HEADER OXIDOREDUCTASE 27-JUL-16 5LLD TITLE FLAVODIIRON CORE OF ESCHERICHIA COLI FLAVORUBREDOXIN IN THE REDUCED TITLE 2 FORM. COMPND MOL_ID: 1; COMPND 2 MOLECULE: ANAEROBIC NITRIC OXIDE REDUCTASE FLAVORUBREDOXIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FLAVORB; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI (STRAIN K12); SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: NORV, FLRD, YGAI, YGAJ, YGAK, B2710, JW2680; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS FLAVORUBREDOXIN, FLAVODIIRON PROTEIN, DIIRON CENTER, NITRIC OXIDE KEYWDS 2 REDUCTASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR C.V.ROMAO,P.T.BORGES,J.B.VICENTE,M.A.CARRONDO,M.TEIXEIRA,C.FRAZAO REVDAT 3 10-JAN-24 5LLD 1 REMARK REVDAT 2 30-NOV-16 5LLD 1 JRNL REVDAT 1 19-OCT-16 5LLD 0 JRNL AUTH C.V.ROMAO,J.B.VICENTE,P.T.BORGES,B.L.VICTOR,P.LAMOSA, JRNL AUTH 2 E.SILVA,L.PEREIRA,T.M.BANDEIRAS,C.M.SOARES,M.A.CARRONDO, JRNL AUTH 3 D.TURNER,M.TEIXEIRA,C.FRAZAO JRNL TITL STRUCTURE OF ESCHERICHIA COLI FLAVODIIRON NITRIC OXIDE JRNL TITL 2 REDUCTASE. JRNL REF J.MOL.BIOL. V. 428 4686 2016 JRNL REFN ESSN 1089-8638 JRNL PMID 27725182 JRNL DOI 10.1016/J.JMB.2016.10.008 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.6.1_357 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) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.29 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.7 REMARK 3 NUMBER OF REFLECTIONS : 1713 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 17132 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 45.2986 - 8.2219 0.84 642 642 0.2204 0.2204 REMARK 3 2 8.2219 - 6.5323 0.88 608 608 0.2002 0.2002 REMARK 3 3 6.5323 - 5.7084 0.87 584 584 0.2046 0.2046 REMARK 3 4 5.7084 - 5.1873 0.89 596 596 0.1724 0.1724 REMARK 3 5 5.1873 - 4.8159 0.88 581 581 0.1381 0.1381 REMARK 3 6 4.8159 - 4.5322 0.88 584 584 0.1340 0.1340 REMARK 3 7 4.5322 - 4.3055 0.90 586 586 0.1343 0.1343 REMARK 3 8 4.3055 - 4.1182 0.88 580 580 0.1281 0.1281 REMARK 3 9 4.1182 - 3.9597 0.88 579 579 0.1312 0.1312 REMARK 3 10 3.9597 - 3.8232 0.90 581 581 0.1304 0.1304 REMARK 3 11 3.8232 - 3.7037 0.90 580 580 0.1345 0.1345 REMARK 3 12 3.7037 - 3.5978 0.90 584 584 0.1406 0.1406 REMARK 3 13 3.5978 - 3.5032 0.89 580 580 0.1376 0.1376 REMARK 3 14 3.5032 - 3.4177 0.90 584 584 0.1606 0.1606 REMARK 3 15 3.4177 - 3.3401 0.89 566 566 0.1653 0.1653 REMARK 3 16 3.3401 - 3.2690 0.91 586 586 0.1837 0.1837 REMARK 3 17 3.2690 - 3.2036 0.89 567 567 0.1876 0.1876 REMARK 3 18 3.2036 - 3.1432 0.89 571 571 0.1709 0.1709 REMARK 3 19 3.1432 - 3.0871 0.91 586 586 0.1843 0.1843 REMARK 3 20 3.0871 - 3.0347 0.90 