HEADER LYASE 01-JUL-18 6DXV TITLE CITROBACTER FREUNDII TYROSINE PHENOL-LYASE F448A MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: TYROSINE PHENOL-LYASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BETA-TYROSINASE; COMPND 5 EC: 4.1.99.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CITROBACTER FREUNDII; SOURCE 3 ORGANISM_TAXID: 546; SOURCE 4 ATCC: 29063; SOURCE 5 GENE: TPL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS PYRIDOXAL-5'-PHOSPHATE, AMINOTRANSFERASE FOLD, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR R.S.PHILLIPS REVDAT 4 15-NOV-23 6DXV 1 REMARK REVDAT 3 11-OCT-23 6DXV 1 LINK REVDAT 2 14-NOV-18 6DXV 1 COMPND JRNL REVDAT 1 10-OCT-18 6DXV 0 JRNL AUTH R.S.PHILLIPS,S.CRAIG JRNL TITL CRYSTAL STRUCTURES OF WILD-TYPE AND F448A MUTANT CITROBACTER JRNL TITL 2 FREUNDII TYROSINE PHENOL-LYASE COMPLEXED WITH A SUBSTRATE JRNL TITL 3 AND INHIBITORS: IMPLICATIONS FOR THE REACTION MECHANISM. JRNL REF BIOCHEMISTRY V. 57 6166 2018 JRNL REFN ISSN 1520-4995 JRNL PMID 30260636 JRNL DOI 10.1021/ACS.BIOCHEM.8B00724 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13_2998 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.48 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 56563 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.450 REMARK 3 FREE R VALUE TEST SET COUNT : 1950 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 37.4847 - 5.2978 0.99 4292 154 0.1855 0.2359 REMARK 3 2 5.2978 - 4.2069 0.90 3742 134 0.1561 0.1868 REMARK 3 3 4.2069 - 3.6756 0.98 3989 142 0.1652 0.2009 REMARK 3 4 3.6756 - 3.3398 1.00 4051 144 0.1616 0.2476 REMARK 3 5 3.3398 - 3.1005 0.99 4038 144 0.1751 0.2051 REMARK 3 6 3.1005 - 2.9178 1.00 4028 144 0.1869 0.2306 REMARK 3 7 2.9178 - 2.7717 1.00 4028 144 0.2118 0.2784 REMARK 3 8 2.7717 - 2.6511 1.00 4011 142 0.2505 0.2883 REMARK 3 9 2.6511 - 2.5491 0.99 3964 142 0.2844 0.3427 REMARK 3 10 2.5491 - 2.4611 0.98 3946 141 0.3187 0.3528 REMARK 3 11 2.4611 - 2.3842 0.99 3976 142 0.3421 0.3892 REMARK 3 12 2.3842 - 2.3160 1.00 3998 142 0.3762 0.3727 REMARK 3 13 2.3160 - 2.2551 0.89 3570 128 0.5745 0.6013 REMARK 3 14 2.2551 - 2.2001 0.75 2980 107 0.6985 0.6735 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) : 0.530 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 35.940 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 47.59 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 90.