HEADER ANTIBIOTIC 26-AUG-25 9WHB TITLE CRYSTAL STRUCTURE OF VANH FROM ACINETOBACTER BAUMANNII COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3-PHOSPHOGLYCERATE DEHYDROGENASE; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: HYDROXYACID DEHYDROGENASE; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ACINETOBACTER BAUMANNII; SOURCE 3 ORGANISM_TAXID: 470; SOURCE 4 GENE: B9W25_15455, FPK63_13280, FPK87_14830, FQZ18_09415, SOURCE 5 IAG11_12510; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS METABOLISM, HYDROXYACID DEHYDROGENASE, ANTIBIOTIC EXPDTA X-RAY DIFFRACTION AUTHOR Y.J.KANG,H.H.PARK REVDAT 1 08-JUL-26 9WHB 0 JRNL AUTH J.H.KIM,Y.J.KANG,H.B.JIN,H.H.PARK JRNL TITL STRUCTURE OF VANH FROM ACINETOBACTER BAUMANNII REVEALS JRNL TITL 2 DOMAIN DYNAMICS AND PROVIDES A PLATFORM FOR ANTI-RESISTANCE JRNL TITL 3 DRUG DESIGN. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 794 53041 2026 JRNL REFN ESSN 1090-2104 JRNL PMID 41297518 JRNL DOI 10.1016/J.BBRC.2025.153041 REMARK 2 REMARK 2 RESOLUTION. 2.39 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.17_3644: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.39 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.66 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 52990 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.247 REMARK 3 R VALUE (WORKING SET) : 0.245 REMARK 3 FREE R VALUE : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2650 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 29.6600 - 6.3600 1.00 2892 153 0.2249 0.2434 REMARK 3 2 6.3600 - 5.0500 1.00 2745 145 0.2537 0.2975 REMARK 3 3 5.0500 - 4.4200 1.00 2692 141 0.1918 0.2291 REMARK 3 4 4.4200 - 4.0200 1.00 2670 141 0.2073 0.2567 REMARK 3 5 4.0100 - 3.7300 1.00 2661 140 0.2275 0.2620 REMARK 3 6 3.7300 - 3.5100 1.00 2669 140 0.2408 0.2607 REMARK 3 7 3.5100 - 3.3300 1.00 2642 139 0.2615 0.2468 REMARK 3 8 3.3300 - 3.1900 1.00 2646 140 0.2784 0.3182 REMARK 3 9 3.1900 - 3.0700 1.00 2626 138 0.2956 0.3601 REMARK 3 10 3.0700 - 2.9600 1.00 2616 137 0.2963 0.3177 REMARK 3 11 2.9600 - 2.8700 1.00 2642 140 0.2798 0.3728 REMARK 3 12 2.8700 - 2.7900 1.00 2606 137 0.2868 0.3194 REMARK 3 13 2.7900 - 2.7100 1.00 2620 138 0.2937 0.3676 REMARK 3 14 2.7100 - 2.6500 1.00 2586 136 0.2910 0.3194 REMARK 3 15 2.6500 - 2.5900 1.00 2628 138 0.2790 0.3307 REMARK 3 16 2.5900 - 2.5300 1.00 2607 137 0.2729 0.3232 REMARK 3 17 2.5300 - 2.4800 1.00 2596 137 0.2658 0.3342 REMARK 3 18 2.4800 - 2.4300 1.00 2579 136 0.2704 0.2957 REMARK 3 19 2.4300 - 2.3900 1.00 2617 137 0.2956 0.3494 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) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.490 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 7553 REMARK 3 ANGLE : 1.250 10241 REMARK 3 CHIRALITY : 0.062 1204 REMARK 3 PLANARITY : 0.008 1314 REMARK 3 DIHEDRAL : 10.835 999 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 9WHB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-AUG-25. REMARK 100 THE DEPOSITION ID IS D_1300063018. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-NOV-22 REMARK 200 TEMPERATURE (KELVIN) : 125 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PAL/PLS REMARK 200 BEAMLINE : 5C (4A) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 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 REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 53001 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.390 REMARK 200 RESOLUTION RANGE LOW (A) : 29.660 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 26.90 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 29.7200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.39 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.48 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.8M LITHIUM SULFATE MONOHYDRATE 0.05M REMARK 280 SODIUM CACODYLATE TRIHYDRATE PH 6.0 0.01M MAGNESIUM SULFATE REMARK 280 HEPTAHYDRATE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.15K 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 118.62500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 52.31500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 52.31500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 177.93750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 52.31500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 52.31500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 59.31250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 52.31500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 52.31500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 177.93750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 52.31500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 52.31500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 59.31250 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 118.62500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 4830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 4820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C 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 GLY A 76 REMARK 465 VAL A 77 REMARK 465 GLY A 78 REMARK 465 GLU A 264 REMARK 465 SER A 325 REMARK 465 MET B 1 REMARK 465 LYS B 2 REMARK 465 ARG B 3 REMARK 465 LYS B 4 REMARK 465 VAL B 5 REMARK 465 LEU B 6 REMARK 465 LYS B 36 REMARK 465 GLU B 264 REMARK 465 SER B 325 REMARK 465 MET C 1 REMARK 465 GLU C 264 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 HIS A 283 CG ND1 CD2 CE1 NE2 REMARK 470 TRP A 320 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 320 CZ3 CH2 REMARK 470 VAL B 98 CG1 CG2 REMARK 470 HIS B 283 CG ND1 CD2 CE1 NE2 REMARK 470 TRP B 320 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 320 CZ3 CH2 REMARK 470 HIS C 283 CG ND1 CD2 CE1 NE2 REMARK 470 TRP C 320 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP C 320 CZ3 CH2 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 HIS A 190 O HOH