568 568 0.2041 0.2041 REMARK 3 21 3.0347 - 2.9858 0.89 569 569 0.2005 0.2005 REMARK 3 22 2.9858 - 2.9399 0.88 564 564 0.2155 0.2155 REMARK 3 23 2.9399 - 2.8966 0.88 565 565 0.2018 0.2018 REMARK 3 24 2.8966 - 2.8559 0.88 547 547 0.2145 0.2145 REMARK 3 25 2.8559 - 2.8173 0.87 557 557 0.2200 0.2200 REMARK 3 26 2.8173 - 2.7807 0.87 568 568 0.2013 0.2013 REMARK 3 27 2.7807 - 2.7459 0.85 531 531 0.2198 0.2198 REMARK 3 28 2.7459 - 2.7128 0.84 532 532 0.2420 0.2420 REMARK 3 29 2.7128 - 2.6813 0.81 511 511 0.2263 0.2263 REMARK 3 30 2.6813 - 2.6512 0.77 495 495 0.2410 0.2410 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 : 0.30 REMARK 3 B_SOL : 0.44 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 13.900 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -9.16800 REMARK 3 B22 (A**2) : -9.16800 REMARK 3 B33 (A**2) : -2.43350 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 3318 REMARK 3 ANGLE : 0.566 4494 REMARK 3 CHIRALITY : 0.044 489 REMARK 3 PLANARITY : 0.002 581 REMARK 3 DIHEDRAL : 10.846 1198 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 3:48) REMARK 3 ORIGIN FOR THE GROUP (A): 28.0007 51.3368 25.5338 REMARK 3 T TENSOR REMARK 3 T11: 0.0684 T22: 0.1757 REMARK 3 T33: 0.1055 T12: -0.0187 REMARK 3 T13: 0.0267 T23: -0.0859 REMARK 3 L TENSOR REMARK 3 L11: 0.1942 L22: 0.6214 REMARK 3 L33: 0.4821 L12: -0.2973 REMARK 3 L13: 0.2538 L23: -0.2043 REMARK 3 S TENSOR REMARK 3 S11: -0.1148 S12: 0.2491 S13: 0.0144 REMARK 3 S21: 0.1074 S22: 0.0256 S23: -0.1024 REMARK 3 S31: 0.0384 S32: 0.1511 S33: -0.1618 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 49:66) REMARK 3 ORIGIN FOR THE GROUP (A): 34.8428 55.8163 19.0509 REMARK 3 T TENSOR REMARK 3 T11: 0.0719 T22: 0.2918 REMARK 3 T33: 0.2888 T12: 0.1290 REMARK 3 T13: 0.0466 T23: 0.0079 REMARK 3 L TENSOR REMARK 3 L11: 0.0554 L22: 0.0400 REMARK 3 L33: 0.0586 L12: 0.0022 REMARK 3 L13: 0.0365 L23: 0.0365 REMARK 3 S TENSOR REMARK 3 S11: 0.0040 S12: -0.0516 S13: 0.0569 REMARK 3 S21: -0.0030 S22: -0.0487 S23: -0.0405 REMARK 3 S31: 0.0210 S32: 0.0012 S33: -0.0166 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 67:90) REMARK 3 ORIGIN FOR THE GROUP (A): 26.0675 57.9136 15.6273 REMARK 3 T TENSOR REMARK 3 T11: 0.1409 T22: 0.2168 REMARK 3 T33: 0.0758 T12: -0.0629 REMARK 3 T13: 0.0613 T23: -0.1044 REMARK 3 L TENSOR REMARK 3 L11: 0.2057 L22: 0.2470 REMARK 3 L33: 0.3857 L12: -0.0306 REMARK 3 L13: 0.1825 L23: -0.2334 REMARK 3 S TENSOR REMARK 3 S11: 0.0948 S12: 0.1215 S13: 0.0615 REMARK 3 S21: -0.1446 S22: -0.1805 S23: 0.0701 REMARK 3 S31: 0.1090 S32: -0.0018 S33: -0.1149 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 