HEADER TRANSFERASE 12-MAR-18 6FYQ TITLE THE CRYSTAL STRUCTURE OF A NEW TRANSAMINASE FROM THE MARINE BACTERIUM TITLE 2 VIRGIBACILLUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINE TRANSAMINASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.6.1.18; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: CONTAINS AN ENGINEERED POINT MUTATION T16F SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIRGIBACILLUS PANTOTHENTICUS; SOURCE 3 ORGANISM_TAXID: 1473; SOURCE 4 STRAIN: STRAIN 21D; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET100D-TOPO KEYWDS OMEGA-AMINO ACID-PYRUVATE AMINOTRANSFERASE, VIRGIBACILLUS KEYWDS 2 PANTOTHENTICUS, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR L.J.GOURLAY REVDAT 2 17-JAN-24 6FYQ 1 REMARK REVDAT 1 12-DEC-18 6FYQ 0 JRNL AUTH B.GUIDI,M.PLANCHESTAINER,M.L.CONTENTE,T.LAURENZI,I.EBERINI, JRNL AUTH 2 L.J.GOURLAY,D.ROMANO,F.PARADISI,F.MOLINARI JRNL TITL STRATEGIC SINGLE POINT MUTATION YIELDS A SOLVENT- AND JRNL TITL 2 SALT-STABLE TRANSAMINASE FROM VIRGIBACILLUS SP. IN SOLUBLE JRNL TITL 3 FORM. JRNL REF SCI REP V. 8 16441 2018 JRNL REFN ESSN 2045-2322 JRNL PMID 30401905 JRNL DOI 10.1038/S41598-018-34434-3 REMARK 2 REMARK 2 RESOLUTION. 2.00 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.86 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 38915 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 1938 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 39.8681 - 4.8177 0.98 2758 147 0.1591 0.2044 REMARK 3 2 4.8177 - 3.8249 0.99 2681 140 0.1448 0.1653 REMARK 3 3 3.8249 - 3.3417 0.99 2648 138 0.1833 0.2375 REMARK 3 4 3.3417 - 3.0363 0.99 2643 139 0.2021 0.2583 REMARK 3 5 3.0363 - 2.8187 0.99 2637 139 0.2095 0.2281 REMARK 3 6 2.8187 - 2.6526 1.00 2630 135 0.1941 0.2541 REMARK 3 7 2.6526 - 2.5197 1.00 2621 138 0.1864 0.2383 REMARK 3 8 2.5197 - 2.4101 1.00 2640 134 0.1833 0.2256 REMARK 3 9 2.4101 - 2.3173 1.00 2644 143 0.1784 0.2168 REMARK 3 10 2.3173 - 2.2373 1.00 2606 137 0.1846 0.2359 REMARK 3 11 2.2373 - 2.1674 1.00 2637 132 0.1883 0.2356 REMARK 3 12 2.1674 - 2.1054 1.00 2593 137 0.1987 0.2415 REMARK 3 13 2.1054 - 2.0500 1.00 2643 142 0.2194 0.2772 REMARK 3 14 2.0500 - 2.0000 1.00 2596 137 0.2444 0.3131 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.320 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 41.25 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.98 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 : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 168 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.6222 5.7208 12.8155 REMARK 3 T TENSOR REMARK 3 T11: 0.2323 T22: 0.3424 REMARK 3 T33: 0.3169 T12: 0.0136 REMARK 3 T13: 0.0279 T23: -0.0753 REMARK 3 L TENSOR REMARK 3 L11: 2.0572 L22: 1.2019 REMARK 3 L33: 1.9551 L12: 0.0496 REMARK 3 L13: -0.2473 L23: -0.5117 REMARK 3 S TENSOR REMARK 3 S11: 0.2003 S12: 0.1944 S13: 0.1689 REMARK 3 S21: -0.0480 S22: -0.0910 S23: 0.1150 REMARK 3 S31: -0.0833 S32: -0.1023 S33: -0.0955 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 169 THROUGH 244 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.9807 20.5701 14.9507 REMARK 