HEADER PEPTIDE BINDING PROTEIN/ANTIBIOTIC 11-JAN-23 8FSS TITLE COMPLEX STRUCTURE OF YEJA-S481A WITH MICROCIN C7 COMPND MOL_ID: 1; COMPND 2 MOLECULE: YEJA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: MICROCIN C7 PEPTIDE PORTION; COMPND 8 CHAIN: B; COMPND 9 SYNONYM: MCCC7,MICROCIN C51,MCC,MCCC51,MICROCIN C; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: YEJA, B2177, JW2165; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 10 ORGANISM_TAXID: 562 KEYWDS TROJAN HORSE, MICROCIN, PEPTIDE TRANSPORTER, ANTIBIOTIC, PEPTIDE KEYWDS 2 BINDING PROTEIN-ANTIBIOTIC COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.K.NAIK,S.-H.DONG REVDAT 1 07-FEB-24 8FSS 0 JRNL AUTH S.LUO,S.-H.DONG,S.K.NAIR JRNL TITL TROJAN HORSE PEPTIDE CONJUGATES REMODEL THE ACTIVITY JRNL TITL 2 SPECTRUM OF CLINICAL ANTIBIOTICS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 76.55 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 44781 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.219 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 IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.01 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.06 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3277 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.27 REMARK 3 BIN R VALUE (WORKING SET) : 0.2900 REMARK 3 BIN FREE R VALUE SET COUNT : 0 REMARK 3 BIN FREE R VALUE : 0.0000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4724 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 518 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.27 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.07000 REMARK 3 B22 (A**2) : -3.06000 REMARK 3 B33 (A**2) : -2.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.208 REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4901 ; 0.018 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6676 ; 1.862 ; 1.677 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 572 ; 6.497 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 282 ;33.725 ;21.702 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 729 ;16.211 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 37 ;15.953 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 611 ; 0.247 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3805 ; 0.018 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2285 ; 2.880 ; 2.663 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2852 ; 3.193 ; 3.973 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2615 ; 4.585 ; 2.984 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 7706 ; 6.477 ;37.092 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8FSS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JAN-23. REMARK 100 THE DEPOSITION ID IS D_1000271319. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUL-17 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 : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 76964 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 77.