HEADER HYDROLASE 06-JUN-13 4BS1 TITLE MUB IS AN AAAPLUS ATPASE THAT FORMS HELICAL FILAMENTS TO CONTROL TITLE 2 TARGET SELECTION FOR DNA TRANSPOSITION COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTIONAL REGULATOR (NTRC FAMILY); COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 312-384; COMPND 5 SYNONYM: MUB AAAPLUS ATPASE; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: MODIFIED FROM 1NY6; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: TRANSCRIPTIONAL REGULATOR (NTRC FAMILY); COMPND 10 CHAIN: B; COMPND 11 FRAGMENT: RESIDUES 137-309; COMPND 12 SYNONYM: MUB AAAPLUS ATPASE; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: MODIFIED FROM 1NY6 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE MU; SOURCE 3 ORGANISM_TAXID: 10677; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: ENTEROBACTERIA PHAGE MU; SOURCE 8 ORGANISM_TAXID: 10677; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, AAA+ DNA TRANSPOSITION, NUCLEOPROTEIN FILAMENT, SYMMETRY KEYWDS 2 MISMATCH EXPDTA ELECTRON MICROSCOPY AUTHOR N.MIZUNO,M.DRAMICANIN,M.MIZUUCHI,J.ADAM,Y.WANG,Y.W.HAN,W.YANG, AUTHOR 2 A.C.STEVEN,K.MIZUUCHI,S.RAMON-MAIQUES REVDAT 4 23-AUG-17 4BS1 1 REMARK REVDAT 3 19-APR-17 4BS1 1 REMARK REVDAT 2 17-JUL-13 4BS1 1 JRNL REVDAT 1 03-JUL-13 4BS1 0 JRNL AUTH N.MIZUNO,M.DRAMICANIN,M.MIZUUCHI,J.ADAM,Y.WANG,Y.W.HAN, JRNL AUTH 2 W.YANG,A.C.STEVEN,K.MIZUUCHI,S.RAMON-MAIQUES JRNL TITL MUB IS AN AAA+ ATPASE THAT FORMS HELICAL FILAMENTS TO JRNL TITL 2 CONTROL TARGET SELECTION FOR DNA TRANSPOSITION. JRNL REF PROC.NATL.ACAD.SCI.USA V. 110 E2441 2013 JRNL REFN ISSN 0027-8424 JRNL PMID 23776210 JRNL DOI 10.1073/PNAS.1309499110 REMARK 2 REMARK 2 RESOLUTION. 18.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : UCSF CHIMERA, BSOFT, EMAN, SPIDER REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : 1NY6 REMARK 3 REFINEMENT SPACE : REAL REMARK 3 REFINEMENT PROTOCOL : RIGID BODY FIT REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : METHOD--RIGID BODY REFINEMENT PROTOCOL--X-RAY REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : 2.800 REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 18.00 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: SUBMISSION BASED ON EXPERIMENTAL DATA FROM EMDB EMD REMARK 3 -2395. (DEPOSITION ID: 11697). REMARK 4 REMARK 4 4BS1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE. REMARK 100 THE DEPOSITION ID IS D_1290057180. 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 : MUB FILAMENT WITHOUT DNA REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.07 REMARK 245 SAMPLE SUPPORT DETAILS : HOLEY CARBON REMARK 245 SAMPLE VITRIFICATION DETAILS : LIQUID ETHANE REMARK 245 SAMPLE BUFFER : 30 MM TRISHCL PH 8.0, 0. 15 M REMARK 245 KCL, 5MM MGCL2, 1MM DTT, 1 MM REMARK 245 ATP OR ATP- GAMMA-S REMARK 245 PH : 8.00 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : 21-APR-08 REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : 82.00 REMARK 245 MICROSCOPE MODEL : FEI/PHILIPS CM200FEG REMARK 245 DETECTOR TYPE : GATAN ULTRASCAN 1000 (2K X REMARK 245 2K) REMARK 245 MINIMUM DEFOCUS (NM) : 1500.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 3000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 15.