PDB Short entry for 1DRA HEADER OXIDOREDUCTASE 06-NOV-91 1DRA TITLE CRYSTAL STRUCTURE OF UNLIGANDED ESCHERICHIA COLI DIHYDROFOLATE TITLE 2 REDUCTASE. LIGAND-INDUCED CONFORMATIONAL CHANGES AND COOPERATIVITY IN TITLE 3 BINDING COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROFOLATE REDUCTASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.5.1.3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562 KEYWDS OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.J.OATLEY,J.KRAUT REVDAT 4 07-FEB-24 1DRA 1 REMARK SEQADV LINK REVDAT 3 29-NOV-17 1DRA 1 HELIX REVDAT 2 24-FEB-09 1DRA 1 VERSN REVDAT 1 31-JAN-94 1DRA 0 JRNL AUTH C.BYSTROFF,J.KRAUT JRNL TITL CRYSTAL STRUCTURE OF UNLIGANDED ESCHERICHIA COLI JRNL TITL 2 DIHYDROFOLATE REDUCTASE. LIGAND-INDUCED CONFORMATIONAL JRNL TITL 3 CHANGES AND COOPERATIVITY IN BINDING. JRNL REF BIOCHEMISTRY V. 30 2227 1991 JRNL REFN ISSN 0006-2960 JRNL PMID 1998681 JRNL DOI 10.1021/BI00222A028 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.BYSTROFF,S.J.OATLEY,J.KRAUT REMARK 1 TITL CRYSTAL STRUCTURES OF ESCHERICHIA COLI DIHYDROFOLATE REMARK 1 TITL 2 REDUCTASE: THE NADP+ HOLOENZYME AND THE FOLATE NADP+ TERNARY REMARK 1 TITL 3 COMPLEX. SUBSTRATE BINDING AND A MODEL FOR THE TRANSITION REMARK 1 TITL 4 STATE REMARK 1 REF BIOCHEMISTRY V. 29 3263 1990 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 2 REMARK 1 AUTH J.F.DAVIES II,T.J.DELCAMP,N.J.PRENDERGAST,V.A.ASHFORD, REMARK 1 AUTH 2 J.H.FREISHEIM,J.KRAUT REMARK 1 TITL CRYSTAL STRUCTURES OF RECOMBINANT HUMAN DIHYDROFOLATE REMARK 1 TITL 2 REDUCTASE COMPLEXED WITH FOLATE AND 5-DEAZAFOLATE REMARK 1 REF BIOCHEMISTRY V. 29 9467 1990 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 3 REMARK 1 AUTH E.E.HOWELL,J.E.VILLAFRANCA,M.S.WARREN,S.J.OATLEY,J.KRAUT REMARK 1 TITL FUNCTIONAL ROLE OF ASPARTIC ACID-27 IN DIHYDROFOLATE REMARK 1 TITL 2 REDUCTASE REVEALED BY MUTAGENESIS REMARK 1 REF SCIENCE V. 231 1123 1986 REMARK 1 REFN ISSN 0036-8075 REMARK 1 REFERENCE 4 REMARK 1 AUTH J.T.BOLIN,D.J.FILMAN,D.A.MATTHEWS,R.C.HAMLIN,J.KRAUT REMARK 1 TITL CRYSTAL STRUCTURES OF ESCHERICHIA COLI AND LACTOBACILLUS REMARK 1 TITL 2 CASEI DIHYDROFOLATE REDUCTASE REFINED AT 1.7 ANGSTROMS REMARK 1 TITL 3 RESOLUTION. I. GENERAL FEATURES AND BINDING OF METHOTREXATE REMARK 1 REF J.BIOL.CHEM. V. 257 13650 1982 REMARK 1 REFN ISSN 0021-9258 REMARK 1 REFERENCE 5 REMARK 1 AUTH D.J.FILMAN,J.T.BOLIN,D.A.MATTHEWS,J.KRAUT REMARK 1 TITL CRYSTAL STRUCTURES OF ESCHERICHIA COLI AND LACTOBACILLUS REMARK 1 TITL 2 CASEI DIHYDROFOLATE REDUCTASE REFINED AT 1.7 ANGSTROMS REMARK 1 TITL 3 RESOLUTION. II. ENVIRONMENT OF BOUND NADPH AND IMPLICATIONS REMARK 1 TITL 4 FOR CATALYSIS REMARK 1 REF J.BIOL.CHEM. V. 257 13663 1982 REMARK 1 REFN ISSN 0021-9258 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROLSQ REMARK 3 AUTHORS : KONNERT,HENDRICKSON REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 5.