HEADER BIOSYNTHETIC PROTEIN 18-JAN-22 7QUJ TITLE STRUCTURE OF NSNEPS2, A 7S-CIS-TRANS NEPETALACTONE SYNTHASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NSNEPS2; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NEPETA SIBIRICA; SOURCE 3 ORGANISM_TAXID: 180189; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SDR, CYCLISATION, OXIDATION, NAD+, BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR N.J.HERNANDEZ LOZADA,B.HONG,J.C.WOOD,L.CAPUTI,J.BASQUIN,L.CHUANG, AUTHOR 2 M.KUNERT,C.R.RODRIGUEZ LOPEZ,C.LANGLEY,D.ZHAO,C.R.BUELL,B.R.LICHMAN, AUTHOR 3 S.E.O'CONNOR REVDAT 2 31-JAN-24 7QUJ 1 REMARK REVDAT 1 28-DEC-22 7QUJ 0 JRNL AUTH N.J.HERNANDEZ LOZADA,B.HONG,J.C.WOOD,L.CAPUTI,J.BASQUIN, JRNL AUTH 2 L.CHUANG,M.KUNERT,C.E.RODRIGUEZ LOPEZ,C.LANGLEY,D.ZHAO, JRNL AUTH 3 C.R.BUELL,B.R.LICHMAN,S.E.O'CONNOR JRNL TITL BIOCATALYTIC ROUTES TO STEREO-DIVERGENT IRIDOIDS. JRNL REF NAT COMMUN V. 13 4718 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 35953485 JRNL DOI 10.1038/S41467-022-32414-W REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.54 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 88386 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.172 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 8499 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 49.5400 - 5.7400 0.99 5469 288 0.1481 0.1714 REMARK 3 2 5.7400 - 4.5600 1.00 5493 298 0.1449 0.1687 REMARK 3 3 4.5600 - 3.9800 1.00 5498 292 0.1316 0.1376 REMARK 3 4 3.9800 - 3.6200 1.00 5491 291 0.1493 0.1987 REMARK 3 5 3.6200 - 3.3600 1.00 5522 288 0.1700 0.1771 REMARK 3 6 3.3600 - 3.1600 1.00 5493 294 0.1791 0.2067 REMARK 3 7 3.1600 - 3.0000 1.00 5491 289 0.1827 0.2170 REMARK 3 8 3.0000 - 2.8700 1.00 5507 285 0.1821 0.2150 REMARK 3 9 2.8700 - 2.7600 1.00 5506 293 0.1892 0.2149 REMARK 3 10 2.7600 - 2.6700 1.00 5508 290 0.1926 0.2587 REMARK 3 11 2.6700 - 2.5800 1.00 5492 289 0.1937 0.2233 REMARK 3 12 2.5800 - 2.5100 1.00 5501 295 0.1870 0.2144 REMARK 3 13 2.5100 - 2.4400 1.00 5463 284 0.1807 0.2036 REMARK 3 14 2.4400 - 2.3800 1.00 5541 288 0.1743 0.2080 REMARK 3 15 2.3800 - 2.3300 1.00 5531 293 0.1812 0.2126 REMARK 3 16 2.3300 - 2.2800 1.00 5481 294 0.1814 0.2178 REMARK 3 17 2.2800 - 2.2300 1.00 5463 285 0.1852 0.2167 REMARK 3 18 2.2300 - 2.1900 1.00 5540 294 0.1893 0.2441 REMARK 3 19 2.1900 - 2.1500 1.00 5442 290 0.1864 0.2221 REMARK 3 20 2.1500 - 2.1200 1.00 5545 292 0.1948 0.2416 REMARK 3 21 2.1200 - 2.0800 1.00 5503 283 0.1956 0.2470 REMARK 3 22 2.0800 - 2.0500 1.00 5494 297 0.1933 0.2073 REMARK 3 23 2.0500 - 2.0200 1.00 5503 286 0.2031 0.2443 REMARK 3 24 2.0200 - 1.9900 1.00 5488 287 0.2028 0.2383 REMARK 3 25 1.9900 - 1.9600 0.99 