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 8.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.01 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.08 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: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 90 MM BIS-TRIS PH 6.5, 15% (W/V) PEG REMARK 280 MME 5000, AND 0.5% (W/V) N-DODECYL-BETA-D-MALTOSIDE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 282.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 45.04450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 51.41700 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 72.19050 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 45.04450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 51.41700 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 72.19050 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 45.04450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 51.41700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 72.19050 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 45.04450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 51.41700 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 72.19050 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -7.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MSE A 1 REMARK 465 GLN A 2 REMARK 465 ALA A 3 REMARK 465 ILE A 4 REMARK 465 LYS A 269 REMARK 465 ASP A 272 REMARK 465 LYS A 273 REMARK 465 LYS A 274 REMARK 465 SER A 580 REMARK 465 ALA A 581 REMARK 465 SER A 582 REMARK 465 LYS A 583 REMARK 465 GLN A 584 REMARK 465 GLY A 585 REMARK 465 GLU A 586 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 GLU A 516 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 972 O HOH A 984 1.81 REMARK 500 O HOH A 1051 O HOH A 1094 1.87 REMARK 500 O HOH A 1095 O HOH A 1105 1.88 REMARK 500 O HOH A 909 O HOH A 995 1.90 REMARK 500 O68 7MO B 101 O HOH B 201 1.94 REMARK 500 O HOH A 1055 O HOH A 1106 1.94 REMARK 500 O HOH A 846 O HOH A 1015 2.00 REMARK 500 NH1 ARG A 17 O HOH A 601 2.01 REMARK 500 O PHE A 271 O HOH A 602 2.02 REMARK 500 O LYS A 358 O HOH A 603 2.06 REMARK 500 O PRO A 579 O HOH A 604 2.07 REMARK 500 O HOH A 786 O HOH A 1066 2.08 REMARK 500 O HOH A 827 O HOH A 1002 2.08 REMARK 500 O HOH A 975 O HOH A 997 2.10 REMARK 500 O HOH A 1001 O HOH A 1063 2.11 REMARK 500 O HOH A 910 O HOH A 1041 2.11 REMARK 500 ND2 ASN A 270 O HOH A 605 2.12 REMARK 500 O HOH A 970 O HOH B 202 2.12 REMARK 500 O HOH A 711 O HOH A 997 2.12 REMARK 500 O HOH A 611 O HOH A 1053 2.12 REMARK 500 O HOH A 1106 O HOH A 1108 2.13 REMARK 500 O HOH B 207 O HOH B 208 2.13 REMARK 500 O HOH A 1005 O HOH A 1087 2.14 REMARK 500 O HOH A 972 O HOH A 1010 2.14 REMARK 500 O HOH A 756 O HOH A 900 2.14 REMARK 500 O HOH A 812 O HOH A 1095 2.15 REMARK 500 O HOH A 1053 O HOH A 1085 2.15 REMARK 500 O HOH A 645 O HOH A 898 2.15 REMARK 500 O HOH A 965 O HOH A 1071 2.18 REMARK 500 N ASN A 270 O