HEADER BIOSYNTHETIC PROTEIN 15-AUG-15 5D87 TITLE STAPHYLOFERRIN B PRECURSOR BIOSYNTHETIC ENZYME SBNA Y152F/S185G TITLE 2 VARIANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE SIDEROPHORE BIOSYNTHESIS PROTEIN SBNA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 426430; SOURCE 4 STRAIN: NEWMAN; SOURCE 5 GENE: SBNA, NWMN_0060; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS SIDEROPHORE, IRON, PLP, BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.J.KOBYLARZ,J.C.GRIGG,Y.LIU,M.S.F.LEE,D.E.HEINRICHS,M.E.P.MURPHY REVDAT 3 08-JAN-20 5D87 1 JRNL REMARK REVDAT 2 24-FEB-16 5D87 1 JRNL REVDAT 1 03-FEB-16 5D87 0 JRNL AUTH M.J.KOBYLARZ,J.C.GRIGG,Y.LIU,M.S.LEE,D.E.HEINRICHS, JRNL AUTH 2 M.E.MURPHY JRNL TITL DECIPHERING THE SUBSTRATE SPECIFICITY OF SBNA, THE ENZYME JRNL TITL 2 CATALYZING THE FIRST STEP IN STAPHYLOFERRIN B BIOSYNTHESIS. JRNL REF BIOCHEMISTRY V. 55 927 2016 JRNL REFN ISSN 0006-2960 JRNL PMID 26794841 JRNL DOI 10.1021/ACS.BIOCHEM.5B01045 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.4_1496) 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.92 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 46564 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.152 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 2355 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 34.9255 - 3.8554 1.00 2840 149 0.1390 0.1535 REMARK 3 2 3.8554 - 3.0607 1.00 2674 156 0.1377 0.1549 REMARK 3 3 3.0607 - 2.6740 1.00 2650 142 0.1544 0.1718 REMARK 3 4 2.6740 - 2.4296 1.00 2669 124 0.1534 0.1896 REMARK 3 5 2.4296 - 2.2555 1.00 2653 125 0.1493 0.1717 REMARK 3 6 2.2555 - 2.1225 1.00 2644 133 0.1461 0.1767 REMARK 3 7 2.1225 - 2.0162 1.00 2612 145 0.1456 0.1660 REMARK 3 8 2.0162 - 1.9285 1.00 2586 155 0.1520 0.1697 REMARK 3 9 1.9285 - 1.8542 1.00 2607 135 0.1574 0.2073 REMARK 3 10 1.8542 - 1.7903 1.00 2591 141 0.1630 0.1827 REMARK 3 11 1.7903 - 1.7343 1.00 2590 162 0.1622 0.2094 REMARK 3 12 1.7343 - 1.6847 1.00 2645 121 0.1586 0.2151 REMARK 3 13 1.6847 - 1.6404 1.00 2581 124 0.1567 0.2098 REMARK 3 14 1.6404 - 1.6003 1.00 2573 135 0.1537 0.2174 REMARK 3 15 1.6003 - 1.5640 0.97 2519 154 0.1655 0.1875 REMARK 3 16 1.5640 - 1.5307 0.94 2439 134 0.1745 0.2150 REMARK 3 17 1.5307 - 1.5000 0.90 2336 120 0.1851 0.2463 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.500 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.17 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.75 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.009 2675 REMARK 3 ANGLE : 1.221 3649 REMARK 3 CHIRALITY : 0.051 413 REMARK 3 PLANARITY : 0.007 474 REMARK 3 DIHEDRAL : 13.926 1015 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN A AND RESID 6:45 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.8114 -6.2334 -12.7005 REMARK 3 T TENSOR REMARK 3 T11: 0.0918 T22: 0.0853 REMARK 3 T33: 0.0861 T12: -0.0095 REMARK 3 T13: 0.0044 T23: 0.0198 REMARK 3 L TENSOR REMARK 3 L11: 4.4967 L22: 1.9285 REMARK 3 L33: 0.8810 L12: -1.7963 REMARK 3 L13: -0.2929 L23: 0.4291 REMARK 3 S TENSOR REMARK 3 S11: 0.1475 S12: 0.2662 S13: 0.2922 REMARK 3 S21: -0.1685 S22: -0.1304 S23: -0.0234 REMARK 3 S31: -0.0859 S32: -0.0319 S33: 0.0113 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN A AND RESID 46:118 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.7680 -9.1292 -0.2439 REMARK 3 T TENSOR REMARK 3 T11: 0.0433 T22: 0.0410 REMARK 3 T33: 0.0860 T12: 0.0008 