HEADER TRANSFERASE 21-NOV-19 6TI4 TITLE SHMT FROM STREPTOCOCCUS THERMOPHILUS TYR55SER VARIANT IN COMPLEX WITH TITLE 2 PLP/D-SERINE/LYS230 GEM DIAMINE COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE HYDROXYMETHYLTRANSFERASE; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: SERINE METHYLASE; COMPND 5 EC: 2.1.2.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 1308; SOURCE 4 GENE: GLYA, CDA68_00974, DID82_07515; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PYRIDOXAL PHOSPHATE; X-RAY CRYSTALLOGRAPHY; HYDROXYMETHYLTRANSFERASE; KEYWDS 2 PROTON ABSTRACTION; TETRAHYDROFOLATE-INDEPENDENT, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR G.PETRILLO,K.HERNANDEZ,J.BUJONS,P.CLAPES,I.USON REVDAT 2 24-JAN-24 6TI4 1 REMARK REVDAT 1 15-APR-20 6TI4 0 JRNL AUTH G.PETRILLO,K.HERNANDEZ,J.BUJONS,P.CLAPES,I.USON JRNL TITL CRYSTAL STRUCTURE OF Y55S SERINE HYDROXYMETHYLTRANSFERASE JRNL TITL 2 VARIANT FROM STREPTOCOCCUS THERMOPHILUS IN COMPLEX WITH JRNL TITL 3 GEM-DIAMINE INTERMEDIATE OF D-SERINE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.93 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.93 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 98.63 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 92342 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.164 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 4774 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) : 1.93 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.98 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6782 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.65 REMARK 3 BIN R VALUE (WORKING SET) : 0.2850 REMARK 3 BIN FREE R VALUE SET COUNT : 316 REMARK 3 BIN FREE R VALUE : 0.3220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6236 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 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) : 42.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.06000 REMARK 3 B22 (A**2) : 2.06000 REMARK 3 B33 (A**2) : -4.12000 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): 0.104 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.102 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.083 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.041 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.965 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6419 ; 0.012 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 5962 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8712 ; 1.787 ; 1.645 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13846 ; 1.482 ; 1.578 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 819 ; 6.575 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 306 ;35.308 ;23.595 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1048 ;14.204 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;16.039 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 845 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7235 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1247 ; 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 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6TI4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-NOV-19. REMARK 100 THE DEPOSITION ID IS D_1292105523. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUL-16 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 : ALBA REMARK 200 BEAMLINE : XALOC REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9697 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 : XPREP REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 92342 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.930 REMARK 200 RESOLUTION RANGE LOW (A) : 98.630 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 2.980 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.1600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.93 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.98 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.07000 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: 4XWG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PLP 0.1M D-SERINE 100MM CACODYLATE REMARK 280 0.1M PH 6.5 SODIUM CITRATE 1M, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 96.41650 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 57.39100 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 57.39100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 48.20825 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 57.39100 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 57.39100 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 144.62475 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 57.39100 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 57.39100 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 48.20825 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 57.39100 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 57.39100 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 144.62475 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 96.41650 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: 7340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -51.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 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 905 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 PHE A 3 REMARK 465 ASP A 4 REMARK 465 LYS A 5 REMARK 465 GLU A 6 REMARK 465 MET C 1 REMARK 465 ILE C 2 REMARK 465 PHE C 3 REMARK 465 ASP C 4 REMARK 465 LYS C 5 REMARK 465 GLU C 6 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 ARG C 236 CG - CD - NE ANGL. DEV. = -16.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LYS A 62 53.17 -149.34 REMARK 500 ALA A 177 22.66 -145.06 REMARK 500 LYS A 230 -134.43 88.31 REMARK 500 ARG A 233 31.94 71.79 REMARK 500 ASN A 316 -151.37 -136.53 REMARK 500 THR A 359 162.50 71.64 REMARK 500 LYS C 62 49.66 -144.95 REMARK 500 ALA C 177 30.27 -146.22 REMARK 500 LYS C 230 -138.02 82.94 REMARK 500 ASN C 316 -149.17 -141.91 REMARK 500 GLU C 352 134.91 -37.83 REMARK 500 THR C 359 165.63 65.79 REMARK 500 PHE C 413 79.19 -115.50 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 GOL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue O3Z A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide O3Z C 501 and