A 401 1.80 REMARK 500 O GLN B 47 OD1 ASP B 49 1.82 REMARK 500 O HOH A 446 O HOH A 474 1.85 REMARK 500 O SER B 263 O HOH B 401 1.93 REMARK 500 O HOH A 472 O HOH A 481 1.93 REMARK 500 C GLN B 47 OD1 ASP B 49 1.94 REMARK 500 O HOH A 452 O HOH A 475 1.98 REMARK 500 O GLY C 144 O HOH C 401 2.01 REMARK 500 O HOH A 403 O HOH A 475 2.04 REMARK 500 OE2 GLU B 193 NZ LYS B 223 2.09 REMARK 500 OD1 ASN C 293 O HOH C 402 2.11 REMARK 500 N SER A 262 O HOH A 402 2.11 REMARK 500 O HOH A 463 O HOH A 480 2.12 REMARK 500 O HOH B 433 O HOH B 434 2.13 REMARK 500 O HOH A 455 O HOH C 461 2.15 REMARK 500 OD1 ASN B 101 O HOH B 402 2.16 REMARK 500 OD2 ASP B 259 O HOH B 403 2.18 REMARK 500 O PHE A 261 O HOH A 403 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 420 O HOH A 420 7555 1.95 REMARK 500 O HOH A 477 O HOH C 457 6445 2.07 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 A 197 CD GLU A 197 OE1 0.069 REMARK 500 GLU A 197 CD GLU A 197 OE2 0.090 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 ARG A 54 CB - CG - CD ANGL. DEV. = 24.8 DEGREES REMARK 500 ARG A 54 CD - NE - CZ ANGL. DEV. = 16.4 DEGREES REMARK 500 ARG A 54 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 54 NE - CZ - NH2 ANGL. DEV. = -9.0 DEGREES REMARK 500 GLU A 197 CA - CB - CG ANGL. DEV. = 21.2 DEGREES REMARK 500 MET B 34 CA - CB - CG ANGL. DEV. = 12.4 DEGREES REMARK 500 MET B 34 CG - SD - CE ANGL. DEV. = -9.8 DEGREES REMARK 500 ASP B 49 CB - CG - OD1 ANGL. DEV. = -12.9 DEGREES REMARK 500 ASP B 49 CB - CG - OD2 ANGL. DEV. = 7.6 DEGREES REMARK 500 LYS B 213 CD - CE - NZ ANGL. DEV. = 22.2 DEGREES REMARK 500 GLU B 274 CB - CG - CD ANGL. DEV. = -17.5 DEGREES REMARK 500 ARG B 315 CD - NE - CZ ANGL. DEV. = 8.6 DEGREES REMARK 500 ARG B 315 NE - CZ - NH1 ANGL. DEV. = -6.3 DEGREES REMARK 500 ILE B 317 CG1 - CB - CG2 ANGL. DEV. = -15.0 DEGREES REMARK 500 GLU C 222 CA - CB - CG ANGL. DEV. = -19.6 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 TYR A 33 -159.23 -158.31 REMARK 500 LEU A 69 140.77 -173.24 REMARK 500 ALA A 73 56.57 -96.89 REMARK 500 PHE A 176 9.65 58.39 REMARK 500 PRO A 276 -167.48 -79.37 REMARK 500 PRO B 10 47.60 -80.76 REMARK 500 ASP B 24 47.01 -97.28 REMARK 500 LYS B 38 -70.23 -78.95 REMARK 500 PHE B 64 -8.87 79.82 REMARK 500 GLN B 178 -60.28 -96.39 REMARK 500 ASN B 277 30.79 -90.23 REMARK 500 ASN B 308 -57.09 -121.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PRO B 48 ASP B 49 -136.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 GLU A 40 0.07 SIDE CHAIN REMARK 500 ARG B 315 0.12 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF1 9WHB A 1 325 UNP A0A219CAG7_ACIBA DBREF2 9WHB A A0A219CAG7 1 325 DBREF1 9WHB B 1 325 UNP A0A219CAG7_ACIBA DBREF2 9WHB B A0A219CAG7 1 325 DBREF1 9WHB C 1 325 UNP A0A219CAG7_ACIBA DBREF2 9WHB C A0A219CAG7 1 325 SEQRES 1 A 325 MET LYS ARG LYS VAL LEU ILE THR GLY PRO THR LEU THR SEQRES 2 A 325 SER ASP ALA LEU LEU TYR ALA GLN SER HIS ASP ILE GLN SEQRES 3 A 325 LEU ILE