HEADER TRANSFERASE 30-JUL-13 4LY0 TITLE CRYSTAL STRUCTURE WLARD, A SUGAR 3N-FORMYL TRANSFERASE IN THE PRESENCE TITLE 2 OF DTDP-GLC AND 10-N-FORMYL-THF COMPND MOL_ID: 1; COMPND 2 MOLECULE: WLARD, A SUGAR 3N-FORMYL TRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAMPYLOBACTER JEJUNI SUBSP. JEJUNI; SOURCE 3 ORGANISM_TAXID: 407148; SOURCE 4 STRAIN: 81116; SOURCE 5 GENE: C8J_1081; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA2(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS FORMYLTRANSFERASE, FORMYLATION, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR J.B.THODEN,M.-F.GONEAU,M.GILBERT,H.M.HOLDEN REVDAT 3 20-SEP-23 4LY0 1 REMARK SEQADV REVDAT 2 05-FEB-14 4LY0 1 JRNL REVDAT 1 14-AUG-13 4LY0 0 JRNL AUTH J.B.THODEN,M.F.GONEAU,M.GILBERT,H.M.HOLDEN JRNL TITL STRUCTURE OF A SUGAR N-FORMYLTRANSFERASE FROM CAMPYLOBACTER JRNL TITL 2 JEJUNI. JRNL REF BIOCHEMISTRY V. 52 6114 2013 JRNL REFN ISSN 0006-2960 JRNL PMID 23898784 JRNL DOI 10.1021/BI4009006 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 3 NUMBER OF REFLECTIONS : 91401 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4811 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5459 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 75.55 REMARK 3 BIN R VALUE (WORKING SET) : 0.2960 REMARK 3 BIN FREE R VALUE SET COUNT : 298 REMARK 3 BIN FREE R VALUE : 0.3410 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4498 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 170 REMARK 3 SOLVENT ATOMS : 797 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.26000 REMARK 3 B22 (A**2) : 0.77000 REMARK 3 B33 (A**2) : -0.70000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.28000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.081 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.085 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.058 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.708 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4854 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4659 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6586 ; 2.240 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10738 ; 0.958 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 573 ; 7.532 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 246 ;39.108 ;25.854 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 881 ;13.517 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;15.613 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 731 ; 0.136 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5472 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1174 ; 0.002 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL 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 4LY0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-AUG-13. REMARK 100 THE DEPOSITION ID IS D_1000081227. