HEADER HYDROLASE 01-JAN-25 9MPY TITLE STRUCTURE OF SARO_1862, A UPF0261 DOMAIN PROTEIN FROM NOVOSPHINGOBIUM TITLE 2 AROMATICIVORANS WITH BOUND ACETOVANILLONE COMPND MOL_ID: 1; COMPND 2 MOLECULE: UPF0261 DOMAIN-CONTAINING PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NOVOSPHINGOBIUM AROMATICIVORANS DSM 12444; SOURCE 3 ORGANISM_TAXID: 279238; SOURCE 4 GENE: SARO_1862; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS UPF0261 DOMAIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.A.BINGMAN,B.W.HALL,B.G.FOX,T.J.DONOHUE REVDAT 1 24-SEP-25 9MPY 0 JRNL AUTH B.W.HALL,J.C.NERI,C.A.BINGMAN,A.C.VILBERT,J.B.ECKMANN, JRNL AUTH 2 K.S.MYERS,B.S.SIBERT,E.R.WRIGHT,B.G.FOX,P.J.KILEY, JRNL AUTH 3 D.R.NOGUERA,T.J.DONOHUE JRNL TITL MARK, A NOVOSPHINGOBIUM AROMATICIVORANS KINASE REQUIRED FOR JRNL TITL 2 CATABOLISM OF MULTIPLE AROMATIC MONOMERS. JRNL REF J.BIOL.CHEM. V. 301 10606 2025 JRNL REFN ESSN 1083-351X JRNL PMID 40840623 JRNL DOI 10.1016/J.JBC.2025.110606 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.LIEBSCHNER,P.V.AFONINE,M.L.BAKER,G.BUNKOCZI,V.B.CHEN, REMARK 1 AUTH 2 T.I.CROLL,B.HINTZE,L.W.HUNG,S.JAIN,A.J.MCCOY,N.W.MORIARTY, REMARK 1 AUTH 3 R.D.OEFFNER,B.K.POON,M.G.PRISANT,R.J.READ,J.S.RICHARDSON, REMARK 1 AUTH 4 D.C.RICHARDSON,M.D.SAMMITO,O.V.SOBOLEV,D.H.STOCKWELL, REMARK 1 AUTH 5 T.C.TERWILLIGER,A.G.URZHUMTSEV,L.L.VIDEAU,C.J.WILLIAMS, REMARK 1 AUTH 6 P.D.ADAMS REMARK 1 TITL MACROMOLECULAR STRUCTURE DETERMINATION USING X-RAYS, REMARK 1 TITL 2 NEUTRONS AND ELECTRONS: RECENT DEVELOPMENTS IN PHENIX REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 2 REMARK 2 RESOLUTION. 1.58 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.21.2_5419 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.94 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 124484 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.155 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.181 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.590 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 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 47.9400 - 3.7900 1.00 9253 187 0.1332 0.1576 REMARK 3 2 3.7900 - 3.0100 1.00 9008 113 0.1363 0.1652 REMARK 3 3 3.0100 - 2.6300 1.00 8965 100 0.1555 0.1872 REMARK 3 4 2.6300 - 2.3900 1.00 8829 200 0.1446 0.1586 REMARK 3 5 2.3900 - 2.2200 1.00 8885 100 0.1374 0.1771 REMARK 3 6 2.2200 - 2.0900 1.00 8781 200 0.1391 0.1503 REMARK 3 7 2.0900 - 1.9800 1.00 8861 100 0.1479 0.2101 REMARK 3 8 1.9800 - 1.9000 1.00 8764 200 0.1771 0.2003 REMARK 3 9 1.9000 - 1.8200 1.00 8837 100 0.1741 0.2084 REMARK 3 10 1.8200 - 1.7600 1.00 8818 100 0.1913 0.2396 REMARK 3 11 1.7600 - 1.7000 1.00 8748 200 0.2031 0.2442 REMARK 3 12 1.7000 - 1.6600 1.00 8817 100 0.2327 0.2829 REMARK 3 13 1.6600 - 1.6100 1.00 8691 200 0.2654 0.2825 REMARK 3 14 1.6100 - 1.5800 0.97 8562 100 0.3219 0.4089 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 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) : 