HEADER MEMBRANE PROTEIN 03-FEB-12 4DK0 TITLE CRYSTAL STRUCTURE OF MACA FROM ACTINOBACILLUS ACTINOMYCETEMCOMITANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE MACA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 30-394; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AGGREGATIBACTER ACTINOMYCETEMCOMITANS; SOURCE 3 ORGANISM_TAXID: 714; SOURCE 4 GENE: MACA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ALPHA-HAIRPIN, LIPOYL, BETA-BARREL, PERIPLASMIC PROTEIN, MEMBRANE KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Y.XU,S.PIAO,N.C.HA REVDAT 2 09-DEC-15 4DK0 1 JRNL REVDAT 1 07-MAR-12 4DK0 0 JRNL AUTH Y.XU,A.MOELLER,S.Y.JUN,M.LE,B.Y.YOON,J.S.KIM,K.LEE,N.C.HA JRNL TITL ASSEMBLY AND CHANNEL OPENING OF OUTER MEMBRANE PROTEIN IN JRNL TITL 2 TRIPARTITE DRUG EFFLUX PUMPS OF GRAM-NEGATIVE BACTERIA. JRNL REF J.BIOL.CHEM. V. 287 11740 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22308040 JRNL DOI 10.1074/JBC.M111.329375 REMARK 2 REMARK 2 RESOLUTION. 3.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.2_869) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : MLHL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 9.99 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.170 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 11237 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.344 REMARK 3 R VALUE (WORKING SET) : 0.338 REMARK 3 FREE R VALUE : 0.390 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1124 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 9.9908 - 6.4123 0.98 1348 150 0.3225 0.3502 REMARK 3 2 6.4123 - 5.3357 0.99 1302 145 0.3688 0.4074 REMARK 3 3 5.3357 - 4.7429 0.99 1272 141 0.3315 0.3859 REMARK 3 4 4.7429 - 4.3483 0.97 1252 139 0.3128 0.4196 REMARK 3 5 4.3483 - 4.0590 0.97 1235 138 0.3238 0.3733 REMARK 3 6 4.0590 - 3.8340 0.97 1238 138 0.3566 0.4455 REMARK 3 7 3.8340 - 3.6518 0.98 1206 134 0.3695 0.4176 REMARK 3 8 3.6518 - 3.5000 0.99 1260 139 0.3660 0.3727 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.98 REMARK 3 K_SOL : 0.32 REMARK 3 B_SOL : 111.38 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 1.080 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 40.200 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 10.00660 REMARK 3 B22 (A**2) : 10.00660 REMARK 3 B33 (A**2) : -20.01310 REMARK 3 B12 (A**2) : -0.00000 REMARK 3 B13 (A**2) : -0.00000 REMARK 3 B23 (A**2) : 0.00000 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 : 0.015 2506 REMARK 3 ANGLE : 2.095 3400 REMARK 3 CHIRALITY : 0.142 428 REMARK 3 PLANARITY : 0.007 434 REMARK 3 DIHEDRAL : 23.443 933 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: all REMARK 3 ORIGIN FOR THE GROUP (A): 80.6780 104.0272 76.7551 REMARK 3 T TENSOR REMARK 3 T11: 0.4275 T22: 0.5567 REMARK 3 T33: 0.3243 T12: -0.2237 REMARK 3 T13: -0.0246 T23: -0.0912 REMARK 3 L TENSOR REMARK 3 L11: 0.4893 L22: 0.5207 REMARK 3 L33: 1.8577 L12: 0.3294 REMARK 3 L13: 0.2566 L23: 0.3151 REMARK 3 S TENSOR REMARK 3 S11: 0.3783 S12: -0.2150 S13: 0.0439 REMARK 3 S21: 0.1220 S22: -0.3160 S23: -0.1284 REMARK 3 S31: -0.2703 S32: 0.3041 S33: -0.1205 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE AUTHOR DID NOT USE THE DATA IN 3.5- REMARK 3 3.0A SINCE THE R-FACTOR WAS NOT REASONABLE AND THE MAP QUALITY REMARK 3 LOOKED LIKE 3.5A RESOLUTION MAP. REMARK 4 REMARK 4 4DK0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-FEB-12. REMARK 100 THE RCSB ID CODE IS RCSB070425. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JAN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 6C1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000, 0.9794, 0.9796, 1.1271 REMARK 200 MONOCHROMATOR : DOUBLE MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17810 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.01M NICKEL CHLORIDE, 0.1M TRIS-HCL, REMARK 280 1M LITHIUM SULFATE, PH 8.5, EVAPORATION, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 6 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z REMARK 290 6555 X-Y,X,Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DODECAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 50480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 186660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -186.0 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 163.78200 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 94.55958 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 189.11916 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 109.18800 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 189.11916 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 0.500000 0.866025 0.000000 -54.59400 REMARK 350 BIOMT2 5 -0.866025 0.500000 0.000000 94.55958 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 6 0.500000 -0.866025 0.000000 109.18800 REMARK 350 BIOMT2 6 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 7 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 8 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 8 0.000000 -1.000000 0.000000 189.11916 REMARK 350 BIOMT3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 9 -0.500000 -0.866025 0.000000 163.78200 REMARK 350 BIOMT2 9 -0.866025 0.500000 0.000000 94.55958 REMARK 350 BIOMT3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 10 0.500000 -0.866025 0.000000 109.18800 REMARK 350 BIOMT2 10 -0.866025 -0.500000 0.000000 189.11916 REMARK 350 BIOMT3 10 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 11 -1.000000 0.000000 0.000000 109.18800 REMARK 350 BIOMT2 11 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 12 0.500000 0.866025 0.000000 -54.59400 REMARK 350 BIOMT2 12 0.866025 -0.500000 0.000000 94.55958 REMARK 350 BIOMT3 12 0.000000 0.000000 -1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 22300 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 96260 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -73.0 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 163.78200 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 94.55958 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 189.11916 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 109.18800 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 189.11916 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 5 0.500000 0.866025 0.000000 -54.59400 REMARK 350 BIOMT2 5 -0.866025 0.500000 0.000000 94.55958 REMARK 350 BIOMT3 5 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 6 0.500000 -0.866025 0.000000 109.18800 REMARK 350 BIOMT2 6 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 1.000000 0.00000 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 GLY A 26 REMARK 465 ALA A 27 REMARK 465 MSE A 28 REMARK 465 ASP A 29 REMARK 465 THR A 30 REMARK 465 THR A 31 REMARK 465 ASN A 268 REMARK 465 SER A 269 REMARK 465 SER A 270 REMARK 465 SER A 271 REMARK 465 ASN A 272 REMARK 465 SER A 273 REMARK 465 SER A 274 REMARK 465 SER A 275 REMARK 465 SER A 276 REMARK 465 GLY A 277 REMARK 465 SER A 278 REMARK 465 SER A 279 REMARK 465 SER A 280 REMARK 465 SER A 281 REMARK 465 SER A 282 REMARK 465 GLY A 283 REMARK 465 SER A 284 REMARK 465 SER A 285 REMARK 465 SER A 286 REMARK 465 LYS A 332 REMARK 465 GLN A 333 REMARK 465 GLY A 344 REMARK 465 ASN A 345 REMARK 465 VAL A 379 REMARK 465 ALA A 380 REMARK 465 ALA A 381 REMARK 465 GLY A 382 REMARK 465 GLU A 383 REMARK 465 THR A 384 REMARK 465 PHE A 385 REMARK 465 GLY A 386 REMARK 465 ASP A 387 REMARK 465 PRO A 388 REMARK 465 ASP A 389 REMARK 465 ALA A 390 REMARK 465 PRO A 391 REMARK 465 ILE A 392 REMARK 465 ILE A 393 REMARK 465 PHE A 394 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 74 CG CD CE NZ 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 ARG A 305 N GLY A 307 2.