3 T TENSOR REMARK 3 T11: 0.4129 T22: 0.5504 REMARK 3 T33: 0.7327 T12: 0.1510 REMARK 3 T13: 0.0989 T23: -0.0210 REMARK 3 L TENSOR REMARK 3 L11: 6.1306 L22: 1.1201 REMARK 3 L33: 4.8409 L12: -1.2518 REMARK 3 L13: -1.9842 L23: 0.2944 REMARK 3 S TENSOR REMARK 3 S11: 0.0861 S12: 0.3841 S13: 0.7875 REMARK 3 S21: 0.0292 S22: 0.0627 S23: 0.4405 REMARK 3 S31: -0.6475 S32: -0.8292 S33: -0.1404 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 245 THROUGH 444 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.6359 18.5018 6.0983 REMARK 3 T TENSOR REMARK 3 T11: 0.2595 T22: 0.4266 REMARK 3 T33: 0.4791 T12: 0.0418 REMARK 3 T13: 0.0736 T23: 0.0388 REMARK 3 L TENSOR REMARK 3 L11: 2.5135 L22: 1.5261 REMARK 3 L33: 2.2589 L12: 0.0478 REMARK 3 L13: -0.4000 L23: -0.8390 REMARK 3 S TENSOR REMARK 3 S11: 0.1733 S12: 0.5388 S13: 0.6859 REMARK 3 S21: -0.0063 S22: -0.0182 S23: 0.1144 REMARK 3 S31: -0.3410 S32: -0.2388 S33: -0.1328 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 6FYQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-MAR-18. REMARK 100 THE DEPOSITION ID IS D_1200009138. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-NOV-17 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 : ESRF REMARK 200 BEAMLINE : ID30B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.966 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38942 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.04000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.39300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: 5TIB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MORPHEUS CONDITION D10 (0.12 M REMARK 280 ALCOHOLS, 0.1 M BUFFER SYSTEM 3 PH 8.5, 50% (V/V) PRECIPITANT REMARK 280 MIX 2 (MOLECULAR DIMENSIONS), VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.94067 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 32.47033 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 32.47033 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 64.94067 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: 13930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28680 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -91.0 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 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 32.47033 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 -35 REMARK 465 ARG A -34 REMARK 465 GLY A -33 REMARK 465 SER A -32 REMARK 465 HIS A -31 REMARK 465 HIS A -30 REMARK 465 HIS A -29 REMARK 465 HIS A -28 REMARK 465 HIS A -27 REMARK 465 HIS A -26 REMARK 465 GLY A -25 REMARK 465 MET A -24 REMARK 465 ALA A -23 REMARK 465 SER A -22 REMARK 465 MET A -21 REMARK 465 THR A -20 REMARK 465 GLY A -19 REMARK 465 GLY A -18 REMARK 465 GLN A -17 REMARK 465 GLN A -16 REMARK 465 MET A -15 REMARK 465 GLY A -14 REMARK 465 ARG A -13 REMARK 465 ASP A -12 REMARK 465 LEU A -11 REMARK 465 TYR A -10 REMARK 465 ASP A -9 REMARK 465 ASP A -8 REMARK 465 ASP A -7 REMARK 465 ASP A -6 REMARK 465 LYS A -5 REMARK 465 ASP A -4 REMARK 465 HIS A -3 REMARK 465 PRO A -2 REMARK 465 PHE A -1 REMARK 465 THR A 0 REMARK 465 MET A 1 REMARK 465 ILE A 445 REMARK 465 