HEADER TRANSFERASE 12-DEC-03 1RV3 TITLE E75L MUTANT OF RABBIT CYTOSOLIC SERINE HYDROXYMETHYLTRANSFERASE, TITLE 2 COMPLEX WITH GLYCINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE HYDROXYMETHYLTRANSFERASE, CYTOSOLIC; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: SERINE METHYLASE, GLYCINE HYDROXYMETHYLTRANSFERASE, SHMT; COMPND 5 EC: 2.1.2.1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ORYCTOLAGUS CUNICULUS; SOURCE 3 ORGANISM_COMMON: RABBIT; SOURCE 4 ORGANISM_TAXID: 9986; SOURCE 5 GENE: SHMT1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS ONE-CARBON METABOLISM, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.M.SZEBENYI,F.N.MUSAYEV,M.L.DI SALVO,M.K.SAFO,V.SCHIRCH REVDAT 5 23-AUG-23 1RV3 1 REMARK REVDAT 4 27-OCT-21 1RV3 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 1RV3 1 VERSN REVDAT 2 24-FEB-09 1RV3 1 VERSN REVDAT 1 15-JUN-04 1RV3 0 JRNL AUTH D.M.SZEBENYI,F.N.MUSAYEV,M.L.DI SALVO,M.K.SAFO,V.SCHIRCH JRNL TITL SERINE HYDROXYMETHYLTRANSFERASE: ROLE OF GLU75 AND EVIDENCE JRNL TITL 2 THAT SERINE IS CLEAVED BY A RETROALDOL MECHANISM. JRNL REF BIOCHEMISTRY V. 43 6865 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 15170323 JRNL DOI 10.1021/BI049791Y REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.88 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2595470.560 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 41555 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 SET) : 0.224 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2087 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.55 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 6495 REMARK 3 BIN R VALUE (WORKING SET) : 0.3160 REMARK 3 BIN FREE R VALUE : 0.3640 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 352 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.019 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7184 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 45 REMARK 3 SOLVENT ATOMS : 86 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 51.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.98000 REMARK 3 B22 (A**2) : -5.98000 REMARK 3 B33 (A**2) : 11.96000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.34 REMARK 3 ESD FROM SIGMAA (A) : 0.35 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.40 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.41 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.770 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : GROUP REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.31 REMARK 3 BSOL : 31.75 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : PLS.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : PLS.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : WATER.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1RV3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-DEC-03. REMARK 100 THE DEPOSITION ID IS D_1000021060. