HEADER OXIDOREDUCTASE 29-NOV-16 5U25 TITLE CRYSTAL STRUCTURE OF A DIHYDROLIPOYL DEHYDROGENASE FROM NEISSERIA TITLE 2 GONORRHOEAE BOUND TO FAD COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROLIPOAMIDE DEHYDROGENASE (E3 COMPONENT OF PYRUVATE COMPND 3 AND 2-OXOGLUTARATE DEHYDROGENASE COMPLEXES); COMPND 4 CHAIN: A; COMPND 5 EC: 1.8.1.4; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NEISSERIA GONORRHOEAE; SOURCE 3 ORGANISM_TAXID: 485; SOURCE 4 GENE: LPDA, WHOF_00599C, WHOF_01471, WHOG_01174, WHOG_01559, SOURCE 5 WHON_01176, WHON_01441, WHOO_01105, WHOO_01298, WHOW_00549, SOURCE 6 NGK_1362; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS STRUCTURAL GENOMICS, DIMER, FAD, NEISSERIA GONORRHOEAE, SEATTLE KEYWDS 2 STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, SSGCID, KEYWDS 3 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 3 04-OCT-23 5U25 1 REMARK REVDAT 2 22-NOV-17 5U25 1 REMARK REVDAT 1 21-DEC-16 5U25 0 JRNL AUTH T.E.EDWARDS,P.S.HORANYI,D.LORIMER, JRNL AUTH 2 SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE JRNL AUTH 3 (SSGCID) JRNL TITL CRYSTAL STRUCTURE OF A DIHYDROLIPOYL DEHYDROGENASE FROM JRNL TITL 2 NEISSERIA GONORRHOEAE BOUND TO FAD JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.11.1_2575 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.11 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 32802 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.209 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.230 REMARK 3 FREE R VALUE TEST SET COUNT : 2043 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 45.1217 - 5.6688 1.00 2228 150 0.1465 0.1798 REMARK 3 2 5.6688 - 4.5008 1.00 2109 137 0.1293 0.1793 REMARK 3 3 4.5008 - 3.9323 1.00 2058 148 0.1254 0.1410 REMARK 3 4 3.9323 - 3.5729 1.00 2063 145 0.1604 0.1947 REMARK 3 5 3.5729 - 3.3169 1.00 2067 119 0.1754 0.2131 REMARK 3 6 3.3169 - 3.1214 1.00 2035 151 0.1970 0.2394 REMARK 3 7 3.1214 - 2.9651 1.00 2030 131 0.1903 0.2247 REMARK 3 8 2.9651 - 2.8360 1.00 2025 136 0.1961 0.2497 REMARK 3 9 2.8360 - 2.7269 1.00 2020 151 0.1844 0.2596 REMARK 3 10 2.7269 - 2.6328 1.00 2011 148 0.1830 0.2163 REMARK 3 11 2.6328 - 2.5505 1.00 2026 121 0.1993 0.2604 REMARK 3 12 2.5505 - 2.4776 1.00 2036 127 0.2109 0.2622 REMARK 3 13 2.4776 - 2.4124 1.00 2007 135 0.2262 0.2769 REMARK 3 14 2.4124 - 2.3535 1.00 2038 110 0.2402 0.3060 REMARK 3 15 2.3535 - 2.3000 1.00 2006 134 0.2584 0.3231 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.630 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.13 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.00 