PDB Short entry for 7D4X HEADER OXIDOREDUCTASE 24-SEP-20 7D4X TITLE X-RAY CRYSTAL STRUCTURE OF E.COLI DIHYDROFOLATE REDUCTASE COMPLEXED TITLE 2 WITH FOLATE AND NADP+ AT PH7.0 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROFOLATE REDUCTASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.5.1.3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI (STRAIN K12); SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: FOLA, TMRA, B0048, JW0047; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET-SUMO KEYWDS DIHYDROFOLATE, REDUCTASE, ALPHA-BETA SANDIWITCH, NADPH, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION NUMMDL 54 AUTHOR Q.WAN,C.DEALWIS REVDAT 2 29-NOV-23 7D4X 1 REMARK REVDAT 1 09-JUN-21 7D4X 0 JRNL AUTH Q.WAN,B.C.BENNETT,T.WYMORE,Z.LI,M.A.WILSON,C.L.BROOKS III, JRNL AUTH 2 P.LANGAN,A.KOVALEVSKY,C.G.DEALWIS JRNL TITL CAPTURING THE CATALYTIC PROTON OF DIHYDROFOLATE REDUCTASE: JRNL TITL 2 IMPLICATIONS FOR GENERAL ACID-BASE CATALYSIS JRNL REF ACS CATALYSIS V. 11 5873 2021 JRNL REFN ESSN 2155-5435 JRNL DOI 10.1021/ACSCATAL.1C00417 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.ENSEMBLE_REFINEMENT:1.13RC2_2986) 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.41 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 20751 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.150 REMARK 3 FREE R VALUE TEST SET COUNT : 1068 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 3.1968 - 2.5380 1.00 2538 139 0.1678 0.2007 REMARK 3 2 2.5380 - 2.2173 0.99 2508 119 0.1536 0.1912 REMARK 3 3 2.2173 - 2.0147 0.98 2444 135 0.1444 0.2230 REMARK 3 4 2.0147 - 1.8703 0.97 2410 146 0.1434 0.2009 REMARK 3 5 1.8703 - 1.7600 0.97 2392 139 0.1580 0.1768 REMARK 3 6 1.7600 - 1.6719 0.96 2374 126 0.1661 0.2354 REMARK 3 7 1.6719 - 1.5991 0.94 2316 142 0.1790 0.2508 REMARK 3 8 1.6720 - 1.5990 1.00 2701 122 0.1511 0.1527 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) : 0.120 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.900 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 7D4X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-SEP-20. REMARK 100 THE DEPOSITION ID IS D_1300018751. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-AUG-14 REMARK 200 TEMPERATURE (KELVIN) : 291 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5 REMARK 200 MONOCHROMATOR : CHOPPER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20795 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.599 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.09700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 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) : 0.44600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.970 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: 1RX2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.75 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.15 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40MG/ML DHFR-FOLATE-NADP+ COMPLEX, 12% REMARK 280 (V/V) PEG 400, 100MM MNCL2, 20MM IMIDAZOLE, PH7.