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAY-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 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 RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MONTEL OPTICS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER PLATINUM 135 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 96212 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.04600 REMARK 200 R SYM (I) : 0.04600 REMARK 200 FOR THE DATA SET : 15.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 79.1 REMARK 200 DATA REDUNDANCY IN SHELL : 1.40 REMARK 200 R MERGE FOR SHELL (I) : 0.30500 REMARK 200 R SYM FOR SHELL (I) : 0.30500 REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 4LXQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 11-15% PEG 8000, 200 MM NACL, 5 MM N5 REMARK 280 -FORMYL-THF, 5 MM TDP, PH 7, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z 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 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 48.32050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.64300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 48.32050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 32.64300 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 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 GLY A -1 REMARK 465 LYS A 271 REMARK 465 LEU A 272 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 421 O HOH A 765 1.72 REMARK 500 O HOH A 746 O HOH A 747 1.89 REMARK 500 O HOH A 743 O HOH A 822 2.00 REMARK 500 O HOH B 678 O HOH B 679 2.01 REMARK 500 O HOH A 755 O HOH A 797 2.01 REMARK 500 O HOH A 702 O HOH A 816 2.02 REMARK 500 O HOH B 524 O HOH B 760 2.02 REMARK 500 O HOH B 436 O HOH B 692 2.03 REMARK 500 O HOH B 642 O HOH B 743 2.04 REMARK 500 O HOH B 643 O HOH B 644 2.05 REMARK 500 O HOH A 672 O HOH B 414 2.08 REMARK 500 O HOH A 567 O HOH A 636 2.08 REMARK 500 O HOH A 599 O HOH A 600 2.10 REMARK 500 O HOH A 819 O HOH B 671 2.10 REMARK 500 O HOH B 723 O HOH B 747 2.10 REMARK 500 O HOH B 515 O HOH B 660 2.13 REMARK 500 OD1 ASN B 174 OG SER B 176 2.14 REMARK 500 O HOH B 771 O HOH B 772 2.14 REMARK 500 OD2 ASP B 54 O HOH B 626 2.16 REMARK 500 O HOH A 705 O HOH A 706 2.16 REMARK 500 O HOH A 644 O HOH A 645 2.16 REMARK 500 O HOH B 712 O HOH B 769 2.17 REMARK 500 O HOH B 511 O HOH B 758 2.17 REMARK 500 O HOH B 708 O HOH B 771 2.19 REMARK 500 O HOH A 779 O HOH A 794 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 642 O HOH A 733 3555 1.93 REMARK 500 O HOH B 688 O HOH B 721 2656 2.07 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 CYS A 141 CA - CB - SG ANGL. DEV. = -11.1 DEGREES REMARK 500 ARG A 151 NE - CZ - NH1 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 215 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ASP B 42 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP B 42 CB - CG - OD2 ANGL. DEV. = -6.8 DEGREES REMARK 500 ASP B 128 CB - CG - OD1 ANGL. DEV. = -6.6 DEGREES REMARK 500 PHE B 208 CB - CG - CD2 ANGL. DEV. = -4.7 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 ASN A 10 -174.16 74.36 REMARK 500 TYR A 24 -54.10 -124.11 REMARK 500 SER A 43 -133.76 -132.91 REMARK 500 SER A 120 -158.24 -134.70 REMARK 500 ASN A 186 -6.53 64.39 REMARK 500 PHE A 219 81.12 -156.50 REMARK 500 TYR A 222 -60.17 -108.36 REMARK 500 ASN A 228 60.08 37.84 REMARK 500 ASN B 10 -177.90 76.14 REMARK 500 TYR B 24 -40.15 -134.94 REMARK 500 SER B 43 -128.32 -129.53 REMARK 500 SER B 43 -129.64 -128.44 REMARK 500 ARG B 91 66.42 -102.11 REMARK 500 ASN B 186 -0.13 66.15 REMARK 500 VAL B 198 78.80 -102.33 REMARK 500 PHE B 219 84.20 -157.40 REMARK 500 TYR B 222 -62.08 -107.91 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1YA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DAU A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1YA B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DAU B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPO B 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4LXQ RELATED DB: PDB REMARK 900 SAME PROTEIN IN COMPLEX WITH DTDP AND 5-N-FORMYL-THF REMARK 900 RELATED ID: 4LXT RELATED DB: PDB REMARK 900 SAME PROTEIN IN COMPLEX WITH DTDP-QUI3N AND 5-N-FORMYL-THF REMARK 900 RELATED ID: 4LXU RELATED DB: PDB REMARK 900 SAME PROTEIN IN COMPLEX WITH DTDP-FUC3N AND 5-N-FORMYL-THF REMARK 900 RELATED ID: 4LXX RELATED DB: PDB REMARK 900 SAME PROTEIN IN COMPLEX WITH DTDP-FUC3NFO AND 5-N-FORMYL-THF REMARK 900 RELATED ID: 4LXY RELATED DB: PDB REMARK 900 SAME PROTEIN IN COMPLEX WITH DTDP AND 10-N-FORMYL-THF REMARK 900 RELATED ID: 4LY3 RELATED DB: PDB DBREF 4LY0 A 1 272 UNP A8FMJ3 A8FMJ3_CAMJ8 1 272 DBREF 4LY0 B 1 272 UNP A8FMJ3 A8FMJ3_CAMJ8 1 272 SEQADV 4LY0 GLY A -1 UNP A8FMJ3 EXPRESSION TAG SEQADV 4LY0 HIS A 0 UNP A8FMJ3 EXPRESSION TAG SEQADV 4LY0 GLY B -1 UNP A8FMJ3 EXPRESSION TAG SEQADV 4LY0 HIS B 0 UNP A8FMJ3 EXPRESSION TAG SEQRES 1 A 274 GLY HIS MET ILE LYS ILE CYS ILE ALA GLY LYS ASN ASN SEQRES 2 A 274 ILE ALA VAL ASN SER LEU GLN PHE ILE LEU LYS ASN TYR SEQRES 3 A 274 PHE GLU ALA ASP GLN ILE VAL VAL ILE PRO ASN LYS ASN SEQRES 4 A 274 ASP LYS GLY ILE ASP SER TRP GLN LYS SER LEU LEU LYS SEQRES 5 A 274 PHE ALA LEU ASP ASN ASN ILE LYS ILE VAL THR LEU ASP SEQRES 6 A 274 GLU ILE TYR ASN ILE GLU GLN ILE ILE PHE PHE SER LEU SEQRES 7 A 274 GLU PHE ASP GLN ILE ILE LYS ILE GLU ASN PHE LYS SER SEQRES 8 A 274 ASP ARG LEU PHE ASN ILE HIS PHE SER ALA LEU PRO LYS SEQRES 9 A 274 TYR LYS GLY VAL PHE THR SER ILE THR PRO ILE LEU ASN SEQRES 10 A 274 ASN GLU LEU GLU SER GLY VAL THR LEU HIS ARG ILE ASP SEQRES 11 A 274 ASN GLY ILE ASP THR GLY ASN ILE ILE ASP GLN HIS CYS SEQRES 12 A 274 PHE PRO ILE ASP ILE ASN ASP THR ALA ARG ASP LEU TYR SEQRES 13 A 274 PHE ASN TYR LEU LYS TYR GLY GLU SER ILE PHE LYS LYS SEQRES 14 A 274 ASN ILE GLN THR ILE ILE ASN ASN SER TYR LYS ASP LEU SEQRES 15 A 274 LYS GLN THR ASN ILE ASN SER SER TYR PHE SER ARG LYS SEQRES 16 A 274 ASP ILE ASN LEU VAL HIS LYS ILE ASN PHE LYS LYS THR SEQRES 17 A 274 SER PHE GLU ILE HIS ASN GLN ILE ARG ALA PHE ILE PHE SEQRES 18 A 274 GLN GLU TYR GLN LEU PRO ILE ILE ASN ASN SER LYS ILE SEQRES 19 A 274 ILE LYS SER ILE LEU ALA ASN GLU PHE ILE GLY TYR ASN SEQRES 20 A 