REMARK 3 T13: -0.0022 T23: 0.0089 REMARK 3 L TENSOR REMARK 3 L11: 1.8600 L22: 1.9752 REMARK 3 L33: 2.1734 L12: 0.3575 REMARK 3 L13: -0.3737 L23: 0.1381 REMARK 3 S TENSOR REMARK 3 S11: 0.0488 S12: -0.0552 S13: -0.0820 REMARK 3 S21: 0.0859 S22: -0.0567 S23: -0.0288 REMARK 3 S31: -0.0286 S32: 0.0029 S33: -0.0080 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 119:142 ) REMARK 3 ORIGIN FOR THE GROUP (A): 11.3487 -20.5291 13.3098 REMARK 3 T TENSOR REMARK 3 T11: 0.1836 T22: 0.1221 REMARK 3 T33: 0.1362 T12: -0.0031 REMARK 3 T13: -0.0553 T23: 0.0150 REMARK 3 L TENSOR REMARK 3 L11: 5.1933 L22: 2.2979 REMARK 3 L33: 5.2914 L12: -0.5069 REMARK 3 L13: 1.2409 L23: -0.2752 REMARK 3 S TENSOR REMARK 3 S11: -0.1007 S12: -0.6116 S13: -0.0655 REMARK 3 S21: 0.4763 S22: 0.0556 S23: -0.3650 REMARK 3 S31: 0.0724 S32: 0.2156 S33: 0.0340 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN A AND RESID 143:172 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.9569 -17.3221 -10.3576 REMARK 3 T TENSOR REMARK 3 T11: 0.0674 T22: 0.0721 REMARK 3 T33: 0.0712 T12: 0.0108 REMARK 3 T13: -0.0281 T23: -0.0113 REMARK 3 L TENSOR REMARK 3 L11: 4.2822 L22: 0.2941 REMARK 3 L33: 2.1126 L12: 0.0970 REMARK 3 L13: -2.6591 L23: 0.0360 REMARK 3 S TENSOR REMARK 3 S11: -0.0174 S12: 0.2551 S13: -0.0298 REMARK 3 S21: -0.0411 S22: 0.0153 S23: 0.0688 REMARK 3 S31: 0.0355 S32: -0.1950 S33: 0.0051 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN A AND RESID 173:321 ) REMARK 3 ORIGIN FOR THE GROUP (A): 34.4616 -19.4201 -2.4481 REMARK 3 T TENSOR REMARK 3 T11: 0.0520 T22: 0.0478 REMARK 3 T33: 0.0594 T12: 0.0115 REMARK 3 T13: 0.0027 T23: 0.0054 REMARK 3 L TENSOR REMARK 3 L11: 0.8719 L22: 1.0720 REMARK 3 L33: 0.9310 L12: 0.2092 REMARK 3 L13: 0.0971 L23: 0.0787 REMARK 3 S TENSOR REMARK 3 S11: 0.0210 S12: -0.0390 S13: -0.0301 REMARK 3 S21: 0.0536 S22: -0.0232 S23: 0.0180 REMARK 3 S31: 0.0544 S32: 0.0240 S33: 0.0051 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 5D87 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000212816. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-MAR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL7-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.12709 REMARK 200 MONOCHROMATOR : SIDE SCATTERING I-BEAM BENT REMARK 200 SINGLE CRYSTAL; ASYMMETRIC CUT REMARK 200 4.9650 DEG. REMARK 200 OPTICS : RH COATED FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.20 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46619 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 57.585 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06100 REMARK 200 FOR THE DATA SET : 19.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.58 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.24200 REMARK 200 R SYM FOR SHELL (I) : 0.24200 REMARK 200 FOR SHELL : 3.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.5 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M MGCL2, 0.1 M TRIS, PH 8.5, 29 REMARK 280 -33% PEG 4000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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+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 27.99000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 57.58500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.99000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 57.58500 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: 