HEADER OXIDOREDUCTASE 27-MAR-14 4PYT TITLE CRYSTAL STRUCTURE OF A MURB FAMILY EP-UDP-N-ACETYLGLUCOSAMINE TITLE 2 REDUCTASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-N-ACETYLENOLPYRUVOYLGLUCOSAMINE REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UDP-N-ACETYLMURAMATE DEHYDROGENASE; COMPND 5 EC: 1.3.1.98; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 3 ORGANISM_TAXID: 32644; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MURB/FLAVOPROTEIN, OXIDOREDUCTASE, FAD BINDING EXPDTA X-RAY DIFFRACTION AUTHOR H.CAO,L.FRANZ,S.SEN,C.A.BINGMAN,M.AULDRIDGE,E.STEINMETZ,D.MEAD, AUTHOR 2 G.N.PHILLIPS JR. REVDAT 5 22-MAY-24 4PYT 1 REMARK REVDAT 4 22-MAR-23 4PYT 1 AUTHOR REMARK LINK REVDAT 3 22-NOV-17 4PYT 1 REMARK REVDAT 2 12-AUG-15 4PYT 1 JRNL REVDAT 1 21-MAY-14 4PYT 0 JRNL AUTH M.E.AULDRIDGE,H.CAO,S.SEN,L.P.FRANZ,C.A.BINGMAN, JRNL AUTH 2 R.M.YENNAMALLI,G.N.PHILLIPS,D.MEAD,E.J.STEINMETZ JRNL TITL LUCY: A VERSATILE NEW FLUORESCENT REPORTER PROTEIN. JRNL REF PLOS ONE V. 10 24272 2015 JRNL REFN ESSN 1932-6203 JRNL PMID 25906065 JRNL DOI 10.1371/JOURNAL.PONE.0124272 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.1_1168 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.17 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 37607 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 1876 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 44.1799 - 4.3560 1.00 2894 154 0.1746 0.1853 REMARK 3 2 4.3560 - 3.4579 1.00 2792 146 0.1619 0.1824 REMARK 3 3 3.4579 - 3.0210 1.00 2779 147 0.1936 0.2153 REMARK 3 4 3.0210 - 2.7448 1.00 2756 145 0.2266 0.2521 REMARK 3 5 2.7448 - 2.5481 1.00 2749 145 0.2349 0.2657 REMARK 3 6 2.5481 - 2.3979 1.00 2746 145 0.2334 0.2643 REMARK 3 7 2.3979 - 2.2778 1.00 2733 143 0.2276 0.2425 REMARK 3 8 2.2778 - 2.1786 1.00 2750 145 0.2241 0.2778 REMARK 3 9 2.1786 - 2.0948 1.00 2725 143 0.2451 0.2821 REMARK 3 10 2.0948 - 2.0225 1.00 2737 144 0.2525 0.3029 REMARK 3 11 2.0225 - 1.9592 1.00 2735 145 0.2594 0.2894 REMARK 3 12 1.9592 - 1.9032 0.99 2699 140 0.2876 0.3093 REMARK 3 13 1.9032 - 1.8531 0.97 2636 134 0.2989 0.3237 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) : 25.700 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.04 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 : 0.007 2401 REMARK 3 ANGLE : 1.417 3220 REMARK 3 CHIRALITY : 0.200 366 REMARK 3 PLANARITY : 0.005 411 REMARK 3 DIHEDRAL : 14.599 883 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4PYT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAR-14. REMARK 100 THE DEPOSITION ID IS D_1000085389. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-OCT-11 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 : 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 : DIAMOND[111] REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37611 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 10000.0 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.09200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.88 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.86000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: PDB ENTRY 3TX1 REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: FINAL CRYSTALLIZATION CONDITIONS REMARK 280 CONTAINED 1.5 MICRO L RESERVOIR SOLUTION (0.5M