5463 285 0.2148 0.2454 REMARK 3 26 1.9600 - 1.9400 0.95 5257 275 0.2310 0.2589 REMARK 3 27 1.9400 - 1.9100 0.92 5056 264 0.2588 0.3044 REMARK 3 28 1.9100 - 1.8900 0.87 4752 252 0.2819 0.2849 REMARK 3 29 1.8900 - 1.8700 0.83 4618 241 0.3148 0.3659 REMARK 3 30 1.8700 - 1.8500 0.75 4149 217 0.3409 0.4035 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) : 0.211 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.389 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 36.45 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.13 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 : 0.008 7756 REMARK 3 ANGLE : 1.051 10516 REMARK 3 CHIRALITY : 0.061 1260 REMARK 3 PLANARITY : 0.007 1336 REMARK 3 DIHEDRAL : 7.549 1116 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 7QUJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-FEB-22. REMARK 100 THE DEPOSITION ID IS D_1292120290. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-DEC-19 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 : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 88386 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 49.540 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 200 DATA REDUNDANCY : 12.20 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.3000 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) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.77500 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: 6F9Q REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M SODIUM ACETATE WITH 11.5% W/V REMARK 280 PEG 4000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 292K 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 34.37650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 71.43800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.34000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 71.43800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.37650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.34000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 17360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32650 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -134.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 ALA A 2 REMARK 465 HIS A 3 REMARK 465 HIS A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 SER A 9 REMARK 465 SER A 10 REMARK 465 GLY A 11 REMARK 465 LEU A 12 REMARK 465 GLU A 13 REMARK 465 VAL A 14 REMARK 465 LEU A 15 REMARK 465 PHE A 16 REMARK 465 GLN A 17 REMARK 465 GLY A 18 REMARK 465 PRO A 19 REMARK 465 GLY A 20 REMARK 465 HIS A 21 REMARK 465 PHE A 281 REMARK 465 ALA A 282 REMARK 465 ALA A 283 REMARK 465 HIS A 284 REMARK 465 SER A 285 