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 8 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 57 ) REMARK 3 ORIGIN FOR THE GROUP (A): 41.6939 11.6431 -17.7638 REMARK 3 T TENSOR REMARK 3 T11: 0.7008 T22: 0.9316 REMARK 3 T33: 0.5024 T12: 0.1944 REMARK 3 T13: -0.0354 T23: 0.1394 REMARK 3 L TENSOR REMARK 3 L11: 2.8162 L22: 5.0581 REMARK 3 L33: 3.3156 L12: -1.2647 REMARK 3 L13: 0.3686 L23: -2.7450 REMARK 3 S TENSOR REMARK 3 S11: 0.1991 S12: 0.9001 S13: 0.3597 REMARK 3 S21: -0.3600 S22: 0.3648 S23: 0.7513 REMARK 3 S31: -0.4650 S32: -1.2376 S33: -0.3948 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 58 THROUGH 87 ) REMARK 3 ORIGIN FOR THE GROUP (A): 64.1123 10.8821 2.4865 REMARK 3 T TENSOR REMARK 3 T11: 0.5782 T22: 0.5150 REMARK 3 T33: 0.4475 T12: 0.0770 REMARK 3 T13: -0.0204 T23: 0.0251 REMARK 3 L TENSOR REMARK 3 L11: 6.1006 L22: 6.6941 REMARK 3 L33: 9.2484 L12: 4.1646 REMARK 3 L13: -0.5276 L23: -1.7275 REMARK 3 S TENSOR REMARK 3 S11: 0.3448 S12: -0.3301 S13: -0.0251 REMARK 3 S21: 0.2050 S22: -0.4053 S23: -0.4239 REMARK 3 S31: -0.4278 S32: 0.5219 S33: 0.0020 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 88 THROUGH 228 ) REMARK 3 ORIGIN FOR THE GROUP (A): 63.6474 34.3776 -13.9945 REMARK 3 T TENSOR REMARK 3 T11: 1.2293 T22: 0.6900 REMARK 3 T33: 0.8581 T12: -0.0917 REMARK 3 T13: -0.0186 T23: 0.2179 REMARK 3 L TENSOR REMARK 3 L11: 1.5608 L22: 3.4532 REMARK 3 L33: 3.1222 L12: 0.2203 REMARK 3 L13: 0.2463 L23: -0.8074 REMARK 3 S TENSOR REMARK 3 S11: 0.0165 S12: 0.2129 S13: 0.7376 REMARK 3 S21: 0.1927 S22: -0.0950 S23: 0.1011 REMARK 3 S31: -1.3338 S32: 0.2088 S33: 0.0696 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 229 THROUGH 361 ) REMARK 3 ORIGIN FOR THE GROUP (A): 59.6089 21.6299 -14.2594 REMARK 3 T TENSOR REMARK 3 T11: 0.8122 T22: 0.4571 REMARK 3 T33: 0.5738 T12: 0.0202 REMARK 3 T13: 0.0502 T23: 0.1167 REMARK 3 L TENSOR REMARK 3 L11: 3.2230 L22: 2.0636 REMARK 3 L33: 4.1775 L12: 0.0405 REMARK 3 L13: -0.1722 L23: -0.9584 REMARK 3 S TENSOR REMARK 3 S11: -0.0206 S12: 0.1845 S13: 0.5367 REMARK 3 S21: 0.1495 S22: -0.0002 S23: -0.0518 REMARK 3 S31: -0.7433 S32: 0.2374 S33: 0.1640 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 362 THROUGH 456 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.7125 24.1877 -23.3176 REMARK 3 T TENSOR REMARK 3 T11: 1.0877 T22: 1.0357 REMARK 3 T33: 0.9153 T12: 0.3628 REMARK 3 T13: 0.1130 T23: 0.3523 REMARK 3 L TENSOR REMARK 3 L11: 4.0169 L22: 5.5105 REMARK 3 L33: 3.3293 L12: -0.4213 REMARK 3 L13: 1.1065 L23: -1.0540 REMARK 3 S TENSOR REMARK 3 S11: 0.1469 S12: 0.4463 S13: 0.9063 REMARK 3 S21: -0.1337 S22: 0.2457 S23: 1.1246 REMARK 3 