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K 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 17.14650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.48700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 22.81250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.48700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 17.14650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 22.81250 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 8220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 1.0 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 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 31 CYS A 152 CB CYS A 152 SG 0.235 REMARK 500 42 CYS A 152 CB CYS A 152 SG 0.107 REMARK 500 44 TRP A 22 CB TRP A 22 CG 0.131 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 3 ASP A 127 CB - CG - OD1 ANGL. DEV. = -5.5 DEGREES REMARK 500 7 LEU A 8 CA - CB - CG ANGL. DEV. = 14.8 DEGREES REMARK 500 9 ARG A 12 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 10 CYS A 152 CA - CB - SG ANGL. DEV. = -14.6 DEGREES REMARK 500 17 ARG A 12 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 17 ARG A 12 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 20 CYS A 152 CA - CB - SG ANGL. DEV. = 7.6 DEGREES REMARK 500 21 ARG A 12 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 21 ARG A 12 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 28 LEU A 4 CA - CB - CG ANGL. DEV. = 14.2 DEGREES REMARK 500 31 LEU A 4 CA - CB - CG ANGL. DEV. = 15.8 DEGREES REMARK 500 33 CYS A 152 CA - CB - SG ANGL. DEV. = 7.0 DEGREES REMARK 500 40 TRP A 22 CA - CB - CG ANGL. DEV. = 12.5 DEGREES REMARK 500 41 LEU A 28 CA - CB - CG ANGL. DEV. = 17.6 DEGREES REMARK 500 42 CYS A 152 CA - CB - SG ANGL. DEV. = 11.1 DEGREES REMARK 500 43 TRP A 22 CA - CB - CG ANGL. DEV. = 15.5 DEGREES REMARK 500 48 CYS A 152 CA - CB - SG ANGL. DEV. = 7.8 DEGREES REMARK 500 51 PRO A 130 C - N - CD ANGL. DEV. = -13.8 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 1 GLU A 17 14.15 50.70 REMARK 500 1 ASN A 18 36.18 95.38 REMARK 500 1 MET A 20 67.79 -104.08 REMARK 500 1 ASN A 23 66.26 -102.53 REMARK 500 1 ASP A 69 114.45 -168.97 REMARK 500 1 LYS A 106 37.33 -86.54 REMARK 500 1 VAL A 119 48.85 -148.98 REMARK 500 1 GLU A 120 71.21 9.87 REMARK 500 1 TYR A 128 173.50 -56.61 REMARK 500 1 PHE A 137 129.95 -172.18 REMARK 500 2 ARG A 12 28.03 39.61 REMARK 500 2 ASN A 18 88.83 37.90 REMARK 500 2 PRO A 21 -106.08 -93.58 REMARK 500 2 TRP A 22 156.61 -42.10 REMARK 500 2 LEU A 24 99.70 -50.08 REMARK 500 2 ARG A 52 144.64 171.42 REMARK 500 2 