PRO THR GLU PRO TYR MET ALA LYS ASP LYS MET SEQRES 4 A 325 GLU LYS LEU ILE HIS ASP GLU GLN PRO ASP ALA ILE ILE SEQRES 5 A 325 VAL ARG THR GLY LYS LEU SER ARG ASP MET ILE PHE ALA SEQRES 6 A 325 SER ASP ASN LEU LYS VAL ILE ALA LYS HIS GLY VAL GLY SEQRES 7 A 325 PHE ASP THR ILE ASP THR GLN ALA ALA ALA GLU ARG LYS SEQRES 8 A 325 ILE PRO VAL THR ILE ALA VAL GLY ALA ASN ALA GLN SER SEQRES 9 A 325 VAL ALA GLU HIS ALA PHE ALA LEU MET PHE ASN VAL ALA SEQRES 10 A 325 ARG GLN VAL THR TRP LEU ASP GLN ARG ILE ARG GLU GLY SEQRES 11 A 325 HIS TRP ASP LYS ALA SER ALA ASN GLY VAL GLU LEU TYR SEQRES 12 A 325 GLY LYS THR LEU GLY LEU ILE GLY LEU GLY ALA ILE GLY SEQRES 13 A 325 SER ILE LEU MET LYS LEU VAL ALA PRO LEU ASN MET LYS SEQRES 14 A 325 VAL LYS VAL TYR ASP PRO PHE LEU GLN ASN LEU PRO GLU SEQRES 15 A 325 LEU ASP TYR VAL GLU GLN GLU HIS ASP PHE GLU LYS LEU SEQRES 16 A 325 ILE GLU THR SER ASP ILE ILE SER LEU HIS CYS PRO LEU SEQRES 17 A 325 THR ALA GLU ASN LYS HIS LEU PHE SER HIS SER GLN PHE SEQRES 18 A 325 GLU LYS MET LYS SER SER SER ILE LEU ILE ASN THR ALA SEQRES 19 A 325 ARG GLY GLU LEU ILE ASP GLN ALA ALA LEU VAL ASP ALA SEQRES 20 A 325 LEU LYS ASN ASN LYS ILE ALA GLY ALA GLY LEU ASP THR SEQRES 21 A 325 PHE SER SER GLU PRO PRO GLU LYS ASP ASN PRO LEU TRP SEQRES 22 A 325 GLU LEU PRO ASN LEU VAL VAL THR PRO HIS ILE GLY ALA SEQRES 23 A 325 ASN THR THR ASP SER ARG ASN ARG VAL GLY LEU LEU ALA SEQRES 24 A 325 LEU GLU GLN ILE MET SER ILE TRP ASN GLY GLN LEU LEU SEQRES 25 A 325 ASN PRO ARG ALA ILE ALA ASN TRP LYS LEU LEU ASN SER SEQRES 1 B 325 MET LYS ARG LYS VAL LEU ILE THR GLY PRO THR LEU THR SEQRES 2 B 325 SER ASP ALA LEU LEU TYR ALA GLN SER HIS ASP ILE GLN SEQRES 3 B 325 LEU ILE PRO THR GLU PRO TYR MET ALA LYS ASP LYS MET SEQRES 4 B 325 GLU LYS LEU ILE HIS ASP GLU GLN PRO ASP ALA ILE ILE SEQRES 5 B 325 VAL ARG THR GLY LYS LEU SER ARG ASP MET ILE PHE ALA SEQRES 6 B 325 SER ASP ASN LEU LYS VAL ILE ALA LYS HIS GLY VAL GLY SEQRES 7 B 325 PHE ASP THR ILE ASP THR GLN ALA ALA ALA GLU ARG LYS SEQRES 8 B 325 ILE PRO VAL THR ILE ALA VAL GLY ALA ASN ALA GLN SER SEQRES 9 B 325 VAL ALA GLU HIS ALA PHE ALA LEU MET PHE ASN VAL ALA SEQRES 10 B 325 ARG GLN VAL THR TRP LEU ASP GLN ARG ILE ARG GLU GLY SEQRES 11 B 325 HIS TRP ASP LYS ALA SER ALA ASN GLY VAL GLU LEU TYR SEQRES 12 B 325 GLY LYS THR LEU GLY LEU ILE GLY LEU GLY ALA ILE GLY SEQRES 13 B 325 SER ILE LEU MET LYS LEU VAL ALA PRO LEU ASN MET LYS SEQRES 14 B 325 VAL LYS VAL TYR ASP PRO PHE LEU GLN ASN LEU PRO GLU SEQRES 15 B 325 LEU ASP TYR VAL GLU GLN GLU HIS ASP PHE GLU LYS LEU SEQRES 16 B 325 ILE GLU THR SER ASP ILE ILE SER LEU HIS CYS PRO LEU SEQRES 17 B 325 THR ALA GLU ASN LYS HIS LEU PHE SER HIS SER GLN PHE SEQRES 18 B 325 GLU LYS MET LYS SER SER SER ILE LEU ILE ASN THR ALA SEQRES 19 B 325 ARG GLY GLU LEU ILE ASP GLN ALA ALA LEU VAL ASP ALA SEQRES 20 B 325 LEU LYS ASN ASN LYS ILE ALA GLY ALA GLY LEU ASP THR SEQRES 21 B 325 PHE SER SER GLU PRO PRO GLU LYS ASP