HEADER TRANSFERASE 08-APR-20 6YME TITLE CRYSTAL STRUCTURE OF SERINE HYDROXYMETHYLTRANSFERASE FROM APHANOTHECE TITLE 2 HALOPHYTICA IN THE PLP-INTERNAL ALDIMINE STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE HYDROXYMETHYLTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SERINE METHYLASE; COMPND 5 EC: 2.1.2.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: APHANOTHECE HALOPHYTICA; SOURCE 3 ORGANISM_TAXID: 72020; SOURCE 4 GENE: GLYRA, GLYA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET28B(+) KEYWDS SERINE BIOSYNTHESIS, GLYCINE, PLP, ONE-CARBON METABOLISM, KEYWDS 2 TETRAHYDROFOLATE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.RUSZKOWSKI,B.SEKULA,I.NOGUES,A.TRAMONTI,S.ANGELACCIO,R.CONTESTABILE REVDAT 4 24-JAN-24 6YME 1 REMARK REVDAT 3 17-JUN-20 6YME 1 REMARK REVDAT 2 10-JUN-20 6YME 1 JRNL REVDAT 1 03-JUN-20 6YME 0 JRNL AUTH I.NOGUES,A.TRAMONTI,S.ANGELACCIO,M.RUSZKOWSKI,B.SEKULA, JRNL AUTH 2 R.CONTESTABILE JRNL TITL STRUCTURAL AND KINETIC PROPERTIES OF SERINE JRNL TITL 2 HYDROXYMETHYLTRANSFERASE FROM THE HALOPHYTIC CYANOBACTERIUM JRNL TITL 3 APHANOTHECE HALOPHYTICA PROVIDE A RATIONALE FOR SALT JRNL TITL 4 TOLERANCE. JRNL REF INT.J.BIOL.MACROMOL. V. 159 517 2020 JRNL REFN ISSN 0141-8130 JRNL PMID 32417544 JRNL DOI 10.1016/J.IJBIOMAC.2020.05.081 REMARK 2 REMARK 2 RESOLUTION. 1.77 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0222 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) : 1.77 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 81.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 66654 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) : 0.142 REMARK 3 R VALUE (WORKING SET) : 0.141 REMARK 3 FREE R VALUE : 0.175 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.500 REMARK 3 FREE R VALUE TEST SET COUNT : 1016 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) : 1.77 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.82 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4685 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.85 REMARK 3 BIN R VALUE (WORKING SET) : 0.2520 REMARK 3 BIN FREE R VALUE SET COUNT : 71 REMARK 3 BIN FREE R VALUE : 0.2150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3268 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 473 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.04 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.35000 REMARK 3 B22 (A**2) : 0.35000 REMARK 3 B33 (A**2) : -1.12000 REMARK 3 B12 (A**2) : 0.17000 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): 0.068 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.074 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.050 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.172 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3385 ; 0.014 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 3058 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4587 ; 1.702 ; 1.671 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7181 ; 1.133 ; 1.657 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 430 ; 6.142 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 170 ;34.242 ;23.176 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 549 ;12.797 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;18.276 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 444 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3815 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 589 ; 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 : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 87 REMARK 3 ORIGIN FOR THE GROUP (A): 24.9082 46.6571 64.5371 REMARK 3 T TENSOR REMARK 3 T11: 0.0381 T22: 0.0756 REMARK 3 T33: 0.0584 T12: 0.0089 REMARK 3 T13: 0.0011 T23: -0.0008 REMARK 3 L TENSOR REMARK 3 L11: 0.0573 L22: 0.0830 REMARK 3 L33: 0.3576 L12: 0.0297 REMARK 3 L13: -0.0712 L23: -0.1011 REMARK 3 S TENSOR REMARK 3 S11: -0.0038 S12: 0.0363 S13: 0.0065 REMARK 3 S21: 0.0305 S22: 0.0153 S23: -0.0013 REMARK 3 S31: -0.0800 S32: 0.0052 S33: -0.0115 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 88 A 281 REMARK 3 ORIGIN FOR THE GROUP (A): 14.8937 28.5236 51.9165 REMARK 3 T TENSOR REMARK 3 T11: 0.0212 T22: 0.0909 REMARK 3 T33: 0.0582 T12: -0.0035 REMARK 3 T13: -0.0058 T23: -0.0100 REMARK 3 L TENSOR REMARK 3 L11: 0.1916 L22: 0.2099 REMARK 3 L33: 0.2788 L12: 0.0238 REMARK 3 L13: -0.0700 L23: -0.0384 REMARK 3 S TENSOR REMARK 3 S11: -0.0376 S12: 0.0916 S13: -0.0160 REMARK 3 S21: 0.0450 S22: 0.0879 S23: -0.0113 REMARK 3 S31: 0.0273 S32: -0.0720 S33: -0.0504 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 282 A 426 REMARK 3 ORIGIN FOR THE GROUP (A): 41.0746 32.6456 46.2059 REMARK 3 T TENSOR REMARK 3 T11: 0.0037 T22: 0.0846 REMARK 3 T33: 0.0725 T12: 0.0044 REMARK 3 T13: 0.0161 T23: 0.0118 REMARK 3 L TENSOR REMARK 3 L11: 0.5788 L22: 0.0076 REMARK 3 L33: 0.1951 L12: 0.0014 REMARK 3 L13: -0.3300 L23: -0.0080 REMARK 3 S TENSOR REMARK 3 S11: -0.0112 S12: 0.0550 S13: -0.0299 REMARK 3 S21: -0.0043 S22: -0.0218 S23: -0.0174 REMARK 3 S31: 0.0094 S32: -0.0144 S33: 0.0329 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 WERE ADDED IN THE RIDING REMARK 3 POSITIONS DURING REFINEMENT; U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 6YME COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-APR-20. REMARK 100 THE DEPOSITION ID IS D_1292107833. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-AUG-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 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) : 1.000 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67717 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.770 REMARK 200 RESOLUTION RANGE LOW (A) : 81.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 11.30 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.77 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.88 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.1 REMARK 200 DATA REDUNDANCY IN SHELL : 11.30 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 6YMD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.05 M CITRIC ACID, 0.05 M BIS-TRIS REMARK 280 PROPANE AT PH 5.0 AND 16% POLYETHYLENE GLYCOL 3350, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 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+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 44.82200 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 89.64400 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 89.64400 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 44.82200 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: 10360 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -56.0 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 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 134.46600 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 A1061 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 427 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 ALA A 57 44.91 -142.20 REMARK 500 ALA A 178 46.54 -147.73 REMARK 500 LLP A 231 -135.22 73.98 REMARK 500 SER A 311 -2.99 78.84 REMARK 500 ASN A 316 -145.98 -133.80 REMARK 500 ASN A 341 37.56 71.06 REMARK 500 THR A 359 167.06 64.99 REMARK 500 ASN A 420 57.51 39.58 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 GOL 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 GOL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 506 DBREF 6YME A 1 427 UNP I7H6W6 I7H6W6_APHHA 1 427 SEQADV 6YME MET A -19 UNP I7H6W6 INITIATING METHIONINE SEQADV 6YME GLY A -18 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME SER A -17 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME SER A -16 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME HIS A -15 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME HIS A -14 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME HIS A -13 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME HIS A -12 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME HIS A -11 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME HIS A -10 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME SER A -9 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME SER A -8 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME GLY A -7 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME LEU A -6 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME VAL A -5 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME PRO A -4 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME ARG A -3 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME GLY A -2 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME SER A -1 UNP I7H6W6 EXPRESSION TAG SEQADV 6YME HIS A 0 UNP I7H6W6 EXPRESSION TAG SEQRES 1 A 447 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 447 LEU VAL PRO ARG GLY SER HIS MET THR GLN THR ASN LEU SEQRES 3 A 447 ASP PHE LEU LEU GLN THR ASP PRO THR ILE SER GLY MET SEQRES 4 A 447 MET GLN LYS GLU LEU GLN ARG GLN ARG GLU HIS LEU GLU SEQRES 5 A 447 LEU ILE ALA SER GLU ASN PHE THR SER PRO ALA VAL MET SEQRES 6 A 447 ALA THR GLN GLY SER VAL LEU THR ASN LYS TYR ALA GLU SEQRES 7 A 447 GLY LEU PRO LYS LYS ARG TYR TYR GLY GLY CYS GLU PHE SEQRES 8 A 447 ILE ASP GLU ILE GLU GLN VAL ALA ILE ASP ARG ALA LYS SEQRES 9 A 447 GLU LEU PHE GLY ALA ALA SER ALA ASN VAL GLN PRO HIS SEQRES 10 A 447 SER GLY ALA GLN ALA ASN PHE ALA VAL PHE LEU THR LEU SEQRES 11 A 447 LEU LYS PRO GLY ASP LYS ILE MET GLY MET ASP LEU SER SEQRES 12 A 447 HIS GLY GLY HIS LEU THR HIS GLY SER PRO ALA ASN VAL SEQRES 13 A 447 SER GLY LYS TRP PHE GLU ALA VAL HIS TYR GLY VAL SER SEQRES 14 A 447 GLN GLU THR GLU GLN LEU ASP TYR ASP HIS ILE LEU GLU SEQRES 15 A 447 VAL ALA ARG GLN GLU ARG PRO LYS LEU ILE ILE CYS GLY SEQRES 16 A 447 TYR SER ALA TYR PRO ARG ILE ILE ASN PHE GLU LYS PHE SEQRES 17 A 447 ARG ALA ILE ALA ASP GLU VAL GLY ALA TYR LEU LEU ALA SEQRES 18 A 447 ASP ILE ALA HIS ILE ALA GLY LEU VAL ALA SER GLY HIS SEQRES 19 A 447 HIS PRO ASN PRO VAL PRO HIS CYS ASP VAL VAL THR THR SEQRES 20 A 447 THR THR HIS LLP THR LEU ARG GLY PRO ARG GLY GLY LEU SEQRES 21 A 447 ILE LEU THR ARG ASP PRO GLU LEU GLY LYS LYS PHE ASN SEQRES 22 A 447 LYS SER VAL PHE PRO GLY THR GLN GLY GLY PRO LEU GLU SEQRES 23 A 447 HIS VAL ILE ALA GLY LYS ALA VAL ALA PHE GLY GLU ALA SEQRES 24 A 447 LEU LYS PRO GLU PHE LYS ALA TYR SER GLY GLN VAL ILE SEQRES 25 A 447 ALA ASN ALA GLN ALA MET ALA GLN GLN LEU GLN ASN ARG SEQRES 26 A 447 GLY PHE LYS ILE VAL SER GLY GLY THR ASP ASN HIS LEU SEQRES 27 A 447 MET LEU VAL ASP LEU ARG SER VAL ASN LEU THR GLY LYS SEQRES 28 A 447 GLN ALA ASP GLN LEU VAL SER ASP VAL ASN