274 VAL PHE GLU GLU PHE GLU ASN TYR PHE ILE ILE SER GLY SEQRES 21 A 274 ILE ASP GLY PHE LYS ILE ILE ALA GLN LYS LEU ASN LYS SEQRES 22 A 274 LEU SEQRES 1 B 274 GLY HIS MET ILE LYS ILE CYS ILE ALA GLY LYS ASN ASN SEQRES 2 B 274 ILE ALA VAL ASN SER LEU GLN PHE ILE LEU LYS ASN TYR SEQRES 3 B 274 PHE GLU ALA ASP GLN ILE VAL VAL ILE PRO ASN LYS ASN SEQRES 4 B 274 ASP LYS GLY ILE ASP SER TRP GLN LYS SER LEU LEU LYS SEQRES 5 B 274 PHE ALA LEU ASP ASN ASN ILE LYS ILE VAL THR LEU ASP SEQRES 6 B 274 GLU ILE TYR ASN ILE GLU GLN ILE ILE PHE PHE SER LEU SEQRES 7 B 274 GLU PHE ASP GLN ILE ILE LYS ILE GLU ASN PHE LYS SER SEQRES 8 B 274 ASP ARG LEU PHE ASN ILE HIS PHE SER ALA LEU PRO LYS SEQRES 9 B 274 TYR LYS GLY VAL PHE THR SER ILE THR PRO ILE LEU ASN SEQRES 10 B 274 ASN GLU LEU GLU SER GLY VAL THR LEU HIS ARG ILE ASP SEQRES 11 B 274 ASN GLY ILE ASP THR GLY ASN ILE ILE ASP GLN HIS CYS SEQRES 12 B 274 PHE PRO ILE ASP ILE ASN ASP THR ALA ARG ASP LEU TYR SEQRES 13 B 274 PHE ASN TYR LEU LYS TYR GLY GLU SER ILE PHE LYS LYS SEQRES 14 B 274 ASN ILE GLN THR ILE ILE ASN ASN SER TYR LYS ASP LEU SEQRES 15 B 274 LYS GLN THR ASN ILE ASN SER SER TYR PHE SER ARG LYS SEQRES 16 B 274 ASP ILE ASN LEU VAL HIS LYS ILE ASN PHE LYS LYS THR SEQRES 17 B 274 SER PHE GLU ILE HIS ASN GLN ILE ARG ALA PHE ILE PHE SEQRES 18 B 274 GLN GLU TYR GLN LEU PRO ILE ILE ASN ASN SER LYS ILE SEQRES 19 B 274 ILE LYS SER ILE LEU ALA ASN GLU PHE ILE GLY TYR ASN SEQRES 20 B 274 VAL PHE GLU GLU PHE GLU ASN TYR PHE ILE ILE SER GLY SEQRES 21 B 274 ILE ASP GLY PHE LYS ILE ILE ALA GLN LYS LEU ASN LYS SEQRES 22 B 274 LEU HET 1YA A 301 34 HET DAU A 302 36 HET MPO A 303 13 HET EDO A 304 4 HET 1YA B 301 34 HET DAU B 302 36 HET MPO B 303 13 HETNAM 1YA N-{4-[{[(6S)-2-AMINO-4-OXO-3,4,5,6,7,8- HETNAM 2 1YA HEXAHYDROPTERIDIN-6-YL]METHYL}(FORMYL)AMINO]BENZOYL}- HETNAM 3 1YA L-GLUTAMIC ACID HETNAM DAU 2'DEOXY-THYMIDINE-5'-DIPHOSPHO-ALPHA-D-GLUCOSE HETNAM MPO 3[N-MORPHOLINO]PROPANE SULFONIC ACID HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 1YA 2(C20 H23 N7 O7) FORMUL 4 DAU 2(C16 H26 N2 O16 P2) FORMUL 5 MPO 2(C7 H15 N O4 S) FORMUL 6 EDO C2 H6 O2 FORMUL 10 HOH *797(H2 O) HELIX 1 1 LYS A 9 TYR A 24 1 16 HELIX 2 2 GLU A 26 ASP A 28 5 3 HELIX 3 3 SER A 47 ASN A 55 1 9 HELIX 4 4 THR A 61 TYR A 66 1 6 HELIX 5 5 LYS A 83 PHE A 87 5 5 HELIX 6 6 ILE A 110 ASN A 115 1 6 HELIX 7 7 THR A 149 ASN A 174 1 26 HELIX 8 8 SER A 191 ILE A 195 5 5 HELIX 9 9 THR A 206 ALA A 216 1 11 HELIX 10 10 LYS B 9 TYR B 24 1 16 HELIX 11 11 GLU B 26 ASP B 28 5 3 HELIX 12 12 SER B 47 ASN B 55 1 9 HELIX 13 13 THR B 61 ILE B 65 5 5 HELIX 14 14 LYS B 83 PHE B 87 5 5 HELIX 15 15 ILE B 110 ASN B 115 1 6 HELIX 16 16 THR B 149 ASN B 174 1 26 HELIX 17 17 SER B 191 ILE B 195 5 5 HELIX 18 18 THR B 206 ALA B 216 1 11 SHEET 1 A 7 LYS A 58 ILE A 59 0 SHEET 2 A 7 ILE A 30 PRO A 34 1 N VAL A 32 O LYS A 58 SHEET 3 A 7 ILE A 4 GLY A 8 1 N ILE A 6 O VAL A 31 SHEET 4 A 7 ILE A 72 LEU A 76 1 O LEU A 76 N ALA A 7 SHEET 5 A 7 LEU A 92 HIS A 96 1 O PHE A 93 N SER A 