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 HIS B 3 REMARK 465 HIS B 4 REMARK 465 HIS B 5 REMARK 465 HIS B 6 REMARK 465 HIS B 7 REMARK 465 HIS B 8 REMARK 465 SER B 9 REMARK 465 SER B 10 REMARK 465 GLY B 11 REMARK 465 LEU B 12 REMARK 465 GLU B 13 REMARK 465 VAL B 14 REMARK 465 LEU B 15 REMARK 465 PHE B 16 REMARK 465 GLN B 17 REMARK 465 GLY B 18 REMARK 465 PRO B 19 REMARK 465 GLY B 20 REMARK 465 HIS B 21 REMARK 465 LYS B 22 REMARK 465 PHE B 281 REMARK 465 ALA B 282 REMARK 465 ALA B 283 REMARK 465 HIS B 284 REMARK 465 SER B 285 REMARK 465 MET C 1 REMARK 465 ALA C 2 REMARK 465 HIS C 3 REMARK 465 HIS C 4 REMARK 465 HIS C 5 REMARK 465 HIS C 6 REMARK 465 HIS C 7 REMARK 465 HIS C 8 REMARK 465 SER C 9 REMARK 465 SER C 10 REMARK 465 GLY C 11 REMARK 465 LEU C 12 REMARK 465 GLU C 13 REMARK 465 VAL C 14 REMARK 465 LEU C 15 REMARK 465 PHE C 16 REMARK 465 GLN C 17 REMARK 465 GLY C 18 REMARK 465 PRO C 19 REMARK 465 GLY C 20 REMARK 465 HIS C 21 REMARK 465 LYS C 22 REMARK 465 PHE C 281 REMARK 465 ALA C 282 REMARK 465 ALA C 283 REMARK 465 HIS C 284 REMARK 465 SER C 285 REMARK 465 MET D 1 REMARK 465 ALA D 2 REMARK 465 HIS D 3 REMARK 465 HIS D 4 REMARK 465 HIS D 5 REMARK 465 HIS D 6 REMARK 465 HIS D 7 REMARK 465 HIS D 8 REMARK 465 SER D 9 REMARK 465 SER D 10 REMARK 465 GLY D 11 REMARK 465 LEU D 12 REMARK 465 GLU D 13 REMARK 465 VAL D 14 REMARK 465 LEU D 15 REMARK 465 PHE D 16 REMARK 465 GLN D 17 REMARK 465 GLY D 18 REMARK 465 PRO D 19 REMARK 465 GLY D 20 REMARK 465 HIS D 21 REMARK 465 LYS D 22 REMARK 465 LYS D 23 REMARK 465 PHE D 281 REMARK 465 ALA D 282 REMARK 465 ALA D 283 REMARK 465 HIS D 284 REMARK 465 SER D 285 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 22 CG CD CE NZ REMARK 470 LYS A 23 CG CD CE NZ REMARK 470 LYS B 23 CG CD CE NZ REMARK 470 LYS C 23 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 CD1 LEU C 218 O3 NAD C 301 1.30 REMARK 500 CD1 LEU C 218 O1A NAD C 301 1.81 REMARK 500 O HOH B 457 O HOH B 499 1.82 REMARK 500 CD1 LEU C 218 PA NAD C 301 1.83 REMARK 500 O HOH B 462 O HOH B 539 1.87 REMARK 500 NH2 ARG B 221 O HOH B 401 1.97 REMARK 500 O HOH A 550 O HOH D 501 1.98 REMARK 500 O HOH A 510 O HOH B 513 2.00 REMARK 500 O HOH D 517 O HOH D 524 2.04 REMARK 500 OG SER D 78 OH TYR D 101 2.06 REMARK 500 O HOH A 442 O HOH A 545 2.11 REMARK 500 O HOH B 543 O HOH B 550 2.11 REMARK 500 O LYS C 24 O HOH C 401 2.12 REMARK 500 OD2 ASP A 49 O HOH A 401 2.12 REMARK 500 O HOH A 518 O HOH A 547 2.18 REMARK 500 O SER D 115 O HOH D 401 2.18 REMARK 500 O SER B 115 O HOH B 402 2.19 REMARK 500 O HOH A 488 O HOH B 513 2.19 REMARK 500 O HOH B 479 O HOH B 542 2.19 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 535 O HOH C 494 2665 2.