HEADER TRANSFERASE 31-OCT-19 6TB1 TITLE CRYSTAL STRUCTURE OF THERMOSTABLE OMEGA TRANSAMINASE 6-FOLD MUTANT TITLE 2 FROM PSEUDOMONAS JESSENII COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASPARTATE AMINOTRANSFERASE FAMILY PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS SP.; SOURCE 3 ORGANISM_TAXID: 306; SOURCE 4 GENE: CMK94_18730, DIU04_17820; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS TRANSAMINASE, AMINOTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR N.CAPRA,H.J.ROZEBOOM,A.M.W.H.THUNNISSEN,D.B.JANSSEN REVDAT 3 24-JAN-24 6TB1 1 REMARK REVDAT 2 30-SEP-20 6TB1 1 JRNL LINK REVDAT 1 15-JUL-20 6TB1 0 JRNL AUTH Q.MENG,N.CAPRA,C.M.PALACIO,E.LANFRANCHI,M.OTZEN, JRNL AUTH 2 L.Z.VAN SCHIE,H.J.ROZEBOOM,A.W.H.THUNNISSEN,H.J.WIJMA, JRNL AUTH 3 D.B.JANSSEN JRNL TITL ROBUST OMEGA-TRANSAMINASES BY COMPUTATIONAL STABILIZATION OF JRNL TITL 2 THE SUBUNIT INTERFACE. JRNL REF ACS CATALYSIS V. 10 2915 2020 JRNL REFN ESSN 2155-5435 JRNL PMID 32953233 JRNL DOI 10.1021/ACSCATAL.9B05223 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0257 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 93393 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) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.187 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 5035 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6916 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3170 REMARK 3 BIN FREE R VALUE SET COUNT : 364 REMARK 3 BIN FREE R VALUE : 0.3430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6943 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 524 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.01 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.15000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : -0.30000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.102 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.100 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.073 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.551 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.964 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7212 ; 0.007 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 6680 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9774 ; 1.439 ; 1.633 REMARK 3 BOND ANGLES OTHERS (DEGREES): 15495 ; 1.336 ; 1.566 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 912 ; 6.771 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 357 ;34.974 ;22.549 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1169 ;12.306 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 39 ;15.877 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 909 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8160 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1495 ; 0.001 ; 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 6 455 B 6 455 13965 0.070 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6TB1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 31-OCT-19. REMARK 100 THE DEPOSITION ID IS D_1292105112. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-APR-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9677 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.1 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 98464 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 45.790 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.88 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.10 REMARK 200 R MERGE FOR SHELL (I) : 1.20800 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: REFMAC 5.8.0257 REMARK 200 STARTING MODEL: 6G4B REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SUCCINIC ACID, PH 7.6, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 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 60.13800 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 90.20700 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 30.06900 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: 13550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -81.0 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 MET A 1 REMARK 465 ASN A 2 REMARK 465 GLN A 3 REMARK 465 SER A 4 REMARK 465 VAL A 5 REMARK 465 GLY A 457 REMARK 465 GLY A 458 REMARK 465 MET B 1 REMARK 465 ASN B 2 REMARK 465 GLN B 3 REMARK 465 SER B 4 REMARK 465 VAL B 5 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 SER A 6 OG 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 SER A 59 -34.16 -136.06 REMARK 500 SER A 65 44.42 -149.81 REMARK 500 THR A 79 -63.89 -97.52 REMARK 500 HIS A 88 -5.38 76.69 REMARK 500 SER A 146 -165.44 -127.93 REMARK 500 THR A 239 -3.53 80.68 REMARK 500 PHE A 264 49.28 72.98 REMARK 500 GLN A 279 77.18 -115.08 REMARK 500 SER A 286 -157.25 -166.61 REMARK 500 LYS A 287 -98.87 54.69 REMARK 500 SER A 292 18.51 55.29 REMARK 500 HIS A 328 128.66 -39.29 REMARK 500 GLN A 396 -67.78 67.83 REMARK 500 CYS A 426 59.61 -153.71 REMARK 500 SER B 59 -34.05 -133.53 REMARK 500 SER B 65 44.09 -150.73 REMARK 500 THR B 79 -63.70 -95.39 REMARK 500 HIS B 88 -4.52 76.38 REMARK 500 SER B 146 -167.43 -128.00 REMARK 500 THR B 239 -2.80 80.93 REMARK 500 PHE B 264 51.40 73.88 REMARK 500 GLN B 279 78.25 -113.87 REMARK 500 SER B 286 -157.15 -169.04 REMARK 500 LYS B 287 -98.67 56.36 REMARK 500 SER B 292 17.53 56.77 REMARK 500 HIS B 328 127.04 -37.08 REMARK 500 GLN B 396 -147.27 54.52 REMARK 500 CYS B 426 60.30 -152.05 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 B1379 DISTANCE = 6.51 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 NA B1004 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1104 O REMARK 620 2 HOH A1320 O 108.0 REMARK 620 3 HOH B1362 O 140.0 109.