91:185) REMARK 3 ORIGIN FOR THE GROUP (A): 18.9127 55.2256 19.7111 REMARK 3 T TENSOR REMARK 3 T11: 0.0556 T22: 0.1630 REMARK 3 T33: 0.1134 T12: -0.0272 REMARK 3 T13: 0.0214 T23: -0.0415 REMARK 3 L TENSOR REMARK 3 L11: 0.0910 L22: 0.2008 REMARK 3 L33: 0.2637 L12: 0.0483 REMARK 3 L13: -0.0268 L23: -0.1095 REMARK 3 S TENSOR REMARK 3 S11: -0.0863 S12: 0.1339 S13: -0.1836 REMARK 3 S21: 0.0300 S22: -0.0176 S23: -0.0716 REMARK 3 S31: 0.0220 S32: -0.1365 S33: -0.0122 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 186:194) REMARK 3 ORIGIN FOR THE GROUP (A): 21.8504 50.0180 40.9945 REMARK 3 T TENSOR REMARK 3 T11: 0.0867 T22: 0.3529 REMARK 3 T33: 0.2905 T12: -0.0973 REMARK 3 T13: 0.0306 T23: -0.0596 REMARK 3 L TENSOR REMARK 3 L11: 0.0070 L22: 0.0096 REMARK 3 L33: 0.0042 L12: 0.0022 REMARK 3 L13: 0.0039 L23: 0.0044 REMARK 3 S TENSOR REMARK 3 S11: -0.0522 S12: 0.0543 S13: -0.0187 REMARK 3 S21: 0.0776 S22: -0.1167 S23: -0.1185 REMARK 3 S31: -0.0139 S32: -0.0295 S33: -0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 195:246) REMARK 3 ORIGIN FOR THE GROUP (A): 11.7328 49.1269 31.9176 REMARK 3 T TENSOR REMARK 3 T11: 0.0190 T22: 0.1694 REMARK 3 T33: 0.0921 T12: -0.0437 REMARK 3 T13: 0.0039 T23: 0.0133 REMARK 3 L TENSOR REMARK 3 L11: 0.7048 L22: 0.4878 REMARK 3 L33: 0.5872 L12: -0.5763 REMARK 3 L13: 0.1352 L23: -0.1305 REMARK 3 S TENSOR REMARK 3 S11: 0.0169 S12: -0.1058 S13: -0.2869 REMARK 3 S21: -0.0627 S22: 0.1536 S23: 0.2141 REMARK 3 S31: -0.0861 S32: 0.1106 S33: 0.0448 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 247:400) REMARK 3 ORIGIN FOR THE GROUP (A): 15.2167 65.0405 59.4495 REMARK 3 T TENSOR REMARK 3 T11: 0.0144 T22: 0.0548 REMARK 3 T33: 0.0244 T12: 0.0404 REMARK 3 T13: -0.0052 T23: 0.0148 REMARK 3 L TENSOR REMARK 3 L11: 0.2119 L22: 0.2707 REMARK 3 L33: 0.3145 L12: 0.1200 REMARK 3 L13: -0.1062 L23: 0.0824 REMARK 3 S TENSOR REMARK 3 S11: -0.0853 S12: -0.0418 S13: 0.0916 REMARK 3 S21: 0.0308 S22: 0.0382 S23: 0.1571 REMARK 3 S31: 0.0514 S32: -0.0672 S33: -0.0342 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESID 601:601) REMARK 3 ORIGIN FOR THE GROUP (A): 23.9294 78.9073 65.1987 REMARK 3 T TENSOR REMARK 3 T11: 0.0187 T22: 0.0274 REMARK 3 T33: 0.2254 T12: 0.0302 REMARK 3 T13: -0.0420 T23: -0.0809 REMARK 3 L TENSOR REMARK 3 L11: 0.0014 L22: 0.0498 REMARK 3 L33: 0.0808 L12: 0.0080 REMARK 3 L13: 0.0106 L23: 0.0636 REMARK 3 S TENSOR REMARK 3 S11: -0.0315 S12: -0.0409 S13: 0.0634 REMARK 3 S21: -0.0198 S22: -0.0278 S23: -0.0261 REMARK 3 S31: 0.0088 S32: -0.0021 S33: -0.0620 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE FINAL MODEL WAS REFINED VERSUS THE FULL DATA, RESULTING IN R REMARK 3 VALUE OF 0.19. REMARK 3 THE RUBREDOXIN DOMAIN IN C-TERMINAL WAS NOT VISIBLE SINCE IT IS REMARK 3 DISORDERED. REMARK 4 REMARK 4 5LLD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-JUL-16. REMARK 100 THE DEPOSITION ID IS D_1200000942. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUL-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8726 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17773 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 45.340 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.0 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.15700 REMARK 200 FOR THE DATA SET : 5.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 4D02 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0UL OF PROTEIN AT15 MG/ML WITH 0.8UL REMARK 280 OF CRYSTALLIZATION SOLUTION (0.2M NA-CACODYLATE PH 6.5, 0.2 M REMARK 280 MGACETATE, 20% PEG8000) AND 0.2UL OF 0.1M HEXAMINE COBALT (III)., REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 304K 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 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: TETRAMERIC 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 75.85000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 131.37605 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 96.50000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 4 0.500000 -0.866025 0.000000 75.85000 REMARK 350 BIOMT2 4 -0.866025 -0.500000 0.000000 131.37605 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 96.50000 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 MET A 1 REMARK 465 SER A 2 REMARK 465 LEU A 401 REMARK 465 PRO A 402 REMARK 465 GLN A 403 REMARK 465 SER A 404 REMARK 465 THR A 405 REMARK 465 VAL A 406 REMARK 465 ASN A 407 REMARK 465 THR A 408 REMARK 465 VAL A 409 REMARK 465 VAL A 410 REMARK 465 LYS A 411 REMARK 465 GLU A 412 REMARK 465 GLU A 413 REMARK 465 THR A 414 REMARK 465 SER A 415 REMARK 465 ALA A 416 REMARK 465 THR A 417 REMARK 465 THR A 418 REMARK 465 THR A 419 REMARK 465 ALA A 420 REMARK 465 ASP A 421 REMARK 465 LEU A 422 REMARK 465 GLY A 423 REMARK 465 PRO A 424 REMARK 465 ARG A 425 REMARK 465 MET A 426 REMARK 465 GLN A 427 REMARK 465 CYS A 428 REMARK 465 SER A 429 REMARK 465 VAL A 430 REMARK 465 CYS A 431 REMARK 465 GLN A 432 REMARK 465 TRP A 433 REMARK 465 ILE A 434 REMARK 465 TYR A 435 REMARK 465 ASP A 436 REMARK 465 PRO A 437 REMARK 465 ALA A 438 REMARK 465 LYS A 439 REMARK 465 GLY A 440 REMARK 465 GLU A 441 REMARK 465 PRO A 442 REMARK 465 MET A 443 REMARK 465 GLN A 444 REMARK 465 ASP A 445 REMARK 465 VAL A 446 