S31: -1.2169 S32: -1.6200 S33: -0.3030 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 57 ) REMARK 3 ORIGIN FOR THE GROUP (A): 61.7978 7.0461 19.9232 REMARK 3 T TENSOR REMARK 3 T11: 0.7223 T22: 0.5756 REMARK 3 T33: 0.4025 T12: -0.0634 REMARK 3 T13: 0.0389 T23: -0.0623 REMARK 3 L TENSOR REMARK 3 L11: 2.0351 L22: 3.8631 REMARK 3 L33: 4.9415 L12: 1.1579 REMARK 3 L13: 0.9572 L23: 1.4274 REMARK 3 S TENSOR REMARK 3 S11: 0.1461 S12: -0.2452 S13: -0.0549 REMARK 3 S21: 0.4637 S22: 0.1177 S23: -0.5478 REMARK 3 S31: -0.1644 S32: 0.5620 S33: -0.2351 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 58 THROUGH 311 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.0995 24.5633 14.8974 REMARK 3 T TENSOR REMARK 3 T11: 0.9391 T22: 0.6766 REMARK 3 T33: 0.8037 T12: 0.0876 REMARK 3 T13: 0.1721 T23: -0.1319 REMARK 3 L TENSOR REMARK 3 L11: 2.5456 L22: 2.5850 REMARK 3 L33: 3.0763 L12: -0.1350 REMARK 3 L13: -0.6112 L23: 1.2974 REMARK 3 S TENSOR REMARK 3 S11: 0.2787 S12: -0.3348 S13: 0.8643 REMARK 3 S21: 0.0601 S22: -0.1414 S23: 0.2232 REMARK 3 S31: -0.8500 S32: -0.3454 S33: -0.0764 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 312 THROUGH 456 ) REMARK 3 ORIGIN FOR THE GROUP (A): 60.7071 17.5921 29.8708 REMARK 3 T TENSOR REMARK 3 T11: 0.8916 T22: 0.6666 REMARK 3 T33: 0.4748 T12: -0.0932 REMARK 3 T13: 0.0377 T23: -0.1382 REMARK 3 L TENSOR REMARK 3 L11: 4.7969 L22: 3.4263 REMARK 3 L33: 4.4308 L12: 1.8439 REMARK 3 L13: 1.1033 L23: 1.2394 REMARK 3 S TENSOR REMARK 3 S11: -0.0845 S12: -0.6152 S13: 0.5676 REMARK 3 S21: 0.2195 S22: -0.0687 S23: -0.1155 REMARK 3 S31: -0.8513 S32: 0.4732 S33: 0.0975 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: (CHAIN A AND (RESID 2 THROUGH 78 OR RESID REMARK 3 80 THROUGH 456)) REMARK 3 SELECTION : (CHAIN B AND (RESID 2 THROUGH 78 OR RESID REMARK 3 80 THROUGH 387 OR RESID 395 THROUGH 456)) REMARK 3 ATOM PAIRS NUMBER : 4231 REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6DXV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JUL-18. REMARK 100 THE DEPOSITION ID IS D_1000235399. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-NOV-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 : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58142 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 37.480 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.12180 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.1400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 75.