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 MET D 124 CA - CB - CG ANGL. DEV. = -10.5 DEGREES 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 CYS A 82 113.87 -161.48 REMARK 500 SER A 167 -137.64 -114.58 REMARK 500 MET A 212 -88.37 -87.84 REMARK 500 SER B 167 -142.38 -117.24 REMARK 500 MET B 212 -132.34 -86.06 REMARK 500 HIS C 116 70.67 48.52 REMARK 500 SER C 167 -141.73 -111.59 REMARK 500 MET C 212 -91.97 -88.73 REMARK 500 HIS D 116 61.88 -100.94 REMARK 500 SER D 167 -134.96 -109.50 REMARK 500 MET D 212 -96.56 -83.58 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 560 DISTANCE = 5.95 ANGSTROMS DBREF 7QUJ A 1 285 PDB 7QUJ 7QUJ 1 285 DBREF 7QUJ B 1 285 PDB 7QUJ 7QUJ 1 285 DBREF 7QUJ C 1 285 PDB 7QUJ 7QUJ 1 285 DBREF 7QUJ D 1 285 PDB 7QUJ 7QUJ 1 285 SEQRES 1 A 285 MET ALA HIS HIS HIS HIS HIS HIS SER SER GLY LEU GLU SEQRES 2 A 285 VAL LEU PHE GLN GLY PRO GLY HIS LYS LYS LYS LEU GLU SEQRES 3 A 285 GLY LYS VAL ALA ILE VAL THR GLY GLY ALA SER GLY ILE SEQRES 4 A 285 GLY GLU THR ALA ALA ARG ILE PHE ALA ASP HIS GLY ALA SEQRES 5 A 285 ARG ALA VAL VAL ILE ALA ASP ILE GLN SER GLU LEU GLY SEQRES 6 A 285 ARG MET VAL ALA GLU SER ILE GLY ALA LYS ARG CYS SER SEQRES 7 A 285 TYR VAL GLN CYS ASP ILE ALA ASP GLU GLU GLN VAL LYS SEQRES 8 A 285 SER ALA VAL GLU TRP THR ALA THR THR TYR GLY GLY LEU SEQRES 9 A 285 ASP VAL MET PHE CYS ASN ALA GLY ILE MET SER HIS SER SEQRES 10 A 285 ASP SER GLY GLN THR VAL MET GLU LEU ASP MET SER LYS SEQRES 11 A 285 PHE ASP GLU VAL MET ARG VAL ASN THR ARG GLY THR ALA SEQRES 12 A 285 ALA CYS VAL LYS GLN ALA ALA ARG LYS MET VAL GLU LEU SEQRES 13 A 285 GLY THR ARG GLY GLY ALA ILE ILE CYS THR SER SER PRO SEQRES 14 A 285 LEU ALA THR ARG GLY GLY HIS VAL ASP THR ASP TYR VAL SEQRES 15 A 285 MET SER LYS HIS ALA VAL LEU GLY LEU VAL ARG SER ALA SEQRES 16 A 285 SER MET GLN LEU GLY ALA HIS GLY ILE ARG VAL ASN SER SEQRES 17 A 285 VAL SER PRO MET ALA VAL LEU THR PRO LEU THR ARG ARG SEQRES 18 A 285 MET GLY LEU ALA THR PRO ALA ASP VAL GLU ASN ALA LEU SEQRES 19 A 285 GLY ARG PHE THR SER LEU LYS GLY VAL ALA LEU THR ALA SEQRES 20 A 285 GLU HIS VAL ALA GLU ALA ALA ALA PHE LEU ALA SER ASP SEQRES 21 A 285 GLU ALA ALA PHE ILE THR GLY HIS ASP LEU VAL VAL ASP SEQRES 22 A 285 GLY GLY LEU LEU CYS LEU PRO PHE ALA ALA HIS SER SEQRES 1 B 285 MET ALA HIS HIS HIS HIS HIS HIS SER SER GLY LEU GLU SEQRES 2 B 285 VAL LEU PHE GLN GLY PRO GLY HIS LYS LYS LYS LEU GLU SEQRES 3 B 285 GLY LYS VAL ALA ILE VAL THR GLY GLY ALA SER GLY ILE SEQRES 4 B 285 GLY GLU THR ALA ALA ARG ILE PHE ALA ASP HIS GLY ALA SEQRES 5 B 285 ARG ALA VAL VAL ILE ALA ASP ILE GLN SER GLU LEU GLY SEQRES 6 B 285 ARG MET VAL ALA GLU SER