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 26188 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.153 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2510 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 69 REMARK 3 SOLVENT ATOMS : 426 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.013 ; 0.015 REMARK 3 ANGLE DISTANCE (A) : 0.032 ; 0.027 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.040 ; 0.040 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.012 ; 0.015 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.210 ; 0.200 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.197 ; 0.500 REMARK 3 MULTIPLE TORSION (A) : 0.224 ; 0.500 REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : 0.206 ; 0.500 REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : 5.800 ; 10.000 REMARK 3 STAGGERED (DEGREES) : 17.400; 15.000 REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.286 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.434 ; 3.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.122 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.025 ; 3.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 DURING THE REFINEMENT THE CALCIUM ION (DESIGNATED CA) AND REMARK 3 THE TWO CHLORIDE IONS (DESIGNATED CL) WERE MODELED AS REMARK 3 OXYGEN ATOMS. REMARK 4 REMARK 4 1DRA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000172902. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.55 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 24.68667 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 49.37333 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 37.03000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 61.71667 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 12.34333 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 300 REMARK: THE TRANSFORMATION PRESENTED ON *MTRIX* RECORDS BELOW WILL REMARK 300 YIELD APPROXIMATE COORDINATES FOR CHAIN *A* WHEN APPLIED TO REMARK 300 CHAIN *B*. 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 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 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 PRO A 66 CB CG CD REMARK 470 THR A 68 OG1 CG2 REMARK 470 LYS A 76 CG CD CE NZ REMARK 470 LYS A 106 CE NZ REMARK 470 GLU A 129 CD OE1 OE2 REMARK 470 ASP A 131 CG OD1 OD2 REMARK 470 ARG A 159 CD NE CZ NH1 NH2 REMARK 470 GLU B 129 CD OE1 OE2 REMARK 470 ASP B 131 CG OD1 OD2 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 PRO A 130 O TRP A 133 2.03 REMARK 500 O HOH A 456 O HOH A 478 2.18 REMARK 500 OE1 GLU B 134 O HOH B 681 2.18 REMARK 500 O HOH A 413 O HOH A 584 2.18 REMARK 500 O HOH B 637 O HOH B 811 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 OD2 ASP B 70 O HOH B 799 5564 1.98 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 12 CD - NE - CZ ANGL. DEV. = 15.9 DEGREES REMARK 500 ARG A 12 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 GLU A 80 OE1 - CD - OE2 ANGL. DEV. = 8.3 DEGREES REMARK 500 GLN A 108 CB - CA - C ANGL. DEV. = 12.0 DEGREES REMARK 500 GLN A 108 CA - CB - CG ANGL. DEV. = 15.7 DEGREES REMARK 500 ARG A 158 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG B 12 CD - NE - CZ ANGL. DEV. = 11.9 DEGREES REMARK 500 ARG B 12 NE - CZ - NH1 ANGL. DEV. = -5.8 DEGREES REMARK 500 ARG B 12 NE - CZ - NH2 ANGL. DEV. = 