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 4.86000 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: 2TPL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.05 M TRIETHANOLAMINE-HCL, PH 8, 1 MM REMARK 280 EDTA, 5 MM 2-MERCAPTOETHANOL, 0.5 MM PYRIDOXAL-5'-PHOSPHATE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 21 21 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+1/2,-Z+1/2 REMARK 290 4555 -X,-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 66.09000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 72.50500 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 66.09000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 72.50500 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 18670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 56450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -80.0 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 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 825 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 ARG A 388 REMARK 465 ASN A 389 REMARK 465 ASN A 390 REMARK 465 VAL A 391 REMARK 465 THR A 392 REMARK 465 GLY A 393 REMARK 465 GLU A 394 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 CZ ARG B 100 OP2 LLP B 257 2.16 REMARK 500 OG SER A 17 O LYS A 41 2.17 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 PRO A 7 45.80 -85.29 REMARK 500 MET A 121 -172.52 59.40 REMARK 500 LLP A 257 -101.60 -87.44 REMARK 500 TYR A 291 -27.33 -146.57 REMARK 500 CYS A 353 60.56 -117.69 REMARK 500 HIS A 355 -14.55 -159.07 REMARK 500 ILE A 440 -88.81 74.40 REMARK 500 PRO B 7 44.19 -85.43 REMARK 500 MET B 121 -171.74 58.24 REMARK 500 LLP B 257 -98.91 -98.19 REMARK 500 TYR B 291 -26.14 -144.59 REMARK 500 CYS B 353 64.24 -117.54 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 824 DISTANCE = 6.82 ANGSTROMS REMARK 525 HOH A 825 DISTANCE = 7.89 ANGSTROMS REMARK 525 HOH B 841 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH B 842 DISTANCE = 6.04 ANGSTROMS REMARK 525 HOH B 843 DISTANCE = 6.44 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 K A 501 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 52 O REMARK 620 2 ASN A 262 O 80.7 REMARK 620 3 HOH A 624 O 73.2 114.0 REMARK 620 4 HOH A 628 O 113.4 83.3 56.2 REMARK 620 5 GLU B 69 O 75.3 156.1 58.7 105.9 REMARK 620 6 GLU B 69 OE1 101.1 96.1 147.4 144.8 88.7 REMARK 620 7 HOH B 612 O 171.7 99.2 99.5 58.4 104.5 87.2 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B 501 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 69 OE1 REMARK 620 2 HOH A 678 O 129.9 REMARK 620 3 HOH A 689 O 81.5 79.0 REMARK 620 4 GLY B 52 O 101.9 81.4 156.7 REMARK 620 5 ASN B 262 O 106.9 123.0 118.3 83.1 REMARK 620 6 HOH B 634 O 146.3 49.8 65.1 110.5 86.