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1003 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B1132 O REMARK 620 2 HOH B1287 O 92.5 REMARK 620 3 HOH B1322 O 91.9 96.9 REMARK 620 4 HOH B1370 O 81.3 90.0 170.5 REMARK 620 5 HOH B1373 O 125.2 53.9 129.4 60.0 REMARK 620 N 1 2 3 4 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 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SIN B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide PLP B 1001 and LYS B REMARK 800 287 DBREF1 6TB1 A 1 455 UNP A0A2D8IND4_PSESP DBREF2 6TB1 A A0A2D8IND4 1 455 DBREF1 6TB1 B 1 455 UNP A0A2D8IND4_PSESP DBREF2 6TB1 B A0A2D8IND4 1 455 SEQADV 6TB1 ALA A 9 UNP A0A2D8IND PRO 9 ENGINEERED MUTATION SEQADV 6TB1 GLN A 38 UNP A0A2D8IND GLU 38 ENGINEERED MUTATION SEQADV 6TB1 VAL A 60 UNP A0A2D8IND ALA 60 ENGINEERED MUTATION SEQADV 6TB1 ASN A 87 UNP A0A2D8IND SER 87 ENGINEERED MUTATION SEQADV 6TB1 PHE A 128 UNP A0A2D8IND MET 128 ENGINEERED MUTATION SEQADV 6TB1 VAL A 154 UNP A0A2D8IND ILE 154 ENGINEERED MUTATION SEQADV 6TB1 PRO A 456 UNP A0A2D8IND EXPRESSION TAG SEQADV 6TB1 GLY A 457 UNP A0A2D8IND EXPRESSION TAG SEQADV 6TB1 GLY A 458 UNP A0A2D8IND EXPRESSION TAG SEQADV 6TB1 ALA B 9 UNP A0A2D8IND PRO 9 ENGINEERED MUTATION SEQADV 6TB1 GLN B 38 UNP A0A2D8IND GLU 38 ENGINEERED MUTATION SEQADV 6TB1 VAL B 60 UNP A0A2D8IND ALA 60 ENGINEERED MUTATION SEQADV 6TB1 ASN B 87 UNP A0A2D8IND SER 87 ENGINEERED MUTATION SEQADV 6TB1 PHE B 128 UNP A0A2D8IND MET 128 ENGINEERED MUTATION SEQADV 6TB1 VAL B 154 UNP A0A2D8IND ILE 154 ENGINEERED MUTATION SEQADV 6TB1 PRO B 456 UNP A0A2D8IND EXPRESSION TAG SEQADV 6TB1 GLY B 457 UNP A0A2D8IND EXPRESSION TAG SEQADV 6TB1 GLY B 458 UNP A0A2D8IND EXPRESSION TAG SEQRES 1 A 458 MET ASN GLN SER VAL SER SER LEU ALA GLU LYS ASP ILE SEQRES 2 A 458 GLN TYR GLN LEU HIS PRO TYR THR ASN ALA ARG LEU HIS SEQRES 3 A 458 GLN GLU LEU GLY PRO LEU ILE ILE GLU ARG GLY GLN GLY SEQRES 4 A 458 ILE TYR VAL TYR ASP ASP GLN GLY LYS GLY TYR ILE GLU SEQRES 5 A 458 ALA MET ALA GLY LEU TRP SER VAL ALA LEU GLY PHE SER SEQRES 6 A 458 ASN GLN ARG LEU ILE LYS ALA ALA GLU GLN GLN PHE ASN SEQRES 7 A 458 THR LEU PRO PHE TYR HIS LEU PHE ASN HIS LYS SER HIS SEQRES 8 A 458 ARG PRO SER ILE GLU LEU ALA GLU LYS LEU ILE GLU MET SEQRES 9 A 458 ALA PRO VAL PRO MET SER LYS VAL PHE PHE THR ASN SER SEQRES 10 A 458 GLY SER GLU ALA ASN ASP THR VAL VAL LYS PHE VAL TRP SEQRES 11 A 458 TYR LEU ASN ASN ALA LEU GLY LYS PRO ALA LYS LYS LYS SEQRES 12 A 458 PHE ILE SER ARG VAL ASN GLY TYR HIS GLY VAL THR VAL SEQRES 13 A 458 ALA SER ALA SER LEU THR GLY LEU PRO GLY ASN GLN ARG SEQRES 14 A 458 GLY PHE ASP LEU PRO LEU PRO GLY PHE LEU HIS VAL GLY SEQRES 15 A 458 CYS PRO HIS HIS TYR ARG PHE ALA LEU ALA GLY GLU SER SEQRES 16 A 458 GLU GLU HIS PHE ALA ASP ARG LEU ALA VAL GLU LEU GLU SEQRES 17 A 458 GLN LYS ILE LEU ALA GLU GLY PRO GLU THR ILE ALA ALA SEQRES 18 A 458 PHE ILE GLY GLU PRO LEU MET GLY ALA GLY GLY VAL ILE SEQRES 19 A 458 VAL PRO PRO ARG THR TYR TRP GLU LYS ILE GLN LYS VAL SEQRES 20 A 458 CYS ARG LYS TYR ASP ILE LEU VAL ILE ALA ASP GLU VAL SEQRES 21 A 458 ILE CYS GLY PHE GLY ARG THR GLY GLN MET PHE GLY SER SEQRES 22 A 458 GLN THR PHE GLY ILE GLN PRO ASP ILE MET VAL LEU SER SEQRES 