ASN PRO LEU TRP SEQRES 22 B 325 GLU LEU PRO ASN LEU VAL VAL THR PRO HIS ILE GLY ALA SEQRES 23 B 325 ASN THR THR ASP SER ARG ASN ARG VAL GLY LEU LEU ALA SEQRES 24 B 325 LEU GLU GLN ILE MET SER ILE TRP ASN GLY GLN LEU LEU SEQRES 25 B 325 ASN PRO ARG ALA ILE ALA ASN TRP LYS LEU LEU ASN SER SEQRES 1 C 325 MET LYS ARG LYS VAL LEU ILE THR GLY PRO THR LEU THR SEQRES 2 C 325 SER ASP ALA LEU LEU TYR ALA GLN SER HIS ASP ILE GLN SEQRES 3 C 325 LEU ILE PRO THR GLU PRO TYR MET ALA LYS ASP LYS MET SEQRES 4 C 325 GLU LYS LEU ILE HIS ASP GLU GLN PRO ASP ALA ILE ILE SEQRES 5 C 325 VAL ARG THR GLY LYS LEU SER ARG ASP MET ILE PHE ALA SEQRES 6 C 325 SER ASP ASN LEU LYS VAL ILE ALA LYS HIS GLY VAL GLY SEQRES 7 C 325 PHE ASP THR ILE ASP THR GLN ALA ALA ALA GLU ARG LYS SEQRES 8 C 325 ILE PRO VAL THR ILE ALA VAL GLY ALA ASN ALA GLN SER SEQRES 9 C 325 VAL ALA GLU HIS ALA PHE ALA LEU MET PHE ASN VAL ALA SEQRES 10 C 325 ARG GLN VAL THR TRP LEU ASP GLN ARG ILE ARG GLU GLY SEQRES 11 C 325 HIS TRP ASP LYS ALA SER ALA ASN GLY VAL GLU LEU TYR SEQRES 12 C 325 GLY LYS THR LEU GLY LEU ILE GLY LEU GLY ALA ILE GLY SEQRES 13 C 325 SER ILE LEU MET LYS LEU VAL ALA PRO LEU ASN MET LYS SEQRES 14 C 325 VAL LYS VAL TYR ASP PRO PHE LEU GLN ASN LEU PRO GLU SEQRES 15 C 325 LEU ASP TYR VAL GLU GLN GLU HIS ASP PHE GLU LYS LEU SEQRES 16 C 325 ILE GLU THR SER ASP ILE ILE SER LEU HIS CYS PRO LEU SEQRES 17 C 325 THR ALA GLU ASN LYS HIS LEU PHE SER HIS SER GLN PHE SEQRES 18 C 325 GLU LYS MET LYS SER SER SER ILE LEU ILE ASN THR ALA SEQRES 19 C 325 ARG GLY GLU LEU ILE ASP GLN ALA ALA LEU VAL ASP ALA SEQRES 20 C 325 LEU LYS ASN ASN LYS ILE ALA GLY ALA GLY LEU ASP THR SEQRES 21 C 325 PHE SER SER GLU PRO PRO GLU LYS ASP ASN PRO LEU TRP SEQRES 22 C 325 GLU LEU PRO ASN LEU VAL VAL THR PRO HIS ILE GLY ALA SEQRES 23 C 325 ASN THR THR ASP SER ARG ASN ARG VAL GLY LEU LEU ALA SEQRES 24 C 325 LEU GLU GLN ILE MET SER ILE TRP ASN GLY GLN LEU LEU SEQRES 25 C 325 ASN PRO ARG ALA ILE ALA ASN TRP LYS LEU LEU ASN SER FORMUL 4 HOH *194(H2 O) HELIX 1 AA1 THR A 13 ASP A 24 1 12 HELIX 2 AA2 MET A 34 ASP A 45 1 12 HELIX 3 AA3 ASP A 83 ARG A 90 1 8 HELIX 4 AA4 ASN A 101 ARG A 118 1 18 HELIX 5 AA5 GLN A 119 GLU A 129 1 11 HELIX 6 AA6 GLY A 153 VAL A 163 1 11 HELIX 7 AA7 ALA A 164 ASN A 167 5 4 HELIX 8 AA8 ASP A 191 SER A 199 1 9 HELIX 9 AA9 SER A 217 MET A 224 1 8 HELIX 10 AB1 ARG A 235 ILE A 239 5 5 HELIX 11 AB2 ASP A 240 ASN A 250 1 11 HELIX 12 AB3 ASN A 270 LEU A 275 5 6 HELIX 13 AB4 THR A 288 GLY A 309 1 22 HELIX 14 AB5 ASN A 319 ASN A 324 5 6 HELIX 15 AB6 TYR B 19 ASP B 24 1 6 HELIX 16 AB7 MET B 39 GLN B 47 1 9 HELIX 17 AB8 ASP B 83 ARG B 90 1 8 HELIX 18 AB9 ASN B 101 ARG B 118 1 18 HELIX 19 AC1 GLN B 119 GLU B 129 1 11 HELIX 20 AC2 GLY B 153 VAL B 163 1 11 HELIX 21 AC3 ALA B 164 ASN B 167 5 4 HELIX 22 AC4 ASP B 191 SER B 199 1 9 HELIX 23 AC5 SER B 217 MET B 224 1 8 HELIX 24 AC6 ARG B 235 ILE B 239 5 5 HELIX 25 AC7 ASP B 240 ASN B 250 1 11 HELIX 26 AC8 ASN