ASP A 69 108.48 -164.86 REMARK 500 2 GLU A 120 69.76 67.14 REMARK 500 2 ASP A 144 -152.39 -145.87 REMARK 500 3 MET A 16 -119.53 -133.23 REMARK 500 3 ASP A 69 116.05 -164.95 REMARK 500 3 GLU A 120 137.76 60.97 REMARK 500 3 TYR A 128 -150.28 -77.21 REMARK 500 3 VAL A 136 -78.26 -91.27 REMARK 500 3 GLU A 139 105.95 -166.89 REMARK 500 3 ASP A 144 -162.84 -116.10 REMARK 500 4 TRP A 22 179.17 -54.91 REMARK 500 4 ASP A 69 109.15 -173.52 REMARK 500 4 ASP A 87 57.36 -96.16 REMARK 500 4 GLU A 120 -145.13 42.73 REMARK 500 4 ASP A 127 121.91 -29.21 REMARK 500 4 SER A 138 -142.39 -113.70 REMARK 500 4 GLU A 139 101.66 124.86 REMARK 500 4 ALA A 145 -2.82 -59.65 REMARK 500 5 ASP A 87 82.86 -67.39 REMARK 500 5 PRO A 89 -78.39 -64.22 REMARK 500 5 GLU A 120 100.40 60.96 REMARK 500 5 ASP A 122 -37.93 -156.43 REMARK 500 5 ASP A 127 132.18 77.19 REMARK 500 6 TRP A 22 -147.77 -126.82 REMARK 500 6 ASN A 23 75.21 178.30 REMARK 500 6 ASP A 87 68.74 -108.65 REMARK 500 6 VAL A 119 -55.59 -123.32 REMARK 500 6 GLU A 120 97.03 50.60 REMARK 500 6 ASP A 127 -151.69 110.87 REMARK 500 6 GLU A 129 108.55 -59.44 REMARK 500 6 PHE A 137 129.47 -175.29 REMARK 500 6 ALA A 145 2.83 -69.19 REMARK 500 7 ASN A 18 13.87 87.09 REMARK 500 7 ASP A 37 -2.07 69.60 REMARK 500 REMARK 500 THIS ENTRY HAS 442 RAMACHANDRAN OUTLIERS. 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 VAL A 88 PRO A 89 6 -140.35 REMARK 500 PRO A 130 ASP A 131 8 131.94 REMARK 500 MET A 20 PRO A 21 10 147.95 REMARK 500 ASP A 127 TYR A 128 10 -147.80 REMARK 500 CYS A 152 PHE A 153 10 138.11 REMARK 500 TYR A 128 GLU A 129 11 -119.14 REMARK 500 PRO A 21 TRP A 22 13 -137.65 REMARK 500 TYR A 128 GLU A 129 15 126.21 REMARK 500 TYR A 128 GLU A 129 16 127.31 REMARK 500 ASP A 87 VAL A 88 17 -142.44 REMARK 500 PRO A 126 ASP A 127 19 -133.62 REMARK 500 TRP A 22 ASN A 23 20 139.83 REMARK 500 GLU A 129 PRO A 130 20 -149.16 REMARK 500 PRO A 21 TRP A 22 22 -149.68 REMARK 500 MET A 20 PRO A 21 23 140.68 REMARK 500 TRP A 22 ASN A 23 24 135.22 REMARK 500 GLU A 118 VAL A 119 25 148.89 REMARK 500 ASN A 23 LEU A 24 27 148.57 REMARK 500 SER A 49 ILE A 50 27 123.90 REMARK 500 GLU A 17 ASN A 18 28 143.33 REMARK 500 MET A 20 PRO A 21 28 -143.92 REMARK 500 PRO A 21 TRP A 22 30 144.26 REMARK 500 SER A 49 ILE A 50 31 -147.38 REMARK 500 GLU A 17 ASN A 18 32 -149.23 REMARK 500 ASN A 18 ALA A 19 36 -145.54 REMARK 500 ASP A 122 THR A 123 40 144.36 REMARK 500 ASP A 122 THR A 123 41 149.29 REMARK 500 MET A 16 GLU A 17 42 143.51 REMARK 500 TRP A 22 ASN A 23 43 142.29 REMARK 500 MET A 16 GLU A 17 44 144.84 REMARK 500 MET A 16 GLU A 17 45 148.11 REMARK 500 ALA A 19 MET A 20 45 -143.33 REMARK 500 MET A 20 PRO A 21 45 141.07 REMARK 500 GLU A 17 ASN A 18 47 146.60 REMARK 500 PRO A 21 TRP A 22 48 138.10 REMARK 500 TRP A 22 ASN A 23 48 149.85 REMARK 