LYS A 446 REMARK 465 ALA A 447 REMARK 465 GLU A 448 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 ARG A 2 CG CD NE CZ NH1 NH2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLN A 195 CD 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 OG SER A 84 NH2 ARG A 402 5555 2.16 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 ASP A 41 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 231 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 231 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 402 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 402 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 PHE A 16 55.78 39.22 REMARK 500 SER A 53 -80.11 70.53 REMARK 500 MET A 77 87.88 -172.93 REMARK 500 ARG A 139 -32.76 -133.42 REMARK 500 VAL A 151 27.88 -141.49 REMARK 500 ALA A 272 -136.86 -167.07 REMARK 500 LYS A 273 -98.84 38.43 REMARK 500 HIS A 312 121.16 -34.73 REMARK 500 LEU A 364 49.84 -85.51 REMARK 500 ASN A 377 37.25 70.30 REMARK 500 ALA A 415 68.45 -168.64 REMARK 500 LEU A 443 10.15 -69.26 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 PLP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 505 DBREF 6FYQ A -35 448 PDB 6FYQ 6FYQ -35 448 SEQRES 1 A 484 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY MET ALA SEQRES 2 A 484 SER MET THR GLY GLY GLN GLN MET GLY ARG ASP LEU TYR SEQRES 3 A 484 ASP ASP ASP ASP LYS ASP HIS PRO PHE THR MET ARG SER SEQRES 4 A 484 LEU THR GLU LEU ASP LYS LYS HIS PHE ILE HIS PRO PHE SEQRES 5 A 484 SER SER ILE GLN GLU GLN GLN HIS LYS GLY ALA LYS VAL SEQRES 6 A 484 ILE MET LYS GLU GLY ASP GLY ILE TYR LEU THR ASP VAL SEQRES 7 A 484 THR GLY LYS THR TYR ILE ASP GLY VAL SER SER LEU TRP SEQRES 8 A 484 ASN VAL ASN VAL GLY HIS GLY ARG VAL GLU LEU ALA GLU SEQRES 9 A 484 ALA ALA ALA GLN GLN MET LYS LYS MET ALA PHE SER SER SEQRES 10 A 484 ALA PHE SER THR PHE SER HIS GLU PRO ALA ILE ARG LEU SEQRES 11 A 484 ALA GLU LYS ILE ALA SER ILE THR PRO GLU GLY LEU ASN SEQRES 12 A 484 ALA VAL PHE PHE THR SER GLY GLY SER GLU SER ASN ASP SEQRES 13 A 484 SER ALA VAL LYS LEU VAL ARG HIS TYR TRP LYS ILE GLN SEQRES 14 A 484 GLY LYS PRO ASN LYS ARG LYS ILE ILE SER LEU LYS ARG SEQRES 15 A 484 SER TYR HIS GLY VAL ALA ALA ALA SER THR SER VAL THR SEQRES 16 A 484 GLY ILE PRO GLU PHE TRP GLY MET ALA GLY HIS MET MET SEQRES 17 A 484 THR ASP PHE LEU HIS VAL ASP THR HIS TYR ASN ASN THR SEQRES 18 A 484 THR GLU GLN ALA VAL GLN SER LEU CYS GLN ALA ILE GLU SEQRES 19 A 484 GLU ALA GLY PRO GLU THR ILE ALA ALA PHE PHE ALA GLU SEQRES 20 A 484 PRO VAL GLN GLY ALA GLY GLY VAL ILE ILE PRO PRO GLU SEQRES 21 A 484 ASP TYR PHE LEU ARG ILE ARG GLU VAL CYS ASN ALA TYR SEQRES 22 A 484 GLY ILE LEU PHE VAL ALA ASP GLU VAL ILE THR GLY PHE SEQRES 23 A 484 GLY ARG THR GLY LYS MET PHE GLY ILE GLU ASN TRP ASP SEQRES 24 A 484 VAL ILE PRO ASP VAL MET THR PHE ALA LYS GLY VAL THR SEQRES 25 A 484 SER GLY TYR PHE PRO LEU GLY GLY VAL VAL VAL SER ASP SEQRES 26 A 484 PRO ILE HIS GLU VAL LEU LYS GLU LYS SER VAL GLY THR SEQRES 27 A 484 LEU PHE HIS GLY PHE THR TYR SER GLY HIS PRO THR ALA SEQRES 28 A 484 ALA ALA VAL ALA LEU LYS ASN ILE ALA ILE ILE LYS GLU SEQRES 