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 3615 REMARK 3 ANGLE : 0.836 4932 REMARK 3 CHIRALITY : 0.052 559 REMARK 3 PLANARITY : 0.005 679 REMARK 3 DIHEDRAL : 11.416 2144 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 114 THROUGH 147 ) REMARK 3 ORIGIN FOR THE GROUP (A): -2.6765 43.7757 -1.1646 REMARK 3 T TENSOR REMARK 3 T11: 0.3380 T22: 0.4240 REMARK 3 T33: 0.6893 T12: 0.0871 REMARK 3 T13: -0.0967 T23: -0.0410 REMARK 3 L TENSOR REMARK 3 L11: 3.9548 L22: 1.7768 REMARK 3 L33: 5.3933 L12: -0.8009 REMARK 3 L13: -3.1839 L23: 0.8492 REMARK 3 S TENSOR REMARK 3 S11: -0.0796 S12: 0.8873 S13: 0.2143 REMARK 3 S21: -0.3884 S22: -0.2840 S23: 0.6325 REMARK 3 S31: -0.3108 S32: -0.6711 S33: 0.3471 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 148 THROUGH 193 ) REMARK 3 ORIGIN FOR THE GROUP (A): 30.8088 44.3043 4.3277 REMARK 3 T TENSOR REMARK 3 T11: 0.3016 T22: 0.2559 REMARK 3 T33: 0.4568 T12: -0.0321 REMARK 3 T13: -0.0054 T23: 0.0020 REMARK 3 L TENSOR REMARK 3 L11: 2.4767 L22: 2.1775 REMARK 3 L33: 0.6588 L12: -2.1742 REMARK 3 L13: -1.2299 L23: 0.9418 REMARK 3 S TENSOR REMARK 3 S11: -0.1028 S12: -0.0340 S13: 0.1824 REMARK 3 S21: 0.1263 S22: 0.1053 S23: -0.1780 REMARK 3 S31: -0.0195 S32: 0.0282 S33: -0.0084 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 194 THROUGH 285 ) REMARK 3 ORIGIN FOR THE GROUP (A): 6.9217 51.7090 7.0784 REMARK 3 T TENSOR REMARK 3 T11: 0.3009 T22: 0.2522 REMARK 3 T33: 0.5170 T12: 0.0454 REMARK 3 T13: 0.0472 T23: 0.0059 REMARK 3 L TENSOR REMARK 3 L11: 2.8804 L22: 1.3361 REMARK 3 L33: 0.4675 L12: -0.4063 REMARK 3 L13: -0.4133 L23: 0.1025 REMARK 3 S TENSOR REMARK 3 S11: 0.2142 S12: 0.1521 S13: 0.4830 REMARK 3 S21: -0.0265 S22: -0.1367 S23: 0.2254 REMARK 3 S31: -0.1519 S32: -0.1336 S33: -0.0639 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 286 THROUGH 442 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.4893 42.1925 21.0220 REMARK 3 T TENSOR REMARK 3 T11: 0.3209 T22: 0.2825 REMARK 3 T33: 0.3066 T12: -0.0045 REMARK 3 T13: 0.0305 T23: -0.0347 REMARK 3 L TENSOR REMARK 3 L11: 2.6000 L22: 1.3191 REMARK 3 L33: 1.0688 L12: -0.5933 REMARK 3 L13: -0.2763 L23: 0.2601 REMARK 3 S TENSOR REMARK 3 S11: -0.0232 S12: -0.3929 S13: 0.1528 REMARK 3 S21: 0.3505 S22: 0.0315 S23: 0.1536 REMARK 3 S31: 0.0247 S32: 0.1075 S33: -0.0024 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 443 THROUGH 470 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.6917 29.6947 4.5272 REMARK 3 T TENSOR REMARK 3 T11: 0.3166 T22: 0.3463 REMARK 3 T33: 0.6533 T12: -0.0129 REMARK 3 T13: 0.0534 T23: -0.1041 REMARK 3 L TENSOR REMARK 3 L11: 2.3743 L22: 