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-FEB-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : A1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9363 REMARK 200 MONOCHROMATOR : SI 111, BENT TRIANGLE REMARK 200 OPTICS : WHITE BEAM MIRROR, FOCUSSING REMARK 200 MONOCHROMATIC MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DPS, MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42006 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 48.900 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 13.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 12.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.56600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.300 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: PDB ENTRY 1CJ0 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, KCL, POTASSIUM PHOSPHATE, PH REMARK 280 6.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298.0K 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 79.14500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 57.46000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 57.46000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 39.57250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 57.46000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 57.46000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 118.71750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 57.46000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 57.46000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 39.57250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 57.46000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 57.46000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 118.71750 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 79.14500 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 300 REMARK: THE ASYMMETRIC UNIT CONTAINS A HOMODIMER. THE BIOLOGICAL REMARK 300 ASSEMBLY IS A TETRAMER CONSISTING OF A PAIR OF DIMERS. THE SECOND REMARK 300 DIMER IS GENERATED BY THE OPERATION: Y,X,1-Z. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 158.29000 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 ALA A 2 REMARK 465 THR A 3 REMARK 465 ALA A 4 REMARK 465 VAL A 5 REMARK 465 ASN A 6 REMARK 465 GLY A 7 REMARK 465 ALA A 8 REMARK 465 PRO A 9 REMARK 465 ARG A 10 REMARK 465 ASP A 11 REMARK 465 ALA A 12 REMARK 465 ALA A 13 REMARK 465 LEU A 14 REMARK 465 VAL A 276 REMARK 465 ASP A 277 REMARK 465 PRO A 278 REMARK 465 LYS A 279 REMARK 465 THR A 280 REMARK 465 GLY A 281 REMARK 465 LYS A 282 REMARK 465 ALA B 2 REMARK 465 THR B 3 REMARK 465 ALA B 4 REMARK 465 VAL B 5 REMARK 465 ASN B 6 REMARK 465 GLY B 7 REMARK 465 ALA B 8 REMARK 465 PRO B 9 REMARK 465 ARG B 10 REMARK 465 ASP B 11 REMARK 465 ALA B 12 REMARK 465 ALA B 13 REMARK 465 LEU B 14 REMARK 465 PRO B 278 REMARK 465 LYS B 279 REMARK 465 THR B 280 REMARK 