LYS C REMARK 800 230 DBREF 6TI4 A 1 416 UNP Q5MCK9 Q5MCK9_STRTR 1 416 DBREF 6TI4 C 1 416 UNP Q5MCK9 Q5MCK9_STRTR 1 416 SEQADV 6TI4 SER A 55 UNP Q5MCK9 TYR 55 ENGINEERED MUTATION SEQADV 6TI4 SER C 55 UNP Q5MCK9 TYR 55 ENGINEERED MUTATION SEQRES 1 A 416 MET ILE PHE ASP LYS GLU ASP TYR LYS ALA PHE ASP PRO SEQRES 2 A 416 GLU LEU TRP ASN ALA ILE ASP ALA GLU ALA GLU ARG GLN SEQRES 3 A 416 GLN ASN ASN ILE GLU LEU ILE ALA SER GLU ASN VAL VAL SEQRES 4 A 416 SER LYS ALA VAL MET ALA ALA GLN GLY THR LEU LEU THR SEQRES 5 A 416 ASN LYS SER ALA GLU GLY TYR PRO GLY LYS ARG TYR TYR SEQRES 6 A 416 GLY GLY THR ALA VAL ILE ASP VAL VAL GLU THR LEU ALA SEQRES 7 A 416 ILE GLU ARG ALA LYS LYS LEU PHE GLY ALA LYS PHE ALA SEQRES 8 A 416 ASN VAL GLN PRO HIS SER GLY SER GLN ALA ASN ALA ALA SEQRES 9 A 416 VAL TYR MET SER LEU ILE GLN PRO GLY ASP THR VAL MET SEQRES 10 A 416 GLY MET ASP LEU SER ALA GLY GLY HIS LEU THR HIS GLY SEQRES 11 A 416 ALA PRO VAL SER PHE SER GLY LYS THR TYR ASN PHE VAL SEQRES 12 A 416 SER TYR ASN VAL ASP LYS GLU SER GLU LEU LEU ASP TYR SEQRES 13 A 416 ASP ALA ILE LEU ALA GLN ALA LYS GLU VAL ARG PRO LYS SEQRES 14 A 416 LEU ILE VAL ALA GLY ALA SER ALA TYR SER ARG ILE ILE SEQRES 15 A 416 ASP PHE ALA LYS PHE ARG GLU ILE ALA ASP ALA VAL GLY SEQRES 16 A 416 ALA TYR LEU MET VAL ASP MET ALA HIS ILE ALA GLY LEU SEQRES 17 A 416 VAL ALA SER GLY HIS HIS PRO SER PRO VAL PRO TYR ALA SEQRES 18 A 416 HIS VAL THR THR THR THR THR HIS LYS THR LEU ARG GLY SEQRES 19 A 416 PRO ARG GLY GLY LEU ILE LEU THR ASP ASP GLU ASP ILE SEQRES 20 A 416 ALA LYS LYS LEU ASN SER ALA VAL PHE PRO GLY LEU GLN SEQRES 21 A 416 GLY GLY PRO LEU GLU HIS VAL ILE ALA ALA LYS ALA VAL SEQRES 22 A 416 ALA LEU LYS GLU ALA LEU ASP PRO ALA PHE LYS GLU TYR SEQRES 23 A 416 GLY GLU ASN VAL ILE LYS ASN ALA ALA ALA MET ALA ASP SEQRES 24 A 416 VAL PHE ASN GLN HIS PRO ASP PHE ARG VAL ILE SER GLY SEQRES 25 A 416 GLY THR ASN ASN HIS LEU PHE LEU VAL ASP VAL THR LYS SEQRES 26 A 416 VAL VAL GLU ASN GLY LYS VAL ALA GLN ASN VAL LEU GLU SEQRES 27 A 416 GLU VAL ASN ILE THR LEU ASN LYS ASN SER ILE PRO TYR SEQRES 28 A 416 GLU GLN LEU SER PRO PHE LYS THR SER GLY ILE ARG VAL SEQRES 29 A 416 GLY SER PRO ALA ILE THR SER ARG GLY MET GLY GLU ALA SEQRES 30 A 416 GLU SER ARG GLN ILE ALA GLU TRP MET VAL GLU ALA LEU SEQRES 31 A 416 GLU ASN HIS ASP LYS PRO GLU VAL LEU GLU ARG ILE ARG SEQRES 32 A 416 GLY ASP VAL LYS VAL LEU THR ASP ALA PHE PRO LEU TYR SEQRES 1 C 416 MET ILE PHE ASP LYS GLU ASP TYR LYS ALA PHE ASP PRO SEQRES 2 C 416 GLU LEU TRP ASN ALA ILE ASP ALA GLU ALA GLU ARG GLN SEQRES 3 C 416 GLN ASN ASN ILE GLU LEU ILE ALA SER GLU ASN VAL VAL SEQRES 4 C 416 SER LYS ALA VAL MET ALA ALA GLN GLY THR LEU LEU THR SEQRES 5 C 416 ASN LYS SER ALA GLU GLY TYR PRO GLY LYS ARG TYR TYR SEQRES 6 C 416 GLY GLY THR ALA VAL ILE ASP VAL VAL GLU THR LEU ALA SEQRES 7 C 416 ILE GLU ARG ALA LYS LYS LEU PHE GLY ALA LYS PHE ALA SEQRES 8 C 416 ASN VAL GLN PRO HIS SER GLY SER GLN ALA ASN ALA ALA SEQRES 9 C 416 VAL TYR MET SER LEU ILE GLN PRO GLY ASP THR VAL MET SEQRES 10 C 416 GLY MET ASP LEU SER ALA GLY GLY HIS LEU THR HIS GLY SEQRES 11 C 416 ALA PRO VAL SER PHE SER GLY LYS THR TYR ASN