MGCL2, 0.1M TRIS REMARK 280 PH 8.5 AND 20% PEG 8000) AND 1.5 MICRO L OF 8.0 MG/ML LUCY IN REMARK 280 150MM NACL, 50MM TRIS PH 7.5.. CRYSTALS WERE CRYOPROTECTED BY REMARK 280 TRANSFERRING INTO MITEGEN S LV CRYOOIL (MITEGEN, LLC) PRIOR TO REMARK 280 MOUNTING AND WERE FLASH-FROZEN IN LIQUID NITROGEN. , VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 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 1.000000 0.000000 0.000000 53.39300 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 30.82646 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 67.02833 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 53.39300 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 30.82646 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 67.02833 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 53.39300 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 30.82646 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 67.02833 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 53.39300 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 30.82646 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 67.02833 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 53.39300 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 30.82646 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 67.02833 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 53.39300 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 30.82646 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 67.02833 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 61.65293 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 134.05667 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 61.65293 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 134.05667 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 61.65293 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 134.05667 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 61.65293 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 134.05667 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 61.65293 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 134.05667 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 61.65293 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 134.05667 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 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 MG MG A 403 LIES ON A SPECIAL POSITION. REMARK 375 MG MG A 404 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 566 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 732 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 736 LIES ON A SPECIAL POSITION. REMARK 450 REMARK 450 SOURCE REMARK 450 THERMOPHILIC METAGENOMIC SAMPLE FROM CORN STOVER, MIDDLETON, WI 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 ARG A 303 REMARK 465 HIS A 304 REMARK 465 HIS A 305 REMARK 465 HIS A 306 REMARK 465 HIS A 307 REMARK 465 HIS A 308 REMARK 465 HIS A 309 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 772 O HOH A 794 1.81 REMARK 500 O HOH A 760 O HOH A 764 1.94 REMARK 500 O HOH A 613 O HOH A 734 1.95 REMARK 500 O HOH A 725 O HOH A 827 1.96 REMARK 500 O HOH A 790 O HOH A 791 2.00 REMARK 500 O HOH A 786 O HOH A 789 2.01 REMARK 500 O HOH A 632 O HOH A 805 2.05 