465 GLY B 281 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 LYS A 257 CD - CE - NZ ANGL. DEV. = 17.0 DEGREES REMARK 500 ARG A 460 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 LYS B 257 CD - CE - NZ ANGL. DEV. = 13.9 DEGREES REMARK 500 ARG B 460 NE - CZ - NH1 ANGL. DEV. = -3.2 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 PRO A 108 -7.84 -56.45 REMARK 500 GLU A 133 156.07 75.45 REMARK 500 CYS A 204 69.88 -152.05 REMARK 500 HIS A 256 -141.91 -96.58 REMARK 500 LYS A 257 -130.51 57.07 REMARK 500 ASN A 356 -143.52 -130.47 REMARK 500 ASP A 392 114.25 16.29 REMARK 500 GLN A 459 -19.41 -47.21 REMARK 500 PRO A 482 -78.80 -27.88 REMARK 500 PRO B 108 -8.39 -56.37 REMARK 500 GLU B 133 155.36 76.57 REMARK 500 CYS B 204 70.94 -152.26 REMARK 500 HIS B 256 -142.80 -97.19 REMARK 500 LYS B 257 -130.61 57.15 REMARK 500 VAL B 276 -129.98 -122.54 REMARK 500 ASN B 356 -142.37 -129.75 REMARK 500 ASP B 392 114.17 16.24 REMARK 500 PRO B 482 80.70 -58.01 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 PO4 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GLY B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PLP B 600 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CJ0 RELATED DB: PDB REMARK 900 WILD-TYPE RABBIT CSHMT. REMARK 900 RELATED ID: 1LS3 RELATED DB: PDB REMARK 900 WILD-TYPE RABBIT CSHMT IN COMPLEX WITH GLYCINE AND 5- REMARK 900 FORMYLTETRAHYDROPTEROYLTRIGLUTAMATE. DBREF 1RV3 A 2 484 UNP P07511 GLYC_RABIT 1 483 DBREF 1RV3 B 2 484 UNP P07511 GLYC_RABIT 1 483 SEQADV 1RV3 LEU A 75 UNP P07511 GLU 74 ENGINEERED MUTATION SEQADV 1RV3 LEU B 75 UNP P07511 GLU 74 ENGINEERED MUTATION SEQRES 1 A 483 ALA THR ALA VAL ASN GLY ALA PRO ARG ASP ALA ALA LEU SEQRES 2 A 483 TRP SER SER HIS GLU GLN MET LEU ALA GLN PRO LEU LYS SEQRES 3 A 483 ASP SER ASP ALA GLU VAL TYR ASP ILE ILE LYS LYS GLU SEQRES 4 A 483 SER ASN ARG GLN ARG VAL GLY LEU GLU LEU ILE ALA SER SEQRES 5 A 483 GLU ASN PHE ALA SER ARG ALA VAL LEU GLU ALA LEU GLY SEQRES 6 A 483 SER CYS LEU ASN ASN LYS TYR SER LEU GLY TYR PRO GLY SEQRES 7 A 483 GLN ARG TYR TYR GLY GLY THR GLU HIS ILE ASP GLU LEU SEQRES 8 A 483 GLU THR LEU CYS GLN LYS ARG ALA LEU GLN ALA TYR GLY SEQRES 9 A 483 LEU ASP PRO GLN CYS TRP GLY VAL ASN VAL GLN PRO TYR SEQRES 10 A 483 SER GLY SER PRO ALA ASN PHE ALA VAL TYR THR ALA LEU SEQRES 11 A 483 VAL GLU PRO HIS GLY ARG ILE MET GLY LEU ASP LEU PRO SEQRES 12 A 483 ASP GLY GLY HIS LEU THR HIS GLY PHE MET THR ASP LYS SEQRES 13 A 483 LYS LYS ILE SER ALA THR SER ILE PHE PHE GLU SER MET SEQRES 14 A 483 ALA TYR LYS VAL ASN PRO ASP THR GLY TYR ILE ASP TYR SEQRES 15 A 483 ASP ARG LEU GLU GLU ASN ALA ARG LEU PHE HIS PRO LYS SEQRES 16 A 483 LEU ILE ILE ALA GLY THR SER CYS TYR SER ARG ASN LEU SEQRES 17 A 483 ASP TYR GLY ARG LEU ARG LYS ILE ALA ASP GLU ASN GLY SEQRES 18 A 483 ALA TYR LEU MET ALA ASP MET ALA HIS ILE SER GLY LEU SEQRES 19 A 483 VAL VAL ALA GLY VAL VAL PRO SER PRO