PHE VAL SEQRES 12 C 416 SER TYR ASN VAL ASP LYS GLU SER GLU LEU LEU ASP TYR SEQRES 13 C 416 ASP ALA ILE LEU ALA GLN ALA LYS GLU VAL ARG PRO LYS SEQRES 14 C 416 LEU ILE VAL ALA GLY ALA SER ALA TYR SER ARG ILE ILE SEQRES 15 C 416 ASP PHE ALA LYS PHE ARG GLU ILE ALA ASP ALA VAL GLY SEQRES 16 C 416 ALA TYR LEU MET VAL ASP MET ALA HIS ILE ALA GLY LEU SEQRES 17 C 416 VAL ALA SER GLY HIS HIS PRO SER PRO VAL PRO TYR ALA SEQRES 18 C 416 HIS VAL THR THR THR THR THR HIS LYS THR LEU ARG GLY SEQRES 19 C 416 PRO ARG GLY GLY LEU ILE LEU THR ASP ASP GLU ASP ILE SEQRES 20 C 416 ALA LYS LYS LEU ASN SER ALA VAL PHE PRO GLY LEU GLN SEQRES 21 C 416 GLY GLY PRO LEU GLU HIS VAL ILE ALA ALA LYS ALA VAL SEQRES 22 C 416 ALA LEU LYS GLU ALA LEU ASP PRO ALA PHE LYS GLU TYR SEQRES 23 C 416 GLY GLU ASN VAL ILE LYS ASN ALA ALA ALA MET ALA ASP SEQRES 24 C 416 VAL PHE ASN GLN HIS PRO ASP PHE ARG VAL ILE SER GLY SEQRES 25 C 416 GLY THR ASN ASN HIS LEU PHE LEU VAL ASP VAL THR LYS SEQRES 26 C 416 VAL VAL GLU ASN GLY LYS VAL ALA GLN ASN VAL LEU GLU SEQRES 27 C 416 GLU VAL ASN ILE THR LEU ASN LYS ASN SER ILE PRO TYR SEQRES 28 C 416 GLU GLN LEU SER PRO PHE LYS THR SER GLY ILE ARG VAL SEQRES 29 C 416 GLY SER PRO ALA ILE THR SER ARG GLY MET GLY GLU ALA SEQRES 30 C 416 GLU SER ARG GLN ILE ALA GLU TRP MET VAL GLU ALA LEU SEQRES 31 C 416 GLU ASN HIS ASP LYS PRO GLU VAL LEU GLU ARG ILE ARG SEQRES 32 C 416 GLY ASP VAL LYS VAL LEU THR ASP ALA PHE PRO LEU TYR HET GOL A 501 6 HET O3Z A 502 22 HET GOL A 503 6 HET MG A 504 1 HET O3Z C 501 22 HETNAM GOL GLYCEROL HETNAM O3Z (2~{R})-2-[[2-METHYL-3-OXIDANYL-5-(PHOSPHONOOXYMETHYL) HETNAM 2 O3Z PYRIDIN-4-YL]METHYLAMINO]-3-OXIDANYL-PROPANOIC ACID HETNAM MG MAGNESIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GOL 2(C3 H8 O3) FORMUL 4 O3Z 2(C11 H17 N2 O8 P) FORMUL 6 MG MG 2+ FORMUL 8 HOH *524(H2 O) HELIX 1 AA1 ASP A 7 ASP A 12 1 6 HELIX 2 AA2 ASP A 12 ASN A 29 1 18 HELIX 3 AA3 SER A 40 GLY A 48 1 9 HELIX 4 AA4 THR A 49 LYS A 54 5 6 HELIX 5 AA5 THR A 68 GLY A 87 1 20 HELIX 6 AA6 SER A 97 ILE A 110 1 14 HELIX 7 AA7 LEU A 121 GLY A 124 5 4 HELIX 8 AA8 HIS A 126 GLY A 130 5 5 HELIX 9 AA9 SER A 134 TYR A 140 1 7 HELIX 10 AB1 ASP A 155 ARG A 167 1 13 HELIX 11 AB2 ASP A 183 VAL A 194 1 12 HELIX 12 AB3 ILE A 205 SER A 211 1 7 HELIX 13 AB4 HIS A 229 ARG A 233 5 5 HELIX 14 AB5 ASP A 244 PHE A 256 1 13 HELIX 15 AB6 LEU A 264 ASP A 280 1 17 HELIX 16 AB7 ASP A 280 HIS A 304 1 25 HELIX 17 AB8 SER A 311 GLY A 313 5 3 HELIX 18 AB9 ASN A 329 VAL A 340 1 12 HELIX 19 AC1 SER A 366 ARG A 372 1 7 HELIX 20 AC2 GLY A 375 ASN A 392 1 18 HELIX 21 AC3 LYS A 395 PHE A 413 1 19 HELIX 22 AC4 ASP C 7 PHE C 11 5 5 HELIX 23 AC5 ASP C 12 ASN C 28 1 17 HELIX 24 AC6 SER C 40 GLY C 48 1 9 HELIX 25 AC7 THR C 49 LYS C 54 5 6 HELIX 26 AC8 THR C 68 GLY C 87 1 20 HELIX 27 AC9 SER C 97 ILE C 110 1 14 HELIX 28 AD1 LEU C 121 GLY C 124 5 4 HELIX 29 AD2 HIS C 126 GLY C 130 5 5 HELIX 30 AD3 SER C 134 TYR C 140 1 7 HELIX 31 AD4 ASP C 155 ARG C 167 1 13 HELIX 32 AD5 ASP C 183 GLY C 195 1 13 HELIX 33 AD6 ILE C 205 SER C 211 1 7 HELIX 34 AD7 ASP C 244 PHE C 256 1 13 HELIX 35 AD8 LEU C 264 ASP C 280 1 17 HELIX 36 AD9 PRO C 281 HIS C 304 