HEADER LYASE 23-MAR-10 3MAF TITLE CRYSTAL STRUCTURE OF STSPL (ASYMMETRIC FORM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPHINGOSINE-1-PHOSPHATE LYASE; COMPND 3 CHAIN: A; COMPND 4 EC: 4.1.2.27; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: LLP AT RESIDUE 311; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: SPHINGOSINE-1-PHOSPHATE LYASE; COMPND 9 CHAIN: B; COMPND 10 EC: 4.1.2.27; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYMBIOBACTERIUM THERMOPHILUM; SOURCE 3 ORGANISM_TAXID: 2734; SOURCE 4 GENE: STH1274; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: M15; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PQE60; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: SYMBIOBACTERIUM THERMOPHILUM; SOURCE 12 ORGANISM_TAXID: 2734; SOURCE 13 GENE: STH1274; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: M15; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_VECTOR: PQE60 KEYWDS CARBOXY-LYASE ACTIVITY, PYRIDOXAL PHOSPHATE, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR F.BOURQUIN,M.G.GRUTTER,G.CAPITANI REVDAT 3 22-NOV-23 3MAF 1 REMARK REVDAT 2 06-SEP-23 3MAF 1 REMARK SEQADV LINK REVDAT 1 18-AUG-10 3MAF 0 JRNL AUTH F.BOURQUIN,H.RIEZMAN,G.CAPITANI,M.G.GRUTTER JRNL TITL STRUCTURE AND FUNCTION OF SPHINGOSINE-1-PHOSPHATE LYASE, A JRNL TITL 2 KEY ENZYME OF SPHINGOLIPID METABOLISM. JRNL REF STRUCTURE V. 18 1054 2010 JRNL REFN ISSN 0969-2126 JRNL PMID 20696404 JRNL DOI 10.1016/J.STR.2010.05.011 REMARK 2 REMARK 2 RESOLUTION. 2.97 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.4_29 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.67 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 19768 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.265 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 988 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 27.6660 - 5.6690 0.99 2822 148 0.1900 0.2270 REMARK 3 2 5.6690 - 4.5060 1.00 2738 145 0.1650 0.2360 REMARK 3 3 4.5060 - 3.9380 1.00 2704 142 0.1570 0.2030 REMARK 3 4 3.9380 - 3.5790 1.00 2679 141 0.1790 0.2860 REMARK 3 5 3.5790 - 3.3230 1.00 2667 140 0.2130 0.2910 REMARK 3 6 3.3230 - 3.1270 1.00 2654 140 0.2370 0.3170 REMARK 3 7 3.1270 - 2.9710 0.94 2516 132 0.3360 0.3990 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.36 REMARK 3 B_SOL : 33.15 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.400 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.380 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 36.08 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.59 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.16200 REMARK 3 B22 (A**2) : -8.53800 REMARK 3 B33 (A**2) : 12.70000 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 6528 REMARK 3 ANGLE : 0.973 8915 REMARK 3 CHIRALITY : 0.060 980 REMARK 3 PLANARITY : 0.005 1159 REMARK 3 DIHEDRAL : 16.137 2266 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN A AND (RESSEQ 64:89 OR RESSEQ REMARK 3 102:105 OR RESSEQ 108:121 OR RESSEQ 129: REMARK 3 309 OR RESSEQ 313:352 OR RESSEQ 355:393 REMARK 3 OR RESSEQ 399:472) REMARK 3 SELECTION : CHAIN B AND (RESSEQ 64:89 OR RESSEQ REMARK 3 102:105 OR RESSEQ 108:121 OR RESSEQ 129: REMARK 3 309 OR RESSEQ 313:352 OR RESSEQ 355:393 REMARK 3 OR RESSEQ 399:472) REMARK 3 ATOM PAIRS NUMBER : 2850 REMARK 3 RMSD : 0.054 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3MAF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-MAR-10. REMARK 100 THE DEPOSITION ID IS D_1000058310. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.3 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : LN(2) COOLED FIXED-EXIT SI(111) REMARK 200 OPTICS : DYNAMICALLY BENDABLE MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19779 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.970 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 5.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.11100 REMARK 200 FOR THE DATA SET : 13.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.97 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.44200 REMARK 200 FOR SHELL : 4.300 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: PDB ENTRY 2DGK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 2000 MME 25%, 0.2 M MGCL2, 0.1 M REMARK 280 TRIS(HOAC) PH 8.3, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 42.09500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 65.66000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.45000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.66000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.09500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 42.45000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 11130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -97.0 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 -4 REMARK 465 GLY A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 ARG A 0 REMARK 465 SER A 1 REMARK 465 LEU A 2 REMARK 465 SER A 3 REMARK 465 ALA A 4 REMARK 465 PHE A 5 REMARK 465 SER A 6 REMARK 465 PRO A 7 REMARK 465 PRO A 8 REMARK 465 LEU A 9 REMARK 465 PRO A 10 REMARK 465 CYS A 11 REMARK 465 ASP A 12 REMARK 465 PRO A 13 REMARK 465 ALA A 14 REMARK 465 ARG A 15 REMARK 465 SER A 16 REMARK 465 HIS A 17 REMARK 465 PRO A 18 REMARK 465 THR A 19 REMARK 465 PRO A 20 REMARK 465 GLU A 21 REMARK 465 PHE A 22 REMARK 465 PRO A 23 REMARK 465 SER A 24 REMARK 465 SER A 25 REMARK 465 LEU A 26 REMARK 465 GLN A 27 REMARK 465 ASP A 28 REMARK 465 TYR A 29 REMARK 465 CYS A 30 REMARK 465 GLU A 31 REMARK 465 ILE A 32 REMARK 465 ARG A 33 REMARK 465 GLY A 34 REMARK 465 ILE A 35 REMARK 465 GLN A 36 REMARK 465 SER A 37 REMARK 465 GLN A 38 REMARK 465 PRO A 39 REMARK 465 PRO A 40 REMARK 465 ALA A 41 REMARK 465 ARG A 42 REMARK 465 ARG A 43 REMARK 465 ASP A 44 REMARK 465 PRO A 45 REMARK 465 THR A 46 REMARK 465 MET A 47 REMARK 465 ASP A 48 REMARK 465 TRP A 49 REMARK 465 LEU A 50 REMARK 465 ALA A 51 REMARK 465 SER A 52 REMARK 465 LEU A 53 REMARK 465 ARG A 54 REMARK 465 SER A 55 REMARK 465 GLN A 56 REMARK 465 ILE A 57 REMARK 465 GLN A 124 REMARK 465 GLU A 473 REMARK 465 LYS A 474 REMARK 465 MET A 484 REMARK 465 ALA A 485 REMARK 465 ALA A 486 REMARK 465 ALA A 487 REMARK 465 ALA A 488 REMARK 465 PRO A 489 REMARK 465 HIS A 508 REMARK 465 HIS A 509 