HEADER OXIDOREDUCTASE 06-AUG-14 4U9O TITLE CRYSTAL STRUCTURE OF NQRA FROM VIBRIO CHOLERAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NA(+)-TRANSLOCATING NADH-QUINONE REDUCTASE SUBUNIT A; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: NA(+)-TRANSLOCATING NQR SUBUNIT A,NQR COMPLEX SUBUNIT A,NQR- COMPND 5 1 SUBUNIT A; COMPND 6 EC: 1.6.5.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE; SOURCE 3 ORGANISM_TAXID: 666; SOURCE 4 STRAIN: ATCC 39315 / EL TOR INABA N16961; SOURCE 5 GENE: NQRA, VC_2295; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS SODIUM TRANSLOCATION, ROSSMANN FOLD, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR G.FRITZ REVDAT 4 03-APR-24 4U9O 1 REMARK SSBOND LINK ATOM REVDAT 3 17-DEC-14 4U9O 1 JRNL REVDAT 2 10-DEC-14 4U9O 1 REVDAT 1 03-DEC-14 4U9O 0 JRNL AUTH J.STEUBER,G.VOHL,M.S.CASUTT,T.VORBURGER,K.DIEDERICHS,G.FRITZ JRNL TITL STRUCTURE OF THE V. CHOLERAE NA+-PUMPING NADH:QUINONE JRNL TITL 2 OXIDOREDUCTASE. JRNL REF NATURE V. 516 62 2014 JRNL REFN ESSN 1476-4687 JRNL PMID 25471880 JRNL DOI 10.1038/NATURE14003 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.9_1692) 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.16 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 45041 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.201 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2251 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 42.1696 - 4.0306 1.00 2832 151 0.1377 0.1540 REMARK 3 2 4.0306 - 3.1995 1.00 2736 144 0.1630 0.1892 REMARK 3 3 3.1995 - 2.7952 1.00 2722 140 0.1884 0.2079 REMARK 3 4 2.7952 - 2.5397 1.00 2680 145 0.1987 0.2163 REMARK 3 5 2.5397 - 2.3576 1.00 2693 136 0.1831 0.2241 REMARK 3 6 2.3576 - 2.2187 1.00 2660 139 0.1789 0.2321 REMARK 3 7 2.2187 - 2.1075 1.00 2678 142 0.1841 0.2265 REMARK 3 8 2.1075 - 2.0158 1.00 2667 141 0.1963 0.2131 REMARK 3 9 2.0158 - 1.9382 1.00 2667 147 0.2022 0.2277 REMARK 3 10 1.9382 - 1.8713 1.00 2639 124 0.2198 0.2499 REMARK 3 11 1.8713 - 1.8128 0.99 2661 130 0.2225 0.2671 REMARK 3 12 1.8128 - 1.7610 1.00 2644 151 0.2469 0.2700 REMARK 3 13 1.7610 - 1.7146 1.00 2647 140 0.2765 0.2949 REMARK 3 14 1.7146 - 1.6728 1.00 2635 160 0.3004 0.3328 REMARK 3 15 1.6728 - 1.6348 1.00 2598 140 0.3511 0.3564 REMARK 3 16 1.6348 - 1.6000 0.99 2631 121 0.4386 0.5265 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) : 0.240 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 33.02 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.97 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 : 0.006 2447 REMARK 3 ANGLE : 0.815 3337 REMARK 3 CHIRALITY : 0.047 391 REMARK 3 PLANARITY : 0.005 437 REMARK 3 DIHEDRAL : 13.052 917 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 11 THROUGH 80 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.8547 -9.3122 -15.7306 REMARK 3 T TENSOR REMARK 3 T11: 0.3494 T22: 0.3152 REMARK 3 T33: 0.3806 T12: 0.0644 REMARK 3 T13: 0.0707 T23: 0.0444 REMARK 3 L TENSOR REMARK 3 L11: -0.0640 L22: 2.0031 REMARK 3 L33: 1.7533 L12: -0.3451 REMARK 3 L13: 0.1520 L23: 0.1772 REMARK 3 S TENSOR REMARK 3 S11: -0.0254 S12: -0.1652 S13: 0.0295 REMARK 3 S21: 0.2558 S22: 0.0698 S23: 0.0497 REMARK 3 S31: -0.2622 S32: 0.1354 S33: 0.0026 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 81 THROUGH 125 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.3855 -11.6139 -25.9042 REMARK 3 T TENSOR REMARK 3 T11: 0.2895 T22: 0.3367 REMARK 3 T33: 0.4131 