2.5877 REMARK 3 L33: 4.8008 L12: -2.0833 REMARK 3 L13: 2.5122 L23: -1.0667 REMARK 3 S TENSOR REMARK 3 S11: 0.2677 S12: -0.0538 S13: -1.0616 REMARK 3 S21: -0.2047 S22: -0.1839 S23: 0.5022 REMARK 3 S31: 0.4587 S32: -0.2822 S33: -0.1102 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 471 THROUGH 591 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.6433 18.1078 9.1745 REMARK 3 T TENSOR REMARK 3 T11: 0.3244 T22: 0.2471 REMARK 3 T33: 0.3829 T12: 0.0373 REMARK 3 T13: 0.0342 T23: 0.0403 REMARK 3 L TENSOR REMARK 3 L11: 3.1156 L22: 3.0799 REMARK 3 L33: 2.0839 L12: -0.1243 REMARK 3 L13: -0.4148 L23: 0.8666 REMARK 3 S TENSOR REMARK 3 S11: -0.1533 S12: -0.1506 S13: -0.4317 REMARK 3 S21: 0.2970 S22: 0.0462 S23: 0.0694 REMARK 3 S31: 0.2965 S32: 0.0870 S33: 0.1175 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 5U25 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1000225186. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-OCT-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32851 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 9.700 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.54700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.190 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1OJT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NEGOA.00731.A.B1 PW37934 AT 22 MG/ML REMARK 280 WITH 3 MM FAD AGAINST MCSG SCREEN CONDITION C2 0.2 M LITHIUM REMARK 280 SULFATE, 0.1 M BISTRIS PH 5.5, 20% PEG 3350 SUPPLEMENTED WITH 15% REMARK 280 EG AS CRYO-PROTECTANT, CRYSTAL ID 283844C2, UNIQUE PUCK ID EZC1- REMARK 280 9, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 35.19500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 71.33000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 71.33000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 52.79250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 71.33000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 71.33000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 17.59750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 71.33000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 71.33000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 52.79250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 71.33000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 71.33000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 17.59750 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 35.19500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -214.0 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 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 