5530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 55.98000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 774 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 815 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 883 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ILE A 2 REMARK 465 GLU A 3 REMARK 465 LYS A 4 REMARK 465 SER A 5 REMARK 465 GLY A 322 REMARK 465 VAL A 323 REMARK 465 LYS A 324 REMARK 465 SER A 325 REMARK 465 GLU A 326 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 OE1 GLU A 236 O HOH A 501 2.10 REMARK 500 OE1 GLU A 236 O HOH A 502 2.12 REMARK 500 O HOH A 753 O HOH A 854 2.12 REMARK 500 OE2 GLU A 171 O HOH A 503 2.13 REMARK 500 O HOH A 635 O HOH A 783 2.16 REMARK 500 O HOH A 848 O HOH A 900 2.16 REMARK 500 NE2 GLN A 6 O HOH A 504 2.16 REMARK 500 O HOH A 814 O HOH A 853 2.18 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 ASP A 145 75.22 60.10 REMARK 500 LEU A 307 -115.42 -117.66 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 902 DISTANCE = 6.17 ANGSTROMS 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 MG A 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 874 O REMARK 620 2 HOH A 608 O 91.0 REMARK 620 3 HOH A 615 O 91.8 90.1 REMARK 620 4 HOH A 823 O 176.1 86.1 85.6 REMARK 620 5 HOH A 616 O 86.9 176.2 93.2 96.1 REMARK 620 6 HOH A 884 O 89.2 86.1 176.1 93.2 90.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 404 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 534 O REMARK 620 2 HOH A 564 O 80.4 REMARK 620 3 HOH A 899 O 97.5 165.1 REMARK 620 4 HOH A 579 O 91.2 89.2 76.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 406 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 587 O REMARK 620 2 HOH A 640 O 90.6 REMARK 620 3 HOH A 693 O 79.1 141.6 REMARK 620 4 HOH A 557 O 94.9 88.7 128.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PLP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 406 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5D84 RELATED DB: PDB REMARK 900 SAME PROTEIN COMPLEXED WITH PLP REMARK 900 RELATED ID: 5D85 RELATED DB: PDB REMARK 900 RELATED ID: 5D86 RELATED DB: PDB DBREF 5D87 A 1 326 UNP A6QDA0 SBNA_STAAE 1 326 SEQADV 5D87 PHE A 152 UNP A6QDA0 TYR 152 ENGINEERED MUTATION SEQADV 5D87 GLY A 185 UNP A6QDA0 SER 185 ENGINEERED MUTATION SEQRES 1 A 326 MET ILE GLU LYS SER GLN ALA CYS HIS ASP SER LEU LEU SEQRES 2 A 326 ASP SER VAL GLY GLN THR PRO MET VAL GLN LEU HIS GLN SEQRES 3 A 326 LEU PHE PRO LYS HIS GLU VAL PHE ALA LYS LEU GLU TYR SEQRES 4 A 326 MET ASN PRO GLY GLY SER MET LYS ASP ARG PRO ALA LYS SEQRES 5 A 326 TYR ILE ILE GLU HIS GLY ILE LYS HIS GLY LEU ILE THR SEQRES 6 A 326 GLU ASN THR HIS LEU ILE GLU SER THR SER GLY ASN LEU SEQRES 7 A 326 GLY ILE ALA LEU ALA MET ILE ALA LYS ILE LYS GLY LEU SEQRES 8 A 326 LYS LEU THR CYS VAL VAL ASP PRO LYS ILE SER PRO THR SEQRES 9 A 326 ASN LEU LYS ILE ILE LYS SER TYR GLY ALA ASN VAL GLU SEQRES 10 A 326 MET VAL GLU GLU PRO ASP ALA HIS GLY GLY TYR LEU MET SEQRES 11 A 326 THR ARG ILE ALA LYS VAL GLN GLU LEU LEU ALA THR ILE SEQRES 12 A 326 ASP ASP ALA TYR TRP ILE ASN GLN PHE ALA ASN GLU LEU SEQRES 13 A 326 ASN TRP GLN SER HIS TYR HIS GLY ALA GLY THR GLU ILE SEQRES 14 A 326 VAL GLU THR ILE LYS GLN PRO ILE ASP TYR PHE VAL ALA SEQRES 15 A 326 PRO VAL GLY THR THR GLY SER ILE MET GLY MET SER ARG SEQRES 16 A 326 LYS ILE LYS GLU VAL HIS PRO ASN ALA GLN ILE VAL ALA SEQRES 17 A 326 VAL ASP ALA LYS GLY SER VAL ILE PHE