0.203 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.002 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.24 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.57 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 : 0.016 6271 REMARK 3 ANGLE : 1.277 8534 REMARK 3 CHIRALITY : 0.085 965 REMARK 3 PLANARITY : 0.013 1146 REMARK 3 DIHEDRAL : 12.782 2298 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 4 THROUGH 37 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.0281 99.1570 11.0238 REMARK 3 T TENSOR REMARK 3 T11: 0.1501 T22: 0.1248 REMARK 3 T33: 0.0545 T12: -0.0001 REMARK 3 T13: -0.0085 T23: 0.0166 REMARK 3 L TENSOR REMARK 3 L11: 4.5670 L22: 5.0798 REMARK 3 L33: 5.8236 L12: -1.2060 REMARK 3 L13: 0.0318 L23: 0.6141 REMARK 3 S TENSOR REMARK 3 S11: -0.0286 S12: 0.0822 S13: -0.0134 REMARK 3 S21: -0.0859 S22: -0.0447 S23: 0.3885 REMARK 3 S31: -0.1251 S32: -0.3342 S33: 0.0864 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 38 THROUGH 148 ) REMARK 3 ORIGIN FOR THE GROUP (A): -24.0498 86.9607 8.6291 REMARK 3 T TENSOR REMARK 3 T11: 0.1584 T22: 0.1776 REMARK 3 T33: 0.1357 T12: -0.0076 REMARK 3 T13: 0.0056 T23: 0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.7597 L22: 1.1965 REMARK 3 L33: 1.5366 L12: -0.0451 REMARK 3 L13: 0.3116 L23: 0.0513 REMARK 3 S TENSOR REMARK 3 S11: -0.0208 S12: -0.0057 S13: -0.0762 REMARK 3 S21: -0.0241 S22: 0.0257 S23: 0.1398 REMARK 3 S31: 0.0570 S32: -0.1138 S33: -0.0050 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 149 THROUGH 176 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.0609 96.6698 22.0146 REMARK 3 T TENSOR REMARK 3 T11: 0.2106 T22: 0.2924 REMARK 3 T33: 0.1716 T12: 0.0095 REMARK 3 T13: 0.0012 T23: -0.0044 REMARK 3 L TENSOR REMARK 3 L11: 2.1773 L22: 5.4532 REMARK 3 L33: 3.8379 L12: 2.5733 REMARK 3 L13: -1.7790 L23: -0.4256 REMARK 3 S TENSOR REMARK 3 S11: -0.1208 S12: 0.2512 S13: 0.4017 REMARK 3 S21: -0.0217 S22: 0.0834 S23: 0.8872 REMARK 3 S31: -0.0122 S32: -0.7814 S33: 0.0551 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 177 THROUGH 234 ) REMARK 3 ORIGIN FOR THE GROUP (A): -9.4716 76.9489 14.3351 REMARK 3 T TENSOR REMARK 3 T11: 0.1287 T22: 0.1834 REMARK 3 T33: 0.1358 T12: 0.0032 REMARK 3 T13: 0.0077 T23: -0.0155 REMARK 3 L TENSOR REMARK 3 L11: 0.8544 L22: 2.3865 REMARK 3 L33: 0.7766 L12: -0.5944 REMARK 3 L13: -0.0569 L23: 0.5896 REMARK 3 S TENSOR REMARK 3 S11: -0.0322 S12: -0.0996 S13: 0.0879 REMARK 3 S21: 0.1537 S22: 0.0703 S23: -0.0904 REMARK 3 S31: 0.0126 S32: 0.1372 S33: -0.0520 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 235 THROUGH 404 ) REMARK 3 ORIGIN FOR THE GROUP (A): -12.3617 62.3813 3.5440 REMARK 3 T TENSOR REMARK 3 T11: 0.1372 T22: 0.1493 REMARK 3 T33: 0.1642 T12: 0.0111 REMARK 3 T13: 0.0194 T23: -0.0242 REMARK 3 L TENSOR REMARK 3 L11: 1.9502 L22: 1.1365 REMARK 3 L33: 0.8675 L12: 0.5241 REMARK 3 L13: 0.4040 L23: 0.2479 REMARK 3 S TENSOR REMARK 3 S11: -0.0471 S12: 0.1413 S13: -0.2055 REMARK 3 S21: -0.0263 S22: 0.0721 S23: -0.0391 REMARK 3 S31: 0.0525 S32: 0.0122 S33: -0.0239 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 4 THROUGH 176 ) REMARK 3 ORIGIN FOR THE GROUP (A): -22.1384 88.8144 40.1100 REMARK 3 T TENSOR REMARK 3 T11: 0.1896 T22: 0.1499 REMARK 3 T33: 0.1200 T12: 0.0071 REMARK 3 T13: -0.0068 T23: 0.0035 REMARK 3 L TENSOR REMARK 3 L11: 0.9420 L22: 0.4164 REMARK 3 L33: 2.1518 L12: -0.0448 REMARK 3 L13: -0.3827 L23: 0.2291 REMARK 3 S TENSOR REMARK 3 S11: -0.0130 S12: -0.0370 S13: -0.1154 REMARK 3 S21: 0.0696 S22: -0.0114 S23: -0.0289 REMARK 3 S31: 0.1647 S32: 0.0826 S33: 0.0434 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 177 THROUGH 406 ) REMARK 3 ORIGIN FOR THE GROUP (A): -50.2228 81.6082 43.0602 REMARK 3 T TENSOR REMARK 3 T11: 0.1417 T22: 0.1398 REMARK 3 T33: 0.1614 T12: 0.0070 REMARK 3 T13: -0.0028 T23: -0.0028 REMARK 3 L TENSOR REMARK 3 L11: 1.1991 L22: 1.8600 REMARK 3 L33: 0.8435 L12: 0.0872 REMARK 3 L13: 0.1088 L23: -0.2221 REMARK 3 S TENSOR REMARK 3 S11: 0.0359 S12: -0.0069 S13: -0.1088 REMARK 3 S21: -0.0252 S22: 0.0122 S23: 0.0716 REMARK 3 S31: 0.0550 S32: 0.0005 S33: -0.0533 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 9MPY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JAN-25. REMARK 100 THE DEPOSITION ID IS D_1000291525. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS-II REMARK 200 BEAMLINE : 17-ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.920105 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS VERSION JUN 30, 2023 REMARK 200 BUILT=20230630 REMARK 200 DATA SCALING SOFTWARE : XSCALE VERSION JUN 30, 2024 REMARK 200 BUILT=20241002) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 124484 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.580 REMARK 200 RESOLUTION RANGE LOW (A) : 47.940 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.600 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.7100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.62 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 1.49500 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: MOLECULAR REPLACEMENT 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 (%): 53.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0M SODIUM CITRATE, 0.1 M SODIUM REMARK 280 CACODYLATE, PH 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 42.45550 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.25650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 48.21050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.25650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.45550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 48.21050 REMARK 290 SMTRY3 4 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30340 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -59.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 MET A 1 REMARK 465 THR A 2 REMARK 465 ASP A 3 REMARK 465 LYS A 405 REMARK 465 ASN A 406 REMARK 465 MET B 1 REMARK 465 THR B 2 REMARK 465 ASP B 3 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 B 855 O HOH B 903 2.