MET A -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 LEU A 3 REMARK 465 VAL A 4 REMARK 465 GLU A 5 REMARK 465 LEU A 6 REMARK 465 LYS A 7 REMARK 465 VAL A 8 REMARK 465 PRO A 9 REMARK 465 ASP A 10 REMARK 465 ILE A 11 REMARK 465 GLY A 12 REMARK 465 GLY A 13 REMARK 465 HIS A 14 REMARK 465 GLU A 15 REMARK 465 ASN A 16 REMARK 465 VAL A 17 REMARK 465 ASP A 18 REMARK 465 ILE A 19 REMARK 465 ILE A 20 REMARK 465 ALA A 21 REMARK 465 VAL A 22 REMARK 465 GLU A 23 REMARK 465 VAL A 24 REMARK 465 ASN A 25 REMARK 465 VAL A 26 REMARK 465 GLY A 27 REMARK 465 ASP A 28 REMARK 465 THR A 29 REMARK 465 ILE A 30 REMARK 465 ALA A 31 REMARK 465 VAL A 32 REMARK 465 ASP A 33 REMARK 465 ASP A 34 REMARK 465 THR A 35 REMARK 465 LEU A 36 REMARK 465 ILE A 37 REMARK 465 THR A 38 REMARK 465 LEU A 39 REMARK 465 GLU A 40 REMARK 465 THR A 41 REMARK 465 ASP A 42 REMARK 465 LYS A 43 REMARK 465 ALA A 44 REMARK 465 THR A 45 REMARK 465 MET A 46 REMARK 465 ASP A 47 REMARK 465 VAL A 48 REMARK 465 PRO A 49 REMARK 465 ALA A 50 REMARK 465 GLU A 51 REMARK 465 VAL A 52 REMARK 465 ALA A 53 REMARK 465 GLY A 54 REMARK 465 VAL A 55 REMARK 465 ILE A 56 REMARK 465 LYS A 57 REMARK 465 GLU A 58 REMARK 465 VAL A 59 REMARK 465 LYS A 60 REMARK 465 VAL A 61 REMARK 465 LYS A 62 REMARK 465 VAL A 63 REMARK 465 GLY A 64 REMARK 465 ASP A 65 REMARK 465 LYS A 66 REMARK 465 ILE A 67 REMARK 465 SER A 68 REMARK 465 GLU A 69 REMARK 465 GLY A 70 REMARK 465 GLY A 71 REMARK 465 LEU A 72 REMARK 465 ILE A 73 REMARK 465 VAL A 74 REMARK 465 VAL A 75 REMARK 465 VAL A 76 REMARK 465 GLU A 77 REMARK 465 ALA A 78 REMARK 465 GLU A 79 REMARK 465 GLY A 80 REMARK 465 ALA A 81 REMARK 465 ALA A 82 REMARK 465 ALA A 83 REMARK 465 ALA A 84 REMARK 465 PRO A 85 REMARK 465 LYS A 86 REMARK 465 ALA A 87 REMARK 465 GLU A 88 REMARK 465 ALA A 89 REMARK 465 ALA A 90 REMARK 465 ALA A 91 REMARK 465 ALA A 92 REMARK 465 PRO A 93 REMARK 465 ALA A 94 REMARK 465 GLN A 95 REMARK 465 GLU A 96 REMARK 465 ALA A 97 REMARK 465 PRO A 98 REMARK 465 LYS A 99 REMARK 465 ALA A 100 REMARK 465 ALA A 101 REMARK 465 ALA A 102 REMARK 465 PRO A 103 REMARK 465 ALA A 104 REMARK 465 PRO A 105 REMARK 465 GLN A 106 REMARK 465 ALA A 107 REMARK 465 ALA A 108 REMARK 465 GLN A 109 REMARK 465 PHE A 110 REMARK 465 GLY A 111 REMARK 465 GLY A 112 REMARK 465 ALA A 113 REMARK 465 LYS A 592 REMARK 465 LYS A 593 REMARK 465 LYS A 594 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 217 CG CD CE NZ REMARK 470 LYS A 220 CG CD CE NZ REMARK 470 GLN A 248 CG CD OE1 NE2 REMARK 470 LYS A 293 CG CD CE NZ REMARK 470 LYS A 345 CG CD CE NZ REMARK 470 GLU A 348 CG CD OE1 