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K B 501 DBREF 6DXV A 2 456 UNP P31013 TPL_CITFR 2 456 DBREF 6DXV B 2 456 UNP P31013 TPL_CITFR 2 456 SEQADV 6DXV ALA A 205 UNP P31013 GLU 205 CONFLICT SEQADV 6DXV ALA A 448 UNP P31013 PHE 448 ENGINEERED MUTATION SEQADV 6DXV ALA B 205 UNP P31013 GLU 205 CONFLICT SEQADV 6DXV ALA B 448 UNP P31013 PHE 448 ENGINEERED MUTATION SEQRES 1 A 455 ASN TYR PRO ALA GLU PRO PHE ARG ILE LYS SER VAL GLU SEQRES 2 A 455 THR VAL SER MET ILE PRO ARG ASP GLU ARG LEU LYS LYS SEQRES 3 A 455 MET GLN GLU ALA GLY TYR ASN THR PHE LEU LEU ASN SER SEQRES 4 A 455 LYS ASP ILE TYR ILE ASP LEU LEU THR ASP SER GLY THR SEQRES 5 A 455 ASN ALA MET SER ASP LYS GLN TRP ALA GLY MET MET MET SEQRES 6 A 455 GLY ASP GLU ALA TYR ALA GLY SER GLU ASN PHE TYR HIS SEQRES 7 A 455 LEU GLU ARG THR VAL GLN GLU LEU PHE GLY PHE LYS HIS SEQRES 8 A 455 ILE VAL PRO THR HIS GLN GLY ARG GLY ALA GLU ASN LEU SEQRES 9 A 455 LEU SER GLN LEU ALA ILE LYS PRO GLY GLN TYR VAL ALA SEQRES 10 A 455 GLY ASN MET TYR PHE THR THR THR ARG TYR HIS GLN GLU SEQRES 11 A 455 LYS ASN GLY ALA VAL PHE VAL ASP ILE VAL ARG ASP GLU SEQRES 12 A 455 ALA HIS ASP ALA GLY LEU ASN ILE ALA PHE LYS GLY ASP SEQRES 13 A 455 ILE ASP LEU LYS LYS LEU GLN LYS LEU ILE ASP GLU LYS SEQRES 14 A 455 GLY ALA GLU ASN ILE ALA TYR ILE CYS LEU ALA VAL THR SEQRES 15 A 455 VAL ASN LEU ALA GLY GLY GLN PRO VAL SER MET ALA ASN SEQRES 16 A 455 MET ARG ALA VAL ARG GLU LEU THR ALA ALA HIS GLY ILE SEQRES 17 A 455 LYS VAL PHE TYR ASP ALA THR ARG CYS VAL GLU ASN ALA SEQRES 18 A 455 TYR PHE ILE LYS GLU GLN GLU GLN GLY PHE GLU ASN LYS SEQRES 19 A 455 SER ILE ALA GLU ILE VAL HIS GLU MET PHE SER TYR ALA SEQRES 20 A 455 ASP GLY CYS THR MET SER GLY LYS LLP ASP CYS LEU VAL SEQRES 21 A 455 ASN ILE GLY GLY PHE LEU CYS MET ASN ASP ASP GLU MET SEQRES 22 A 455 PHE SER SER ALA LYS GLU LEU VAL VAL VAL TYR GLU GLY SEQRES 23 A 455 MET PRO SER TYR GLY GLY LEU ALA GLY ARG ASP MET GLU SEQRES 24 A 455 ALA MET ALA ILE GLY LEU ARG GLU ALA MET GLN TYR GLU SEQRES 25 A 455 TYR ILE GLU HIS ARG VAL LYS GLN VAL ARG TYR LEU GLY SEQRES 26 A 455 ASP LYS LEU LYS ALA ALA GLY VAL PRO ILE VAL GLU PRO SEQRES 27 A 455 VAL GLY GLY HIS ALA VAL PHE LEU ASP ALA ARG ARG PHE SEQRES 28 A 455 CYS GLU HIS LEU THR GLN ASP GLU PHE PRO ALA GLN SER SEQRES 29 A 455 LEU ALA ALA SER ILE TYR VAL GLU THR GLY VAL ARG SER SEQRES 30 A 455 MET GLU ARG