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU B 209 CD GLU B 209 OE2 0.077 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 16 36.48 -94.20 REMARK 500 PRO A 39 36.30 -94.62 REMARK 500 LYS A 142 -119.22 50.77 REMARK 500 PRO A 245 31.54 -87.18 REMARK 500 PRO A 278 45.46 -102.81 REMARK 500 ARG A 299 -166.85 -116.02 REMARK 500 ASP A 349 63.78 -102.95 REMARK 500 LYS B 16 70.43 47.98 REMARK 500 PRO B 39 35.89 -91.51 REMARK 500 PHE B 134 158.83 -48.75 REMARK 500 LYS B 142 -130.45 53.56 REMARK 500 SER B 154 -9.42 83.74 REMARK 500 PRO B 278 43.68 -101.73 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 NA B 503 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 12 OG1 REMARK 620 2 CIT B 502 O7 80.5 REMARK 620 3 CIT B 502 O4 108.8 74.4 REMARK 620 4 CIT B 502 O5 142.4 64.9 76.6 REMARK 620 5 HOH B 661 O 103.7 169.1 113.0 108.1 REMARK 620 6 HOH B 858 O 79.7 101.6 169.5 92.9 69.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 505 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS B 16 O REMARK 620 2 HOH B 728 O 84.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 504 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CIT B 502 O2 REMARK 620 2 CIT B 502 O7 75.2 REMARK 620 3 CIT B 502 O5 82.0 60.7 REMARK 620 4 HOH B 651 O 91.3 166.4 116.5 REMARK 620 5 HOH B 858 O 162.2 101.3 81.2 91.0 REMARK 620 N 1 2 3 4 DBREF 9MPY A 1 406 UNP Q2G771 Q2G771_NOVAD 1 406 DBREF 9MPY B 1 406 UNP Q2G771 Q2G771_NOVAD 1 406 SEQADV 9MPY LYS A 16 UNP Q2G771 GLU 16 ENGINEERED MUTATION SEQADV 9MPY LYS B 16 UNP Q2G771 GLU 16 ENGINEERED MUTATION SEQRES 1 A 406 MET THR ASP LYS PRO SER VAL LEU PHE ILE CYS THR GLN SEQRES 2 A 406 ASP THR LYS GLU GLU GLU ALA ARG PHE THR ARG ALA ALA SEQRES 3 A 406 LEU GLU ALA ALA GLY VAL GLU VAL VAL HIS LEU ASP PRO SEQRES 4 A 406 SER VAL ARG ARG SER LEU GLY GLY ALA GLU ILE SER PRO SEQRES 5 A 406 GLU MET VAL ALA GLN ALA GLY GLY MET THR ILE GLU GLU SEQRES 6 A 406 VAL ARG ALA LEU GLY HIS GLU GLY LYS CYS GLN ASP ALA SEQRES 7 A 406 MET ILE ARG GLY ALA ILE ALA ALA ALA HIS GLU TRP ASP SEQRES 8 A 406 ALA ARG HIS PRO VAL SER GLY ILE LEU ALA VAL GLY GLY SEQRES 9 A 406 SER MET GLY SER ALA LEU ALA GLY ALA LEU MET GLN SER SEQRES 10 A 406 PHE PRO TYR GLY LEU PRO LYS LEU ILE VAL SER THR MET SEQRES 11 A 406 ALA SER GLY PHE THR LYS PRO TYR MET GLY VAL LYS ASP SEQRES 12 A 406 ILE ALA MET MET ASN ALA VAL THR ASP ILE SER GLY ILE SEQRES 13 A 406 ASN THR ILE SER ARG ASP VAL PHE ARG ASN ALA ALA ASN SEQRES 14 A 406 ALA VAL ALA GLY MET ALA LYS GLY TYR ASP ARG ASP LYS SEQRES 15 A 406 GLY PRO GLU LYS PRO LEU VAL LEU ILE THR THR LEU GLY SEQRES 16 A 406 THR THR GLU THR SER VAL LYS ARG ILE ARG GLN ALA LEU SEQRES 17 A 406 GLU SER ASP GLY CYS GLU VAL MET VAL PHE HIS SER SER SEQRES 18 A 406 GLY ALA GLY GLY PRO THR LEU ASP GLY LEU ALA ALA ASP SEQRES 19 A 406 LYS ASP VAL ALA LEU VAL LEU ASP LEU SER PRO THR GLU SEQRES 20 