PHE GLU HIS CYS SEQRES 20 A 483 HIS VAL VAL THR THR THR THR HIS LYS THR LEU ARG GLY SEQRES 21 A 483 CYS ARG ALA GLY MET ILE PHE TYR ARG ARG GLY VAL ARG SEQRES 22 A 483 SER VAL ASP PRO LYS THR GLY LYS GLU ILE LEU TYR ASN SEQRES 23 A 483 LEU GLU SER LEU ILE ASN SER ALA VAL PHE PRO GLY LEU SEQRES 24 A 483 GLN GLY GLY PRO HIS ASN HIS ALA ILE ALA GLY VAL ALA SEQRES 25 A 483 VAL ALA LEU LYS GLN ALA MET THR PRO GLU PHE LYS GLU SEQRES 26 A 483 TYR GLN ARG GLN VAL VAL ALA ASN CYS ARG ALA LEU SER SEQRES 27 A 483 ALA ALA LEU VAL GLU LEU GLY TYR LYS ILE VAL THR GLY SEQRES 28 A 483 GLY SER ASP ASN HIS LEU ILE LEU VAL ASP LEU ARG SER SEQRES 29 A 483 LYS GLY THR ASP GLY GLY ARG ALA GLU LYS VAL LEU GLU SEQRES 30 A 483 ALA CYS SER ILE ALA CYS ASN LYS ASN THR CYS PRO GLY SEQRES 31 A 483 ASP LYS SER ALA LEU ARG PRO SER GLY LEU ARG LEU GLY SEQRES 32 A 483 THR PRO ALA LEU THR SER ARG GLY LEU LEU GLU LYS ASP SEQRES 33 A 483 PHE GLN LYS VAL ALA HIS PHE ILE HIS ARG GLY ILE GLU SEQRES 34 A 483 LEU THR VAL GLN ILE GLN ASP ASP THR GLY PRO ARG ALA SEQRES 35 A 483 THR LEU LYS GLU PHE LYS GLU LYS LEU ALA GLY ASP GLU SEQRES 36 A 483 LYS HIS GLN ARG ALA VAL ARG ALA LEU ARG GLN GLU VAL SEQRES 37 A 483 GLU SER PHE ALA ALA LEU PHE PRO LEU PRO GLY LEU PRO SEQRES 38 A 483 GLY PHE SEQRES 1 B 483 ALA THR ALA VAL ASN GLY ALA PRO ARG ASP ALA ALA LEU SEQRES 2 B 483 TRP SER SER HIS GLU GLN MET LEU ALA GLN PRO LEU LYS SEQRES 3 B 483 ASP SER ASP ALA GLU VAL TYR ASP ILE ILE LYS LYS GLU SEQRES 4 B 483 SER ASN ARG GLN ARG VAL GLY LEU GLU LEU ILE ALA SER SEQRES 5 B 483 GLU ASN PHE ALA SER ARG ALA VAL LEU GLU ALA LEU GLY SEQRES 6 B 483 SER CYS LEU ASN ASN LYS TYR SER LEU GLY TYR PRO GLY SEQRES 7 B 483 GLN ARG TYR TYR GLY GLY THR GLU HIS ILE ASP GLU LEU SEQRES 8 B 483 GLU THR LEU CYS GLN LYS ARG ALA LEU GLN ALA TYR GLY SEQRES 9 B 483 LEU ASP PRO GLN CYS TRP GLY VAL ASN VAL GLN PRO TYR SEQRES 10 B 483 SER GLY SER PRO ALA ASN PHE ALA VAL TYR THR ALA LEU SEQRES 11 B 483 VAL GLU PRO HIS GLY ARG ILE MET GLY LEU ASP LEU PRO SEQRES 12 B 483 ASP GLY GLY HIS LEU THR HIS GLY PHE MET THR ASP LYS SEQRES 13 B 483 LYS LYS ILE SER ALA THR SER ILE PHE PHE GLU SER MET SEQRES 14 B 483 ALA TYR LYS VAL ASN PRO ASP THR GLY TYR ILE ASP TYR SEQRES 15 B 483 ASP ARG LEU GLU GLU ASN ALA ARG LEU PHE HIS PRO LYS SEQRES 16 B 483 LEU ILE ILE ALA GLY THR SER CYS TYR SER ARG ASN LEU SEQRES 17 B 483 ASP TYR GLY ARG LEU ARG LYS ILE ALA ASP GLU ASN GLY SEQRES 18 B 483 ALA TYR LEU MET ALA ASP MET ALA HIS ILE SER GLY LEU SEQRES 19 B 483 VAL VAL ALA GLY VAL VAL PRO SER PRO PHE GLU HIS CYS SEQRES 20 B 483 HIS VAL VAL THR THR THR THR HIS LYS THR LEU ARG GLY SEQRES 21 B 483 CYS ARG ALA GLY MET ILE PHE TYR ARG ARG GLY VAL ARG SEQRES 22 B 483 SER VAL ASP PRO LYS THR GLY LYS GLU ILE LEU TYR ASN SEQRES 23 B 483 LEU GLU SER LEU ILE ASN SER ALA VAL PHE PRO GLY LEU SEQRES 24 B 483 GLN GLY GLY PRO HIS ASN HIS ALA ILE ALA GLY VAL ALA SEQRES 25 