75 SHEET 6 A 7 GLU A 119 ARG A 126 -1 O THR A 123 N HIS A 96 SHEET 7 A 7 ILE A 136 PRO A 143 -1 O ILE A 137 N LEU A 124 SHEET 1 B 2 LYS A 104 GLY A 105 0 SHEET 2 B 2 TYR A 189 PHE A 190 1 O PHE A 190 N LYS A 104 SHEET 1 C 5 ILE A 226 ILE A 227 0 SHEET 2 C 5 SER A 230 PHE A 241 -1 O SER A 230 N ILE A 227 SHEET 3 C 5 PHE A 262 LYS A 268 -1 O LYS A 263 N ALA A 238 SHEET 4 C 5 TYR A 253 ILE A 256 -1 N ILE A 256 O ILE A 264 SHEET 5 C 5 PHE A 247 GLU A 249 -1 N GLU A 248 O ILE A 255 SHEET 1 D 7 LYS B 58 ILE B 59 0 SHEET 2 D 7 ILE B 30 PRO B 34 1 N VAL B 32 O LYS B 58 SHEET 3 D 7 ILE B 4 GLY B 8 1 N ILE B 6 O VAL B 31 SHEET 4 D 7 ILE B 72 LEU B 76 1 O PHE B 74 N ALA B 7 SHEET 5 D 7 ARG B 91 HIS B 96 1 O PHE B 93 N PHE B 73 SHEET 6 D 7 GLU B 119 ARG B 126 -1 O THR B 123 N HIS B 96 SHEET 7 D 7 ILE B 136 PRO B 143 -1 O ILE B 137 N LEU B 124 SHEET 1 E 2 LYS B 104 GLY B 105 0 SHEET 2 E 2 TYR B 189 PHE B 190 1 O PHE B 190 N LYS B 104 SHEET 1 F 5 ILE B 226 ILE B 227 0 SHEET 2 F 5 SER B 230 PHE B 241 -1 O SER B 230 N ILE B 227 SHEET 3 F 5 PHE B 262 LYS B 268 -1 O LYS B 263 N ALA B 238 SHEET 4 F 5 TYR B 253 ILE B 256 -1 N ILE B 256 O ILE B 264 SHEET 5 F 5 PHE B 247 GLU B 249 -1 N GLU B 248 O ILE B 255 CISPEP 1 LEU A 100 PRO A 101 0 8.46 CISPEP 2 LEU B 100 PRO B 101 0 13.30 SITE 1 AC1 23 SER A 75 PHE A 78 ASP A 79 GLN A 80 SITE 2 AC1 23 ILE A 81 ILE A 82 ASN A 94 VAL A 106 SITE 3 AC1 23 HIS A 125 ILE A 127 ASP A 128 GLY A 130 SITE 4 AC1 23 ASP A 132 SER A 191 ARG A 192 DAU A 302 SITE 5 AC1 23 HOH A 404 HOH A 410 HOH A 450 HOH A 653 SITE 6 AC1 23 HOH A 767 LYS B 204 HOH B 687 SITE 1 AC2 25 LYS A 9 ASN A 35 GLU A 77 PHE A 78 SITE 2 AC2 25 ASP A 79 VAL A 106 PHE A 107 THR A 108 SITE 3 AC2 25 SER A 109 TYR A 154 ARG A 192 LEU A 197 SITE 4 AC2 25 PHE A 219 TYR A 222 GLN A 223 1YA A 301 SITE 5 AC2 25 HOH A 409 HOH A 429 HOH A 450 HOH A 469 SITE 6 AC2 25 HOH A 576 HOH A 615 HOH A 652 HOH A 700 SITE 7 AC2 25 HOH A 742 SITE 1 AC3 7 PHE A 203 ILE A 227 ASN A 228 HOH A 528 SITE 2 AC3 7 HOH A 541 HOH A 709 HOH A 743 SITE 1 AC4 7 ASP A 194 ILE A 195 ASN A 196 HIS A 199 SITE 2 AC4 7 HOH A 697 HOH A 755 HOH A 802 SITE 1 AC5 16 SER B 75 PHE B 78 ASP B 79 GLN B 80 SITE 2 AC5 16 ILE B 81 ILE B 82 ASN B 94 HIS B 125 SITE 3 AC5 16 ILE B 127 ASP B 128 GLY B 130 ASP B 132 SITE 4 AC5 16 DAU B 302 HOH B 405 HOH B 408 HOH B 410 SITE 1 AC6 21 LYS B 9 ASN B 35 GLU B 77 PHE B 78 SITE 2 AC6 21 ASP B 79 VAL B 106 PHE B 107 SER B 109 SITE 3 AC6 21 ARG B 192 LEU B 197 PHE B 219 TYR B 222 SITE 4 AC6 21 GLN B 223 1YA B 301 HOH B 405 HOH B 412 SITE 5 AC6 21 HOH B 417 HOH B 470 HOH B 484 HOH B 507 SITE 6 AC6 21 HOH B 579 SITE 1 AC7 10 PHE B 203 ILE B 227 ASN B 228 PHE B 247 SITE 2 AC7 10 HOH B 446 HOH B 490 HOH B 681 HOH B 682 SITE 3 AC7 10 HOH B 685 HOH B 755 CRYST1 96.641 65.286 135.805 90.00 111.73 90.00 C 1 2 1 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 0.010348 0.000000 0.004125 0.00000 SCALE2 0.000000 0.015317 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007927 0.00000