7.1 DEGREES REMARK 500 ASP B 37 CB - CG - OD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 ARG B 52 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 LYS B 109 CA - CB - CG ANGL. DEV. = 13.4 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 GLU A 17 -51.40 -143.33 REMARK 500 PRO A 130 4.96 -50.47 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 ARG A 44 0.16 SIDE CHAIN REMARK 500 ARG A 98 0.23 SIDE CHAIN REMARK 500 ARG B 12 0.22 SIDE CHAIN REMARK 500 ARG B 33 0.09 SIDE CHAIN REMARK 500 ARG B 98 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLN A 65 17.57 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 CA B 620 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 489 O REMARK 620 2 SER B 135 O 93.6 REMARK 620 3 HOH B 664 O 85.9 88.0 REMARK 620 4 HOH B 665 O 92.6 170.4 85.2 REMARK 620 5 HOH B 667 O 176.4 86.7 90.6 86.7 REMARK 620 6 HOH B 680 O 89.9 99.5 171.6 87.8 93.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: APT REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: ANM REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: AAB REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: AGL REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: BPT REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: BNM REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: BAB REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: BGL REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: NULL REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 620 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTX A 161 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTX B 361 DBREF 1DRA A 1 159 UNP P0ABQ4 DYR_ECOLI 1 159 DBREF 1DRA B 1 159 UNP P0ABQ4 DYR_ECOLI 1 159 SEQADV 1DRA GLU A 27 UNP P0ABQ4 ASP 27 CONFLICT SEQADV 1DRA ASP A 37 UNP P0ABQ4 ASN 37 CONFLICT SEQADV 1DRA GLU B 27 UNP P0ABQ4 ASP 27 CONFLICT SEQADV 1DRA ASP B 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 GLU 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 SEQRES 1 B 159 MET ILE SER LEU ILE ALA ALA LEU ALA VAL ASP ARG VAL SEQRES 2 B 159 ILE GLY MET GLU ASN ALA MET PRO TRP ASN LEU PRO ALA SEQRES 3 B 159 GLU LEU ALA TRP PHE LYS ARG ASN THR LEU ASP LYS PRO SEQRES 4 B 159 VAL ILE MET GLY ARG HIS THR TRP GLU SER ILE GLY ARG SEQRES 5 B 159 PRO LEU PRO GLY ARG LYS ASN ILE ILE LEU SER SER GLN SEQRES 6 B 159 PRO GLY THR ASP ASP ARG VAL THR TRP VAL LYS SER VAL SEQRES 7 B 159 ASP GLU ALA ILE ALA ALA CYS GLY ASP VAL PRO GLU ILE SEQRES 8 B 159 MET VAL ILE GLY GLY GLY ARG VAL TYR GLU GLN PHE LEU SEQRES 9 B 159 PRO LYS ALA GLN LYS LEU TYR LEU THR HIS ILE ASP ALA SEQRES 10 B 159 GLU VAL GLU GLY ASP THR HIS PHE PRO ASP TYR GLU PRO SEQRES 11 B 159 ASP ASP TRP GLU SER VAL PHE SER GLU PHE HIS ASP ALA SEQRES 12 B 159 ASP ALA GLN ASN SER HIS SER TYR CYS PHE GLU ILE LEU SEQRES 13 B 159 GLU ARG ARG HET CL A 401 1 HET MTX A 161 33 HET CL B 605 1 HET CA B 620 1 HET MTX B 361 33 HETNAM CL CHLORIDE ION HETNAM MTX METHOTREXATE HETNAM CA CALCIUM ION FORMUL 3 CL 2(CL 1-) FORMUL 4 MTX 2(C20 H22 N8 O5) FORMUL 6 CA CA 2+ FORMUL 8 HOH *426(H2 O) HELIX 