REMARK 500 O HOH A 752 O HOH A 799 2.05 REMARK 500 O HOH A 823 O HOH A 846 2.07 REMARK 500 O HOH A 789 O HOH A 829 2.09 REMARK 500 O HOH A 759 O HOH A 796 2.09 REMARK 500 O HOH A 776 O HOH A 781 2.15 REMARK 500 O HOH A 771 O HOH A 829 2.16 REMARK 500 O HOH A 575 O HOH A 714 2.17 REMARK 500 O HOH A 722 O HOH A 787 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 801 O HOH A 807 2665 1.92 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 PRO A 127 49.17 -83.73 REMARK 500 ASN A 180 -91.04 -136.84 REMARK 500 GLU A 301 -63.24 70.54 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 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 501 O REMARK 620 2 HOH A 502 O 169.8 REMARK 620 3 HOH A 503 O 89.9 93.6 REMARK 620 4 HOH A 504 O 92.8 83.2 175.6 REMARK 620 5 HOH A 505 O 89.9 80.2 94.5 82.1 REMARK 620 6 HOH A 506 O 95.7 93.8 90.3 92.8 172.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 507 O REMARK 620 2 HOH A 508 O 91.9 REMARK 620 3 HOH A 509 O 90.9 176.4 REMARK 620 4 HOH A 510 O 91.9 92.0 90.2 REMARK 620 5 HOH A 511 O 90.3 90.5 87.1 176.6 REMARK 620 6 HOH A 512 O 176.7 90.0 87.2 90.8 87.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 404 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 513 O REMARK 620 2 HOH A 514 O 94.1 REMARK 620 3 HOH A 515 O 82.1 173.3 REMARK 620 4 HOH A 516 O 94.0 94.1 80.6 REMARK 620 5 HOH A 517 O 81.6 80.6 104.2 172.8 REMARK 620 6 HOH A 518 O 172.8 80.2 103.1 82.1 101.7 REMARK 620 N 1 2 3 4 5 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 406 DBREF 4PYT A 1 309 PDB 4PYT 4PYT 1 309 SEQRES 1 A 309 MET ASP LYS VAL ILE GLN GLU LEU LYS ASP LEU GLN VAL SEQRES 2 A 309 GLY LYS VAL LEU GLU ASN GLU PRO LEU ALA ASN HIS THR SEQRES 3 A 309 THR ILE LYS ILE GLY GLY PRO ALA ASP CYS LEU VAL ILE SEQRES 4 A 309 PRO LYS ASP ILE GLN ALA VAL ARG ASP THR MET GLU VAL SEQRES 5 A 309 VAL LYS ASN HIS GLY VAL GLN TRP ARG ALA ILE GLY ARG SEQRES 6 A 309 GLY SER ASN LEU LEU VAL LEU ASP GLU GLY ILE ARG GLY SEQRES 7 A 309 VAL VAL ILE LYS LEU GLY ALA GLY LEU ASP HIS MET GLU SEQRES 8 A 309 ILE ASP GLY GLU GLN VAL THR VAL GLY GLY GLY TYR SER SEQRES 9 A 309 VAL VAL ARG LEU SER THR GLY ILE SER LYS LYS GLY LEU SEQRES 10 A 309 SER GLY LEU GLU PHE ALA SER GLY ILE PRO GLY SER VAL SEQRES 11 A 309 GLY GLY ALA VAL TYR MET ASN ALA GLY ALA HIS GLY SER SEQRES 12 A 309 ASP ILE SER ARG ILE LEU VAL LYS ALA LEU ILE LEU PHE SEQRES 13 A 309 GLU ASP GLY THR MET GLU TRP LEU THR ASN GLU GLU MET SEQRES 14 A 309 GLU PHE SER TYR ARG THR SER ILE LEU GLN ASN LYS ARG SEQRES 15 A 309 PRO GLY ILE CYS LEU GLU ALA VAL LEU GLN LEU GLU GLN SEQRES 16 A 309 LYS GLU ARG ASP ALA ILE VAL ALA GLN MET GLN LYS ASN SEQRES 17 A 309 LYS ASP TYR ARG LYS GLU THR GLN PRO VAL SER ASN PRO SEQRES 18 A 309 CYS ALA GLY SER ILE PHE ARG ASN PRO LEU PRO ASP HIS SEQRES 19 A 309 ALA GLY ARG LEU VAL GLU GLN ALA GLY LEU LYS GLY HIS SEQRES 20 A 309 ARG ILE GLY GLY ALA LYS VAL SER GLU MET HIS GLY ASN SEQRES 21 A 309 PHE ILE VAL ASN ALA GLY GLY ALA THR ALA LYS ASP VAL SEQRES 22 A 309 LEU ASP LEU ILE ALA PHE ILE GLN LYS THR ILE LYS GLU SEQRES 23 A 309 LYS TYR ASP ILE ASP MET HIS THR GLU VAL GLU ILE VAL SEQRES 24 A 309 GLY GLU LYS ARG HIS HIS HIS HIS HIS HIS HET FAD A 401 53 HET MG A 402 1 HET MG A 403 1 HET MG A 404 1 HET CL A 405 1 HET CL A 