OE2 REMARK 470 LYS A 359 CG CD CE NZ REMARK 470 GLU A 367 CG CD OE1 OE2 REMARK 470 LYS A 381 CG CD CE NZ REMARK 470 GLU A 382 CG CD OE1 OE2 REMARK 470 LYS A 421 CG CD CE NZ REMARK 470 LYS A 461 CG CD CE NZ REMARK 470 LYS A 495 CG CD CE NZ REMARK 470 LYS A 498 CG CD CE NZ REMARK 470 GLU A 526 CG CD OE1 OE2 REMARK 470 LYS A 562 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 HOH A 826 O HOH A 834 2.19 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 VAL A 159 36.58 -144.23 REMARK 500 ALA A 266 45.02 -143.91 REMARK 500 THR A 425 -175.38 -67.07 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 FAD A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 608 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SSGCID-NEGOA.00731.A RELATED DB: TARGETTRACK DBREF1 5U25 A 1 594 UNP A0A1D3G1L2_NEIGO DBREF2 5U25 A A0A1D3G1L2 1 594 SEQADV 5U25 MET A -7 UNP A0A1D3G1L EXPRESSION TAG SEQADV 5U25 ALA A -6 UNP A0A1D3G1L EXPRESSION TAG SEQADV 5U25 HIS A -5 UNP A0A1D3G1L EXPRESSION TAG SEQADV 5U25 HIS A -4 UNP A0A1D3G1L EXPRESSION TAG SEQADV 5U25 HIS A -3 UNP A0A1D3G1L EXPRESSION TAG SEQADV 5U25 HIS A -2 UNP A0A1D3G1L EXPRESSION TAG SEQADV 5U25 HIS A -1 UNP A0A1D3G1L EXPRESSION TAG SEQADV 5U25 HIS A 0 UNP A0A1D3G1L EXPRESSION TAG SEQRES 1 A 602 MET ALA HIS HIS HIS HIS HIS HIS MET ALA LEU VAL GLU SEQRES 2 A 602 LEU LYS VAL PRO ASP ILE GLY GLY HIS GLU ASN VAL ASP SEQRES 3 A 602 ILE ILE ALA VAL GLU VAL ASN VAL GLY ASP THR ILE ALA SEQRES 4 A 602 VAL ASP ASP THR LEU ILE THR LEU GLU THR ASP LYS ALA SEQRES 5 A 602 THR MET ASP VAL PRO ALA GLU VAL ALA GLY VAL ILE LYS SEQRES 6 A 602 GLU VAL LYS VAL LYS VAL GLY ASP LYS ILE SER GLU GLY SEQRES 7 A 602 GLY LEU ILE VAL VAL VAL GLU ALA GLU GLY ALA ALA ALA SEQRES 8 A 602 ALA PRO LYS ALA GLU ALA ALA ALA ALA PRO ALA GLN GLU SEQRES 9 A 602 ALA PRO LYS ALA ALA ALA PRO ALA PRO GLN ALA ALA GLN SEQRES 10 A 602 PHE GLY GLY ALA ALA ASP ALA GLU TYR ASP VAL VAL VAL SEQRES 11 A 602 LEU GLY GLY GLY PRO GLY GLY TYR SER ALA ALA PHE ALA SEQRES 12 A 602 ALA ALA ASP GLU GLY LEU LYS VAL ALA ILE VAL GLU ARG SEQRES 13 A 602 TYR LYS THR LEU GLY GLY VAL CYS LEU ASN VAL GLY CYS SEQRES 14 A 602 ILE PRO SER LYS ALA LEU LEU HIS ASN ALA ALA VAL ILE SEQRES 15 A 602 ASP GLU VAL ARG HIS LEU ALA ALA ASN GLY ILE LYS TYR SEQRES 16 A 602 PRO GLU PRO GLU LEU ASP ILE ASP MET LEU ARG ALA TYR SEQRES 17 A 602 LYS ASP GLY VAL VAL SER ARG LEU THR GLY GLY LEU ALA SEQRES 18 A 602 GLY MET ALA LYS SER ARG LYS VAL ASP VAL ILE GLN GLY SEQRES 19 A 602 ASP GLY GLN PHE LEU ASP PRO HIS HIS LEU GLU VAL SER SEQRES 20 A 602 LEU THR ALA GLY ASP ALA TYR GLU GLN ALA ALA PRO