GLY ILE ILE SER ALA GLY ARG ASN ASN VAL SEQRES 31 A 455 THR GLY GLU HIS HIS ARG PRO LYS LEU GLU THR VAL ARG SEQRES 32 A 455 LEU THR ILE PRO ARG ARG VAL TYR THR TYR ALA HIS MET SEQRES 33 A 455 ASP VAL VAL ALA ASP GLY ILE ILE LYS LEU TYR GLN HIS SEQRES 34 A 455 LYS GLU ASP ILE ARG GLY LEU LYS PHE ILE TYR GLU PRO SEQRES 35 A 455 LYS GLN LEU ARG ALA PHE THR ALA ARG PHE ASP TYR ILE SEQRES 1 B 455 ASN TYR PRO ALA GLU PRO PHE ARG ILE LYS SER VAL GLU SEQRES 2 B 455 THR VAL SER MET ILE PRO ARG ASP GLU ARG LEU LYS LYS SEQRES 3 B 455 MET GLN GLU ALA GLY TYR ASN THR PHE LEU LEU ASN SER SEQRES 4 B 455 LYS ASP ILE TYR ILE ASP LEU LEU THR ASP SER GLY THR SEQRES 5 B 455 ASN ALA MET SER ASP LYS GLN TRP ALA GLY MET MET MET SEQRES 6 B 455 GLY ASP GLU ALA TYR ALA GLY SER GLU ASN PHE TYR HIS SEQRES 7 B 455 LEU GLU ARG THR VAL GLN GLU LEU PHE GLY PHE LYS HIS SEQRES 8 B 455 ILE VAL PRO THR HIS GLN GLY ARG GLY ALA GLU ASN LEU SEQRES 9 B 455 LEU SER GLN LEU ALA ILE LYS PRO GLY GLN TYR VAL ALA SEQRES 10 B 455 GLY ASN MET TYR PHE THR THR THR ARG TYR HIS GLN GLU SEQRES 11 B 455 LYS ASN GLY ALA VAL PHE VAL ASP ILE VAL ARG ASP GLU SEQRES 12 B 455 ALA HIS ASP ALA GLY LEU ASN ILE ALA PHE LYS GLY ASP SEQRES 13 B 455 ILE ASP LEU LYS LYS LEU GLN LYS LEU ILE ASP GLU LYS SEQRES 14 B 455 GLY ALA GLU ASN ILE ALA TYR ILE CYS LEU ALA VAL THR SEQRES 15 B 455 VAL ASN LEU ALA GLY GLY GLN PRO VAL SER MET ALA ASN SEQRES 16 B 455 MET ARG ALA VAL ARG GLU LEU THR ALA ALA HIS GLY ILE SEQRES 17 B 455 LYS VAL PHE TYR ASP ALA THR ARG CYS VAL GLU ASN ALA SEQRES 18 B 455 TYR PHE ILE LYS GLU GLN GLU GLN GLY PHE GLU ASN LYS SEQRES 19 B 455 SER ILE ALA GLU ILE VAL HIS GLU MET PHE SER TYR ALA SEQRES 20 B 455 ASP GLY CYS THR MET SER GLY LYS LLP ASP CYS LEU VAL SEQRES 21 B 455 ASN ILE GLY GLY PHE LEU CYS MET ASN ASP ASP GLU MET SEQRES 22 B 455 PHE SER SER ALA LYS GLU LEU VAL VAL VAL TYR GLU GLY SEQRES 23 B 455 MET PRO SER TYR GLY GLY LEU ALA GLY ARG ASP MET GLU SEQRES 24 B 455 ALA MET ALA ILE GLY LEU ARG GLU ALA MET GLN TYR GLU SEQRES 25 B 455 TYR ILE GLU HIS ARG VAL LYS GLN VAL ARG TYR LEU GLY SEQRES 26 B 455 ASP LYS LEU LYS ALA ALA GLY VAL PRO ILE VAL GLU PRO SEQRES 27 B 455 VAL GLY GLY HIS ALA VAL PHE LEU ASP ALA ARG ARG PHE SEQRES 28 B 455 CYS GLU HIS LEU THR GLN ASP GLU PHE PRO ALA GLN SER SEQRES 29 B 455 LEU ALA ALA SER ILE TYR VAL GLU THR GLY VAL ARG SER SEQRES 30 B 455 MET GLU ARG GLY ILE ILE SER ALA GLY ARG ASN ASN VAL SEQRES 31 B 455 THR GLY GLU HIS HIS ARG PRO LYS LEU GLU THR VAL ARG SEQRES 32 B 455 LEU THR ILE PRO ARG