ILE GLY ALA LYS ARG CYS SER SEQRES 7 B 285 TYR VAL GLN CYS ASP ILE ALA ASP GLU GLU GLN VAL LYS SEQRES 8 B 285 SER ALA VAL GLU TRP THR ALA THR THR TYR GLY GLY LEU SEQRES 9 B 285 ASP VAL MET PHE CYS ASN ALA GLY ILE MET SER HIS SER SEQRES 10 B 285 ASP SER GLY GLN THR VAL MET GLU LEU ASP MET SER LYS SEQRES 11 B 285 PHE ASP GLU VAL MET ARG VAL ASN THR ARG GLY THR ALA SEQRES 12 B 285 ALA CYS VAL LYS GLN ALA ALA ARG LYS MET VAL GLU LEU SEQRES 13 B 285 GLY THR ARG GLY GLY ALA ILE ILE CYS THR SER SER PRO SEQRES 14 B 285 LEU ALA THR ARG GLY GLY HIS VAL ASP THR ASP TYR VAL SEQRES 15 B 285 MET SER LYS HIS ALA VAL LEU GLY LEU VAL ARG SER ALA SEQRES 16 B 285 SER MET GLN LEU GLY ALA HIS GLY ILE ARG VAL ASN SER SEQRES 17 B 285 VAL SER PRO MET ALA VAL LEU THR PRO LEU THR ARG ARG SEQRES 18 B 285 MET GLY LEU ALA THR PRO ALA ASP VAL GLU ASN ALA LEU SEQRES 19 B 285 GLY ARG PHE THR SER LEU LYS GLY VAL ALA LEU THR ALA SEQRES 20 B 285 GLU HIS VAL ALA GLU ALA ALA ALA PHE LEU ALA SER ASP SEQRES 21 B 285 GLU ALA ALA PHE ILE THR GLY HIS ASP LEU VAL VAL ASP SEQRES 22 B 285 GLY GLY LEU LEU CYS LEU PRO PHE ALA ALA HIS SER SEQRES 1 C 285 MET ALA HIS HIS HIS HIS HIS HIS SER SER GLY LEU GLU SEQRES 2 C 285 VAL LEU PHE GLN GLY PRO GLY HIS LYS LYS LYS LEU GLU SEQRES 3 C 285 GLY LYS VAL ALA ILE VAL THR GLY GLY ALA SER GLY ILE SEQRES 4 C 285 GLY GLU THR ALA ALA ARG ILE PHE ALA ASP HIS GLY ALA SEQRES 5 C 285 ARG ALA VAL VAL ILE ALA ASP ILE GLN SER GLU LEU GLY SEQRES 6 C 285 ARG MET VAL ALA GLU SER ILE GLY ALA LYS ARG CYS SER SEQRES 7 C 285 TYR VAL GLN CYS ASP ILE ALA ASP GLU GLU GLN VAL LYS SEQRES 8 C 285 SER ALA VAL GLU TRP THR ALA THR THR TYR GLY GLY LEU SEQRES 9 C 285 ASP VAL MET PHE CYS ASN ALA GLY ILE MET SER HIS SER SEQRES 10 C 285 ASP SER GLY GLN THR VAL MET GLU LEU ASP MET SER LYS SEQRES 11 C 285 PHE ASP GLU VAL MET ARG VAL ASN THR ARG GLY THR ALA SEQRES 12 C 285 ALA CYS VAL LYS GLN ALA ALA ARG LYS MET VAL GLU LEU SEQRES 13 C 285 GLY THR ARG GLY GLY ALA ILE ILE CYS THR SER SER PRO SEQRES 14 C 285 LEU ALA THR ARG GLY GLY HIS VAL ASP THR ASP TYR VAL SEQRES 15 C 285 MET SER LYS HIS ALA VAL LEU GLY LEU VAL ARG SER ALA SEQRES 16 C 285 SER MET GLN LEU GLY ALA HIS GLY ILE ARG VAL ASN SER SEQRES 17 C 285 VAL SER PRO MET ALA VAL LEU THR PRO LEU THR ARG ARG SEQRES 18 C 285 MET GLY LEU ALA THR PRO ALA ASP VAL GLU ASN ALA LEU SEQRES 19 C 285 GLY ARG PHE THR SER LEU LYS GLY VAL ALA LEU THR ALA SEQRES 20 C 285 GLU HIS VAL ALA GLU ALA ALA ALA PHE LEU ALA SER ASP SEQRES 21 C 285 GLU ALA ALA PHE ILE THR GLY HIS ASP LEU VAL VAL ASP SEQRES 22 C 285 GLY GLY LEU LEU CYS LEU PRO PHE ALA ALA HIS SER SEQRES 1 D 285 MET ALA HIS HIS HIS HIS HIS HIS SER SER GLY LEU GLU