B 270 LEU B 275 5 6 HELIX 27 AC9 THR B 288 ASN B 308 1 21 HELIX 28 AD1 LEU B 312 ALA B 316 5 5 HELIX 29 AD2 ALA B 318 LEU B 323 1 6 HELIX 30 AD3 THR C 13 HIS C 23 1 11 HELIX 31 AD4 ALA C 35 GLN C 47 1 13 HELIX 32 AD5 ASP C 83 ARG C 90 1 8 HELIX 33 AD6 ALA C 97 GLN C 119 1 23 HELIX 34 AD7 GLN C 119 GLU C 129 1 11 HELIX 35 AD8 GLY C 153 VAL C 163 1 11 HELIX 36 AD9 ALA C 164 ASN C 167 5 4 HELIX 37 AE1 ASP C 191 SER C 199 1 9 HELIX 38 AE2 SER C 217 MET C 224 1 8 HELIX 39 AE3 ARG C 235 ILE C 239 5 5 HELIX 40 AE4 ASP C 240 ASN C 250 1 11 HELIX 41 AE5 ASN C 270 LEU C 275 5 6 HELIX 42 AE6 THR C 288 ASN C 308 1 21 HELIX 43 AE7 ASN C 313 ILE C 317 5 5 HELIX 44 AE8 ASN C 319 SER C 325 1 7 SHEET 1 AA1 5 GLN A 26 PRO A 29 0 SHEET 2 AA1 5 LYS A 4 ILE A 7 1 N VAL A 5 O GLN A 26 SHEET 3 AA1 5 ASP A 49 ILE A 52 1 O ILE A 51 N LEU A 6 SHEET 4 AA1 5 LEU A 69 ILE A 72 1 O VAL A 71 N ILE A 52 SHEET 5 AA1 5 VAL A 94 THR A 95 1 O THR A 95 N LYS A 70 SHEET 1 AA2 7 VAL A 186 GLN A 188 0 SHEET 2 AA2 7 LYS A 169 TYR A 173 1 N VAL A 170 O GLU A 187 SHEET 3 AA2 7 THR A 146 ILE A 150 1 N LEU A 147 O LYS A 171 SHEET 4 AA2 7 ILE A 201 LEU A 204 1 O ILE A 201 N GLY A 148 SHEET 5 AA2 7 ILE A 229 ASN A 232 1 O ILE A 231 N ILE A 202 SHEET 6 AA2 7 GLY A 255 LEU A 258 1 O GLY A 257 N ASN A 232 SHEET 7 AA2 7 LEU A 278 VAL A 280 1 O VAL A 279 N LEU A 258 SHEET 1 AA3 5 THR B 30 GLU B 31 0 SHEET 2 AA3 5 LEU B 12 SER B 14 1 N SER B 14 O GLU B 31 SHEET 3 AA3 5 ILE B 51 ARG B 54 1 O VAL B 53 N THR B 13 SHEET 4 AA3 5 VAL B 71 LYS B 74 1 O ALA B 73 N ILE B 52 SHEET 5 AA3 5 VAL B 94 THR B 95 1 O THR B 95 N ILE B 72 SHEET 1 AA4 7 VAL B 186 GLN B 188 0 SHEET 2 AA4 7 LYS B 169 TYR B 173 1 N VAL B 172 O GLU B 187 SHEET 3 AA4 7 THR B 146 ILE B 150 1 N LEU B 147 O LYS B 169 SHEET 4 AA4 7 ILE B 201 LEU B 204 1 O ILE B 201 N GLY B 148 SHEET 5 AA4 7 ILE B 229 ASN B 232 1 O ILE B 231 N ILE B 202 SHEET 6 AA4 7 GLY B 255 LEU B 258 1 O GLY B 257 N LEU B 230 SHEET 7 AA4 7 LEU B 278 VAL B 280 1 O VAL B 279 N LEU B 258 SHEET 1 AA5 5 GLN C 26 ILE C 28 0 SHEET 2 AA5 5 LYS C 4 ILE C 7 1 N VAL C 5 O GLN C 26 SHEET 3 AA5 5 ALA C 50 VAL C 53 1 O ILE C 52 N LEU C 6 SHEET 4 AA5 5 VAL C 71 LYS C 74 1 O ALA C 73 N ILE C 51 SHEET 5 AA5 5 VAL C 94 THR C 95 1 O THR C 95 N LYS C 74 SHEET 1 AA6 7 VAL C 186 GLN C 188 0 SHEET 2 AA6 7 LYS C 169 TYR C 173 1 N VAL C 170 O GLU C 187 SHEET 3 AA6 7 THR C 146 ILE C 150 1 N LEU C 147 O LYS C 171 SHEET 4 AA6 7 ILE C 201 LEU C 204 1 O ILE C 201 N GLY C 148 SHEET 5 AA6 7 ILE C 229 ASN C 232 1 O ILE C 231 N ILE C 202 SHEET 6 AA6 7 GLY C 255 LEU C 258 1 O GLY C 257 N ASN C 232 SHEET 7 AA6 7 LEU C 278 VAL C 280 1 O VAL C 279 N LEU C 258 CRYST1 104.630 104.630 237.250 90.00 90.00 90.00 P 43 21 2 24 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 0.009557 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009557 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004215 0.00000 MASTER 440 0 0 44 36 0 0 6 7606 3 0 75 END