T12: 0.0895 REMARK 3 T13: 0.0363 T23: 0.0922 REMARK 3 L TENSOR REMARK 3 L11: 1.1964 L22: 2.1579 REMARK 3 L33: 1.0226 L12: 0.2482 REMARK 3 L13: -0.7255 L23: -0.2759 REMARK 3 S TENSOR REMARK 3 S11: 0.1177 S12: 0.1291 S13: 0.2364 REMARK 3 S21: -0.0804 S22: -0.0133 S23: 0.2390 REMARK 3 S31: -0.3520 S32: -0.3661 S33: 0.0044 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 126 THROUGH 184 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.3500 -22.9014 -27.6652 REMARK 3 T TENSOR REMARK 3 T11: 0.2835 T22: 0.3446 REMARK 3 T33: 0.3134 T12: 0.0347 REMARK 3 T13: 0.0065 T23: 0.0350 REMARK 3 L TENSOR REMARK 3 L11: 1.3491 L22: 1.1667 REMARK 3 L33: 1.7281 L12: 0.1648 REMARK 3 L13: -1.0325 L23: 0.5901 REMARK 3 S TENSOR REMARK 3 S11: -0.0609 S12: -0.0066 S13: 0.0062 REMARK 3 S21: -0.0592 S22: 0.1514 S23: 0.0308 REMARK 3 S31: 0.1388 S32: 0.2600 S33: -0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 185 THROUGH 235 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.4250 -31.4049 -32.4238 REMARK 3 T TENSOR REMARK 3 T11: 0.3957 T22: 0.3333 REMARK 3 T33: 0.3533 T12: 0.0440 REMARK 3 T13: 0.0091 T23: 0.0092 REMARK 3 L TENSOR REMARK 3 L11: 0.4314 L22: 1.1956 REMARK 3 L33: 0.9033 L12: 0.1376 REMARK 3 L13: -0.4259 L23: 0.4831 REMARK 3 S TENSOR REMARK 3 S11: -0.0627 S12: 0.1746 S13: -0.1285 REMARK 3 S21: -0.1882 S22: 0.1659 S23: -0.0899 REMARK 3 S31: 0.2706 S32: 0.2955 S33: -0.0035 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 236 THROUGH 265 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.2426 -21.8571 -22.7255 REMARK 3 T TENSOR REMARK 3 T11: 0.2872 T22: 0.3311 REMARK 3 T33: 0.3524 T12: 0.0452 REMARK 3 T13: 0.0300 T23: 0.0683 REMARK 3 L TENSOR REMARK 3 L11: 0.6196 L22: 0.8230 REMARK 3 L33: 0.8182 L12: -0.2540 REMARK 3 L13: -0.0520 L23: 0.5838 REMARK 3 S TENSOR REMARK 3 S11: -0.0571 S12: -0.0060 S13: 0.0448 REMARK 3 S21: 0.0524 S22: 0.1390 S23: 0.1193 REMARK 3 S31: 0.2240 S32: -0.0506 S33: 0.0001 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 266 THROUGH 329 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.7327 -20.4779 -5.1743 REMARK 3 T TENSOR REMARK 3 T11: 0.4071 T22: 0.5276 REMARK 3 T33: 0.3023 T12: 0.0801 REMARK 3 T13: 0.0362 T23: 0.0355 REMARK 3 L TENSOR REMARK 3 L11: 1.2893 L22: 1.5709 REMARK 3 L33: 1.2154 L12: -0.4222 REMARK 3 L13: -0.3144 L23: 0.1800 REMARK 3 S TENSOR REMARK 3 S11: -0.0728 S12: -0.3654 S13: 0.0555 REMARK 3 S21: 0.3644 S22: 0.1416 S23: 0.0868 REMARK 3 S31: -0.0661 S32: 0.5342 S33: 0.0011 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 4U9O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 07-AUG-14. REMARK 100 THE DEPOSITION ID IS D_1000203046. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-JUL-12 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 : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS, XSCALE REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45130 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 45.