HEADER CELL ADHESION 30-JAN-18 6FM5 TITLE CRYSTAL STRUCTURE OF SELF-COMPLEMENTED CSUA/B MAJOR SUBUNIT FROM TITLE 2 ARCHAIC CHAPERONE-USHER CSU PILI OF ACINETOBACTER BAUMANNII COMPND MOL_ID: 1; COMPND 2 MOLECULE: CSUA/B,CSUA/B,CSUA/B,CSUA/B; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACINETOBACTER BAUMANNII; SOURCE 3 ORGANISM_TAXID: 470; SOURCE 4 GENE: CSUA/B; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: AI; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET101 KEYWDS IG-LIKE FOLD, BETA SANDWICH, DONOR-STRAND COMPLEMENTATION, CELL KEYWDS 2 ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR N.A.PAKHARUKOVA,M.TUITILLA,S.PAAVILAINEN,A.V.ZAVIALOV REVDAT 3 14-NOV-18 6FM5 1 JRNL REVDAT 2 03-OCT-18 6FM5 1 JRNL REVDAT 1 26-SEP-18 6FM5 0 JRNL AUTH N.PAKHARUKOVA,S.MCKENNA,M.TUITTILA,S.PAAVILAINEN,H.MALMI, JRNL AUTH 2 Y.XU,O.PARILOVA,S.MATTHEWS,A.V.ZAVIALOV JRNL TITL ARCHAIC AND ALTERNATIVE CHAPERONES PRESERVE PILIN FOLDING JRNL TITL 2 ENERGY BY PROVIDING INCOMPLETE STRUCTURAL INFORMATION. JRNL REF J. BIOL. CHEM. V. 293 17070 2018 JRNL REFN ESSN 1083-351X JRNL PMID 30228191 JRNL DOI 10.1074/JBC.RA118.004170 REMARK 2 REMARK 2 RESOLUTION. 1.47 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.2_1309 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.47 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.01 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 27019 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1355 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 46.0315 - 3.1668 0.99 2722 132 0.1933 0.2151 REMARK 3 2 3.1668 - 2.5136 1.00 2621 149 0.2017 0.2168 REMARK 3 3 2.5136 - 2.1959 1.00 2569 136 0.1814 0.1888 REMARK 3 4 2.1959 - 1.9951 0.99 2530 137 0.1735 0.2115 REMARK 3 5 1.9951 - 1.8521 1.00 2550 147 0.1786 0.2039 REMARK 3 6 1.8521 - 1.7429 1.00 2558 125 0.1970 0.2239 REMARK 3 7 1.7429 - 1.6556 1.00 2514 155 0.2153 0.2437 REMARK 3 8 1.6556 - 1.5835 1.00 2553 110 0.2306 0.2395 REMARK 3 9 1.5835 - 1.5226 1.00 2539 137 0.2530 0.3203 REMARK 3 10 1.5226 - 1.4700 0.99 2508 127 0.2696 0.3028 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.830 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.69 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.011 1153 REMARK 3 ANGLE : 1.370 1573 REMARK 3 CHIRALITY : 0.084 191 REMARK 3 PLANARITY : 0.005 209 REMARK 3 DIHEDRAL : 11.639 394 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6FM5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1200008517. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUN-15; 16-MAY-15 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : ESRF; ESRF REMARK 200 BEAMLINE : ID23-1; ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8726; 0.979 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL; PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F; DECTRIS REMARK 200 PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA 0.5.9 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27069 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.470 REMARK 200 RESOLUTION RANGE LOW (A) : 49.210 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.47 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.52 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.74100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 