REMARK 465 ALA A 447 REMARK 465 PRO A 448 REMARK 465 GLY A 449 REMARK 465 THR A 450 REMARK 465 PRO A 451 REMARK 465 TRP A 452 REMARK 465 SER A 453 REMARK 465 GLU A 454 REMARK 465 VAL A 455 REMARK 465 PRO A 456 REMARK 465 ASP A 457 REMARK 465 ASN A 458 REMARK 465 PHE A 459 REMARK 465 LEU A 460 REMARK 465 CYS A 461 REMARK 465 PRO A 462 REMARK 465 GLU A 463 REMARK 465 CYS A 464 REMARK 465 SER A 465 REMARK 465 LEU A 466 REMARK 465 GLY A 467 REMARK 465 LYS A 468 REMARK 465 ASP A 469 REMARK 465 VAL A 470 REMARK 465 PHE A 471 REMARK 465 GLU A 472 REMARK 465 GLU A 473 REMARK 465 LEU A 474 REMARK 465 ALA A 475 REMARK 465 SER A 476 REMARK 465 GLU A 477 REMARK 465 ALA A 478 REMARK 465 LYS A 479 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 ASN A 7 -112.10 52.19 REMARK 500 GLU A 42 -120.07 -114.70 REMARK 500 ASP A 49 161.29 67.20 REMARK 500 THR A 50 -148.68 -114.51 REMARK 500 ASN A 165 -127.21 64.57 REMARK 500 ILE A 198 -36.86 -131.22 REMARK 500 THR A 312 146.97 -171.00 REMARK 500 ARG A 334 73.65 43.70 REMARK 500 TRP A 348 -80.01 -138.17 REMARK 500 TRP A 375 -143.15 50.72 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 502 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 79 NE2 REMARK 620 2 GLU A 81 OE1 75.9 REMARK 620 3 HIS A 147 NE2 79.5 95.1 REMARK 620 4 ASP A 166 OD2 92.5 168.1 80.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 83 OD2 REMARK 620 2 HIS A 84 NE2 83.4 REMARK 620 3 ASP A 166 OD1 164.6 82.9 REMARK 620 4 HIS A 227 NE2 83.4 81.0 87.3 REMARK 620 5 OXY A 503 O1 100.4 175.3 93.6 102.1 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OXY A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMN A 504 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4D02 RELATED DB: PDB REMARK 900 4D02 IS THE SAME PROTEIN BUT IN THE OXIDIZED FORM. DBREF 5LLD A 1 479 UNP Q46877 NORV_ECOLI 1 479 SEQRES 1 A 479 MET SER ILE VAL VAL LYS ASN ASN ILE HIS TRP VAL GLY SEQRES 2 A 479 GLN ARG ASP TRP GLU VAL ARG ASP PHE HIS GLY THR GLU SEQRES 3 A 479 TYR LYS THR LEU ARG GLY SER SER TYR ASN SER TYR LEU SEQRES 4 A 479 ILE ARG GLU GLU LYS ASN VAL LEU ILE ASP THR VAL ASP SEQRES 5 A 479 HIS LYS PHE SER ARG GLU PHE VAL GLN ASN LEU ARG ASN SEQRES 6 A 479 GLU ILE ASP LEU ALA ASP ILE ASP TYR ILE VAL ILE ASN SEQRES 7 A 479 HIS ALA GLU GLU ASP HIS ALA GLY ALA LEU THR GLU LEU SEQRES 8 A 479 MET ALA GLN ILE PRO ASP THR PRO ILE TYR CYS THR ALA SEQRES 9 A 479 ASN ALA ILE ASP SER ILE ASN GLY HIS HIS HIS HIS PRO SEQRES 10 A 479 GLU TRP ASN PHE ASN VAL VAL LYS THR GLY ASP THR LEU SEQRES 11 A 479 ASP ILE GLY ASN GLY LYS GLN LEU ILE PHE VAL GLU THR SEQRES 12 A 479 PRO MET LEU HIS TRP PRO ASP SER MET MET THR TYR LEU SEQRES 13 A 479 THR GLY ASP ALA VAL LEU PHE SER ASN ASP ALA PHE GLY SEQRES 14 A 479 GLN HIS TYR CYS ASP GLU HIS LEU PHE ASN ASP GLU VAL SEQRES 15 A 479 ASP GLN THR GLU LEU PHE GLU GLN CYS GLN ARG TYR TYR SEQRES 16 A 479 ALA ASN ILE LEU THR PRO PHE SER ARG LEU VAL THR PRO SEQRES 17 A 479 LYS ILE THR GLU ILE LEU GLY PHE ASN LEU PRO VAL ASP SEQRES 18 A 479 MET ILE ALA THR SER HIS GLY VAL VAL TRP ARG ASP ASN SEQRES 19 A 479 PRO THR GLN ILE VAL GLU LEU TYR LEU LYS TRP ALA ALA SEQRES 20 A 479 ASP TYR GLN GLU ASP ARG ILE THR ILE PHE TYR ASP THR SEQRES 21 A 479 MET SER ASN ASN THR ARG MET MET ALA ASP ALA ILE ALA SEQRES 22 A 479 GLN GLY ILE ALA GLU THR ASP PRO ARG VAL ALA VAL LYS SEQRES 23 A 479 ILE PHE ASN VAL ALA ARG SER ASP LYS ASN GLU ILE LEU SEQRES 24 A 479 THR ASN VAL PHE ARG SER LYS GLY VAL LEU VAL GLY THR SEQRES 25 A 479 SER THR MET ASN ASN VAL MET MET PRO LYS ILE ALA GLY SEQRES 26 A 479 LEU VAL GLU GLU MET THR GLY LEU ARG PHE ARG ASN LYS SEQRES 27 A 479 ARG ALA SER ALA PHE GLY SER HIS GLY TRP SER GLY GLY SEQRES 28 A 479 ALA VAL ASP ARG LEU SER THR ARG LEU GLN ASP ALA GLY SEQRES 29 A 479 PHE GLU MET SER LEU SER LEU LYS ALA LYS TRP ARG PRO SEQRES 30 A 479 ASP GLN ASP ALA LEU LYS LEU CYS ARG GLU HIS GLY ARG SEQRES 31 A 479 GLU ILE ALA ARG GLN TRP ALA LEU ALA PRO LEU PRO GLN SEQRES 32 A 479 SER THR VAL ASN THR VAL VAL LYS GLU GLU THR SER ALA SEQRES 33 A 479 THR THR THR ALA ASP LEU GLY PRO ARG MET GLN CYS SER SEQRES 34 A 479 VAL CYS GLN TRP ILE TYR ASP PRO ALA LYS GLY GLU PRO SEQRES 35 A 479 MET GLN ASP VAL ALA PRO GLY THR PRO TRP SER GLU VAL SEQRES 36 A 479 PRO ASP ASN PHE LEU CYS PRO GLU CYS SER LEU GLY LYS SEQRES 37 A 479 ASP VAL PHE GLU GLU LEU ALA SER GLU ALA LYS HET FE A 501 1 HET FE A 502 1 HET OXY A 503 2 HET FMN A 504 31 HETNAM FE FE (III) ION HETNAM OXY OXYGEN MOLECULE HETNAM FMN FLAVIN MONONUCLEOTIDE HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 2 FE 2(FE 3+) FORMUL 4 OXY O2 FORMUL 5 FMN C17 H21 N4 O9 P FORMUL 6 HOH *128(H2 O) HELIX 1 AA1 ASP A 52 LYS A 54 5 3 HELIX 2 AA2 PHE A 55 ASN A 65 1 11 HELIX 3 AA3 ASP A 68 ILE A 72 5 5 HELIX 4 AA4 GLU A 81 GLY A 86 1 6 HELIX 5 AA5 ALA A 87 ALA A 93 1 7 HELIX 6 AA6 THR A 103 HIS A 115 1 13 HELIX 7 AA7 PHE A 178 VAL A 182 5 5 HELIX 8 AA8 ASP A 183 LEU A 199 1 17 HELIX 9 AA9 THR A 200 ARG A 204 5 5 HELIX 10 AB1 LEU A 205 GLY A 215 1 11 HELIX 11 AB2 PRO A 235 ALA A 247 1 13 HELIX 12 AB3 ASN A 263 ASP A 280 1 18 HELIX 13 AB4 ASP A 294 SER A 305 1 12 HELIX 14 AB5 MET A 320 ARG A 334 1 15 HELIX 15 AB6 GLY A 351 ALA A 363 1 13 HELIX 16 AB7 ASP A 378 ALA A 397 1 20 SHEET 1 