ARG VAL TYR THR TYR ALA HIS MET SEQRES 33 B 455 ASP VAL VAL ALA ASP GLY ILE ILE LYS LEU TYR GLN HIS SEQRES 34 B 455 LYS GLU ASP ILE ARG GLY LEU LYS PHE ILE TYR GLU PRO SEQRES 35 B 455 LYS GLN LEU ARG ALA PHE THR ALA ARG PHE ASP TYR ILE MODRES 6DXV LLP A 257 LYS MODIFIED RESIDUE MODRES 6DXV LLP B 257 LYS MODIFIED RESIDUE HET LLP A 257 24 HET LLP B 257 24 HET K A 501 1 HET K B 501 1 HETNAM LLP (2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5- HETNAM 2 LLP (PHOSPHONOOXYMETHYL)PYRIDIN-4- HETNAM 3 LLP YL]METHYLIDENEAMINO]HEXANOIC ACID HETNAM K POTASSIUM ION HETSYN LLP N'-PYRIDOXYL-LYSINE-5'-MONOPHOSPHATE FORMUL 1 LLP 2(C14 H22 N3 O7 P) FORMUL 3 K 2(K 1+) FORMUL 5 HOH *468(H2 O) HELIX 1 AA1 PRO A 20 ALA A 31 1 12 HELIX 2 AA2 ASN A 34 LEU A 38 5 5 HELIX 3 AA3 ASN A 39 ILE A 43 5 5 HELIX 4 AA4 SER A 57 MET A 65 1 9 HELIX 5 AA5 SER A 74 PHE A 88 1 15 HELIX 6 AA6 GLN A 98 ILE A 111 1 14 HELIX 7 AA7 PHE A 123 ASN A 133 1 11 HELIX 8 AA8 ARG A 142 ASP A 147 5 6 HELIX 9 AA9 ASP A 159 GLY A 171 1 13 HELIX 10 AB1 SER A 193 HIS A 207 1 15 HELIX 11 AB2 ARG A 217 GLU A 229 1 13 HELIX 12 AB3 SER A 236 SER A 246 1 11 HELIX 13 AB4 ASP A 271 GLU A 286 1 16 HELIX 14 AB5 ALA A 295 MET A 310 1 16 HELIX 15 AB6 GLN A 311 ALA A 332 1 22 HELIX 16 AB7 ALA A 349 CYS A 353 1 5 HELIX 17 AB8 THR A 357 GLU A 360 5 4 HELIX 18 AB9 PHE A 361 GLY A 375 1 15 HELIX 19 AC1 GLY A 382 GLY A 387 1 6 HELIX 20 AC2 THR A 413 GLN A 429 1 17 HELIX 21 AC3 HIS A 430 ILE A 434 5 5 HELIX 22 AC4 LEU A 446 THR A 450 5 5 HELIX 23 AC5 PRO B 20 ALA B 31 1 12 HELIX 24 AC6 ASN B 34 LEU B 38 5 5 HELIX 25 AC7 ASN B 39 ILE B 43 5 5 HELIX 26 AC8 SER B 57 MET B 66 1 10 HELIX 27 AC9 SER B 74 PHE B 88 1 15 HELIX 28 AD1 GLN B 98 ILE B 111 1 14 HELIX 29 AD2 PHE B 123 ASN B 133 1 11 HELIX 30 AD3 ARG B 142 ASP B 147 5 6 HELIX 31 AD4 ASP B 159 GLY B 171 1 13 HELIX 32 AD5 SER B 193 HIS B 207 1 15 HELIX 33 AD6 ARG B 217 GLU B 229 1 13 HELIX 34 AD7 SER B 236 SER B 246 1 11 HELIX 35 AD8 ASP B 271 GLU B 286 1 16 HELIX 36 AD9 ALA B 295 MET B 310 1 16 HELIX 37 AE1 GLN B 311 ALA B 332 1 22 HELIX 38 AE2 ALA B 349 CYS B 353 1 5 HELIX 39 AE3 THR B 357 GLU B 360 5 4 HELIX 40 AE4 PHE B 361 GLY B 375 1 15 HELIX 41 AE5 GLY B 382 GLY B 387 1 6 HELIX 42 AE6 THR B 413 HIS B 430 1 18 HELIX 43 AE7 LYS B 431 ILE B 434 5 4 HELIX 44 AE8 LEU B 446 ALA B 451 1 6 SHEET 1 AA1 2 ILE A 45 ASP A 46 0 SHEET 2 AA1 2 VAL A 376 ARG A 377 1 O ARG A 377 N ILE A 45 SHEET 1 AA2 7 HIS A 92 THR A 96 0 SHEET 2 AA2 7 GLY A 265 MET A 269 -1 O LEU A 267 N VAL A 94 SHEET 3 AA2 7 GLY