B 483 VAL ALA LEU LYS GLN ALA MET THR PRO GLU PHE LYS GLU SEQRES 26 B 483 TYR GLN ARG GLN VAL VAL ALA ASN CYS ARG ALA LEU SER SEQRES 27 B 483 ALA ALA LEU VAL GLU LEU GLY TYR LYS ILE VAL THR GLY SEQRES 28 B 483 GLY SER ASP ASN HIS LEU ILE LEU VAL ASP LEU ARG SER SEQRES 29 B 483 LYS GLY THR ASP GLY GLY ARG ALA GLU LYS VAL LEU GLU SEQRES 30 B 483 ALA CYS SER ILE ALA CYS ASN LYS ASN THR CYS PRO GLY SEQRES 31 B 483 ASP LYS SER ALA LEU ARG PRO SER GLY LEU ARG LEU GLY SEQRES 32 B 483 THR PRO ALA LEU THR SER ARG GLY LEU LEU GLU LYS ASP SEQRES 33 B 483 PHE GLN LYS VAL ALA HIS PHE ILE HIS ARG GLY ILE GLU SEQRES 34 B 483 LEU THR VAL GLN ILE GLN ASP ASP THR GLY PRO ARG ALA SEQRES 35 B 483 THR LEU LYS GLU PHE LYS GLU LYS LEU ALA GLY ASP GLU SEQRES 36 B 483 LYS HIS GLN ARG ALA VAL ARG ALA LEU ARG GLN GLU VAL SEQRES 37 B 483 GLU SER PHE ALA ALA LEU PHE PRO LEU PRO GLY LEU PRO SEQRES 38 B 483 GLY PHE HET PO4 A 501 5 HET PLP A 500 15 HET PO4 B 601 5 HET GLY B 602 10 HET PLP B 600 15 HETNAM PO4 PHOSPHATE ION HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM GLY GLYCINE HETSYN PLP VITAMIN B6 PHOSPHATE FORMUL 3 PO4 2(O4 P 3-) FORMUL 4 PLP 2(C8 H10 N O6 P) FORMUL 6 GLY C2 H5 N O2 FORMUL 8 HOH *86(H2 O) HELIX 1 1 SER A 17 LEU A 22 1 6 HELIX 2 2 PRO A 25 ASP A 30 1 6 HELIX 3 3 ASP A 30 VAL A 46 1 17 HELIX 4 4 SER A 58 GLY A 66 1 9 HELIX 5 5 SER A 67 ASN A 71 5 5 HELIX 6 6 THR A 86 TYR A 104 1 19 HELIX 7 7 SER A 119 VAL A 132 1 14 HELIX 8 8 LEU A 143 GLY A 146 5 4 HELIX 9 9 HIS A 148 GLY A 152 5 5 HELIX 10 10 SER A 161 PHE A 167 1 7 HELIX 11 11 ASP A 182 HIS A 194 1 13 HELIX 12 12 ASP A 210 ASN A 221 1 12 HELIX 13 13 ILE A 232 GLY A 239 1 8 HELIX 14 14 SER A 243 HIS A 247 5 5 HELIX 15 15 HIS A 256 ARG A 260 5 5 HELIX 16 16 ASN A 287 PHE A 297 1 11 HELIX 17 17 HIS A 305 MET A 320 1 16 HELIX 18 18 THR A 321 LEU A 345 1 25 HELIX 19 19 THR A 351 GLY A 353 5 3 HELIX 20 20 ARG A 364 GLY A 367 5 4 HELIX 21 21 ASP A 369 CYS A 380 1 12 HELIX 22 22 THR A 405 ARG A 411 1 7 HELIX 23 23 LEU A 414 ASP A 438 1 25 HELIX 24 24 THR A 444 GLY A 454 1 11 HELIX 25 25 ASP A 455 ALA A 474 1 20 HELIX 26 26 TRP B 15 SER B 17 5 3 HELIX 27 27 HIS B 18 ALA B 23 1 6 HELIX 28 28 PRO B 25 ASP B 30 1 6 HELIX 29 29 ASP B 30 VAL B 46 1 17 HELIX 30 30 SER B 58 GLY B 66 1 9 HELIX 31 31 SER B 67 LYS B 72 5 6 HELIX 32 32 THR B 86 TYR B 104 1 19 HELIX 33 33 SER B 119 VAL B 132 1 14 HELIX 34 34 LEU B 143 GLY B 146 5 4 HELIX 35 35 HIS B 148 GLY B 152 5 5 HELIX 36 36 SER B 161 PHE B 167 1 7 HELIX 37 37 ASP B 182 HIS B 194 1 13 HELIX 38 38 ASP B 210 ASN B 221 1 12 HELIX 39 39 ILE B 232 ALA B 238 1 7 HELIX 40 40 SER B 243 HIS B 247 5 5 HELIX 41 41 HIS B 256 ARG B 260 5 5 HELIX 42 42 ASN B 287 PHE B 297 1 11 HELIX 43 43 HIS B 305 MET B 320 1 16 HELIX 44 44 THR B 321 LEU B 345 1 25 HELIX 45 45 THR B 351 GLY B 353 5 3 HELIX 46 46 ARG B 364 GLY B 367 5 4 HELIX 47 47 ASP B 369 CYS B 380 1 12 HELIX 48 48 THR