THR SEQRES 21 A 602 GLY GLU LYS LYS ILE VAL ALA PHE LYS ASN CYS ILE ILE SEQRES 22 A 602 ALA ALA GLY SER ARG VAL THR LYS LEU PRO PHE ILE PRO SEQRES 23 A 602 GLU ASP PRO ARG ILE ILE ASP SER SER GLY ALA LEU ALA SEQRES 24 A 602 LEU LYS GLU VAL PRO GLY LYS LEU LEU ILE ILE GLY GLY SEQRES 25 A 602 GLY ILE ILE GLY LEU GLU MET GLY THR VAL TYR SER THR SEQRES 26 A 602 LEU GLY SER ARG LEU ASP VAL VAL GLU MET MET ASP GLY SEQRES 27 A 602 LEU MET GLN GLY ALA ASP ARG ASP LEU VAL LYS VAL TRP SEQRES 28 A 602 GLN LYS GLN ASN GLU TYR ARG PHE ASP ASN ILE MET VAL SEQRES 29 A 602 ASN THR LYS THR VAL ALA VAL GLU PRO LYS GLU ASP GLY SEQRES 30 A 602 VAL TYR VAL THR PHE GLU GLY ALA ASN ALA PRO LYS GLU SEQRES 31 A 602 PRO GLN ARG TYR ASP ALA VAL LEU VAL ALA ALA GLY ARG SEQRES 32 A 602 ALA PRO ASN GLY LYS LEU ILE SER ALA GLU LYS ALA GLY SEQRES 33 A 602 VAL ALA VAL THR ASP ARG GLY PHE ILE GLU VAL ASP LYS SEQRES 34 A 602 GLN MET ARG THR ASN VAL PRO HIS ILE TYR ALA ILE GLY SEQRES 35 A 602 ASP ILE VAL GLY GLN PRO MET LEU ALA HIS LYS ALA VAL SEQRES 36 A 602 HIS GLU GLY HIS VAL ALA ALA GLU ASN CYS ALA GLY HIS SEQRES 37 A 602 LYS ALA TYR PHE ASP ALA ARG VAL ILE PRO GLY VAL ALA SEQRES 38 A 602 TYR THR SER PRO GLU VAL ALA TRP VAL GLY GLU THR GLU SEQRES 39 A 602 LEU SER ALA LYS ALA SER GLY ARG LYS ILE THR LYS ALA SEQRES 40 A 602 ASN PHE PRO TRP ALA ALA SER GLY ARG ALA ILE ALA ASN SEQRES 41 A 602 GLY CYS ASP ASN GLY PHE THR LYS LEU ILE PHE ASP ALA SEQRES 42 A 602 GLU THR GLY ARG ILE ILE GLY GLY GLY ILE VAL GLY PRO SEQRES 43 A 602 ASN GLY GLY ASP MET ILE GLY GLU VAL CYS LEU ALA ILE SEQRES 44 A 602 GLU MET GLY CYS ASP ALA ALA ASP ILE GLY LYS THR ILE SEQRES 45 A 602 HIS PRO HIS PRO THR LEU GLY GLU SER ILE GLY MET ALA SEQRES 46 A 602 ALA GLU VAL ALA LEU GLY VAL CYS THR ASP LEU PRO PRO SEQRES 47 A 602 GLN LYS LYS LYS HET FAD A 601 53 HET SO4 A 602 5 HET SO4 A 603 5 HET SO4 A 604 5 HET SO4 A 605 5 HET SO4 A 606 5 HET SO4 A 607 5 HET EDO A 608 4 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 SO4 6(O4 S 2-) FORMUL 9 EDO C2 H6 O2 FORMUL 10 HOH *200(H2 O) HELIX 1 AA1 GLY A 126 GLU A 139 1 14 HELIX 2 AA2 GLY A 153 GLY A 160 1 8 HELIX 3 AA3 GLY A 160 ALA A 181 1 22 HELIX 4 AA4 ALA A 182 GLY A 184 5 3 HELIX 5 AA5 ASP A 193 ARG A 219 1 27 HELIX 6 AA6 ASP A 285 LEU A 292 1 8 HELIX 7 AA7 GLY A 305 GLY A 319 1 15 HELIX 8 AA8 ASP A 336 GLU A 348 1 13 HELIX 9 AA9 GLY A 399 ILE A 402 5 4 HELIX 10 AB1 SER A 403 GLY A 408 5 6 HELIX 11 AB2 GLY A 434 VAL A 437 5 4 HELIX 12 AB3 LEU A 442 ALA A 458 1 17 HELIX 13 AB4 THR A 485 GLY A 493 1 9 HELIX 14 AB5 SER A 506 GLY A 513 1 8 HELIX 15 AB6 ASN A 539 MET A 