SEQRES 2 D 285 VAL LEU PHE GLN GLY PRO GLY HIS LYS LYS LYS LEU GLU SEQRES 3 D 285 GLY LYS VAL ALA ILE VAL THR GLY GLY ALA SER GLY ILE SEQRES 4 D 285 GLY GLU THR ALA ALA ARG ILE PHE ALA ASP HIS GLY ALA SEQRES 5 D 285 ARG ALA VAL VAL ILE ALA ASP ILE GLN SER GLU LEU GLY SEQRES 6 D 285 ARG MET VAL ALA GLU SER ILE GLY ALA LYS ARG CYS SER SEQRES 7 D 285 TYR VAL GLN CYS ASP ILE ALA ASP GLU GLU GLN VAL LYS SEQRES 8 D 285 SER ALA VAL GLU TRP THR ALA THR THR TYR GLY GLY LEU SEQRES 9 D 285 ASP VAL MET PHE CYS ASN ALA GLY ILE MET SER HIS SER SEQRES 10 D 285 ASP SER GLY GLN THR VAL MET GLU LEU ASP MET SER LYS SEQRES 11 D 285 PHE ASP GLU VAL MET ARG VAL ASN THR ARG GLY THR ALA SEQRES 12 D 285 ALA CYS VAL LYS GLN ALA ALA ARG LYS MET VAL GLU LEU SEQRES 13 D 285 GLY THR ARG GLY GLY ALA ILE ILE CYS THR SER SER PRO SEQRES 14 D 285 LEU ALA THR ARG GLY GLY HIS VAL ASP THR ASP TYR VAL SEQRES 15 D 285 MET SER LYS HIS ALA VAL LEU GLY LEU VAL ARG SER ALA SEQRES 16 D 285 SER MET GLN LEU GLY ALA HIS GLY ILE ARG VAL ASN SER SEQRES 17 D 285 VAL SER PRO MET ALA VAL LEU THR PRO LEU THR ARG ARG SEQRES 18 D 285 MET GLY LEU ALA THR PRO ALA ASP VAL GLU ASN ALA LEU SEQRES 19 D 285 GLY ARG PHE THR SER LEU LYS GLY VAL ALA LEU THR ALA SEQRES 20 D 285 GLU HIS VAL ALA GLU ALA ALA ALA PHE LEU ALA SER ASP SEQRES 21 D 285 GLU ALA ALA PHE ILE THR GLY HIS ASP LEU VAL VAL ASP SEQRES 22 D 285 GLY GLY LEU LEU CYS LEU PRO PHE ALA ALA HIS SER HET NAD A 301 69 HET NAD B 301 70 HET NAD C 301 70 HET NAD D 301 70 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE FORMUL 5 NAD 4(C21 H27 N7 O14 P2) FORMUL 9 HOH *538(H2 O) HELIX 1 AA1 SER A 37 HIS A 50 1 14 HELIX 2 AA2 GLN A 61 GLY A 73 1 13 HELIX 3 AA3 ASP A 86 GLY A 102 1 17 HELIX 4 AA4 ASP A 127 THR A 139 1 13 HELIX 5 AA5 THR A 139 GLY A 157 1 19 HELIX 6 AA6 SER A 168 THR A 172 5 5 HELIX 7 AA7 ASP A 178 GLY A 200 1 23 HELIX 8 AA8 ALA A 201 GLY A 203 5 3 HELIX 9 AA9 THR A 216 MET A 222 1 7 HELIX 10 AB1 THR A 226 GLY A 235 1 10 HELIX 11 AB2 ARG A 236 THR A 238 5 3 HELIX 12 AB3 THR A 246 SER A 259 1 14 HELIX 13 AB4 ASP A 260 ALA A 263 5 4 HELIX 14 AB5 SER B 37 HIS B 50 1 14 HELIX 15 AB6 GLN B 61 GLY B 73 1 13 HELIX 16 AB7 ASP B 86 GLY B 102 1 17 HELIX 17 AB8 ASP B 127 THR B 139 1 13 HELIX 18 AB9 THR B 139 GLY B 157 1 19 HELIX 19 AC1 SER B 168 THR B 172 5 5 HELIX 20 AC2 ASP B 178 GLY B 200 1 23 HELIX 21 AC3 ALA B 201 GLY B 203 5 3 HELIX 22 AC4 THR B 216 MET B 222 1 7 HELIX 23 AC5 THR B 226 GLY B 235 1 10 HELIX 24 AC6 ARG B 236 THR B 238 5 3 HELIX 25 AC7 THR B 246 SER B 259 1 14 HELIX 26 AC8 ASP B 260 ALA B 263 5 4 HELIX 27 AC9 SER C 37 HIS C 50 1 14 HELIX 28 AD1 GLN C 61 ALA C 74 1 14 HELIX 29 AD2 ASP C 86 GLY C 