500 HIS A 141 ASP A 142 48 147.13 REMARK 500 ASN A 23 LEU A 24 49 -147.39 REMARK 500 ASN A 23 LEU A 24 50 -127.68 REMARK 500 GLU A 118 VAL A 119 50 141.59 REMARK 500 TYR A 128 GLU A 129 50 -145.22 REMARK 500 ASN A 23 LEU A 24 51 -130.23 REMARK 500 GLU A 129 PRO A 130 51 146.21 REMARK 500 LEU A 24 PRO A 25 52 -144.83 REMARK 500 TYR A 128 GLU A 129 52 128.81 REMARK 500 MET A 20 PRO A 21 53 -144.19 REMARK 500 LEU A 24 PRO A 25 53 -148.63 REMARK 500 PRO A 25 ALA A 26 53 -149.85 REMARK 500 GLU A 129 PRO A 130 53 -145.08 REMARK 500 MET A 16 GLU A 17 54 -126.68 REMARK 500 REMARK 500 THIS ENTRY HAS 54 NON CIS, NON-TRANS OMEGA OUTLIERS. 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 362 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH A 373 DISTANCE = 5.95 ANGSTROMS REMARK 525 HOH A 369 DISTANCE = 5.94 ANGSTROMS REMARK 525 HOH A 357 DISTANCE = 6.66 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FOL A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAP A 202 DBREF 7D4X A 1 159 UNP P0ABQ4 DYR_ECOLI 1 159 SEQADV 7D4X ASP A 37 UNP P0ABQ4 ASN 37 CONFLICT SEQRES 1 A 159 MET ILE SER LEU ILE ALA ALA LEU ALA VAL ASP ARG VAL SEQRES 2 A 159 ILE GLY MET GLU ASN ALA MET PRO TRP ASN LEU PRO ALA SEQRES 3 A 159 ASP LEU ALA TRP PHE LYS ARG ASN THR LEU ASP LYS PRO SEQRES 4 A 159 VAL ILE MET GLY ARG HIS THR TRP GLU SER ILE GLY ARG SEQRES 5 A 159 PRO LEU PRO GLY ARG LYS ASN ILE ILE LEU SER SER GLN SEQRES 6 A 159 PRO GLY THR ASP ASP ARG VAL THR TRP VAL LYS SER VAL SEQRES 7 A 159 ASP GLU ALA ILE ALA ALA CYS GLY ASP VAL PRO GLU ILE SEQRES 8 A 159 MET VAL ILE GLY GLY GLY ARG VAL TYR GLU GLN PHE LEU SEQRES 9 A 159 PRO LYS ALA GLN LYS LEU TYR LEU THR HIS ILE ASP ALA SEQRES 10 A 159 GLU VAL GLU GLY ASP THR HIS PHE PRO ASP TYR GLU PRO SEQRES 11 A 159 ASP ASP TRP GLU SER VAL PHE SER GLU PHE HIS ASP ALA SEQRES 12 A 159 ASP ALA GLN ASN SER HIS SER TYR CYS PHE GLU ILE LEU SEQRES 13 A 159 GLU ARG ARG HET FOL A 201 32 HET NAP A 202 48 HETNAM FOL FOLIC ACID HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE FORMUL 2 FOL C19 H19 N7 O6 FORMUL 3 NAP C21 H28 N7 O17 P3 FORMUL 4 HOH *68(H2 O) HELIX 1 AA1 ALA A 9 ASP A 11 5 3 HELIX 2 AA2 LEU A 24 LEU A 36 1 13 HELIX 3 AA3 ARG A 44 GLY A 51 1 8 HELIX 4 AA4 SER A 77 CYS A 85 1 9 HELIX 5 AA5 GLY A 96 LEU A 104 1 9 HELIX 6 AA6 GLU A 129 ASP A 131 5 3 SHEET 1 AA1 8 THR A 73 VAL A 75 0 SHEET 2 AA1 8 LYS A 58 LEU A 62 1 N ILE A 61 O THR A 73 SHEET 3 AA1 8 PRO A 39 GLY A 43 1 N VAL A 40 O LYS A 58 SHEET 4 AA1 8 ILE A 91 VAL A 93 1 O MET A 92 N ILE A 41 SHEET 5 AA1 8 ILE A 2 LEU A 8 1 N SER A 3 O ILE A 91 SHEET 6 AA1 8 LYS A 109 ILE A 115 1 O THR A 113 N LEU A 8 SHEET 7 AA1 8 TYR A 151 ARG A 158 -1 O LEU A 156 N LEU A 110 SHEET 8 AA1 8 TRP A 133 HIS A 141 -1 N HIS A 141 O TYR A 151 SHEET 1 AA2 2 VAL A 13 GLY A 15 0 SHEET 