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 37.00 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 33.5100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 3.83200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.080 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: RHOMBOID REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL PH 8.5, 25% PEG 3350, REMARK 280 0.2 M LI2SO4, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 51.43000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 51.43000 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 1.000000 0.000000 0.000000 39.13500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 42.15500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 39.13500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 42.15500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 51.43000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 39.13500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 42.15500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 51.43000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 39.13500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 42.15500 REMARK 290 SMTRY3 8 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: 260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.0 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 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 -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ILE A 2 REMARK 465 THR A 3 REMARK 465 ILE A 4 REMARK 465 LYS A 5 REMARK 465 LYS A 6 REMARK 465 GLY A 7 REMARK 465 LEU A 8 REMARK 465 ASP A 9 REMARK 465 LEU A 10 REMARK 465 ALA A 217 REMARK 465 GLY A 218 REMARK 465 LEU A 219 REMARK 465 ALA A 220 REMARK 465 GLY A 221 REMARK 465 THR A 222 REMARK 465 HIS A 223 REMARK 465 MET A 224 REMARK 465 HIS A 225 REMARK 465 PHE A 226 REMARK 465 LEU A 227 REMARK 465 TYR A 228 REMARK 465 PRO A 229 REMARK 465 VAL A 230 REMARK 465 SER A 231 REMARK 465 ALA A 232 REMARK 465 ARG A 330 REMARK 465 ASP A 331 REMARK 465 LYS A 332 REMARK 465 GLU A 333 REMARK 465 LEU A 334 REMARK 465 PHE A 335 REMARK 465 GLY A 336 REMARK 465 TRP A 337 REMARK 465 ALA A 338 REMARK 465 MET A 339 REMARK 465 PRO A 340 REMARK 465 GLY A 341 REMARK 465 LYS A 342 REMARK 465 ASN A 343 REMARK 465 LYS A 344 REMARK 465 PHE A 345 REMARK 465 SER A 346 REMARK 465 VAL A 347 REMARK 465 THR A 348 REMARK 465 ARG A 349 REMARK 465 SER A 350 REMARK 465 PHE A 351 REMARK 465 LEU A 352 REMARK 465 GLY A 353 REMARK 465 HIS A 354 REMARK 465 LEU A 355 REMARK 465 PHE A 356 REMARK 465 LYS A 357 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 NH2 ARG A 85 O HOH A 501 2.16 REMARK 500 O HOH A 501 O HOH A 708 2.18 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 O HOH A 513 O HOH A 529 7444 2.17 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 LYS A 84 19.20 58.62 REMARK 500 PRO A 135 -139.59 -89.53 REMARK 500 PRO A 135 -135.79 -89.53 REMARK 500 PHE A 136 -27.93 72.80 REMARK 500 PHE A 136 -32.08 70.30 REMARK 500 ARG A 273 -179.52 -171.31 REMARK 500 SER A 289 54.82 29.25 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 756 DISTANCE = 6.60 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DTT A 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4P6V RELATED DB: PDB REMARK 900 4P6V IS PROTEIN COMPLEX CONTAINING THIS ENTRY. DBREF 4U9O A 1 357 UNP Q9KPS1 NQRA_VIBCH 1 357 SEQADV 4U9O GLY A -2 UNP Q9KPS1 EXPRESSION TAG SEQADV 4U9O SER A -1 UNP Q9KPS1 EXPRESSION TAG SEQADV 4U9O HIS A 0 UNP Q9KPS1 EXPRESSION TAG SEQRES 1 A 360 GLY SER HIS MET ILE THR ILE LYS LYS GLY LEU ASP LEU SEQRES 2 A 360 PRO ILE ALA GLY THR PRO SER GLN VAL ILE SER ASP GLY SEQRES 3 A 360 LYS ALA ILE LYS LYS VAL ALA LEU LEU GLY GLU GLU TYR SEQRES 4 A 360 VAL GLY MET ARG PRO THR MET HIS VAL ARG VAL GLY ASP SEQRES 5 A 360 GLU VAL LYS LYS ALA GLN ILE LEU PHE GLU ASP LYS LYS SEQRES 6 A 360 ASN PRO GLY VAL LYS PHE THR SER