28-30% PEG, 0.2 M AMMONIUM SULFATE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 24.60700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.00900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 24.60700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.00900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 328 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ALA A 4 REMARK 465 VAL A 5 REMARK 465 THR A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 HIS A 11 REMARK 465 HIS A 12 REMARK 465 SER A 13 REMARK 465 THR A 14 REMARK 465 GLY A 158 REMARK 465 GLY A 159 REMARK 465 GLY A 160 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 THR A 81 -20.43 81.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 371 DISTANCE = 6.69 ANGSTROMS DBREF 6FM5 A 4 6 UNP Q6XBY7 Q6XBY7_ACIBA 26 28 DBREF 6FM5 A 7 155 PDB 6FM5 6FM5 7 155 DBREF 6FM5 A 161 174 UNP Q6XBY7 Q6XBY7_ACIBA 26 39 DBREF 6FM5 A 161 174 PDB 6FM5 6FM5 161 174 SEQADV 6FM5 GLY A 156 UNP Q6XBY7 LINKER SEQADV 6FM5 GLY A 157 UNP Q6XBY7 LINKER SEQADV 6FM5 GLY A 158 UNP Q6XBY7 LINKER SEQADV 6FM5 GLY A 159 UNP Q6XBY7 LINKER SEQADV 6FM5 GLY A 160 UNP Q6XBY7 LINKER SEQRES 1 A 171 ALA VAL THR HIS HIS HIS HIS HIS HIS SER THR GLY CYS SEQRES 2 A 171 THR VAL GLY GLY SER GLN THR GLU GLY ASN MET ASN LYS SEQRES 3 A 171 PHE GLY THR LEU ASN PHE GLY LYS THR SER GLY THR TRP SEQRES 4 A 171 ASN ASN VAL LEU THR ALA GLU VAL ALA SER ALA ALA THR SEQRES 5 A 171 GLY GLY ASN ILE SER VAL THR CYS ASP GLY THR ASP PRO SEQRES 6 A 171 VAL ASP PHE THR VAL ALA ILE ASP GLY GLY GLU ARG THR SEQRES 7 A 171 ASP ARG THR LEU LYS ASN THR ALA SER ALA ASP VAL VAL SEQRES 8 A 171 ALA TYR ASN VAL TYR ARG ASP ALA ALA ARG THR ASN LEU SEQRES 9 A 171 TYR VAL VAL ASN GLN PRO GLN GLN PHE THR THR VAL SER SEQRES 10 A 171 GLY GLN ALA THR ALA VAL PRO ILE PHE GLY ALA ILE ALA SEQRES 11 A 171 PRO ASN THR GLY THR PRO LYS ALA GLN GLY ASP TYR LYS SEQRES 12 A 171 ASP THR LEU LEU VAL THR VAL ASN PHE GLY GLY GLY GLY SEQRES 13 A 171 GLY ALA VAL THR GLY GLN VAL ASP VAL LYS LEU ASN ILE SEQRES 14 A 171 SER THR FORMUL 2 HOH *171(H2 O) SHEET 1 AA1 3 CYS A 16 GLY A 19 0 SHEET 2 AA1 3 ILE A 59 CYS A 63 -1 O THR A 62 N THR A 17 SHEET 3 AA1 3 THR A 124 VAL A 126 -1 O VAL A 126 N ILE A 59 SHEET 1 AA2 5 GLN A 22 GLU A 24 0 SHEET 2 AA2 5 MET A 27 THR A 38 -1 O LYS A 29 N GLN A 22 SHEET 3 AA2 5 LEU A 46 SER A 52 -1 O ALA A 51 N THR A 32 SHEET 4 AA2 5 PHE A 129 ILE A 132 -1 O GLY A 130 N ALA A 48 SHEET 5 AA2 5 ASN A 97 TYR A 99 -1 N TYR A 99 O PHE A 129 SHEET 1 AA3 6 GLN A 22 GLU A 24 0 SHEET 2 AA3 6 MET A 27 THR A 38 -1 O LYS A 29 N GLN A 22 SHEET 3 AA3 6 VAL A 162 ILE A 172 1 O ASP A 167 N LEU A 33 SHEET 4 AA3 6 GLY A 143 PHE A 155 -1 N TYR A 145 O LEU A 170 SHEET 5 AA3 6 ASP A 70 ILE A 75 -1 N ALA A 74 O THR A 152 SHEET 6 AA3 6 GLN A 114 THR A 117 -1 O GLN A 114 N VAL A 73 SHEET 1 AA4 2 THR A 84 LYS A 86 0 SHEET 2 AA4 2 VAL A 93 ALA A 95 -1 O VAL A 94 N LEU A 85 SSBOND 1 CYS A 16 CYS A 63 1555 1555 2.02 CRYST1 49.214 92.018 34.111 90.00 90.00 90.00 P 21 21 2 4 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 0.020319 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010867 0.000000 0.00000 SCALE3 0.000000 0.000000 0.029316 0.00000