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 ND2 ASN A 95 OG1 THR A 172 5565 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 PRO A 194 C - N - CA ANGL. DEV. = -11.8 DEGREES 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 LEU A 33 100.54 -167.65 REMARK 500 THR A 34 147.80 70.41 REMARK 500 GLU A 35 144.79 142.81 REMARK 500 GLU A 36 -178.13 -59.65 REMARK 500 LYS A 44 -172.23 47.09 REMARK 500 ASN A 45 -136.57 -155.45 REMARK 500 VAL A 46 106.86 136.00 REMARK 500 SER A 65 -154.85 -71.05 REMARK 500 LYS A 67 75.72 -154.60 REMARK 500 ILE A 68 127.76 -35.14 REMARK 500 THR A 69 17.86 -144.63 REMARK 500 GLN A 78 146.40 -39.05 REMARK 500 GLU A 87 148.83 -176.26 REMARK 500 ILE A 88 -160.32 -128.19 REMARK 500 THR A 99 -70.35 -45.42 REMARK 500 ALA A 103 -78.91 -46.25 REMARK 500 LEU A 104 -60.56 -21.45 REMARK 500 VAL A 112 -72.68 -35.14 REMARK 500 GLN A 134 48.61 -93.76 REMARK 500 LYS A 135 -57.31 69.26 REMARK 500 ALA A 136 -85.81 -83.00 REMARK 500 THR A 137 73.09 -5.65 REMARK 500 SER A 138 137.10 -29.95 REMARK 500 THR A 144 -71.68 -43.58 REMARK 500 LYS A 146 -70.01 -56.29 REMARK 500 LYS A 164 -75.48 -57.62 REMARK 500 ILE A 168 -73.09 -60.24 REMARK 500 THR A 180 -5.36 -143.15 REMARK 500 ILE A 182 76.34 48.31 REMARK 500 THR A 189 -174.48 162.65 REMARK 500 THR A 193 69.50 -178.62 REMARK 500 GLU A 197 99.67 -62.08 REMARK 500 ASP A 238 55.20 -25.97 REMARK 500 VAL A 239 171.15 -48.98 REMARK 500 LEU A 244 26.32 -73.49 REMARK 500 LYS A 248 91.03 65.44 REMARK 500 VAL A 250 95.94 44.66 REMARK 500 ALA A 253 -155.97 -101.81 REMARK 500 THR A 264 -15.74 178.26 REMARK 500 ILE A 265 -64.60 -103.74 REMARK 500 TYR A 290 -146.07 -137.93 REMARK 500 TYR A 291 -12.21 -161.17 REMARK 500 TYR A 292 134.27 72.78 REMARK 500 PRO A 300 -74.02 -66.56 REMARK 500 GLU A 301 -95.80 28.49 REMARK 500 HIS A 302 -44.46 -178.68 REMARK 500 LEU A 304 43.40 -147.71 REMARK 500 ARG A 305 82.91 -16.99 REMARK 500 ILE A 306 10.17 -0.88 REMARK 500 ILE A 314 -142.93 -63.63 REMARK 500 REMARK 500 THIS ENTRY HAS 74 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LEU A 33 THR A 34 133.60 REMARK 500 THR A 34 GLU A 35 148.39 REMARK 500 LYS A 248 THR A 249 148.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 SER A 51 21.1 L L OUTSIDE RANGE REMARK 500 ASP A 335 24.7 L L OUTSIDE RANGE REMARK 500 VAL A 341 21.3 L L OUTSIDE RANGE REMARK 500 LEU A 342 19.7 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4DK1 RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THESE RESIDUES DERIVE FROM A VARIANT OF THE STRAIN OF THE BACTERIA DBREF 4DK0 A 30 394 UNP Q2EHL9 Q2EHL9_AGGAC 30 394 SEQADV 4DK0 GLY A 26 UNP Q2EHL9 EXPRESSION TAG SEQADV 4DK0 ALA A 27 UNP Q2EHL9 EXPRESSION TAG SEQADV 4DK0 MSE A 28 UNP Q2EHL9 EXPRESSION TAG SEQADV 4DK0 ASP A 29 UNP Q2EHL9 EXPRESSION TAG SEQADV 4DK0 ILE A 68 UNP Q2EHL9 VAL 68 SEE REMARK 999 SEQADV 4DK0 LEU A 85 UNP Q2EHL9 ILE 85 SEE REMARK 999 SEQADV 4DK0 GLN A 126 UNP Q2EHL9 ASN 126 SEE REMARK 999 SEQADV 4DK0 LEU A 177 UNP Q2EHL9 VAL 177 SEE REMARK 999 SEQRES 1 A 369 GLY ALA MSE ASP THR THR TYR LEU THR GLU GLU VAL LYS SEQRES 2 A 369 ARG