553 1 15 HELIX 16 AB7 ASP A 556 THR A 563 1 8 HELIX 17 AB8 GLY A 571 GLY A 583 1 13 SHEET 1 AA1 7 ILE A 430 ALA A 432 0 SHEET 2 AA1 7 ALA A 250 ILE A 265 1 N ILE A 265 O TYR A 431 SHEET 3 AA1 7 HIS A 235 ALA A 242 -1 N VAL A 238 O LYS A 256 SHEET 4 AA1 7 ASP A 222 ASP A 232 -1 N GLN A 229 O GLU A 237 SHEET 5 AA1 7 VAL A 143 GLU A 147 1 N ILE A 145 O ASP A 222 SHEET 6 AA1 7 ALA A 116 LEU A 123 1 N VAL A 122 O ALA A 144 SHEET 7 AA1 7 ALA A 250 ILE A 265 1 O ALA A 259 N ALA A 116 SHEET 1 AA2 2 SER A 269 VAL A 271 0 SHEET 2 AA2 2 ARG A 395 PRO A 397 -1 O ALA A 396 N ARG A 270 SHEET 1 AA3 5 ILE A 283 ILE A 284 0 SHEET 2 AA3 5 ALA A 388 VAL A 391 1 O VAL A 389 N ILE A 284 SHEET 3 AA3 5 LYS A 298 ILE A 302 1 N LEU A 300 O LEU A 390 SHEET 4 AA3 5 ARG A 321 GLU A 326 1 O ARG A 321 N LEU A 299 SHEET 5 AA3 5 PHE A 351 VAL A 356 1 O ASP A 352 N LEU A 322 SHEET 1 AA4 3 LYS A 359 LYS A 366 0 SHEET 2 AA4 3 GLY A 369 GLU A 375 -1 O TYR A 371 N GLU A 364 SHEET 3 AA4 3 GLN A 384 TYR A 386 -1 O GLN A 384 N VAL A 372 SHEET 1 AA5 5 GLY A 471 ALA A 473 0 SHEET 2 AA5 5 VAL A 479 GLY A 483 -1 O TRP A 481 N GLY A 471 SHEET 3 AA5 5 ILE A 530 VAL A 536 -1 O ILE A 535 N ALA A 480 SHEET 4 AA5 5 PHE A 518 ASP A 524 -1 N LYS A 520 O GLY A 534 SHEET 5 AA5 5 ILE A 496 PRO A 502 -1 N PHE A 501 O THR A 519 SSBOND 1 CYS A 156 CYS A 161 1555 1555 2.11 CISPEP 1 GLN A 439 PRO A 440 0 -5.32 CISPEP 2 SER A 476 PRO A 477 0 2.89 CISPEP 3 HIS A 567 PRO A 568 0 -4.07 SITE 1 AC1 39 LEU A 123 GLY A 124 GLY A 126 PRO A 127 SITE 2 AC1 39 GLY A 128 VAL A 146 GLU A 147 ARG A 148 SITE 3 AC1 39 TYR A 149 GLY A 154 VAL A 155 CYS A 156 SITE 4 AC1 39 GLY A 160 CYS A 161 LYS A 165 GLY A 226 SITE 5 AC1 39 ASP A 227 GLY A 228 TYR A 246 ALA A 266 SITE 6 AC1 39 ALA A 267 GLY A 268 ILE A 307 GLY A 434 SITE 7 AC1 39 ASP A 435 MET A 441 LEU A 442 ALA A 443 SITE 8 AC1 39 HIS A 444 ALA A 446 TYR A 474 HIS A 567 SITE 9 AC1 39 HOH A 710 HOH A 736 HOH A 739 HOH A 754 SITE 10 AC1 39 HOH A 766 HOH A 773 HOH A 778 SITE 1 AC2 7 ASP A 175 ARG A 178 HIS A 179 GLN A 346 SITE 2 AC2 7 TYR A 349 HOH A 702 HOH A 818 SITE 1 AC3 3 LYS A 298 ARG A 385 HOH A 832 SITE 1 AC4 2 ARG A 270 HOH A 762 SITE 1 AC5 3 ILE A 283 ILE A 284 VAL A 391 SITE 1 AC6 3 PRO A 380 LYS A 381 GLU A 382 SITE 1 AC7 2 THR A 412 ARG A 414 SITE 1 AC8 5 PRO A 440 ILE A 469 GLY A 471 TRP A 481 SITE 2 AC8 5 HOH A 706 CRYST1 142.660 142.660 70.390 90.00 90.00 90.00 P 43 21 2 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 0.007010 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007010 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014207 0.00000