HOH A 606 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 927 O HOH A 1026 4556 1.99 REMARK 500 O HOH A 831 O HOH A 1050 6654 2.08 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 FME B 1 C ARG B 2 N 0.211 REMARK 500 ARG B 2 NE ARG B 2 CZ 0.097 REMARK 500 ARG B 2 CZ ARG B 2 NH1 -0.094 REMARK 500 ARG B 2 CZ ARG B 2 NH2 0.089 REMARK 500 THR B 3 N THR B 3 CA -0.126 REMARK 500 ASN B 5 CG ASN B 5 ND2 0.183 REMARK 500 ASN B 5 C ALA B 6 N 0.158 REMARK 500 ALA B 6 C ASP B 7 N 0.235 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 18 46.71 -100.79 REMARK 500 LEU A 83 -94.75 -129.92 REMARK 500 SER A 192 -12.37 -151.61 REMARK 500 GLN A 281 -90.10 -97.20 REMARK 500 LYS A 282 111.07 133.08 REMARK 500 ASN A 332 12.58 -149.17 REMARK 500 MSE A 538 -111.69 -103.33 REMARK 500 ALA A 542 39.76 -82.46 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 A1108 DISTANCE = 6.68 ANGSTROMS REMARK 525 HOH A1109 DISTANCE = 7.96 ANGSTROMS REMARK 525 HOH A1110 DISTANCE = 8.18 ANGSTROMS DBREF 8FSS A 2 586 UNP P33913 YEJA_ECOLI 20 604 DBREF 8FSS B 1 7 UNP Q47505 MCCC7_ECOLX 1 7 SEQADV 8FSS MSE A 1 UNP P33913 INITIATING METHIONINE SEQADV 8FSS ALA A 481 UNP P33913 SER 499 ENGINEERED MUTATION SEQADV 8FSS ASP B 7 UNP Q47505 ASN 7 MODIFIED RESIDUE SEQRES 1 A 586 MSE GLN ALA ILE LYS GLU SER TYR ALA PHE ALA VAL LEU SEQRES 2 A 586 GLY GLU PRO ARG TYR ALA PHE ASN PHE ASN HIS PHE ASP SEQRES 3 A 586 TYR VAL ASN PRO ALA ALA PRO LYS GLY GLY GLN ILE THR SEQRES 4 A 586 LEU SER ALA LEU GLY THR PHE ASP ASN PHE ASN ARG TYR SEQRES 5 A 586 ALA LEU ARG GLY ASN PRO GLY ALA ARG THR GLU GLN LEU SEQRES 6 A 586 TYR ASP THR LEU PHE THR THR SER ASP ASP GLU PRO GLY SEQRES 7 A 586 SER TYR TYR PRO LEU ILE ALA GLU SER ALA ARG TYR ALA SEQRES 8 A 586 ASP ASP TYR SER TRP VAL GLU VAL ALA ILE ASN PRO ARG SEQRES 9 A 586 ALA ARG PHE HIS ASP GLY SER PRO ILE THR ALA ARG ASP SEQRES 10 A 586 VAL GLU PHE THR PHE GLN LYS PHE MSE THR GLU GLY VAL SEQRES 11 A 586 PRO GLN PHE ARG LEU VAL TYR LYS GLY THR THR VAL LYS SEQRES 12 A 586 ALA ILE ALA PRO LEU THR VAL ARG ILE GLU LEU ALA LYS SEQRES 13 A 586 PRO GLY LYS GLU ASP MSE LEU SER LEU PHE SER LEU PRO SEQRES 14 A 586 VAL PHE PRO GLU LYS TYR TRP LYS ASP HIS LYS LEU SER SEQRES 15 A 586 ASP PRO LEU ALA THR PRO PRO LEU ALA SER GLY PRO TYR SEQRES 16 A 586 ARG VAL THR SER TRP LYS MET GLY GLN ASN ILE VAL TYR SEQRES 17 A 586 SER ARG VAL LYS ASP TYR TRP ALA ALA ASN LEU PRO VAL SEQRES 18 A 586 ASN ARG GLY ARG TRP ASN PHE ASP THR ILE ARG TYR ASP SEQRES 19 A 586 TYR TYR LEU ASP ASP ASN VAL ALA PHE GLU ALA PHE LYS SEQRES 20 A 586 ALA GLY ALA PHE ASP LEU ARG MSE GLU ASN ASP ALA LYS SEQRES 21 A 586 ASN TRP ALA THR ARG TYR THR GLY LYS ASN PHE ASP LYS SEQRES 22 A 586 LYS TYR ILE ILE LYS ASP GLU GLN LYS ASN GLU SER ALA SEQRES 23 A 586 GLN ASP THR ARG TRP LEU ALA PHE ASN ILE GLN ARG PRO SEQRES 24 A 586 VAL PHE SER ASP ARG ARG VAL ARG GLU ALA ILE THR LEU SEQRES 25 A 586 ALA PHE ASP PHE GLU TRP MSE ASN LYS ALA LEU PHE TYR