29 A 484 GLU ARG LEU VAL GLU ASN SER LYS ARG MET GLY ASP ALA SEQRES 30 A 484 LEU LEU HIS GLY LEU LYS LYS VAL LYS ASN ARG LEU GLU SEQRES 31 A 484 ILE VAL GLY ASP VAL ARG PHE VAL GLY LEU LEU GLY ALA SEQRES 32 A 484 VAL GLU LEU MET GLN ASN PRO ALA THR ASN LYS PRO PHE SEQRES 33 A 484 SER SER ASN LEU GLN VAL ALA PRO LYS VAL ILE GLU ALA SEQRES 34 A 484 LEU HIS GLU LEU GLY VAL ILE CYS ARG SER VAL THR TYR SEQRES 35 A 484 ASP HIS THR ASN ILE ILE CYS LEU ALA PRO PRO LEU ILE SEQRES 36 A 484 ILE ASN GLN LYS GLN VAL ASP LYS LEU VAL GLU VAL ILE SEQRES 37 A 484 TYR GLU ALA ILE LEU LYS VAL GLN GLN GLN LEU GLY ILE SEQRES 38 A 484 LYS ALA GLU HET PLP A 501 24 HET EDO A 502 10 HET EDO A 503 10 HET EDO A 504 10 HET CL A 505 1 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM EDO 1,2-ETHANEDIOL HETNAM CL CHLORIDE ION HETSYN PLP VITAMIN B6 PHOSPHATE HETSYN EDO ETHYLENE GLYCOL FORMUL 2 PLP C8 H10 N O6 P FORMUL 3 EDO 3(C2 H6 O2) FORMUL 6 CL CL 1- FORMUL 7 HOH *74(H2 O) HELIX 1 AA1 ARG A 2 PHE A 12 1 11 HELIX 2 AA2 SER A 18 GLY A 26 1 9 HELIX 3 AA3 ARG A 63 ALA A 78 1 16 HELIX 4 AA4 ALA A 82 PHE A 86 5 5 HELIX 5 AA5 HIS A 88 THR A 102 1 15 HELIX 6 AA6 GLY A 114 GLN A 133 1 20 HELIX 7 AA7 ALA A 152 THR A 159 1 8 HELIX 8 AA8 ILE A 161 MET A 167 5 7 HELIX 9 AA9 THR A 185 GLY A 201 1 17 HELIX 10 AB1 ASP A 225 GLY A 238 1 14 HELIX 11 AB2 PHE A 257 ASP A 263 5 7 HELIX 12 AB3 ALA A 272 SER A 277 5 6 HELIX 13 AB4 ASP A 289 SER A 299 1 11 HELIX 14 AB5 HIS A 312 GLU A 329 1 18 HELIX 15 AB6 ARG A 330 LEU A 353 1 24 HELIX 16 AB7 SER A 381 LEU A 384 5 4 HELIX 17 AB8 GLN A 385 LEU A 397 1 13 HELIX 18 AB9 ASN A 421 LEU A 443 1 23 SHEET 1 AA1 4 MET A 31 ASP A 35 0 SHEET 2 AA1 4 TYR A 38 ASP A 41 -1 O THR A 40 N GLU A 33 SHEET 3 AA1 4 THR A 46 ASP A 49 -1 O TYR A 47 N LEU A 39 SHEET 4 AA1 4 VAL A 399 ILE A 400 1 O ILE A 400 N ILE A 48 SHEET 1 AA2 7 LEU A 106 THR A 112 0 SHEET 2 AA2 7 GLY A 283 SER A 288 -1 O VAL A 285 N PHE A 110 SHEET 3 AA2 7 VAL A 268 PHE A 271 -1 N MET A 269 O VAL A 286 SHEET 4 AA2 7 LEU A 240 ASP A 244 1 N ALA A 243 O VAL A 268 SHEET 5 AA2 7 ILE A 205 ALA A 210 1 N PHE A 208 O VAL A 242 SHEET 6 AA2 7 LYS A 140 LEU A 144 1 N ILE A 142 O PHE A 209 SHEET 7 AA2 7 PHE A 175 VAL A 178 1 O LEU A 176 N SER A 143 SHEET 1 AA3 4 VAL A 356 PHE A 361 0 SHEET 2 AA3 4 GLY A 366 LEU A 370 -1 O GLU A 369 N GLY A 357 SHEET 3 AA3 4 ILE A 411 LEU A 414 -1 O ILE A 412 N VAL A 368 SHEET 4 AA3 4 ARG A 402 VAL A 404 -1 N ARG A 402 O CYS A 413 SITE 1 AC1 17 GLY A 115 SER A 116 ASN A 119 TYR A 148 SITE 2 AC1 17 HIS A 149 GLY A 150 GLU A 211 ASP A 244 SITE 3 AC1 17 VAL A 246 ILE A 247 LYS A 273 PHE A 307 SITE 4 AC1 17 THR A 308 HOH A 610 HOH A 617 HOH A 620 SITE 5 AC1 17 HOH A 633 SITE 1 AC2 4 GLY A 34 GLY A 62 LYS A 75 LYS A 76 SITE 1 AC3 2 PHE A 164 HOH A 661 SITE 1 AC4 5 ARG A 231 ILE A 265 ASP A 267 SER A 288 SITE 2 AC4 5 HOH A 621 SITE 1 AC5 1 LYS A 321 CRYST1 100.886 100.886 97.411 90.00 90.00 120.00 P 32 2 1 6 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 0.009912 0.005723 0.000000 0.00000 SCALE2 0.000000 0.011446 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010266 0.00000