GLY ASN ILE GLU LYS ASN VAL VAL ALA THR GLY SER SEQRES 3 A 369 ILE GLU SER ILE ASN THR VAL ASP VAL GLY ALA GLN VAL SEQRES 4 A 369 SER GLY LYS ILE THR LYS LEU TYR VAL LYS LEU GLY GLN SEQRES 5 A 369 GLN VAL LYS LYS GLY ASP LEU LEU ALA GLU ILE ASP SER SEQRES 6 A 369 THR THR GLN ILE ASN THR LEU ASN THR ARG LYS ALA ALA SEQRES 7 A 369 LEU ALA SER TYR GLN ALA GLN LEU VAL ALA ARG LYS THR SEQRES 8 A 369 ALA TYR ASP VAL ALA LEU SER ASN TYR GLN ARG LEU SER SEQRES 9 A 369 LYS LEU TYR GLY GLN LYS ALA THR SER LEU ASP THR LEU SEQRES 10 A 369 ASN THR ALA LYS ALA THR LEU ASN ASN ALA LYS ALA GLU SEQRES 11 A 369 MSE ASP VAL VAL GLN GLU ASN ILE LYS GLN ALA GLU ILE SEQRES 12 A 369 GLU VAL ASN THR ALA GLU THR ASN LEU GLY TYR THR LYS SEQRES 13 A 369 ILE THR SER PRO ILE ASP GLY THR VAL ILE SER THR PRO SEQRES 14 A 369 VAL SER GLU GLY GLN THR VAL ASN SER ASN GLN THR THR SEQRES 15 A 369 PRO THR ILE ILE LYS VAL ALA ASP LEU SER LYS MSE ARG SEQRES 16 A 369 ILE LYS PRO GLU ILE SER GLU GLY ASP ILE THR LYS VAL SEQRES 17 A 369 LYS ALA GLY GLN ASP VAL THR PHE THR ILE LEU SER ASP SEQRES 18 A 369 ASN LYS THR VAL TYR HIS ALA LYS ILE ASP SER VAL ASP SEQRES 19 A 369 PRO ALA THR THR THR ILE SER ASP ASN SER SER SER ASN SEQRES 20 A 369 SER SER SER SER GLY SER SER SER SER SER GLY SER SER SEQRES 21 A 369 SER SER ALA VAL TYR TYR TYR ALA ASN ILE ILE VAL GLU SEQRES 22 A 369 ASN PRO GLU HIS VAL LEU ARG ILE GLY MSE THR THR GLU SEQRES 23 A 369 ASN ASN ILE LYS ILE ALA ASP VAL GLN ASN VAL LEU PHE SEQRES 24 A 369 ILE PRO ASN LEU ALA VAL GLN LYS GLN GLN ASP LYS TYR SEQRES 25 A 369 VAL VAL ASN VAL LEU ASN GLY ASN THR THR GLN GLU ARG SEQRES 26 A 369 GLU ILE GLU ILE GLY VAL GLN ASN ASP PHE GLN THR GLU SEQRES 27 A 369 VAL LYS SER GLY LEU THR GLU GLY GLU LYS VAL VAL ILE SEQRES 28 A 369 SER GLN VAL ALA ALA GLY GLU THR PHE GLY ASP PRO ASP SEQRES 29 A 369 ALA PRO ILE ILE PHE MODRES 4DK0 MSE A 156 MET SELENOMETHIONINE MODRES 4DK0 MSE A 219 MET SELENOMETHIONINE MODRES 4DK0 MSE A 308 MET SELENOMETHIONINE HET MSE A 156 8 HET MSE A 219 8 HET MSE A 308 8 HETNAM MSE SELENOMETHIONINE FORMUL 1 MSE 3(C5 H11 N O2 SE) HELIX 1 1 SER A 90 ALA A 121 1 32 HELIX 2 2 ASN A 124 LEU A 131 1 8 HELIX 3 3 TYR A 132 GLN A 134 5 3 HELIX 4 4 SER A 138 ASP A 140 5 3 HELIX 5 5 THR A 141 ASN A 176 1 36 HELIX 6 6 PRO A 326 VAL A 330 5 5 SHEET 1 A 2 ARG A 39 GLY A 40 0 SHEET 2 A 2 VAL A 322 LEU A 323 -1 O VAL A 322 N GLY A 40 SHEET 1 B 4 ARG A 220 PRO A 223 0 SHEET 2 B 4 VAL A 47 GLU A 53 -1 N GLU A 53 O ARG A 220 SHEET 3 B 4 THR A 309 ASN A 313 -1 O THR A 310 N GLY A 50 SHEET 4 B 4 PHE A 241 ILE A 243 -1 N THR A 242 O GLU A 311 SHEET 1 C 2 LYS A 70 LEU A 71 0 SHEET 2 C 2 ALA A 86 GLU A 87 -1 O GLU A 87 N LYS A 70 LINK C GLU A 155 N MSE A 156 1555 1555 1.32 LINK C MSE A 156 N ASP A 157 1555 1555 1.34 LINK C LYS A 218 N MSE A 219 1555 1555 1.33 LINK C MSE A 219 N ARG A 220 1555 1555 1.31 LINK C GLY A 307 N MSE A 308 1555 1555 1.33 LINK C MSE A 308 N THR A 309 1555 1555 1.34 CISPEP 1 LYS A 38 ARG A 39 0 17.50 CISPEP 2 ILE A 316 ALA A 317 0 -15.65 CISPEP 3 GLN A 334 ASP A 335 0 11.56 CISPEP 4 VAL A 341 LEU A 342 0 8.86 CISPEP 5 GLU A 353 ILE A 354 0 -9.40 CISPEP 6 GLY A 355 VAL A 356 0 1.10 CISPEP 7 ASN A 358 ASP A 359 0 -6.65 CISPEP 8 SER A 366 GLY A 367 0 3.24 CISPEP 9 GLY A 367 LEU A 368 0 -6.18 CISPEP 10 ILE A 376 SER A 377 0 -4.93 CISPEP 11 SER A 377 GLN A 378 0 14.44 CRYST1 109.188 109.188 255.442 90.00 90.00 120.00 P 6 2 2 12 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 0.009159 0.005288 0.000000 0.00000 SCALE2 0.000000 0.010575 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003915 0.00000