B 405 ARG B 411 1 7 HELIX 49 49 LEU B 414 GLY B 440 1 27 HELIX 50 50 THR B 444 GLY B 454 1 11 HELIX 51 51 ASP B 455 ALA B 474 1 20 SHEET 1 A 2 LEU A 48 GLU A 49 0 SHEET 2 A 2 ILE A 382 ALA A 383 1 O ALA A 383 N LEU A 48 SHEET 1 B 2 GLY A 76 TYR A 77 0 SHEET 2 B 2 GLN A 80 ARG A 81 -1 O GLN A 80 N TYR A 77 SHEET 1 C 7 TRP A 111 ASN A 114 0 SHEET 2 C 7 GLY A 265 ARG A 270 -1 O TYR A 269 N GLY A 112 SHEET 3 C 7 VAL A 250 THR A 254 -1 N VAL A 251 O PHE A 268 SHEET 4 C 7 TYR A 224 ASP A 228 1 N ALA A 227 O THR A 252 SHEET 5 C 7 LEU A 197 ALA A 200 1 N ALA A 200 O MET A 226 SHEET 6 C 7 ARG A 137 LEU A 141 1 N MET A 139 O ILE A 199 SHEET 7 C 7 GLU A 168 TYR A 172 1 O GLU A 168 N ILE A 138 SHEET 1 D 4 LYS A 348 ILE A 349 0 SHEET 2 D 4 LEU A 358 ASP A 362 -1 O ASP A 362 N LYS A 348 SHEET 3 D 4 GLY A 400 GLY A 404 -1 O LEU A 401 N VAL A 361 SHEET 4 D 4 ASN A 385 ASN A 387 -1 N ASN A 385 O ARG A 402 SHEET 1 E 2 LEU B 48 GLU B 49 0 SHEET 2 E 2 ILE B 382 ALA B 383 1 O ALA B 383 N LEU B 48 SHEET 1 F 7 TRP B 111 ASN B 114 0 SHEET 2 F 7 GLY B 265 ARG B 270 -1 O TYR B 269 N GLY B 112 SHEET 3 F 7 VAL B 250 THR B 254 -1 N VAL B 251 O PHE B 268 SHEET 4 F 7 TYR B 224 ASP B 228 1 N ALA B 227 O THR B 252 SHEET 5 F 7 LEU B 197 ALA B 200 1 N ALA B 200 O MET B 226 SHEET 6 F 7 ARG B 137 LEU B 141 1 N MET B 139 O ILE B 199 SHEET 7 F 7 GLU B 168 TYR B 172 1 O GLU B 168 N ILE B 138 SHEET 1 G 2 VAL B 273 SER B 275 0 SHEET 2 G 2 ILE B 284 LEU B 285 -1 O ILE B 284 N SER B 275 SHEET 1 H 4 LYS B 348 ILE B 349 0 SHEET 2 H 4 LEU B 358 ASP B 362 -1 O ASP B 362 N LYS B 348 SHEET 3 H 4 GLY B 400 GLY B 404 -1 O LEU B 401 N VAL B 361 SHEET 4 H 4 ASN B 385 ASN B 387 -1 N ASN B 385 O ARG B 402 LINK NZ LYS A 257 C4A PLP A 500 1555 1555 1.51 LINK NZ LYS B 257 C4A PLP B 600 1555 1555 1.51 LINK C4A PLP B 600 N BGLY B 602 1555 1555 1.43 LINK C4A PLP B 600 N CGLY B 602 1555 1555 1.49 CISPEP 1 PHE A 297 PRO A 298 0 0.26 CISPEP 2 PHE B 297 PRO B 298 0 0.46 SITE 1 AC1 6 SER A 53 HIS A 231 ARG A 402 PLP A 500 SITE 2 AC1 6 TYR B 73 TYR B 83 SITE 1 AC2 8 TYR A 73 TYR A 83 SER B 53 SER B 203 SITE 2 AC2 8 HIS B 231 LYS B 257 ARG B 402 PLP B 600 SITE 1 AC3 8 TYR A 73 LEU A 75 TYR A 83 SER B 53 SITE 2 AC3 8 HIS B 231 LYS B 257 ARG B 402 PLP B 600 SITE 1 AC4 15 SER A 119 GLY A 120 SER A 121 HIS A 148 SITE 2 AC4 15 SER A 203 ASP A 228 ALA A 230 HIS A 231 SITE 3 AC4 15 THR A 254 HIS A 256 LYS A 257 PO4 A 501 SITE 4 AC4 15 HOH A 515 TYR B 73 GLY B 303 SITE 1 AC5 17 TYR A 73 TYR A 118 GLY A 303 SER B 119 SITE 2 AC5 17 GLY B 120 SER B 121 HIS B 148 THR B 202 SITE 3 AC5 17 SER B 203 ASP B 228 ALA B 230 HIS B 231 SITE 4 AC5 17 THR B 254 HIS B 256 LYS B 257 PO4 B 601 SITE 5 AC5 17 GLY B 602 CRYST1 114.920 114.920 158.290 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 0.008702 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008702 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006318 0.00000