GLY ASP LYS PRO SEQRES 18 A 326 ILE ASN ARG GLU LEU PRO GLY ILE GLY ALA SER ARG VAL SEQRES 19 A 326 PRO GLU ILE LEU ASN ARG SER GLU ILE ASN GLN VAL ILE SEQRES 20 A 326 HIS VAL ASP ASP TYR GLN SER ALA LEU GLY CYS ARG LYS SEQRES 21 A 326 LEU ILE ASP TYR GLU GLY ILE PHE ALA GLY GLY SER THR SEQRES 22 A 326 GLY SER ILE ILE ALA ALA ILE GLU GLN LEU ILE THR SER SEQRES 23 A 326 ILE GLU GLU GLY ALA THR ILE VAL THR ILE LEU PRO ASP SEQRES 24 A 326 ARG GLY ASP ARG TYR LEU ASP LEU VAL TYR SER ASP THR SEQRES 25 A 326 TRP LEU GLU LYS MET LYS SER ARG GLN GLY VAL LYS SER SEQRES 26 A 326 GLU HET PLP A 401 15 HET MG A 402 1 HET MG A 403 1 HET MG A 404 1 HET K A 405 1 HET K A 406 1 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM MG MAGNESIUM ION HETNAM K POTASSIUM ION HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 2 PLP C8 H10 N O6 P FORMUL 3 MG 3(MG 2+) FORMUL 6 K 2(K 1+) FORMUL 8 HOH *402(H2 O) HELIX 1 AA1 SER A 11 VAL A 16 5 6 HELIX 2 AA2 GLU A 38 ASN A 41 5 4 HELIX 3 AA3 LYS A 47 HIS A 61 1 15 HELIX 4 AA4 SER A 75 GLY A 90 1 16 HELIX 5 AA5 SER A 102 TYR A 112 1 11 HELIX 6 AA6 TYR A 128 ILE A 143 1 16 HELIX 7 AA7 ASN A 154 GLY A 164 1 11 HELIX 8 AA8 GLY A 164 ILE A 173 1 10 HELIX 9 AA9 THR A 187 HIS A 201 1 15 HELIX 10 AB1 ASN A 239 ILE A 243 5 5 HELIX 11 AB2 ASP A 250 GLY A 266 1 17 HELIX 12 AB3 GLY A 270 THR A 285 1 16 HELIX 13 AB4 ARG A 300 TYR A 304 5 5 HELIX 14 AB5 SER A 310 GLN A 321 1 12 SHEET 1 AA1 6 MET A 21 GLN A 23 0 SHEET 2 AA1 6 GLU A 32 LYS A 36 -1 O ALA A 35 N VAL A 22 SHEET 3 AA1 6 THR A 292 ILE A 296 1 O ILE A 293 N PHE A 34 SHEET 4 AA1 6 TYR A 179 PRO A 183 1 N VAL A 181 O VAL A 294 SHEET 5 AA1 6 GLN A 205 ALA A 211 1 O VAL A 207 N PHE A 180 SHEET 6 AA1 6 GLN A 245 VAL A 249 1 O GLN A 245 N ALA A 208 SHEET 1 AA2 4 ASN A 115 MET A 118 0 SHEET 2 AA2 4 LEU A 93 VAL A 97 1 N LEU A 93 O ASN A 115 SHEET 3 AA2 4 HIS A 69 SER A 73 1 N GLU A 72 O VAL A 96 SHEET 4 AA2 4 ALA A 146 TRP A 148 1 O TYR A 147 N ILE A 71 LINK NZ LYS A 47 C4A PLP A 401 1555 1555 1.27 LINK MG MG A 402 O HOH A 874 1555 1555 2.10 LINK MG MG A 402 O HOH A 608 1555 1555 2.05 LINK MG MG A 402 O HOH A 615 1555 1555 2.12 LINK MG MG A 402 O HOH A 823 1555 1555 2.18 LINK MG MG A 404 O HOH A 534 1555 1555 2.11 LINK MG MG A 404 O HOH A 564 1555 1555 2.25 LINK MG MG A 404 O HOH A 899 1555 1555 2.14 LINK MG MG A 404 O HOH A 579 1555 1555 2.31 LINK K K A 405 O HOH A 594 1555 1555 3.19 LINK K K A 406 O HOH A 587 1555 1555 2.96 LINK K K A 406 O HOH A 640 1555 1555 3.27 LINK K K A 406 O HOH A 693 1555 1555 3.15 LINK K K A 406 O HOH A 557 1555 1555 2.99 LINK MG MG A 402 O HOH A 616 1555 1455 2.07 LINK MG MG A 402 O HOH A 884 1555 1455 2.09 SITE 1 AC1 17 MET A 46 LYS A 47 ASN A 77 VAL A 184 SITE 2 AC1 17 GLY A 185 THR A 186 THR A 187 GLY A 188 SITE 3 AC1 17 SER A 189 GLY A 228 SER A 272 PRO A 298 SITE 4 AC1 17 ASP A 299 HOH A 581 HOH A 675 HOH A 723 SITE 5 AC1 17 HOH A 785 SITE 1 AC2 6 HOH A 608 HOH A 615 HOH A 616 HOH A 823 SITE 2 AC2 6 HOH A 874 HOH A 884 SITE 1 AC3 3 ARG A 49 HOH A 700 HOH A 850 SITE 1 AC4 4 HOH A 534 HOH A 564 HOH A 579 HOH A 899 SITE 1 AC5 2 SER A 232 ARG A 233 SITE 1 AC6 3 TRP A 148 HOH A 557 HOH A 587 CRYST1 55.980 115.170 44.670 90.00 90.00 90.00 P 21 21 2 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 0.017863 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008683 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022386 0.00000