A 406 ILE LEU ASP HIS LEU PHE GLY GLY LEU ALA ASP ALA GLY SEQRES 21 A 406 PRO ASP ARG GLY ARG ALA ALA LEU ARG LYS GLY ILE PRO SEQRES 22 A 406 THR ILE LEU ALA PRO GLY ASN ALA ASP PHE ILE ILE GLY SEQRES 23 A 406 GLY PRO ILE ASP ALA ALA GLU ALA GLN PHE PRO GLY ARG SEQRES 24 A 406 ARG TYR HIS GLN HIS ASN PRO GLN LEU THR ALA VAL ARG SEQRES 25 A 406 THR ASN VAL ALA ASP LEU ARG LYS LEU ALA ASP HIS LEU SEQRES 26 A 406 ALA ALA ASN VAL ARG GLU ALA LYS GLY PRO VAL ARG VAL SEQRES 27 A 406 PHE THR PRO LEU LYS GLY PHE SER SER HIS ASP SER GLU SEQRES 28 A 406 THR GLY HIS LEU LEU ASP LEU SER VAL PRO GLY PRO PHE SEQRES 29 A 406 ALA GLU TYR LEU ALA SER VAL MET PRO GLY HIS VAL PRO SEQRES 30 A 406 VAL THR ALA VAL ASP ALA HIS PHE ASN ASP GLU ALA PHE SEQRES 31 A 406 SER SER ALA VAL ILE ALA ALA ALA ARG GLU MET LEU ALA SEQRES 32 A 406 ALA LYS ASN SEQRES 1 B 406 MET THR ASP LYS PRO SER VAL LEU PHE ILE CYS THR GLN SEQRES 2 B 406 ASP THR LYS GLU GLU GLU ALA ARG PHE THR ARG ALA ALA SEQRES 3 B 406 LEU GLU ALA ALA GLY VAL GLU VAL VAL HIS LEU ASP PRO SEQRES 4 B 406 SER VAL ARG ARG SER LEU GLY GLY ALA GLU ILE SER PRO SEQRES 5 B 406 GLU MET VAL ALA GLN ALA GLY GLY MET THR ILE GLU GLU SEQRES 6 B 406 VAL ARG ALA LEU GLY HIS GLU GLY LYS CYS GLN ASP ALA SEQRES 7 B 406 MET ILE ARG GLY ALA ILE ALA ALA ALA HIS GLU TRP ASP SEQRES 8 B 406 ALA ARG HIS PRO VAL SER GLY ILE LEU ALA VAL GLY GLY SEQRES 9 B 406 SER MET GLY SER ALA LEU ALA GLY ALA LEU MET GLN SER SEQRES 10 B 406 PHE PRO TYR GLY LEU PRO LYS LEU ILE VAL SER THR MET SEQRES 11 B 406 ALA SER GLY PHE THR LYS PRO TYR MET GLY VAL LYS ASP SEQRES 12 B 406 ILE ALA MET MET ASN ALA VAL THR ASP ILE SER GLY ILE SEQRES 13 B 406 ASN THR ILE SER ARG ASP VAL PHE ARG ASN ALA ALA ASN SEQRES 14 B 406 ALA VAL ALA GLY MET ALA LYS GLY TYR ASP ARG ASP LYS SEQRES 15 B 406 GLY PRO GLU LYS PRO LEU VAL LEU ILE THR THR LEU GLY SEQRES 16 B 406 THR THR GLU THR SER VAL LYS ARG ILE ARG GLN ALA LEU SEQRES 17 B 406 GLU SER ASP GLY CYS GLU VAL MET VAL PHE HIS SER SER SEQRES 18 B 406 GLY ALA GLY GLY PRO THR LEU ASP GLY LEU ALA ALA ASP SEQRES 19 B 406 LYS ASP VAL ALA LEU VAL LEU ASP LEU SER PRO THR GLU SEQRES 20 B 406 ILE LEU ASP HIS LEU PHE GLY GLY LEU ALA ASP ALA GLY SEQRES 21 B 406 PRO ASP ARG GLY ARG ALA ALA LEU ARG LYS GLY ILE PRO SEQRES 22 B 406 THR ILE LEU ALA PRO GLY ASN ALA ASP PHE ILE ILE GLY SEQRES 23 B 406 GLY PRO ILE ASP ALA ALA GLU ALA GLN PHE PRO GLY ARG SEQRES 24 B 406 ARG TYR HIS GLN HIS ASN PRO GLN LEU THR ALA VAL ARG SEQRES 25 B 406 THR ASN VAL ALA ASP LEU ARG LYS LEU ALA ASP HIS LEU SEQRES 26 B 406 ALA ALA ASN VAL ARG GLU ALA LYS GLY PRO VAL ARG VAL SEQRES 27 B 406 PHE THR PRO LEU LYS GLY PHE SER SER HIS ASP SER GLU SEQRES 28 B 406 THR GLY HIS LEU LEU ASP LEU SER VAL PRO GLY PRO PHE SEQRES 29 B 406 ALA GLU TYR LEU ALA SER VAL MET PRO GLY HIS VAL PRO SEQRES 30 B 406 VAL THR ALA VAL ASP ALA HIS PHE ASN ASP GLU ALA PHE SEQRES 31 B 406 SER SER ALA VAL ILE ALA ALA ALA ARG GLU MET LEU ALA SEQRES 32 B 406 ALA