406 1 HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION FORMUL 2 FAD C27 H33 N9 O15 P2 FORMUL 3 MG 3(MG 2+) FORMUL 6 CL 2(CL 1-) FORMUL 8 HOH *346(H2 O) HELIX 1 1 MET A 1 LEU A 11 1 11 HELIX 2 2 ALA A 23 THR A 26 5 4 HELIX 3 3 ASP A 42 GLY A 57 1 16 HELIX 4 4 GLY A 84 ASP A 88 5 5 HELIX 5 5 SER A 104 LYS A 115 1 12 HELIX 6 6 LEU A 120 SER A 124 5 5 HELIX 7 7 SER A 129 ASN A 137 1 9 HELIX 8 8 SER A 176 ASN A 180 5 5 HELIX 9 9 GLU A 197 GLN A 216 1 20 HELIX 10 10 HIS A 234 ALA A 242 1 9 HELIX 11 11 THR A 269 ASP A 289 1 21 SHEET 1 A 4 GLY A 14 PRO A 21 0 SHEET 2 A 4 PRO A 33 PRO A 40 -1 O ALA A 34 N GLU A 20 SHEET 3 A 4 ILE A 76 LYS A 82 1 O VAL A 80 N CYS A 36 SHEET 4 A 4 TRP A 60 ILE A 63 1 N ILE A 63 O ILE A 81 SHEET 1 B 2 LEU A 69 VAL A 71 0 SHEET 2 B 2 GLU A 297 VAL A 299 1 O GLU A 297 N LEU A 70 SHEET 1 C 5 MET A 90 ASP A 93 0 SHEET 2 C 5 GLN A 96 GLY A 100 -1 O GLN A 96 N ASP A 93 SHEET 3 C 5 ILE A 185 GLN A 192 -1 O LEU A 191 N VAL A 97 SHEET 4 C 5 LEU A 149 LEU A 155 -1 N VAL A 150 O VAL A 190 SHEET 5 C 5 MET A 161 THR A 165 -1 O GLU A 162 N ILE A 154 SHEET 1 D 2 LEU A 117 SER A 118 0 SHEET 2 D 2 GLU A 194 GLN A 195 -1 O GLU A 194 N SER A 118 SHEET 1 E 2 GLY A 139 ALA A 140 0 SHEET 2 E 2 SER A 143 ASP A 144 -1 O SER A 143 N ALA A 140 SHEET 1 F 3 ARG A 248 ILE A 249 0 SHEET 2 F 3 ALA A 252 VAL A 254 -1 O ALA A 252 N ILE A 249 SHEET 3 F 3 ILE A 262 ASN A 264 -1 O VAL A 263 N LYS A 253 LINK MG MG A 402 O HOH A 501 1555 1555 1.86 LINK MG MG A 402 O HOH A 502 1555 1555 1.86 LINK MG MG A 402 O HOH A 503 1555 1555 1.84 LINK MG MG A 402 O HOH A 504 1555 1555 1.85 LINK MG MG A 402 O HOH A 505 1555 1555 1.85 LINK MG MG A 402 O HOH A 506 1555 1555 1.85 LINK MG MG A 403 O HOH A 507 1555 1555 1.85 LINK MG MG A 403 O HOH A 508 1555 1555 1.85 LINK MG MG A 403 O HOH A 509 1555 1555 1.84 LINK MG MG A 403 O HOH A 510 1555 1555 1.85 LINK MG MG A 403 O HOH A 511 1555 1555 1.84 LINK MG MG A 403 O HOH A 512 1555 1555 1.84 LINK MG MG A 404 O HOH A 513 1555 1555 1.84 LINK MG MG A 404 O HOH A 514 1555 1555 1.84 LINK MG MG A 404 O HOH A 515 1555 1555 1.84 LINK MG MG A 404 O HOH A 516 1555 1555 1.84 LINK MG MG A 404 O HOH A 517 1555 1555 1.84 LINK MG MG A 404 O HOH A 518 1555 1555 1.84 CISPEP 1 LEU A 231 PRO A 232 0 6.84 SITE 1 AC1 34 THR A 27 ARG A 61 ALA A 62 GLY A 64 SITE 2 AC1 34 ARG A 65 GLY A 66 SER A 67 ASN A 68 SITE 3 AC1 34 LEU A 83 ILE A 126 PRO A 127 GLY A 128 SITE 4 AC1 34 SER A 129 GLY A 131 GLY A 132 ALA A 133 SITE 5 AC1 34 TYR A 135 MET A 136 ALA A 138 GLY A 139 SITE 6 AC1 34 ARG A 174 GLY A 184 ILE A 185 CYS A 186 SITE 7 AC1 34 ARG A 212 CYS A 222 ALA A 223 GLY A 224 SITE 8 AC1 34 GLU A 297 HOH A 521 HOH A 532 HOH A 538 SITE 9 AC1 34 HOH A 556 HOH A 671 SITE 1 AC2 6 HOH A 501 HOH A 502 HOH A 503 HOH A 504 SITE 2 AC2 6 HOH A 505 HOH A 506 SITE 1 AC3 6 HOH A 507 HOH A 508 HOH A 509 HOH A 510 SITE 2 AC3 6 HOH A 511 HOH A 512 SITE 1 AC4 6 HOH A 513 HOH A 514 HOH A 515 HOH A 516 SITE 2 AC4 6 HOH A 517 HOH A 518 SITE 1 AC5 1 ALA A 85 SITE 1 AC6 2 SER A 255 GLU A 256 CRYST1 106.786 106.786 201.085 90.00 90.00 120.00 H 3 2 18 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 0.009365 0.005407 0.000000 0.00000 SCALE2 0.000000 0.010813 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004973 0.00000