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 38000 REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 120 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) = 66.20 DEGREES REMARK 300 RISE PER SUBUNIT (HEIGHT) = 9.01 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, B REMARK 350 BIOMT1 1 -0.947768 -0.318959 0.000000 0.00000 REMARK 350 BIOMT2 1 0.318959 -0.947768 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 -27.03000 REMARK 350 BIOMT1 2 -0.674302 0.738455 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.738455 -0.674302 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -18.02000 REMARK 350 BIOMT1 3 0.403545 0.914960 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.914960 0.403545 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 -9.01000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 0.403545 -0.914960 0.000000 0.00000 REMARK 350 BIOMT2 5 0.914960 0.403545 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 9.01000 REMARK 350 BIOMT1 6 -0.674302 -0.738455 0.000000 0.00000 REMARK 350 BIOMT2 6 0.738455 -0.674302 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 1.000000 18.02000 REMARK 350 BIOMT1 7 -0.947768 0.318959 0.000000 0.00000 REMARK 350 BIOMT2 7 -0.318959 -0.947768 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 1.000000 27.03000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O LYS B 154 OG SER B 157 2.18 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 ARG A 313 45.07 -154.36 REMARK 500 GLU A 335 46.50 -68.64 REMARK 500 TRP A 352 71.83 49.18 REMARK 500 ASN A 355 -139.87 69.47 REMARK 500 VAL A 362 -30.70 -39.72 REMARK 500 ARG A 377 -38.73 -27.65 REMARK 500 LEU A 383 -90.24 -113.43 REMARK 500 GLU B 138 -159.94 -134.94 REMARK 500 GLU B 142 -18.90 -150.15 REMARK 500 GLU B 148 -79.53 -77.25 REMARK 500 ILE B 149 -31.73 -31.33 REMARK 500 ILE B 156 -17.18 -42.94 REMARK 500 SER B 157 -75.69 -32.47 REMARK 500 CYS B 158 29.97 -61.38 REMARK 500 GLU B 160 -3.94 -147.51 REMARK 500 LYS B 173 -79.75 -50.34 REMARK 500 GLU B 174 -8.42 -45.98 REMARK 500 ARG B 178 -36.54 -39.92 REMARK 500 ARG B 186 42.36 -98.12 REMARK 500 ARG B 201 -21.85 -37.47 REMARK 500 GLU B 205 27.04 -78.81 REMARK 500 PHE B 209 -83.01 -76.59 REMARK 500 LYS B 213 160.05 -32.93 REMARK 500 THR B 217 111.47 -32.24 REMARK 500 GLU B 224 -161.59 -59.24 REMARK 500 LEU B 263 -150.74 81.30 REMARK 500 GLU B 268 11.86 -141.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 6 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-2395 RELATED DB: EMDB REMARK 900 MUB IS AN AAA+ ATPASE THAT FORMS HELICAL FILAMENTS TO CONTROL REMARK 900 TARGET SELECTION FOR DNA TRANSPOSITION REMARK 900 RELATED ID: EMD-2398 RELATED DB: EMDB REMARK 900 RELATED ID: EMD-2400 RELATED DB: EMDB REMARK 900 RELATED ID: 4BT0 RELATED DB: PDB REMARK 900 MUB IS AN AAAPLUS ATPASE THAT FORMS HELICAL FILAMENTS TO CONTROL REMARK 900 TARGET SELECTION FOR DNA TRANSPOSITION REMARK 900 RELATED ID: 4BT1 RELATED DB: PDB REMARK 900 MUB IS AN AAAPLUS ATPASE THAT FORMS HELICAL FILAMENTS TO CONTROL REMARK 900 TARGET SELECTION FOR DNA TRANSPOSITION REMARK 999 REMARK 999 SEQUENCE REMARK 999 AQUIFEX AEOLICUS SEQUENCE MAPPED INTO EM VOLUME OF REMARK 999 ENTEROBACTERIA PHAGE MU PROTEIN DBREF 4BS1 A 312 384 PDB 4BS1 4BS1 312 384 DBREF 4BS1 B 137 309 PDB 4BS1 4BS1 137 309 SEQRES 1 A 73 GLU ARG LYS GLU ASP ILE ILE PRO LEU ALA ASN HIS PHE SEQRES 2 A 73 LEU LYS LYS PHE SER ARG LYS TYR ALA LYS GLU VAL GLU SEQRES 3 A 73 