102 1 17 HELIX 30 AD3 ASP C 127 THR C 139 1 13 HELIX 31 AD4 THR C 139 GLY C 157 1 19 HELIX 32 AD5 SER C 168 THR C 172 5 5 HELIX 33 AD6 ASP C 178 GLY C 200 1 23 HELIX 34 AD7 ALA C 201 GLY C 203 5 3 HELIX 35 AD8 THR C 216 GLY C 223 1 8 HELIX 36 AD9 THR C 226 GLY C 235 1 10 HELIX 37 AE1 ARG C 236 THR C 238 5 3 HELIX 38 AE2 THR C 246 SER C 259 1 14 HELIX 39 AE3 ASP C 260 ALA C 263 5 4 HELIX 40 AE4 SER D 37 HIS D 50 1 14 HELIX 41 AE5 GLN D 61 GLY D 73 1 13 HELIX 42 AE6 ASP D 86 GLY D 102 1 17 HELIX 43 AE7 ASP D 127 THR D 139 1 13 HELIX 44 AE8 THR D 139 GLY D 157 1 19 HELIX 45 AE9 SER D 168 THR D 172 5 5 HELIX 46 AF1 ASP D 178 GLY D 200 1 23 HELIX 47 AF2 ALA D 201 GLY D 203 5 3 HELIX 48 AF3 THR D 216 MET D 222 1 7 HELIX 49 AF4 THR D 226 GLY D 235 1 10 HELIX 50 AF5 ARG D 236 THR D 238 5 3 HELIX 51 AF6 THR D 246 SER D 259 1 14 HELIX 52 AF7 ASP D 260 ALA D 263 5 4 SHEET 1 AA1 7 CYS A 77 GLN A 81 0 SHEET 2 AA1 7 ALA A 54 ASP A 59 1 N ILE A 57 O VAL A 80 SHEET 3 AA1 7 VAL A 29 THR A 33 1 N ALA A 30 O VAL A 56 SHEET 4 AA1 7 VAL A 106 CYS A 109 1 O PHE A 108 N ILE A 31 SHEET 5 AA1 7 ALA A 162 THR A 166 1 O ILE A 164 N CYS A 109 SHEET 6 AA1 7 ARG A 205 PRO A 211 1 O ARG A 205 N ILE A 163 SHEET 7 AA1 7 ASP A 269 VAL A 272 1 O LEU A 270 N SER A 208 SHEET 1 AA2 7 CYS B 77 GLN B 81 0 SHEET 2 AA2 7 ALA B 54 ASP B 59 1 N ILE B 57 O SER B 78 SHEET 3 AA2 7 VAL B 29 THR B 33 1 N VAL B 32 O VAL B 56 SHEET 4 AA2 7 VAL B 106 CYS B 109 1 O PHE B 108 N ILE B 31 SHEET 5 AA2 7 ALA B 162 THR B 166 1 O ILE B 164 N CYS B 109 SHEET 6 AA2 7 ARG B 205 PRO B 211 1 O ARG B 205 N ILE B 163 SHEET 7 AA2 7 ASP B 269 VAL B 272 1 O LEU B 270 N SER B 208 SHEET 1 AA3 7 CYS C 77 GLN C 81 0 SHEET 2 AA3 7 ALA C 54 ASP C 59 1 N ILE C 57 O VAL C 80 SHEET 3 AA3 7 VAL C 29 THR C 33 1 N ALA C 30 O VAL C 56 SHEET 4 AA3 7 VAL C 106 CYS C 109 1 O PHE C 108 N ILE C 31 SHEET 5 AA3 7 ALA C 162 THR C 166 1 O ILE C 164 N MET C 107 SHEET 6 AA3 7 ARG C 205 PRO C 211 1 O ARG C 205 N ILE C 163 SHEET 7 AA3 7 ASP C 269 VAL C 272 1 O LEU C 270 N SER C 208 SHEET 1 AA4 7 CYS D 77 GLN D 81 0 SHEET 2 AA4 7 ALA D 54 ASP D 59 1 N ILE D 57 O SER D 78 SHEET 3 AA4 7 VAL D 29 THR D 33 1 N VAL D 32 O VAL D 56 SHEET 4 AA4 7 VAL D 106 CYS D 109 1 O PHE D 108 N ILE D 31 SHEET 5 AA4 7 ALA D 162 THR D 166 1 O ILE D 164 N CYS D 109 SHEET 6 AA4 7 ARG D 205 PRO D 211 1 O ARG D 205 N ILE D 163 SHEET 7 AA4 7 ASP D 269 VAL D 272 1 O LEU D 270 N SER D 208 CRYST1 68.753 106.680 142.876 90.00 90.00 90.00 P 21 21 21 16 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 0.014545 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009374 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006999 0.00000