2 AA2 2 THR A 123 HIS A 124 -1 O THR A 123 N ILE A 14 CISPEP 1 GLY A 95 GLY A 96 1 1.54 CISPEP 2 GLY A 95 GLY A 96 2 5.43 CISPEP 3 GLY A 95 GLY A 96 3 3.77 CISPEP 4 GLY A 95 GLY A 96 4 13.23 CISPEP 5 GLY A 95 GLY A 96 5 7.11 CISPEP 6 GLY A 95 GLY A 96 6 6.86 CISPEP 7 GLY A 95 GLY A 96 7 7.26 CISPEP 8 GLY A 95 GLY A 96 8 -0.42 CISPEP 9 GLY A 95 GLY A 96 9 5.53 CISPEP 10 GLY A 95 GLY A 96 10 6.10 CISPEP 11 GLY A 95 GLY A 96 11 5.01 CISPEP 12 GLY A 95 GLY A 96 12 6.56 CISPEP 13 GLY A 95 GLY A 96 13 6.35 CISPEP 14 GLY A 95 GLY A 96 14 9.52 CISPEP 15 GLY A 95 GLY A 96 15 -0.78 CISPEP 16 GLY A 95 GLY A 96 16 5.98 CISPEP 17 GLY A 95 GLY A 96 17 3.10 CISPEP 18 GLY A 95 GLY A 96 18 6.98 CISPEP 19 GLY A 95 GLY A 96 19 6.95 CISPEP 20 GLY A 95 GLY A 96 20 7.39 CISPEP 21 GLY A 95 GLY A 96 21 2.81 CISPEP 22 GLY A 95 GLY A 96 22 6.12 CISPEP 23 GLY A 95 GLY A 96 23 3.46 CISPEP 24 GLY A 95 GLY A 96 24 6.39 CISPEP 25 GLY A 95 GLY A 96 25 5.31 CISPEP 26 GLY A 95 GLY A 96 26 4.54 CISPEP 27 GLY A 95 GLY A 96 27 4.10 CISPEP 28 GLY A 95 GLY A 96 28 6.16 CISPEP 29 GLY A 95 GLY A 96 29 7.97 CISPEP 30 GLY A 95 GLY A 96 30 4.08 CISPEP 31 GLY A 95 GLY A 96 31 3.43 CISPEP 32 GLY A 95 GLY A 96 32 2.53 CISPEP 33 GLY A 95 GLY A 96 33 5.98 CISPEP 34 GLY A 95 GLY A 96 34 5.30 CISPEP 35 GLY A 95 GLY A 96 35 4.53 CISPEP 36 GLY A 95 GLY A 96 36 4.99 CISPEP 37 GLY A 95 GLY A 96 37 6.00 CISPEP 38 GLY A 95 GLY A 96 38 6.68 CISPEP 39 GLY A 95 GLY A 96 39 1.27 CISPEP 40 GLY A 95 GLY A 96 40 3.65 CISPEP 41 GLY A 95 GLY A 96 41 2.05 CISPEP 42 GLY A 95 GLY A 96 42 5.06 CISPEP 43 GLY A 95 GLY A 96 43 -0.25 CISPEP 44 GLY A 95 GLY A 96 44 4.98 CISPEP 45 GLY A 95 GLY A 96 45 10.12 CISPEP 46 GLY A 95 GLY A 96 46 8.33 CISPEP 47 GLY A 95 GLY A 96 47 5.41 CISPEP 48 GLY A 95 GLY A 96 48 5.22 CISPEP 49 GLY A 95 GLY A 96 49 7.59 CISPEP 50 GLY A 95 GLY A 96 50 5.16 CISPEP 51 GLY A 95 GLY A 96 51 6.37 CISPEP 52 GLY A 95 GLY A 96 52 -1.18 CISPEP 53 GLY A 95 GLY A 96 53 1.59 CISPEP 54 GLY A 95 GLY A 96 54 3.26 SITE 1 AC1 15 ILE A 5 ALA A 6 ALA A 7 ASP A 27 SITE 2 AC1 15 LEU A 28 PHE A 31 LYS A 32 LEU A 54 SITE 3 AC1 15 ARG A 57 ILE A 94 TYR A 100 THR A 113 SITE 4 AC1 15 NAP A 202 HOH A 310 HOH A 333 SITE 1 AC2 28 ALA A 6 ALA A 7 ILE A 14 GLY A 15 SITE 2 AC2 28 ASN A 18 ALA A 19 GLY A 43 ARG A 44 SITE 3 AC2 28 HIS A 45 THR A 46 LEU A 62 SER A 63 SITE 4 AC2 28 SER A 64 LYS A 76 ILE A 94 GLY A 96 SITE 5 AC2 28 GLY A 97 ARG A 98 VAL A 99 TYR A 100 SITE 6 AC2 28 GLN A 102 ASP A 131 FOL A 201 HOH A 311 SITE 7 AC2 28 HOH A 313 HOH A 314 HOH A 321 HOH A 340 CRYST1 34.293 45.625 98.974 90.00 90.00 90.00 P 21 21 21 4 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 0.029160 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021918 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010104 0.00000