LYS ASN HET I75 A 501 21 HET CIT A 502 17 HET I75 B 501 21 HET CIT B 502 17 HET NA B 503 1 HET NA B 504 1 HET NA B 505 1 HETNAM I75 1-(4-HYDROXY-3-METHOXYPHENYL)ETHANONE HETNAM CIT CITRIC ACID HETNAM NA SODIUM ION FORMUL 3 I75 2(C9 H10 O3) FORMUL 4 CIT 2(C6 H8 O7) FORMUL 7 NA 3(NA 1+) FORMUL 10 HOH *883(H2 O) HELIX 1 AA1 LYS A 16 ALA A 30 1 15 HELIX 2 AA2 SER A 51 GLY A 59 1 9 HELIX 3 AA3 THR A 62 ALA A 68 1 7 HELIX 4 AA4 HIS A 71 HIS A 94 1 24 HELIX 5 AA5 GLY A 104 GLN A 116 1 13 HELIX 6 AA6 SER A 160 TYR A 178 1 19 HELIX 7 AA7 LEU A 194 THR A 196 5 3 HELIX 8 AA8 THR A 197 GLY A 212 1 16 HELIX 9 AA9 ALA A 223 LYS A 235 1 13 HELIX 10 AB1 PRO A 245 GLY A 254 1 10 HELIX 11 AB2 ARG A 265 GLY A 271 1 7 HELIX 12 AB3 PRO A 288 PHE A 296 1 9 HELIX 13 AB4 ASN A 314 GLU A 331 1 18 HELIX 14 AB5 VAL A 360 MET A 372 1 13 HELIX 15 AB6 ASP A 387 ALA A 404 1 18 HELIX 16 AB7 LYS B 16 ALA B 30 1 15 HELIX 17 AB8 SER B 51 GLY B 59 1 9 HELIX 18 AB9 THR B 62 ALA B 68 1 7 HELIX 19 AC1 HIS B 71 HIS B 94 1 24 HELIX 20 AC2 GLY B 104 SER B 117 1 14 HELIX 21 AC3 SER B 160 GLY B 177 1 18 HELIX 22 AC4 LEU B 194 THR B 196 5 3 HELIX 23 AC5 THR B 197 ASP B 211 1 15 HELIX 24 AC6 ALA B 223 LYS B 235 1 13 HELIX 25 AC7 PRO B 245 GLY B 254 1 10 HELIX 26 AC8 ARG B 265 GLY B 271 1 7 HELIX 27 AC9 PRO B 288 PHE B 296 1 9 HELIX 28 AD1 ASN B 314 GLU B 331 1 18 HELIX 29 AD2 VAL B 360 MET B 372 1 13 HELIX 30 AD3 ASP B 387 ALA B 404 1 18 SHEET 1 AA1 5 GLU A 33 LEU A 37 0 SHEET 2 AA1 5 SER A 6 CYS A 11 1 N PHE A 9 O VAL A 35 SHEET 3 AA1 5 ILE A 99 GLY A 103 1 O LEU A 100 N LEU A 8 SHEET 4 AA1 5 LYS A 124 SER A 128 1 O VAL A 127 N ALA A 101 SHEET 5 AA1 5 ALA A 145 ASN A 148 1 O ALA A 145 N ILE A 126 SHEET 1 AA2 2 VAL A 150 THR A 151 0 SHEET 2 AA2 2 THR A 158 ILE A 159 -1 O THR A 158 N THR A 151 SHEET 1 AA3 6 GLU A 214 HIS A 219 0 SHEET 2 AA3 6 LEU A 188 THR A 193 1 N VAL A 189 O GLU A 214 SHEET 3 AA3 6 LEU A 239 ASP A 242 1 O LEU A 241 N LEU A 190 SHEET 4 AA3 6 THR A 274 LEU A 276 1 O ILE A 275 N VAL A 240 SHEET 5 AA3 6 VAL A 336 PRO A 341 1 O ARG A 337 N LEU A 276 SHEET 6 AA3 6 VAL A 378 VAL A 381 1 O THR A 379 N VAL A 338 SHEET 1 AA4 3 PHE A 283 GLY A 286 0 SHEET 2 AA4 3 THR A 309 ARG A 312 -1 O THR A 309 N GLY A 286 SHEET 3 AA4 3 TYR A 301 GLN A 303 -1 N HIS A 302 O ALA A 310 SHEET 1 AA5 5 GLU B 33 LEU B 37 0 SHEET 2 AA5 5 SER B 6 ILE B 10 1 N VAL B 7 O GLU B 33 SHEET 3 AA5 5 GLY B 98 GLY B 103 1 O LEU B 100 N ILE B 10 SHEET 4 AA5 5 LYS B 124 SER B 128 1 O VAL B 127 N ALA B 101 SHEET 5 AA5 5 ALA B 145 ASN B 148 1 O MET B 147 N SER B 128 SHEET 1 AA6 2 VAL B 150 THR B 151 0 SHEET 2 AA6 2 THR B 158 ILE B 159 -1 O THR B 158 N THR B 151 SHEET 1 AA7 6 GLU B 214 HIS B 219 0 SHEET 2 AA7 6 LEU B 188 THR B 193 1 N ILE B 191 O PHE B 218 SHEET 3 AA7 6 LEU B 239 ASP B 242 1 O LEU B 241 N LEU B 190 SHEET 4 AA7 6 THR B 274 LEU B 276 1 O ILE B 275 N VAL B 240 SHEET 5 AA7 6 VAL B 336 PRO B 341 1 O PHE B 339 N LEU B 276 SHEET 6 AA7 6 VAL B 378 VAL B 381 1 O THR B 