PRO VAL SER GLY LYS SEQRES 7 A 360 VAL VAL GLU ILE ASN ARG GLY ALA LYS ARG VAL LEU GLN SEQRES 8 A 360 SER VAL VAL ILE GLU VAL ALA GLY ASP ASP GLN VAL THR SEQRES 9 A 360 PHE ASP LYS PHE GLU ALA ASN GLN LEU ALA SER LEU ASN SEQRES 10 A 360 ARG ASP ALA ILE LYS THR GLN LEU VAL GLU SER GLY LEU SEQRES 11 A 360 TRP THR ALA PHE ARG THR ARG PRO PHE SER LYS VAL PRO SEQRES 12 A 360 ALA ILE ASP SER THR SER GLU ALA ILE PHE VAL THR ALA SEQRES 13 A 360 MET ASP THR ASN PRO LEU ALA ALA GLU PRO THR VAL VAL SEQRES 14 A 360 ILE ASN GLU GLN SER GLU ALA PHE VAL ALA GLY LEU ASP SEQRES 15 A 360 VAL LEU SER ALA LEU THR THR GLY LYS VAL TYR VAL CYS SEQRES 16 A 360 LYS LYS GLY THR SER LEU PRO ARG SER GLN GLN PRO ASN SEQRES 17 A 360 VAL GLU GLU HIS VAL PHE ASP GLY PRO HIS PRO ALA GLY SEQRES 18 A 360 LEU ALA GLY THR HIS MET HIS PHE LEU TYR PRO VAL SER SEQRES 19 A 360 ALA ASP HIS VAL ALA TRP SER ILE ASN TYR GLN ASP VAL SEQRES 20 A 360 ILE ALA VAL GLY GLN LEU PHE LEU THR GLY GLU LEU TYR SEQRES 21 A 360 THR GLN ARG VAL VAL SER LEU ALA GLY PRO VAL VAL ASN SEQRES 22 A 360 LYS PRO ARG LEU VAL ARG THR VAL MET GLY ALA SER LEU SEQRES 23 A 360 GLU GLN LEU VAL ASP SER GLU ILE MET PRO GLY GLU VAL SEQRES 24 A 360 ARG ILE ILE SER GLY SER VAL LEU SER GLY THR LYS ALA SEQRES 25 A 360 THR GLY PRO HIS ALA TYR LEU GLY ARG TYR HIS LEU GLN SEQRES 26 A 360 VAL SER VAL LEU ARG GLU GLY ARG ASP LYS GLU LEU PHE SEQRES 27 A 360 GLY TRP ALA MET PRO GLY LYS ASN LYS PHE SER VAL THR SEQRES 28 A 360 ARG SER PHE LEU GLY HIS LEU PHE LYS HET DTT A 401 8 HETNAM DTT 2,3-DIHYDROXY-1,4-DITHIOBUTANE HETSYN DTT 1,4-DITHIOTHREITOL FORMUL 2 DTT C4 H10 O2 S2 FORMUL 3 HOH *256(H2 O) HELIX 1 AA1 LEU A 32 TYR A 36 5 5 HELIX 2 AA2 ALA A 83 ARG A 85 5 3 HELIX 3 AA3 GLU A 106 LEU A 113 5 8 HELIX 4 AA4 ASN A 114 GLY A 126 1 13 HELIX 5 AA5 LEU A 127 PHE A 131 5 5 HELIX 6 AA6 GLU A 162 GLU A 169 1 8 HELIX 7 AA7 GLN A 170 THR A 185 1 16 HELIX 8 AA8 TYR A 241 GLY A 254 1 14 HELIX 9 AA9 SER A 282 VAL A 287 1 6 HELIX 10 AB1 THR A 310 ALA A 314 5 5 SHEET 1 AA1 6 SER A 17 ASP A 22 0 SHEET 2 AA1 6 ARG A 273 VAL A 278 1 O ARG A 276 N SER A 21 SHEET 3 AA1 6 GLN A 259 ALA A 265 -1 N LEU A 264 O ARG A 273 SHEET 4 AA1 6 GLN A 322 ARG A 327 1 O VAL A 323 N SER A 263 SHEET 5 AA1 6 VAL A 296 GLY A 301 -1 N ILE A 299 O SER A 324 SHEET 6 AA1 6 GLY A 306 LYS A 308 -1 O THR A 307 N SER A 300 SHEET 1 AA2 4 LYS A 28 LEU A 31 0 SHEET 2 AA2 4 LEU A 87 VAL A 94 -1 O ILE A 92 N VAL A 29 SHEET 3 AA2 4 GLY A 74 ARG A 81 -1 N ASN A 80 O GLN A 88 SHEET 4 AA2 4 GLU A 50 VAL A 51 -1 N VAL A 51 O GLY A 74 SHEET 1 AA3 3 PRO A 41 MET A 43 0 SHEET 2 AA3 3 ILE A 56 ASP A 60 -1 O GLU A 59 N THR A 42 SHEET 3 AA3 3 LYS A 67 THR A 69 -1 O PHE A 68 N LEU A 57 SHEET 1 AA4 5 ARG A 132 ARG A 134 0 SHEET 2 AA4 5 ALA A 236 ASN A 240 -1 O SER A 238 N ARG A 132 SHEET 3 AA4 5 ALA A 148 ALA A 153 1 N PHE A 150 O TRP A 237 SHEET 4 AA4 5 LYS A 188 LYS A 193 1 O TYR A 190 N VAL A 151 SHEET 5 AA4 5 VAL A 206 VAL A 210 1 O GLU A 207 N VAL A 189 LINK SG CYS A 192 S1 DTT A 401 1555 1555 2.04 CISPEP 1 ARG A 134 PRO A 135 0 -3.62 CISPEP 2 GLY A 213 PRO A 214 0 2.74 CISPEP 3 HIS A 215 PRO A 216 0 8.38 SITE 1 AC1 4 MET A 154 THR A 156 CYS A 192 PHE A 211 CRYST1 78.270 84.310 102.860 90.00 90.00 90.00 C 2 2 21 8 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 0.012776 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011861 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009722 0.00000