A 250 SER A 254 -1 N MET A 253 O PHE A 266 SHEET 4 AA2 7 LYS A 210 ASP A 214 1 N TYR A 213 O THR A 252 SHEET 5 AA2 7 ILE A 175 ALA A 181 1 N LEU A 180 O ASP A 214 SHEET 6 AA2 7 TYR A 116 GLY A 119 1 N TYR A 116 O ALA A 176 SHEET 7 AA2 7 VAL A 136 ASP A 139 1 O VAL A 136 N VAL A 117 SHEET 1 AA3 3 ALA A 344 ASP A 348 0 SHEET 2 AA3 3 THR A 402 THR A 406 -1 O VAL A 403 N LEU A 347 SHEET 3 AA3 3 MET A 379 ARG A 381 -1 N MET A 379 O ARG A 404 SHEET 1 AA4 2 ILE B 45 ASP B 46 0 SHEET 2 AA4 2 VAL B 376 ARG B 377 1 O ARG B 377 N ILE B 45 SHEET 1 AA5 7 HIS B 92 THR B 96 0 SHEET 2 AA5 7 GLY B 265 MET B 269 -1 O GLY B 265 N THR B 96 SHEET 3 AA5 7 GLY B 250 SER B 254 -1 N CYS B 251 O CYS B 268 SHEET 4 AA5 7 LYS B 210 ASP B 214 1 N TYR B 213 O THR B 252 SHEET 5 AA5 7 ILE B 175 ALA B 181 1 N ILE B 178 O PHE B 212 SHEET 6 AA5 7 TYR B 116 GLY B 119 1 N ALA B 118 O CYS B 179 SHEET 7 AA5 7 VAL B 136 ASP B 139 1 O VAL B 136 N VAL B 117 SHEET 1 AA6 3 ALA B 344 ASP B 348 0 SHEET 2 AA6 3 THR B 402 THR B 406 -1 O VAL B 403 N LEU B 347 SHEET 3 AA6 3 MET B 379 ARG B 381 -1 N MET B 379 O ARG B 404 SHEET 1 AA7 2 LEU B 437 TYR B 441 0 SHEET 2 AA7 2 ARG B 452 TYR B 455 -1 O ASP B 454 N LYS B 438 LINK C LYS A 256 N LLP A 257 1555 1555 1.34 LINK C LLP A 257 N ASP A 258 1555 1555 1.33 LINK NE ARG B 100 OP2 LLP B 257 1555 1555 1.30 LINK C LYS B 256 N LLP B 257 1555 1555 1.33 LINK C LLP B 257 N ASP B 258 1555 1555 1.33 LINK O GLY A 52 K K A 501 1555 1555 2.72 LINK OE1 GLU A 69 K K B 501 1555 1555 2.86 LINK O ASN A 262 K K A 501 1555 1555 3.11 LINK K K A 501 O HOH A 624 1555 1555 2.80 LINK K K A 501 O HOH A 628 1555 1555 3.05 LINK K K A 501 O GLU B 69 1555 1555 3.20 LINK K K A 501 OE1 GLU B 69 1555 1555 2.81 LINK K K A 501 O HOH B 612 1555 1555 2.84 LINK O HOH A 678 K K B 501 1555 1555 3.00 LINK O HOH A 689 K K B 501 1555 1555 2.83 LINK O GLY B 52 K K B 501 1555 1555 2.74 LINK O ASN B 262 K K B 501 1555 1555 2.93 LINK K K B 501 O HOH B 634 1555 1555 2.99 CISPEP 1 VAL A 182 THR A 183 0 -4.49 CISPEP 2 GLU A 338 PRO A 339 0 -5.33 CISPEP 3 VAL B 182 THR B 183 0 -3.71 CISPEP 4 GLU B 338 PRO B 339 0 -6.74 SITE 1 AC1 6 GLY A 52 ASN A 262 HOH A 624 HOH A 628 SITE 2 AC1 6 GLU B 69 HOH B 612 SITE 1 AC2 6 GLU A 69 HOH A 678 HOH A 689 GLY B 52 SITE 2 AC2 6 ASN B 262 HOH B 634 CRYST1 59.350 132.180 145.010 90.00 90.00 90.00 P 2 21 21 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 0.016849 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007565 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006896 0.00000