MOLYBDENUM GRID (R0.6/1.0, REMARK 245 QUANTIFOIL) REMARK 245 SAMPLE VITRIFICATION DETAILS : BLOT FOR 3.5 SECONDS BEFORE REMARK 245 PLUNGING INTO LIQUID ETHANE REMARK 245 (VITROBOT). REMARK 245 SAMPLE BUFFER : 20 MM TRIS, PH 7.4, 150 MM REMARK 245 NACL, 2MM MGSO4 REMARK 245 PH : 7.40 REMARK 245 SAMPLE DETAILS : A HELICAL ASSEMBLY OF MXIH REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : 02-JUL-08 REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : 50.00 REMARK 245 MICROSCOPE MODEL : JEOL 3200FSC REMARK 245 DETECTOR TYPE : TVIPS TEMCAM-F415 (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 2000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 1.60 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 2000.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 50000 REMARK 245 CALIBRATED MAGNIFICATION : 89285 REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 200 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 300 THE ASSEMBLY REPRESENTED IN THIS ENTRY HAS REGULAR REMARK 300 HELICAL SYMMETRY WITH THE FOLLOWING PARAMETERS: REMARK 300 ROTATION PER SUBUNIT (TWIST) = 64.06 DEGREES REMARK 300 RISE PER SUBUNIT (HEIGHT) = 4.30 ANGSTROMS 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 0.964373 -0.264546 0.000000 0.00000 REMARK 350 BIOMT2 1 0.264546 0.964373 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 -47.30000 REMARK 350 BIOMT1 2 0.183951 -0.982935 0.000000 0.00000 REMARK 350 BIOMT2 2 0.982935 0.183951 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -43.00000 REMARK 350 BIOMT1 3 -0.803441 -0.595384 0.000000 0.00000 REMARK 350 BIOMT2 3 0.595384 -0.803441 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 -38.70000 REMARK 350 BIOMT1 4 -0.886850 0.462058 0.000000 0.00000 REMARK 350 BIOMT2 4 -0.462058 -0.886850 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 -34.40000 REMARK 350 BIOMT1 5 0.027573 0.999620 0.000000 0.00000 REMARK 350 BIOMT2 5 -0.999620 0.027573 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 -30.10000 REMARK 350 BIOMT1 6 0.910972 0.412469 0.000000 0.00000 REMARK 350 BIOMT2 6 -0.412469 0.910972 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 1.000000 -25.80000 REMARK 350 BIOMT1 7 0.769400 -0.638768 0.000000 0.00000 REMARK 350 BIOMT2 7 0.638768 0.769400 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 1.000000 -21.50000 REMARK 350 BIOMT1 8 -0.237855 -0.971301 0.000000 0.00000 REMARK 350 BIOMT2 8 0.971301 -0.237855 0.000000 0.00000 REMARK 350 BIOMT3 8 0.000000 0.000000 1.000000 -17.20000 REMARK 350 BIOMT1 9 -0.977490 -0.210984 0.000000 0.00000 REMARK 350 BIOMT2 9 0.210984 -0.977490 0.000000 0.00000 REMARK 350 BIOMT3 9 0.000000 0.000000 1.000000 -12.90000 REMARK 350 BIOMT1 10 -0.617311 0.786720 0.000000 0.00000 REMARK 350 BIOMT2 10 -0.786720 -0.617311 0.000000 0.00000 REMARK 350 BIOMT3 10 0.000000 0.000000 1.000000 -8.60000 REMARK 350 BIOMT1 11 0.437430 0.899253 0.000000 0.00000 REMARK 350 BIOMT2 11 -0.899253 0.437430 0.000000 0.00000 REMARK 350 BIOMT3 11 0.000000 0.000000 1.000000 -4.30000 REMARK 350 BIOMT1 12 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 12 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 12 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 13 0.437430 -0.899253 0.000000 0.00000 REMARK 350 BIOMT2 13 0.899253 0.437430 0.000000 0.00000 REMARK 350 BIOMT3 13 0.000000 0.000000 1.000000 4.30000 REMARK 350 BIOMT1 14 -0.617311 -0.786720 0.000000 0.00000 REMARK 350 BIOMT2 14 0.786720 -0.617311 0.000000 0.00000 REMARK 350 BIOMT3 14 0.000000 0.000000 1.000000 8.60000 REMARK 350 BIOMT1 15 -0.977490 0.210984 0.000000 0.00000 REMARK 350 BIOMT2 15 -0.210984 -0.977490 0.000000 0.00000 REMARK 350 BIOMT3 15 0.000000 0.000000 1.000000 12.90000 REMARK 350 BIOMT1 16 -0.237855 0.971301 0.000000 0.00000 REMARK 350 BIOMT2 16 -0.971301 -0.237855 0.000000 0.00000 REMARK 350 BIOMT3 16 0.000000 0.000000 1.000000 17.20000 REMARK 350 BIOMT1 17 0.769400 0.638768 0.000000 0.00000 REMARK 350 BIOMT2 17 -0.638768 0.769400 0.000000 0.00000 REMARK 350 BIOMT3 17 0.000000 0.000000 1.000000 21.50000 REMARK 350 BIOMT1 18 0.910972 -0.412469 0.000000 0.00000 REMARK 350 BIOMT2 18 0.412469 0.910972 0.000000 0.00000 REMARK 350 BIOMT3 18 0.000000 0.000000 1.000000 25.80000 REMARK 350 BIOMT1 19 0.027573 -0.999620 0.000000 0.00000 REMARK 350 BIOMT2 19 0.999620 0.027573 0.000000 0.00000 REMARK 350 BIOMT3 19 0.000000 0.000000 1.000000 30.10000 REMARK 350 BIOMT1 20 -0.886850 -0.462058 0.000000 0.00000 REMARK 350 BIOMT2 20 0.462058 -0.886850 0.000000 0.00000 REMARK 350 BIOMT3 20 0.000000 0.000000 1.000000 34.40000 REMARK 350 BIOMT1 21 -0.803441 0.595384 0.000000 0.00000 REMARK 350 BIOMT2 21 -0.595384 -0.803441 0.000000 0.00000 REMARK 350 BIOMT3 21 0.000000 0.000000 1.000000 38.70000 REMARK 350 BIOMT1 22 0.183951 0.982935 0.000000 0.00000 REMARK 350 BIOMT2 22 -0.982935 0.183951 0.000000 0.00000 REMARK 350 BIOMT3 22 0.000000 0.000000 1.000000 43.00000 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-5352 RELATED DB: EMDB DBREF 3J0R A 2 83 UNP P0A223 MXIH_SHIFL 2 83 SEQRES 1 A 82 SER VAL THR VAL PRO ASN ASP ASP TRP THR LEU SER SER SEQRES 2 A 82 LEU SER GLU THR PHE ASP ASP GLY THR GLN THR LEU GLN SEQRES 3 A 82 GLY GLU LEU THR LEU ALA LEU ASP LYS LEU ALA LYS ASN SEQRES 4 A 82 PRO SER ASN PRO GLN LEU LEU ALA GLU TYR GLN SER LYS SEQRES 5 A 82 LEU SER GLU TYR THR LEU TYR ARG ASN ALA GLN SER ASN SEQRES 6 A 82 THR VAL LYS VAL ILE LYS ASP VAL ASP ALA ALA ILE ILE SEQRES 7 A 82 GLN ASN PHE ARG HELIX 1 1 VAL A 3 ASN A 40 1 38 HELIX 2 2 ASN A 43 GLN A 51 1 9 HELIX 3 3 ASN A 66 ARG A 83 1 18 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