SEQRES 26 A 586 ASN ALA TRP SER ARG THR ASN SER TYR PHE GLN ASN THR SEQRES 27 A 586 GLU TYR ALA ALA ARG ASN TYR PRO ASP ALA ALA GLU LEU SEQRES 28 A 586 VAL LEU LEU ALA PRO MET LYS LYS ASP LEU PRO SER GLU SEQRES 29 A 586 VAL PHE THR GLN ILE TYR GLN PRO PRO VAL SER LYS GLY SEQRES 30 A 586 ASP GLY TYR ASP ARG ASP ASN LEU LEU LYS ALA ASP LYS SEQRES 31 A 586 LEU LEU ASN GLU ALA GLY TRP VAL LEU LYS GLY GLN GLN SEQRES 32 A 586 ARG VAL ASN ALA THR THR GLY GLN PRO LEU SER PHE GLU SEQRES 33 A 586 LEU LEU LEU PRO ALA SER SER ASN SER GLN TRP VAL LEU SEQRES 34 A 586 PRO PHE GLN HIS SER LEU GLN ARG LEU GLY ILE ASN MSE SEQRES 35 A 586 ASP ILE ARG LYS VAL ASP ASN SER GLN ILE THR ASN ARG SEQRES 36 A 586 MSE ARG SER ARG ASP TYR ASP MSE MSE PRO ARG VAL TRP SEQRES 37 A 586 ARG ALA MSE PRO TRP PRO SER SER ASP LEU GLN ILE ALA SEQRES 38 A 586 TRP SER SER GLU TYR ILE ASN SER THR TYR ASN ALA PRO SEQRES 39 A 586 GLY VAL GLN SER PRO VAL ILE ASP SER LEU ILE ASN GLN SEQRES 40 A 586 ILE ILE ALA ALA GLN GLY ASN LYS GLU LYS LEU LEU PRO SEQRES 41 A 586 LEU GLY ARG ALA LEU ASP ARG VAL LEU THR TRP ASN TYR SEQRES 42 A 586 TYR MSE LEU PRO MSE TRP TYR MSE ALA GLU ASP ARG LEU SEQRES 43 A 586 ALA TRP TRP ASP LYS PHE SER GLN PRO ALA VAL ARG PRO SEQRES 44 A 586 ILE TYR SER LEU GLY ILE ASP THR TRP TRP TYR ASP VAL SEQRES 45 A 586 ASN LYS ALA ALA LYS LEU PRO SER ALA SER LYS GLN GLY SEQRES 46 A 586 GLU SEQRES 1 B 7 FME ARG THR GLY ASN ALA ASP MODRES 8FSS MSE A 126 MET MODIFIED RESIDUE MODRES 8FSS MSE A 162 MET MODIFIED RESIDUE MODRES 8FSS MSE A 255 MET MODIFIED RESIDUE MODRES 8FSS MSE A 319 MET MODIFIED RESIDUE MODRES 8FSS MSE A 442 MET MODIFIED RESIDUE MODRES 8FSS MSE A 456 MET MODIFIED RESIDUE MODRES 8FSS MSE A 463 MET MODIFIED RESIDUE MODRES 8FSS MSE A 464 MET MODIFIED RESIDUE MODRES 8FSS MSE A 471 MET MODIFIED RESIDUE MODRES 8FSS MSE A 535 MET MODIFIED RESIDUE MODRES 8FSS MSE A 538 MET MODIFIED RESIDUE MODRES 8FSS MSE A 541 MET MODIFIED RESIDUE MODRES 8FSS FME B 1 MET MODIFIED RESIDUE HET MSE A 126 8 HET MSE A 162 8 HET MSE A 255 8 HET MSE A 319 8 HET MSE A 442 8 HET MSE A 456 8 HET MSE A 463 8 HET MSE A 464 8 HET MSE A 471 8 HET MSE A 535 8 HET MSE A 538 8 HET MSE A 541 8 HET FME B 1 10 HET 7MO B 101 27 HETNAM MSE SELENOMETHIONINE HETNAM FME N-FORMYLMETHIONINE HETNAM 7MO 5'-O-[(R)-AMINO(3-AMINOPROPOXY)PHOSPHORYL]ADENOSINE FORMUL 1 MSE 12(C5 H11 N O2 SE) FORMUL 2 FME C6 H11 N O3 S FORMUL 3 7MO C13 H22 N7 O6 P FORMUL 4 HOH *518(H2 O) HELIX 1 AA1 THR A 114 GLY A 129 1 16 HELIX 2 AA2 VAL A 130 TYR A 137 1 8 HELIX 3 AA3 GLY A 158 PHE A 166 1 9 HELIX 4 AA4 PRO A 172 LYS A 177 1 6 HELIX 5 AA5 ASP A 238 ALA A 248 1 11 HELIX 6 AA6 ASP A 258 ARG A 265 1 8 HELIX 7 AA7 ARG A 298 SER A 302 5 5 HELIX 8 AA8 ASP A 303 ALA A 313 1 11 HELIX 9 AA9 ASP A 315 LEU A 323 1 9 HELIX 10 AB1 ASP A 347 ALA A 355 1 9 HELIX 11 AB2 PRO A 356 PRO A 362 5 7 HELIX 12 AB3 SER A 363 GLN A 368 1 6 HELIX 13 AB4 ASP A 381 ALA A 395 1 15 HELIX 14 AB5 TRP A 427 LEU A 