1 24 HELIX 37 AE1 SER C 311 GLY C 313 5 3 HELIX 38 AE2 ASN C 329 VAL C 340 1 12 HELIX 39 AE3 SER C 366 ARG C 372 1 7 HELIX 40 AE4 GLY C 375 ASN C 392 1 18 HELIX 41 AE5 LYS C 395 PHE C 413 1 19 SHEET 1 AA1 2 ILE A 30 GLU A 31 0 SHEET 2 AA1 2 ILE A 342 THR A 343 1 O THR A 343 N ILE A 30 SHEET 1 AA2 2 GLY A 58 TYR A 59 0 SHEET 2 AA2 2 LYS A 62 ARG A 63 -1 O LYS A 62 N TYR A 59 SHEET 1 AA3 7 PHE A 90 ASN A 92 0 SHEET 2 AA3 7 GLY A 238 THR A 242 -1 O ILE A 240 N ASN A 92 SHEET 3 AA3 7 VAL A 223 THR A 227 -1 N THR A 224 O LEU A 241 SHEET 4 AA3 7 TYR A 197 ASP A 201 1 N VAL A 200 O THR A 225 SHEET 5 AA3 7 LEU A 170 ALA A 173 1 N ALA A 173 O ASP A 201 SHEET 6 AA3 7 THR A 115 MET A 119 1 N MET A 117 O VAL A 172 SHEET 7 AA3 7 ASN A 141 TYR A 145 1 O VAL A 143 N VAL A 116 SHEET 1 AA4 4 ARG A 308 VAL A 309 0 SHEET 2 AA4 4 LEU A 318 ASP A 322 -1 O ASP A 322 N ARG A 308 SHEET 3 AA4 4 GLY A 361 GLY A 365 -1 O VAL A 364 N PHE A 319 SHEET 4 AA4 4 ASN A 345 ASN A 347 -1 N ASN A 345 O ARG A 363 SHEET 1 AA5 2 ILE C 30 GLU C 31 0 SHEET 2 AA5 2 ILE C 342 THR C 343 1 O THR C 343 N ILE C 30 SHEET 1 AA6 2 GLY C 58 TYR C 59 0 SHEET 2 AA6 2 LYS C 62 ARG C 63 -1 O LYS C 62 N TYR C 59 SHEET 1 AA7 7 PHE C 90 ASN C 92 0 SHEET 2 AA7 7 GLY C 238 THR C 242 -1 O ILE C 240 N ASN C 92 SHEET 3 AA7 7 VAL C 223 THR C 227 -1 N THR C 224 O LEU C 241 SHEET 4 AA7 7 TYR C 197 ASP C 201 1 N VAL C 200 O THR C 225 SHEET 5 AA7 7 LEU C 170 ALA C 173 1 N ILE C 171 O MET C 199 SHEET 6 AA7 7 THR C 115 MET C 119 1 N MET C 117 O VAL C 172 SHEET 7 AA7 7 ASN C 141 TYR C 145 1 O VAL C 143 N VAL C 116 SHEET 1 AA8 4 ARG C 308 VAL C 309 0 SHEET 2 AA8 4 LEU C 318 ASP C 322 -1 O ASP C 322 N ARG C 308 SHEET 3 AA8 4 GLY C 361 GLY C 365 -1 O VAL C 364 N PHE C 319 SHEET 4 AA8 4 ASN C 345 ASN C 347 -1 N ASN C 345 O ARG C 363 LINK NZ LYS A 230 C4A O3Z A 502 1555 1555 1.50 LINK NZ LYS C 230 C4A O3Z C 501 1555 1555 1.46 LINK O GLU A 57 MG MG A 504 1555 1555 2.81 CISPEP 1 PHE A 256 PRO A 257 0 0.88 CISPEP 2 PHE C 256 PRO C 257 0 -0.81 SITE 1 AC1 8 TYR A 156 ARG A 180 ASP A 183 HOH A 663 SITE 2 AC1 8 HOH A 664 HOH A 676 HOH A 692 HOH A 758 SITE 1 AC2 20 SER A 35 SER A 97 GLY A 98 SER A 99 SITE 2 AC2 20 HIS A 126 SER A 176 ASP A 201 ALA A 203 SITE 3 AC2 20 HIS A 204 HIS A 229 LYS A 230 ARG A 363 SITE 4 AC2 20 HOH A 703 HOH A 760 GLU C 57 TYR C 65 SITE 5 AC2 20 GLY C 261 GLY C 262 HOH C 717 HOH C 758 SITE 1 AC3 7 HIS A 213 PRO A 219 GLU A 288 ILE A 291 SITE 2 AC3 7 LYS A 292 HOH A 601 HOH A 783 SITE 1 AC4 6 SER A 55 ALA A 56 GLU A 57 ARG A 63 SITE 2 AC4 6 TYR A 64 TYR A 65 SITE 1 AC5 25 GLU A 57 TYR A 65 GLY A 261 GLY A 262 SITE 2 AC5 25 HOH A 723 SER C 35 ASN C 37 SER C 97 SITE 3 AC5 25 GLY C 98 SER C 99 HIS C 126 SER C 176 SITE 4 AC5 25 ASP C 201 ALA C 203 HIS C 204 HIS C 229 SITE 5 AC5 25 THR C 231 LEU C 232 ARG C 233 ARG C 363 SITE 6 AC5 25 HOH C 653 HOH C 673 HOH C 691 HOH C 704 SITE 7 AC5 25 HOH C 745 CRYST1 114.782 114.782 192.833 90.00 90.00 90.00 P 41 21 2 16 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 0.008712 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008712 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005186 0.00000