379 N VAL B 338 SHEET 1 AA8 3 PHE B 283 GLY B 286 0 SHEET 2 AA8 3 LEU B 308 ARG B 312 -1 O THR B 309 N GLY B 286 SHEET 3 AA8 3 TYR B 301 ASN B 305 -1 N HIS B 302 O ALA B 310 LINK OG1 THR B 12 NA NA B 503 1555 1555 2.23 LINK O LYS B 16 NA NA B 505 1555 1555 2.00 LINK O7 CIT B 502 NA NA B 503 1555 1555 2.67 LINK O4 CIT B 502 NA NA B 503 1555 1555 2.39 LINK O5 CIT B 502 NA NA B 503 1555 1555 2.13 LINK O2 CIT B 502 NA NA B 504 1555 1555 2.33 LINK O7 CIT B 502 NA NA B 504 1555 1555 2.60 LINK O5 CIT B 502 NA NA B 504 1555 1555 2.58 LINK NA NA B 503 O HOH B 661 1555 1555 2.34 LINK NA NA B 503 O HOH B 858 1555 1555 2.48 LINK NA NA B 504 O HOH B 651 1555 1555 2.36 LINK NA NA B 504 O HOH B 858 1555 1555 2.57 LINK NA NA B 505 O HOH B 728 1555 1555 2.87 CRYST1 84.911 96.421 110.513 90.00 90.00 90.00 P 21 21 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 0.011777 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010371 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009049 0.00000 CONECT 626412257 CONECT 631112259 CONECT1218112188121931219412195 CONECT1218212189121961219712198 CONECT1218312189 CONECT1218412190 CONECT12185121861219012199 CONECT12186121851219112200 CONECT12187121911219212201 CONECT121881218112192 CONECT12189121821218312191 CONECT12190121841218512192 CONECT12191121861218712189 CONECT12192121871218812190 CONECT1219312181 CONECT1219412181 CONECT1219512181 CONECT1219612182 CONECT1219712182 CONECT1219812182 CONECT1219912185 CONECT1220012186 CONECT1220112187 CONECT12202122031220412205 CONECT1220312202 CONECT1220412202 CONECT1220512202122061221512216 CONECT1220612205122071220812212 CONECT1220712206 CONECT1220812206122091221712218 CONECT12209122081221012211 CONECT1221012209 CONECT1221112209 CONECT12212122061221312214 CONECT1221312212 CONECT1221412212 CONECT1221512205 CONECT1221612205 CONECT1221712208 CONECT1221812208 CONECT1221912226122311223212233 CONECT1222012227122341223512236 CONECT1222112227 CONECT1222212228 CONECT12223122241222812237 CONECT12224122231222912238 CONECT12225122291223012239 CONECT122261221912230 CONECT12227122201222112229 CONECT12228122221222312230 CONECT12229122241222512227 CONECT12230122251222612228 CONECT1223112219 CONECT1223212219 CONECT1223312219 CONECT1223412220 CONECT1223512220 CONECT1223612220 CONECT1223712223 CONECT1223812224 CONECT1223912225 CONECT12240122411224212243 CONECT1224112240 CONECT122421224012258 CONECT1224312240122441225312254 CONECT1224412243122451224612250 CONECT12245122441225712258 CONECT1224612244122471225512256 CONECT12247122461224812249 CONECT1224812247 CONECT122491224712257 CONECT12250122441225112252 CONECT12251122501225712258 CONECT1225212250 CONECT1225312243 CONECT1225412243 CONECT1225512246 CONECT1225612246 CONECT12257 6264122451224912251 CONECT122571278312980 CONECT1225812242122451225112773 CONECT1225812980 CONECT12259 631112850 CONECT1277312258 CONECT1278312257 CONECT1285012259 CONECT129801225712258 MASTER 431 0 7 30 32 0 0 6 6854 2 87 64 END