AA1 7 VAL A 4 LYS A 6 0 SHEET 2 AA1 7 ILE A 9 TRP A 11 -1 O ILE A 9 N LYS A 6 SHEET 3 AA1 7 TYR A 38 ARG A 41 -1 O LEU A 39 N HIS A 10 SHEET 4 AA1 7 ASN A 45 ILE A 48 -1 O ILE A 48 N TYR A 38 SHEET 5 AA1 7 TYR A 74 VAL A 76 1 O VAL A 76 N LEU A 47 SHEET 6 AA1 7 ILE A 100 CYS A 102 1 O TYR A 101 N ILE A 75 SHEET 7 AA1 7 PHE A 121 VAL A 123 1 O ASN A 122 N ILE A 100 SHEET 1 AA2 2 GLN A 14 ASP A 16 0 SHEET 2 AA2 2 SER A 33 TYR A 35 -1 O SER A 33 N ASP A 16 SHEET 1 AA3 2 ASP A 21 PHE A 22 0 SHEET 2 AA3 2 TYR A 27 LYS A 28 -1 O TYR A 27 N PHE A 22 SHEET 1 AA4 6 THR A 129 ASP A 131 0 SHEET 2 AA4 6 GLN A 137 GLU A 142 -1 O LEU A 138 N LEU A 130 SHEET 3 AA4 6 MET A 152 LEU A 156 -1 O MET A 153 N VAL A 141 SHEET 4 AA4 6 VAL A 161 ASN A 165 -1 O PHE A 163 N THR A 154 SHEET 5 AA4 6 MET A 222 THR A 225 1 O MET A 222 N LEU A 162 SHEET 6 AA4 6 VAL A 230 TRP A 231 -1 O TRP A 231 N ILE A 223 SHEET 1 AA5 5 ALA A 284 ASN A 289 0 SHEET 2 AA5 5 ARG A 253 TYR A 258 1 N ILE A 256 O LYS A 286 SHEET 3 AA5 5 GLY A 307 GLY A 311 1 O LEU A 309 N THR A 255 SHEET 4 AA5 5 ARG A 339 HIS A 346 1 O ARG A 339 N VAL A 308 SHEET 5 AA5 5 GLU A 366 MET A 367 1 O GLU A 366 N ALA A 340 SHEET 1 AA6 5 ALA A 284 ASN A 289 0 SHEET 2 AA6 5 ARG A 253 TYR A 258 1 N ILE A 256 O LYS A 286 SHEET 3 AA6 5 GLY A 307 GLY A 311 1 O LEU A 309 N THR A 255 SHEET 4 AA6 5 ARG A 339 HIS A 346 1 O ARG A 339 N VAL A 308 SHEET 5 AA6 5 LEU A 371 LYS A 374 1 O LEU A 371 N ALA A 342 LINK NE2 HIS A 79 FE FE A 502 1555 1555 2.48 LINK OE1 GLU A 81 FE FE A 502 1555 1555 2.48 LINK OD2 ASP A 83 FE FE A 501 1555 1555 2.29 LINK NE2 HIS A 84 FE FE A 501 1555 1555 2.04 LINK NE2 HIS A 147 FE FE A 502 1555 1555 2.04 LINK OD1 ASP A 166 FE FE A 501 1555 1555 2.19 LINK OD2 ASP A 166 FE FE A 502 1555 1555 2.15 LINK NE2 HIS A 227 FE FE A 501 1555 1555 2.25 LINK FE FE A 501 O1 OXY A 503 1555 1555 2.58 CISPEP 1 LEU A 146 HIS A 147 0 7.35 SITE 1 AC1 6 ASP A 83 HIS A 84 ASP A 166 HIS A 227 SITE 2 AC1 6 FE A 502 OXY A 503 SITE 1 AC2 6 HIS A 79 GLU A 81 HIS A 147 ASP A 166 SITE 2 AC2 6 FE A 501 OXY A 503 SITE 1 AC3 4 ASP A 166 TYR A 194 FE A 501 FE A 502 SITE 1 AC4 21 HIS A 23 TRP A 148 THR A 260 MET A 261 SITE 2 AC4 21 SER A 262 ASN A 263 ASN A 264 THR A 265 SITE 3 AC4 21 SER A 313 THR A 314 MET A 315 ASN A 316 SITE 4 AC4 21 ASN A 317 SER A 345 HIS A 346 GLY A 347 SITE 5 AC4 21 TRP A 348 SER A 349 GLY A 350 TRP A 375 SITE 6 AC4 21 HOH A 636 CRYST1 151.700 151.700 96.500 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 0.006592 0.003806 0.000000 0.00000 SCALE2 0.000000 0.007612 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010363 0.00000