23 A 458 LYS GLN LEU SER SER SER TYR GLN PRO ILE ALA ALA ILE SEQRES 24 A 458 LEU ILE ASN ALA PRO VAL PHE GLU GLY ILE ALA ASP GLN SEQRES 25 A 458 SER GLN ALA LEU GLY ALA LEU GLY HIS GLY PHE THR GLY SEQRES 26 A 458 SER GLY HIS PRO VAL ALA THR ALA VAL ALA LEU GLU ASN SEQRES 27 A 458 LEU LYS ILE ILE GLU GLU GLU SER LEU VAL GLU HIS ALA SEQRES 28 A 458 ALA GLN MET GLY GLN LEU LEU ARG SER GLY LEU GLN HIS SEQRES 29 A 458 PHE ILE ASP HIS PRO LEU VAL GLY GLU ILE ARG GLY CYS SEQRES 30 A 458 GLY LEU ILE ALA ALA VAL GLU LEU VAL GLY ASP ARG VAL SEQRES 31 A 458 SER LYS ALA PRO TYR GLN ALA LEU GLY THR LEU GLY ARG SEQRES 32 A 458 TYR MET ALA GLY ARG ALA GLN GLU HIS GLY MET ILE THR SEQRES 33 A 458 ARG ALA MET GLY ASP ALA VAL ALA PHE CYS PRO PRO LEU SEQRES 34 A 458 ILE VAL ASN GLU GLN GLU VAL GLY MET ILE VAL GLU ARG SEQRES 35 A 458 PHE ALA ARG ALA LEU ASP ASP THR THR GLN TRP VAL GLY SEQRES 36 A 458 PRO GLY GLY SEQRES 1 B 458 MET ASN GLN SER VAL SER SER LEU ALA GLU LYS ASP ILE SEQRES 2 B 458 GLN TYR GLN LEU HIS PRO TYR THR ASN ALA ARG LEU HIS SEQRES 3 B 458 GLN GLU LEU GLY PRO LEU ILE ILE GLU ARG GLY GLN GLY SEQRES 4 B 458 ILE TYR VAL TYR ASP ASP GLN GLY LYS GLY TYR ILE GLU SEQRES 5 B 458 ALA MET ALA GLY LEU TRP SER VAL ALA LEU GLY PHE SER SEQRES 6 B 458 ASN GLN ARG LEU ILE LYS ALA ALA GLU GLN GLN PHE ASN SEQRES 7 B 458 THR LEU PRO PHE TYR HIS LEU PHE ASN HIS LYS SER HIS SEQRES 8 B 458 ARG PRO SER ILE GLU LEU ALA GLU LYS LEU ILE GLU MET SEQRES 9 B 458 ALA PRO VAL PRO MET SER LYS VAL PHE PHE THR ASN SER SEQRES 10 B 458 GLY SER GLU ALA ASN ASP THR VAL VAL LYS PHE VAL TRP SEQRES 11 B 458 TYR LEU ASN ASN ALA LEU GLY LYS PRO ALA LYS LYS LYS SEQRES 12 B 458 PHE ILE SER ARG VAL ASN GLY TYR HIS GLY VAL THR VAL SEQRES 13 B 458 ALA SER ALA SER LEU THR GLY LEU PRO GLY ASN GLN ARG SEQRES 14 B 458 GLY PHE ASP LEU PRO LEU PRO GLY PHE LEU HIS VAL GLY SEQRES 15 B 458 CYS PRO HIS HIS TYR ARG PHE ALA LEU ALA GLY GLU SER SEQRES 16 B 458 GLU GLU HIS PHE ALA ASP ARG LEU ALA VAL GLU LEU GLU SEQRES 17 B 458 GLN LYS ILE LEU ALA GLU GLY PRO GLU THR ILE ALA ALA SEQRES 18 B 458 PHE ILE GLY GLU PRO LEU MET GLY ALA GLY GLY VAL ILE SEQRES 19 B 458 VAL PRO PRO ARG THR TYR TRP GLU LYS ILE GLN LYS VAL SEQRES 20 B 458 CYS ARG LYS TYR ASP ILE LEU VAL ILE ALA ASP GLU VAL SEQRES 21 B 458 ILE CYS GLY PHE GLY ARG THR GLY GLN MET PHE GLY SER SEQRES 22 B 458 GLN THR PHE GLY ILE GLN PRO ASP ILE MET VAL LEU SER SEQRES 23 B 458 LYS GLN LEU SER SER SER TYR GLN PRO ILE ALA ALA ILE SEQRES 24 B 458 LEU ILE ASN ALA PRO VAL PHE GLU GLY ILE ALA ASP GLN SEQRES 25 B 458 SER GLN ALA LEU GLY ALA LEU GLY HIS GLY PHE THR GLY SEQRES 26 B 458 SER GLY HIS PRO VAL ALA THR ALA VAL ALA LEU GLU ASN SEQRES 27 B 458 LEU LYS ILE ILE GLU GLU GLU SER LEU VAL GLU HIS ALA SEQRES 28 B 458 ALA GLN MET GLY GLN LEU LEU ARG SER GLY LEU GLN HIS SEQRES 29 B 458 PHE ILE ASP HIS PRO LEU VAL GLY GLU ILE ARG GLY CYS SEQRES 30 B 458 GLY LEU ILE ALA ALA VAL GLU LEU VAL GLY ASP ARG VAL SEQRES 