1 HBA LEU A 24 THR A 35 1 12 HELIX 2 HCA GLY A 43 ILE A 50 1 8 HELIX 3 HEA SER A 77 GLY A 86 1 10 HELIX 4 HFA GLY A 96 LEU A 104 1 9 HELIX 5 HBB LEU B 24 THR B 35 1 12 HELIX 6 HCB GLY B 43 ILE B 50 1 8 HELIX 7 HEB SER B 77 GLY B 86 1 10 HELIX 8 HFB GLY B 96 LEU B 104 1 9 SHEET 1 S1A 8 THR A 73 VAL A 75 0 SHEET 2 S1A 8 LYS A 58 SER A 63 1 O ASN A 59 N THR A 73 SHEET 3 S1A 8 PRO A 39 GLY A 43 1 N VAL A 40 O LYS A 58 SHEET 4 S1A 8 ILE A 91 GLY A 95 1 N MET A 92 O PRO A 39 SHEET 5 S1A 8 MET A 1 LEU A 8 1 O MET A 1 N ILE A 91 SHEET 6 S1A 8 GLN A 108 ASP A 116 1 O LYS A 109 N LEU A 4 SHEET 7 S1A 8 SER A 150 ARG A 159 -1 N ARG A 158 O GLN A 108 SHEET 8 S1A 8 ASP A 132 HIS A 141 -1 N GLU A 134 O GLU A 157 SHEET 1 S1B 8 THR B 73 VAL B 75 0 SHEET 2 S1B 8 LYS B 58 SER B 63 1 O ASN B 59 N THR B 73 SHEET 3 S1B 8 PRO B 39 GLY B 43 1 N VAL B 40 O LYS B 58 SHEET 4 S1B 8 PRO B 89 GLY B 95 1 N MET B 92 O PRO B 39 SHEET 5 S1B 8 MET B 1 LEU B 8 1 O MET B 1 N ILE B 91 SHEET 6 S1B 8 GLN B 108 ASP B 116 1 O LYS B 109 N LEU B 4 SHEET 7 S1B 8 SER B 150 ARG B 159 -1 N ARG B 158 O GLN B 108 SHEET 8 S1B 8 ASP B 132 HIS B 141 -1 N GLU B 134 O GLU B 157 LINK O HOH A 489 CA CA B 620 2665 1555 2.42 LINK O SER B 135 CA CA B 620 1555 1555 2.27 LINK CA CA B 620 O HOH B 664 1555 1555 2.36 LINK CA CA B 620 O HOH B 665 1555 2665 2.37 LINK CA CA B 620 O HOH B 667 1555 2665 2.44 LINK CA CA B 620 O HOH B 680 1555 1555 2.32 CISPEP 1 GLY A 95 GLY A 96 0 2.68 CISPEP 2 GLY B 95 GLY B 96 0 2.56 SITE 1 APT 12 ILE A 5 ALA A 6 ALA A 7 TRP A 22 SITE 2 APT 12 GLU A 27 LEU A 28 PHE A 31 ILE A 94 SITE 3 APT 12 THR A 113 HOH A 403 HOH A 405 HOH A 411 SITE 1 ANM 1 SER A 49 SITE 1 AAB 5 LEU A 28 PHE A 31 ILE A 50 ARG A 52 SITE 2 AAB 5 LEU A 54 SITE 1 AGL 5 LEU A 28 PHE A 31 LYS A 32 LEU A 54 SITE 2 AGL 5 ARG A 57 SITE 1 BPT 12 ILE B 5 ALA B 6 ALA B 7 TRP B 22 SITE 2 BPT 12 GLU B 27 LEU B 28 PHE B 31 ILE B 94 SITE 3 BPT 12 THR B 113 HOH B 628 HOH B 629 HOH B 661 SITE 1 BNM 1 SER B 49 SITE 1 BAB 5 LEU B 28 PHE B 31 ILE B 50 ARG B 52 SITE 2 BAB 5 LEU B 54 SITE 1 BGL 5 LEU B 28 PHE B 31 LYS B 32 LEU B 54 SITE 2 BGL 5 ARG B 57 SITE 1 AC1 5 GLY A 43 HIS A 45 THR A 46 GLY A 96 SITE 2 AC1 5 HOH A 613 SITE 1 AC2 5 GLY B 43 HIS B 45 THR B 46 GLY B 96 SITE 2 AC2 5 HOH B 748 SITE 1 AC3 6 HOH A 489 SER B 135 HOH B 664 HOH B 665 SITE 2 AC3 6 HOH B 667 HOH B 680 SITE 1 AC4 16 ILE A 5 ALA A 6 GLU A 27 PHE A 31 SITE 2 AC4 16 LYS A 32 SER A 49 ILE A 50 ARG A 52 SITE 3 AC4 16 ARG A 57 ILE A 94 TYR A 100 THR A 113 SITE 4 AC4 16 HOH A 405 HOH A 502 HOH A 535 HOH A 538 SITE 1 AC5 13 ILE B 5 ALA B 6 GLU B 27 PHE B 31 SITE 2 AC5 13 LYS B 32 ILE B 50 ARG B 52 ARG B 57 SITE 3 AC5 13 ILE B 94 TYR B 100 HOH B 661 HOH B 722 SITE 4 AC5 13 HOH B 787 CRYST1 92.790 92.790 74.060 90.00 90.00 120.00 P 61 12 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 0.010777 0.006222 0.000000 0.00000 SCALE2 0.000000 0.012444 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013503 0.00000 MTRIX1 1 -0.925670 -0.371800 0.070020 59.28485 1 MTRIX2 1 -0.329490 0.701250 -0.632210 47.33741 1 MTRIX3 1 0.185960 -0.608290 -0.771630 96.52642 1