ILE THR ALA SEQRES 29 A 447 ASN LYS ASN THR VAL PRO PHE ASP PRO GLU SER PRO PHE SEQRES 30 A 447 VAL THR SER GLY LEU ARG LEU GLY SER PRO ALA MET THR SEQRES 31 A 447 THR ARG GLY LEU GLY THR GLU ASP PHE ALA GLU ILE ALA SEQRES 32 A 447 ASN ILE ILE ALA ASP ARG LEU GLN ASN PRO GLU ASP GLU SEQRES 33 A 447 GLN VAL LYS GLN ALA CYS VAL GLN ARG VAL ALA ALA LEU SEQRES 34 A 447 CYS GLU ARG PHE PRO LEU TYR PRO HIS LEU ASN ALA PRO SEQRES 35 A 447 VAL PRO ALA MET ALA MODRES 6YME LLP A 231 LYS MODIFIED RESIDUE HET LLP A 231 24 HET GOL A 501 6 HET GOL A 502 6 HET GOL A 503 6 HET GOL A 504 6 HET GOL A 505 6 HET PEG A 506 7 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 GOL GLYCEROL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN LLP N'-PYRIDOXYL-LYSINE-5'-MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 LLP C14 H22 N3 O7 P FORMUL 2 GOL 5(C3 H8 O3) FORMUL 7 PEG C4 H10 O3 FORMUL 8 HOH *473(H2 O) HELIX 1 AA1 THR A 4 ASP A 13 1 10 HELIX 2 AA2 ASP A 13 GLU A 29 1 17 HELIX 3 AA3 SER A 41 GLY A 49 1 9 HELIX 4 AA4 SER A 50 LYS A 55 5 6 HELIX 5 AA5 CYS A 69 GLY A 88 1 20 HELIX 6 AA6 SER A 98 LEU A 111 1 14 HELIX 7 AA7 LEU A 122 GLY A 125 5 4 HELIX 8 AA8 HIS A 127 GLY A 131 5 5 HELIX 9 AA9 ASN A 135 TRP A 140 1 6 HELIX 10 AB1 ASP A 156 ARG A 168 1 13 HELIX 11 AB2 ASN A 184 GLY A 196 1 13 HELIX 12 AB3 ILE A 206 SER A 212 1 7 HELIX 13 AB4 HIS A 230 ARG A 234 5 5 HELIX 14 AB5 ASP A 245 PHE A 257 1 13 HELIX 15 AB6 LEU A 265 LEU A 280 1 16 HELIX 16 AB7 LYS A 281 ARG A 305 1 25 HELIX 17 AB8 SER A 311 GLY A 313 5 3 HELIX 18 AB9 ARG A 324 ASN A 327 5 4 HELIX 19 AC1 THR A 329 ASP A 339 1 11 HELIX 20 AC2 SER A 366 ARG A 372 1 7 HELIX 21 AC3 GLY A 375 ASN A 392 1 18 HELIX 22 AC4 ASP A 395 PHE A 413 1 19 SHEET 1 AA1 2 LEU A 31 GLU A 32 0 SHEET 2 AA1 2 ILE A 342 THR A 343 1 O THR A 343 N LEU A 31 SHEET 1 AA2 2 GLY A 59 LEU A 60 0 SHEET 2 AA2 2 LYS A 63 ARG A 64 -1 O LYS A 63 N LEU A 60 SHEET 1 AA3 7 SER A 91 ASN A 93 0 SHEET 2 AA3 7 GLY A 239 THR A 243 -1 O ILE A 241 N ASN A 93 SHEET 3 AA3 7 VAL A 224 THR A 228 -1 N VAL A 225 O LEU A 242 SHEET 4 AA3 7 TYR A 198 ASP A 202 1 N ALA A 201 O THR A 226 SHEET 5 AA3 7 LEU A 171 CYS A 174 1 N CYS A 174 O ASP A 202 SHEET 6 AA3 7 LYS A 116 MET A 120 1 N MET A 118 O ILE A 173 SHEET 7 AA3 7 GLU A 142 TYR A 146 1 O VAL A 144 N ILE A 117 SHEET 1 AA4 4 LYS A 308 ILE A 309 0 SHEET 2 AA4 4 LEU A 318 ASP A 322 -1 O ASP A 322 N LYS A 308 SHEET 3 AA4 4 GLY A 361 GLY A 365 -1 O LEU A 362 N VAL A 321 SHEET 4 AA4 4 ASN A 345 ASN A 347 -1 N ASN A 345 O ARG A 363 LINK C HIS A 230 N LLP A 231 1555 1555 1.33 LINK C LLP A 231 N THR A 232 1555 1555 1.34 CISPEP 1 PHE A 257 PRO A 258 0 9.43 SITE 1 AC1 11 SER A 36 TYR A 56 GLU A 58 TYR A 66 SITE 2 AC1 11 HIS A 127 SER A 177 HIS A 205 LLP A 231 SITE 3 AC1 11 ARG A 363 HOH A 605 HOH A 612 SITE 1 AC2 6 GLU A 151 GLU A 153 LYS A 308 SER A 311 SITE 2 AC2 6 GLY A 312 HOH A 979 SITE 1 AC3 8 GLN A 77 ASP A 81 LYS A 84 ARG A 305 SITE 2 AC3 8 ASN A 384 HOH A 637 HOH A 690 HOH A 734 SITE 1 AC4 8 GLY A 213 GLN A 400 GLN A 404 HOH A 611 SITE 2 AC4 8 HOH A 640 HOH A 681 HOH A 713 HOH A 724 SITE 1 AC5 10 THR A 371 ARG A 372 PRO A 414 LEU A 415 SITE 2 AC5 10 TYR A 416 HOH A 606 HOH A 678 HOH A 792 SITE 3 AC5 10 HOH A 903 HOH A 907 SITE 1 AC6 4 THR A 109 TYR A 198 LYS A 251 HOH A 900 CRYST1 94.383 94.383 134.466 90.00 90.00 120.00 P 31 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 0.010595 0.006117 0.000000 0.00000 SCALE2 0.000000 0.012234 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007437 0.00000