31 B 458 SER LYS ALA PRO TYR GLN ALA LEU GLY THR LEU GLY ARG SEQRES 32 B 458 TYR MET ALA GLY ARG ALA GLN GLU HIS GLY MET ILE THR SEQRES 33 B 458 ARG ALA MET GLY ASP ALA VAL ALA PHE CYS PRO PRO LEU SEQRES 34 B 458 ILE VAL ASN GLU GLN GLU VAL GLY MET ILE VAL GLU ARG SEQRES 35 B 458 PHE ALA ARG ALA LEU ASP ASP THR THR GLN TRP VAL GLY SEQRES 36 B 458 PRO GLY GLY HET PLP A1001 15 HET GOL A1002 6 HET GOL A1003 6 HET GOL A1004 6 HET GOL A1005 6 HET PLP B1001 15 HET SIN B1002 8 HET NA B1003 1 HET NA B1004 1 HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM GOL GLYCEROL HETNAM SIN SUCCINIC ACID HETNAM NA SODIUM ION HETSYN PLP VITAMIN B6 PHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 PLP 2(C8 H10 N O6 P) FORMUL 4 GOL 4(C3 H8 O3) FORMUL 9 SIN C4 H6 O4 FORMUL 10 NA 2(NA 1+) FORMUL 12 HOH *524(H2 O) HELIX 1 AA1 SER A 7 GLN A 16 1 10 HELIX 2 AA2 ASN A 22 GLY A 30 1 9 HELIX 3 AA3 MET A 54 SER A 59 1 6 HELIX 4 AA4 ASN A 66 ASN A 78 1 13 HELIX 5 AA5 LEU A 85 ASN A 87 5 3 HELIX 6 AA6 HIS A 91 ALA A 105 1 15 HELIX 7 AA7 SER A 117 LEU A 136 1 20 HELIX 8 AA8 ALA A 157 THR A 162 1 6 HELIX 9 AA9 LEU A 164 GLN A 168 5 5 HELIX 10 AB1 HIS A 185 ALA A 190 1 6 HELIX 11 AB2 SER A 195 GLY A 215 1 21 HELIX 12 AB3 THR A 239 TYR A 251 1 13 HELIX 13 AB4 PHE A 271 PHE A 276 1 6 HELIX 14 AB5 SER A 286 SER A 290 5 5 HELIX 15 AB6 ASN A 302 LEU A 316 1 15 HELIX 16 AB7 HIS A 328 GLU A 345 1 18 HELIX 17 AB8 SER A 346 HIS A 364 1 19 HELIX 18 AB9 GLY A 399 HIS A 412 1 14 HELIX 19 AC1 ASN A 432 GLY A 455 1 24 HELIX 20 AC2 SER B 7 GLN B 16 1 10 HELIX 21 AC3 ASN B 22 GLY B 30 1 9 HELIX 22 AC4 MET B 54 SER B 59 1 6 HELIX 23 AC5 ASN B 66 LEU B 80 1 15 HELIX 24 AC6 LEU B 85 ASN B 87 5 3 HELIX 25 AC7 HIS B 91 ALA B 105 1 15 HELIX 26 AC8 SER B 117 LEU B 136 1 20 HELIX 27 AC9 ALA B 157 THR B 162 1 6 HELIX 28 AD1 LEU B 164 GLN B 168 5 5 HELIX 29 AD2 HIS B 185 ALA B 190 1 6 HELIX 30 AD3 SER B 195 GLY B 215 1 21 HELIX 31 AD4 THR B 239 TYR B 251 1 13 HELIX 32 AD5 PHE B 271 PHE B 276 1 6 HELIX 33 AD6 SER B 286 SER B 290 5 5 HELIX 34 AD7 ASN B 302 LEU B 316 1 15 HELIX 35 AD8 HIS B 328 GLU B 345 1 18 HELIX 36 AD9 SER B 346 HIS B 364 1 19 HELIX 37 AE1 GLY B 399 HIS B 412 1 14 HELIX 38 AE2 ASN B 432 GLY B 455 1 24 SHEET 1 AA1 5 MET A 414 ILE A 415 0 SHEET 2 AA1 5 GLY A 49 GLU A 52 1 N ILE A 51 O ILE A 415 SHEET 3 AA1 5 TYR A 41 ASP A 44 -1 N VAL A 42 O TYR A 50 SHEET 4 AA1 5 LEU A 32 GLN A 38 -1 N GLU A 35 O TYR A 43 SHEET 5 AA1 5 LYS B 89 SER B 90 1 O SER B 90 N ILE A 34 SHEET 1 AA2 5 LYS A 89 SER A 90 0 SHEET 2 AA2 5 LEU B 32 GLN B 38 1 O ILE B 34 N SER A 90 SHEET 3 AA2 5 TYR B 41 ASP B 44 -1 O TYR B 43 N GLU B 35 SHEET 4 AA2 5 GLY B 49 GLU B 52 -1 O TYR B 50 N VAL B 42 SHEET 5 AA2 5 MET B 414 ILE B 415 1 O ILE B 415 N ILE B 51 SHEET 1 AA3 7 LYS A 111 THR A 115 0 SHEET 2 AA3 7 ALA A 297 ILE A 301 -1 O ILE A 299 N PHE A 113 SHEET 3 AA3 7 ILE A 282 LEU A 285 -1 N MET A 283 O LEU A 300 SHEET 4 AA3 7 LEU A 254 ASP A 258 1 N ALA A 257 O ILE