438 1 12 HELIX 15 AB6 ASP A 448 ARG A 459 1 12 HELIX 16 AB7 ASP A 477 SER A 483 1 7 HELIX 17 AB8 SER A 484 ILE A 487 5 4 HELIX 18 AB9 SER A 498 ALA A 510 1 13 HELIX 19 AC1 ASN A 514 ASN A 532 1 19 HELIX 20 AC2 GLY A 564 TRP A 568 5 5 HELIX 21 AC3 ASP A 571 ALA A 576 1 6 SHEET 1 AA1 5 GLU A 6 SER A 7 0 SHEET 2 AA1 5 ALA A 85 TYR A 90 -1 O ALA A 88 N SER A 7 SHEET 3 AA1 5 TRP A 96 ILE A 101 -1 O ALA A 100 N GLU A 86 SHEET 4 AA1 5 THR A 149 GLU A 153 -1 O VAL A 150 N VAL A 99 SHEET 5 AA1 5 THR A 141 ALA A 146 -1 N LYS A 143 O ARG A 151 SHEET 1 AA2 3 PHE A 10 ALA A 11 0 SHEET 2 AA2 3 SER A 79 PRO A 82 -1 O TYR A 80 N PHE A 10 SHEET 3 AA2 3 PHE A 70 THR A 72 -1 N THR A 71 O TYR A 81 SHEET 1 AA3 4 GLN A 37 LEU A 43 0 SHEET 2 AA3 4 THR A 230 TYR A 236 1 O ARG A 232 N LEU A 40 SHEET 3 AA3 4 ASN A 205 ARG A 210 -1 N TYR A 208 O ILE A 231 SHEET 4 AA3 4 TYR A 195 LYS A 201 -1 N ARG A 196 O SER A 209 SHEET 1 AA4 3 LEU A 253 MSE A 255 0 SHEET 2 AA4 3 ARG A 545 TRP A 549 -1 O ALA A 547 N ARG A 254 SHEET 3 AA4 3 ILE A 276 GLU A 280 -1 N ILE A 277 O TRP A 548 SHEET 1 AA5 3 MSE A 463 TRP A 468 0 SHEET 2 AA5 3 THR A 289 PHE A 294 -1 N THR A 289 O TRP A 468 SHEET 3 AA5 3 MSE A 535 PRO A 537 -1 O LEU A 536 N LEU A 292 SHEET 1 AA6 2 SER A 329 ARG A 330 0 SHEET 2 AA6 2 TRP A 539 TYR A 540 -1 O TYR A 540 N SER A 329 SHEET 1 AA7 2 TRP A 397 LYS A 400 0 SHEET 2 AA7 2 GLN A 403 ASN A 406 -1 O VAL A 405 N VAL A 398 SHEET 1 AA8 2 SER A 414 PRO A 420 0 SHEET 2 AA8 2 ASN A 441 VAL A 447 1 O ASP A 443 N LEU A 417 SHEET 1 AA9 2 PHE A 552 SER A 553 0 SHEET 2 AA9 2 TRP A 569 TYR A 570 -1 O TRP A 569 N SER A 553 LINK C PHE A 125 N MSE A 126 1555 1555 1.33 LINK C MSE A 126 N THR A 127 1555 1555 1.34 LINK C ASP A 161 N MSE A 162 1555 1555 1.33 LINK C MSE A 162 N LEU A 163 1555 1555 1.34 LINK C ARG A 254 N MSE A 255 1555 1555 1.33 LINK C MSE A 255 N GLU A 256 1555 1555 1.33 LINK C TRP A 318 N MSE A 319 1555 1555 1.33 LINK C MSE A 319 N ASN A 320 1555 1555 1.34 LINK C ASN A 441 N MSE A 442 1555 1555 1.33 LINK C MSE A 442 N ASP A 443 1555 1555 1.34 LINK C ARG A 455 N MSE A 456 1555 1555 1.34 LINK C MSE A 456 N ARG A 457 1555 1555 1.34 LINK C ASP A 462 N MSE A 463 1555 1555 1.32 LINK C MSE A 463 N MSE A 464 1555 1555 1.34 LINK C MSE A 464 N PRO A 465 1555 1555 1.34 LINK C ALA A 470 N MSE A 471 1555 1555 1.33 LINK C MSE A 471 N PRO A 472 1555 1555 1.34 LINK C TYR A 534 N MSE A 535 1555 1555 1.33 LINK C MSE A 535 N LEU A 536 1555 1555 1.33 LINK C PRO A 537 N MSE A 538 1555 1555 1.33 LINK C MSE A 538 N TRP A 539 1555 1555 1.34 LINK C TYR A 540 N MSE A 541 1555 1555 1.33 LINK C MSE A 541 N ALA A 542 1555 1555 1.33 LINK C FME B 1 N ARG B 2 1555 1555 1.55 LINK C ASP B 7 N43 7MO B 101 1555 1555 1.55 CRYST1 90.089 102.834 144.381 90.00 90.00 90.00 I 2 2 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011100 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009724 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006926 0.00000