GLY PHE THR LYS SER ALA GLN GLU LEU LEU LEU SER TYR SEQRES 4 A 73 PRO TRP TYR GLY ASN VAL ARG GLU LEU LYS ASN VAL ILE SEQRES 5 A 73 GLU ARG ALA VAL LEU PHE SER GLU GLY LYS PHE ILE ASP SEQRES 6 A 73 ARG GLY GLU LEU SER CYS LEU VAL SEQRES 1 B 173 GLU GLU TYR VAL PHE GLU SER PRO LYS MET LYS GLU ILE SEQRES 2 B 173 LEU GLU LYS ILE LYS LYS ILE SER CYS ALA GLU CYS PRO SEQRES 3 B 173 VAL LEU ILE THR GLY GLU SER GLY VAL GLY LYS GLU VAL SEQRES 4 B 173 VAL ALA ARG LEU ILE HIS LYS LEU SER ASP ARG SER LYS SEQRES 5 B 173 GLU PRO PHE VAL ALA LEU ASN VAL ALA SER ILE PRO ARG SEQRES 6 B 173 ASP ILE PHE GLU ALA GLU LEU PHE GLY TYR GLU LYS GLY SEQRES 7 B 173 ALA PHE THR GLY ALA VAL SER SER LYS GLU GLY PHE PHE SEQRES 8 B 173 GLU LEU ALA ASP GLY GLY THR LEU PHE LEU ASP GLU ILE SEQRES 9 B 173 GLY GLU LEU SER LEU GLU ALA GLN ALA LYS LEU LEU ARG SEQRES 10 B 173 VAL ILE GLU SER GLY LYS PHE TYR ARG LEU GLY GLY ARG SEQRES 11 B 173 LYS GLU ILE GLU VAL ASN VAL ARG ILE LEU ALA ALA THR SEQRES 12 B 173 ASN ARG ASN ILE LYS GLU LEU VAL LYS GLU GLY LYS PHE SEQRES 13 B 173 ARG GLU ASP LEU TYR TYR ARG LEU GLY VAL ILE GLU ILE SEQRES 14 B 173 GLU ILE PRO PRO HET ADP A 6 27 HET ADP B 5 27 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE FORMUL 3 ADP 2(C10 H15 N5 O10 P2) HELIX 1 1 ARG A 313 TYR A 332 1 20 HELIX 2 2 THR A 340 TYR A 350 1 11 HELIX 3 3 ASN A 355 SER A 370 1 16 HELIX 4 4 ASP A 376 CYS A 382 1 7 HELIX 5 5 SER B 143 SER B 157 1 15 HELIX 6 6 GLY B 172 SER B 184 1 13 HELIX 7 7 ILE B 203 LEU B 208 1 6 HELIX 8 8 GLY B 225 ALA B 230 1 6 HELIX 9 9 ILE B 240 LEU B 243 5 4 HELIX 10 10 SER B 244 SER B 257 1 14 HELIX 11 11 ASN B 282 GLU B 289 1 8 HELIX 12 12 ARG B 293 GLY B 301 1 9 SHEET 1 AA 2 GLY A 338 PHE A 339 0 SHEET 2 AA 2 PHE A 374 ILE A 375 1 N ILE A 375 O GLY A 338 SHEET 1 BA 5 PHE B 191 ASN B 195 0 SHEET 2 BA 5 THR B 234 ASP B 238 1 O THR B 234 N VAL B 192 SHEET 3 BA 5 ARG B 274 THR B 279 1 O ARG B 274 N LEU B 235 SHEET 4 BA 5 VAL B 163 THR B 166 1 O VAL B 163 N ALA B 277 SHEET 5 BA 5 ILE B 303 GLU B 306 1 O ILE B 303 N LEU B 164 SHEET 1 BB 2 LYS B 259 PHE B 260 0 SHEET 2 BB 2 ILE B 269 GLU B 270 -1 O ILE B 269 N PHE B 260 SITE 1 AC1 4 LEU A 320 VAL A 356 ARG A 357 LYS A 360 SITE 1 AC2 8 VAL B 140 SER B 169 GLY B 170 VAL B 171 SITE 2 AC2 8 GLY B 172 LYS B 173 GLU B 174 VAL B 175 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 MTRIX1 1 -0.947768 -0.318959 0.000000 0.00000 MTRIX2 1 0.318959 -0.947768 0.000000 0.00000 MTRIX3 1 0.000000 0.000000 1.000000 -27.03000 MTRIX1 2 -0.674302 0.738455 0.000000 0.00000 MTRIX2 2 -0.738455 -0.674302 0.000000 0.00000 MTRIX3 2 0.000000 0.000000 1.000000 -18.02000 MTRIX1 3 0.403545 0.914960 0.000000 0.00000 MTRIX2 3 -0.914960 0.403545 0.000000 0.00000 MTRIX3 3 0.000000 0.000000 1.000000 -9.01000 MTRIX1 4 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 4 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 4 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 5 0.403545 -0.914960 0.000000 0.00000 MTRIX2 5 0.914960 0.403545 0.000000 0.00000 MTRIX3 5 0.000000 0.000000 1.000000 9.01000 MTRIX1 6 -0.674302 -0.738455 0.000000 0.00000 MTRIX2 6 0.738455 -0.674302 0.000000 0.00000 MTRIX3 6 0.000000 0.000000 1.000000 18.02000 MTRIX1 7 -0.947768 0.318959 0.000000 0.00000 MTRIX2 7 -0.318959 -0.947768 0.000000 0.00000 MTRIX3 7 0.000000 0.000000 1.000000 27.03000