A 282 SHEET 5 AA3 7 ILE A 219 GLY A 224 1 N PHE A 222 O ILE A 256 SHEET 6 AA3 7 LYS A 143 ARG A 147 1 N LYS A 143 O ALA A 220 SHEET 7 AA3 7 PHE A 178 VAL A 181 1 O LEU A 179 N PHE A 144 SHEET 1 AA4 4 VAL A 371 CYS A 377 0 SHEET 2 AA4 4 ILE A 380 LEU A 385 -1 O GLU A 384 N GLU A 373 SHEET 3 AA4 4 ALA A 422 PHE A 425 -1 O PHE A 425 N ALA A 381 SHEET 4 AA4 4 ALA A 418 MET A 419 -1 N MET A 419 O ALA A 422 SHEET 1 AA5 7 LYS B 111 THR B 115 0 SHEET 2 AA5 7 ALA B 297 ILE B 301 -1 O ILE B 299 N PHE B 113 SHEET 3 AA5 7 ILE B 282 LEU B 285 -1 N MET B 283 O LEU B 300 SHEET 4 AA5 7 LEU B 254 ASP B 258 1 N ALA B 257 O ILE B 282 SHEET 5 AA5 7 ILE B 219 GLY B 224 1 N PHE B 222 O ILE B 256 SHEET 6 AA5 7 LYS B 143 ARG B 147 1 N LYS B 143 O ALA B 220 SHEET 7 AA5 7 PHE B 178 VAL B 181 1 O LEU B 179 N PHE B 144 SHEET 1 AA6 4 VAL B 371 CYS B 377 0 SHEET 2 AA6 4 ILE B 380 LEU B 385 -1 O GLU B 384 N GLU B 373 SHEET 3 AA6 4 ALA B 422 PHE B 425 -1 O PHE B 425 N ALA B 381 SHEET 4 AA6 4 ALA B 418 MET B 419 -1 N MET B 419 O ALA B 422 LINK NZ LYS A 287 C4A PLP A1001 1555 1555 1.32 LINK NZ LYS B 287 C4A PLP B1001 1555 1555 1.32 LINK O HOH A1104 NA NA B1004 1555 1555 2.42 LINK O HOH A1320 NA NA B1004 1555 1555 2.57 LINK NA NA B1003 O HOH B1132 1555 1555 2.37 LINK NA NA B1003 O HOH B1287 1555 1555 2.37 LINK NA NA B1003 O HOH B1322 1555 1555 2.23 LINK NA NA B1003 O HOH B1370 1555 1555 2.31 LINK NA NA B1003 O HOH B1373 1555 1555 3.06 LINK NA NA B1004 O HOH B1362 1555 1555 2.78 CISPEP 1 LEU A 173 PRO A 174 0 1.44 CISPEP 2 LEU B 173 PRO B 174 0 1.75 SITE 1 AC1 15 SER A 117 GLY A 118 SER A 119 TYR A 151 SITE 2 AC1 15 HIS A 152 GLU A 225 ASP A 258 VAL A 260 SITE 3 AC1 15 ILE A 261 LYS A 287 HOH A1133 HOH A1168 SITE 4 AC1 15 HOH A1203 HOH A1236 THR B 324 SITE 1 AC2 9 HIS A 412 GLU A 441 ARG A 442 ARG A 445 SITE 2 AC2 9 HOH A1118 HOH A1131 GLN B 452 TRP B 453 SITE 3 AC2 9 VAL B 454 SITE 1 AC3 6 TRP A 58 ALA A 230 ARG A 417 HOH A1140 SITE 2 AC3 6 HOH A1249 PHE B 86 SITE 1 AC4 7 ARG A 169 GLY A 170 GLU A 433 HOH A1112 SITE 2 AC4 7 ASN B 134 GLN B 312 VAL B 390 SITE 1 AC5 7 THR A 21 ASN A 22 LEU A 25 ARG A 403 SITE 2 AC5 7 HIS B 88 ASP B 367 HOH B1101 SITE 1 AC6 7 GLN B 38 TYR B 41 TYR B 43 HOH B1118 SITE 2 AC6 7 HOH B1154 HOH B1167 HOH B1181 SITE 1 AC7 5 HOH B1132 HOH B1287 HOH B1322 HOH B1370 SITE 2 AC7 5 HOH B1373 SITE 1 AC8 6 ARG A 36 HOH A1104 HOH A1320 ASN B 78 SITE 2 AC8 6 THR B 79 HOH B1362 SITE 1 AC9 22 THR A 324 LEU B 57 SER B 59 SER B 117 SITE 2 AC9 22 GLY B 118 SER B 119 TYR B 151 HIS B 152 SITE 3 AC9 22 GLU B 225 ASP B 258 VAL B 260 ILE B 261 SITE 4 AC9 22 SER B 286 GLN B 288 LEU B 289 SER B 290 SITE 5 AC9 22 SER B 291 SER B 292 HOH B1116 HOH B1170 SITE 6 AC9 22 HOH B1208 HOH B1220 CRYST1 98.924 98.924 120.276 90.00 90.00 90.00 P 43 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 0.010109 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010109 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008314 0.00000