REMARK 465 HIS A 510 REMARK 465 HIS A 511 REMARK 465 HIS A 512 REMARK 465 HIS A 513 REMARK 465 MET B -4 REMARK 465 GLY B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 ARG B 0 REMARK 465 SER B 1 REMARK 465 LEU B 2 REMARK 465 SER B 3 REMARK 465 ALA B 4 REMARK 465 PHE B 5 REMARK 465 SER B 6 REMARK 465 PRO B 7 REMARK 465 PRO B 8 REMARK 465 LEU B 9 REMARK 465 PRO B 10 REMARK 465 CYS B 11 REMARK 465 ASP B 12 REMARK 465 PRO B 13 REMARK 465 ALA B 14 REMARK 465 ARG B 15 REMARK 465 SER B 16 REMARK 465 HIS B 17 REMARK 465 PRO B 18 REMARK 465 THR B 19 REMARK 465 PRO B 20 REMARK 465 GLU B 21 REMARK 465 PHE B 22 REMARK 465 PRO B 23 REMARK 465 SER B 24 REMARK 465 SER B 25 REMARK 465 LEU B 26 REMARK 465 GLN B 27 REMARK 465 ASP B 28 REMARK 465 TYR B 29 REMARK 465 CYS B 30 REMARK 465 GLU B 31 REMARK 465 ILE B 32 REMARK 465 ARG B 33 REMARK 465 GLY B 34 REMARK 465 ILE B 35 REMARK 465 GLN B 36 REMARK 465 SER B 37 REMARK 465 GLN B 38 REMARK 465 PRO B 39 REMARK 465 PRO B 40 REMARK 465 ALA B 41 REMARK 465 ARG B 42 REMARK 465 ARG B 43 REMARK 465 ASP B 44 REMARK 465 PRO B 45 REMARK 465 THR B 46 REMARK 465 MET B 47 REMARK 465 ASP B 48 REMARK 465 TRP B 49 REMARK 465 LEU B 50 REMARK 465 ALA B 51 REMARK 465 SER B 52 REMARK 465 LEU B 53 REMARK 465 ARG B 54 REMARK 465 SER B 55 REMARK 465 GLN B 56 REMARK 465 ILE B 57 REMARK 465 LYS B 58 REMARK 465 PRO B 59 REMARK 465 TYR B 60 REMARK 465 ARG B 61 REMARK 465 ASP B 62 REMARK 465 ARG B 63 REMARK 465 ALA B 90 REMARK 465 GLU B 91 REMARK 465 SER B 92 REMARK 465 PRO B 93 REMARK 465 ALA B 94 REMARK 465 TRP B 95 REMARK 465 ARG B 96 REMARK 465 ASP B 97 REMARK 465 GLY B 98 REMARK 465 TYR B 99 REMARK 465 ALA B 100 REMARK 465 SER B 101 REMARK 465 HIS B 106 REMARK 465 GLY B 107 REMARK 465 GLU B 473 REMARK 465 LYS B 474 REMARK 465 ALA B 475 REMARK 465 THR B 476 REMARK 465 GLY B 477 REMARK 465 MET B 478 REMARK 465 ALA B 479 REMARK 465 PRO B 480 REMARK 465 VAL B 481 REMARK 465 TYR B 482 REMARK 465 GLY B 483 REMARK 465 MET B 484 REMARK 465 ALA B 485 REMARK 465 ALA B 486 REMARK 465 ALA B 487 REMARK 465 ALA B 488 REMARK 465 PRO B 489 REMARK 465 PRO B 490 REMARK 465 GLU B 491 REMARK 465 LEU B 492 REMARK 465 VAL B 493 REMARK 465 ARG B 494 REMARK 465 GLN B 495 REMARK 465 VAL B 496 REMARK 465 LEU B 497 REMARK 465 THR B 498 REMARK 465 GLY B 499 REMARK 465 PHE B 500 REMARK 465 ILE B 501 REMARK 465 ASP B 502 REMARK 465 LEU B 503 REMARK 465 LEU B 504 REMARK 465 TYR B 505 REMARK 465 GLU B 506 REMARK 465 VAL B 507 REMARK 465 HIS B 508 REMARK 465 HIS B 509 REMARK 465 HIS B 510 REMARK 465 HIS B 511 REMARK 465 HIS B 512 REMARK 465 HIS B 513 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 A 287 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 287 NE - CZ - NH2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG A 379 NE - CZ - NH1 ANGL. DEV. = -6.3 DEGREES REMARK 500 ARG A 379 NE - CZ - NH2 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 456 NE - CZ - NH1 ANGL. DEV. = -5.8 DEGREES REMARK 500 ARG A 456 NE - CZ - NH2 ANGL. DEV. = 5.1 DEGREES REMARK 500 ARG B 287 NE - CZ - NH1 ANGL. DEV. = -5.7 DEGREES REMARK 500 ARG B 287 NE - CZ - NH2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG B 379 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG B 379 NE - CZ - NH2 ANGL. DEV. = -6.0 DEGREES REMARK 500 ARG B 456 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG B 456 NE - CZ - NH2 ANGL. DEV. = -5.7 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 ALA A 103 -73.34 63.04 REMARK 500 HIS A 106 -68.27 -108.88 REMARK 500 HIS A 129 74.66 -115.33 REMARK 500 THR A 165 -165.21 -102.37 REMARK 500 PRO A 256 62.44 -67.58 REMARK 500 ARG A 287 -4.40 -59.06 REMARK 500 ASP A 296 -152.33 -114.75 REMARK 500 LLP A 311 -118.53 -66.84 REMARK 500 ALA A 338 -71.87 -81.57 REMARK 500 ASP A 339 44.02 -90.37 REMARK 500 THR A 349 -166.90 -119.49 REMARK 500 PRO A 355 95.36 -65.83 REMARK 500 HIS A 471 54.16 -157.91 REMARK 500 ALA B 103 -75.81 62.70 REMARK 500 ASN B 126 92.45 -165.96 REMARK 500 HIS B 129 76.59 -111.69 REMARK 500 THR B 165 -166.06 -104.97 REMARK 500 ALA B 191 61.77 -119.08 REMARK 500 PRO B 256 62.84 -68.05 REMARK 500 ARG B 287 -6.67 -57.91 REMARK 500 ASP B 296 -150.97 -115.00 REMARK 500 LYS B 311 -96.79 -49.41 REMARK 500 ALA B 338 -72.11 -82.16 REMARK 500 ASP B 339 44.22 -89.39 REMARK 500 THR B 349 -166.74 -122.80 REMARK 500 ALA B 439 156.14 179.06 REMARK 500 HIS B 471 54.72 -158.17 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 CL A 514 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 514 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3MAD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF STSPL (SYMMETRIC FORM) REMARK 900 RELATED ID: 3MAU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF STSPL IN COMPLEX WITH PHOSPHOETHANOLAMINE REMARK 900 RELATED ID: 3MBB RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF STSPL - APO FORM, AFTER TREATMENT WITH REMARK 900 SEMICARBAZIDE REMARK 900 RELATED ID: 3MC6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SCDPL1 DBREF 3MAF A 2 507 UNP Q67PY4 Q67PY4_SYMTH 2 507 DBREF 3MAF B 2 507 UNP Q67PY4 Q67PY4_SYMTH 2 507 SEQADV 3MAF MET A -4 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF GLY A -3 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF GLY A -2 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF SER A -1 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF ARG A 0 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF SER A 1 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS A 508 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS A 509 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS A 510 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS A 511 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS A 512 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS A 513 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF MET B -4 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF GLY B -3 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF GLY B -2 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF SER B -1 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF ARG B 0 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF SER B 1 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS B 508 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS B 509 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS B 510 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS B 511 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS B 512 UNP Q67PY4 EXPRESSION TAG SEQADV 3MAF HIS B 513 UNP Q67PY4 EXPRESSION TAG SEQRES 1 A 518 MET GLY GLY SER ARG SER LEU SER ALA PHE SER PRO PRO SEQRES 2 A 518 LEU PRO CYS ASP PRO ALA ARG SER HIS PRO THR PRO GLU SEQRES 3 A 518 PHE PRO SER SER LEU GLN ASP TYR CYS GLU ILE ARG GLY SEQRES 4 A 518 ILE GLN SER GLN PRO PRO ALA ARG ARG ASP PRO THR MET SEQRES 5 A 518 ASP TRP LEU ALA SER LEU ARG SER GLN ILE LYS PRO TYR SEQRES 6 A 518 ARG ASP ARG PHE PRO SER HIS ALA ARG LEU PRO ARG ALA SEQRES 7 A 518 GLY LEU PRO ARG ALA GLU ILE LEU ALA GLU ILE ALA ALA SEQRES 8 A 518 MET GLY ALA ALA GLU SER PRO ALA TRP ARG ASP GLY TYR SEQRES 9 A 518 ALA SER GLY ALA VAL TYR HIS GLY ASP GLU HIS HIS ILE SEQRES 10 A 518 ALA PHE LEU ASN GLU VAL TYR ALA LEU GLN SER GLN SER SEQRES 11 A 518 ASN PRO LEU HIS PRO ASP LEU TRP PRO SER THR ALA LYS SEQRES 12 A 518 PHE GLU ALA GLU VAL VAL ALA MET THR ALA HIS MET LEU SEQRES 13 A 518 GLY GLY ASP ALA ALA GLY GLY THR VAL CYS GLY THR VAL SEQRES 14 A 518 THR SER GLY GLY THR GLU SER LEU LEU LEU ALA MET LYS SEQRES 15 A 518 THR TYR ARG ASP TRP ALA ARG ALA THR LYS GLY ILE THR SEQRES 16 A 518 ALA PRO GLU ALA VAL VAL PRO VAL SER ALA HIS ALA ALA SEQRES 17 A 518 PHE ASP LYS ALA ALA GLN TYR PHE GLY ILE LYS LEU VAL SEQRES 18 A 518 ARG THR PRO LEU ASP ALA ASP TYR ARG ALA ASP VAL ALA SEQRES 19 A 518 ALA MET ARG GLU ALA ILE THR PRO ASN THR VAL VAL VAL SEQRES 20 A 518 ALA GLY SER ALA PRO GLY TYR PRO HIS GLY VAL VAL ASP SEQRES 21 A 518 PRO ILE PRO GLU ILE ALA ALA LEU ALA ALA GLU HIS GLY SEQRES 22 A 518 ILE GLY CYS HIS VAL ASP ALA CYS LEU GLY GLY PHE ILE SEQRES 23 A 518 LEU PRO TRP ALA GLU ARG LEU GLY TYR PRO VAL PRO PRO SEQRES 24 A 518 PHE ASP PHE ARG LEU GLU GLY VAL THR SER VAL SER ALA SEQRES 25 A 518 ASP THR HIS LLP TYR GLY TYR GLY ALA LYS GLY THR SER SEQRES 26 A 518 VAL ILE LEU TYR ARG ARG PRO ASP LEU LEU HIS TYR GLN SEQRES 27 A 518 TYR PHE ILE ALA ALA ASP TRP PRO GLY GLY LEU TYR PHE SEQRES 28 A 518 SER PRO THR PHE ALA GLY SER ARG PRO GLY ALA LEU SER SEQRES 29 A 518 ALA THR ALA TRP ALA ALA MET LEU SER LEU GLY GLU GLU SEQRES 30 A 518 GLY TYR LEU ASP ALA THR ARG ARG ILE LEU GLN ALA ALA SEQRES 31 A 518 ASP ARG LEU LYS ALA GLY VAL ARG ALA ILE PRO SER LEU SEQRES 32 A 518 LYS ILE LEU GLY ASP PRO LEU TRP VAL ILE ALA VAL ALA SEQRES 33 A 518 SER ASP GLU LEU ASN ILE TYR GLN VAL MET GLU GLU MET SEQRES 34 A 518 ALA GLY ARG GLY TRP ARG LEU ASN GLY LEU HIS ARG PRO SEQRES 35 A 518 PRO ALA PHE HIS VAL ALA LEU THR LEU ARG HIS THR GLU SEQRES 36 A 518 PRO GLY VAL VAL ASP ARG PHE LEU ALA ASP LEU GLN ASP SEQRES 37 A 518 ALA VAL ALA GLN VAL ARG ALA HIS PRO GLU LYS ALA THR SEQRES 38 A 518 GLY MET ALA PRO VAL TYR GLY MET ALA ALA ALA ALA PRO SEQRES 39 A 518 PRO GLU LEU VAL ARG GLN VAL LEU THR GLY PHE ILE ASP SEQRES 40 A 518 LEU LEU TYR GLU VAL HIS HIS HIS HIS HIS HIS SEQRES 1 B 518 MET GLY GLY SER ARG SER LEU SER ALA PHE SER PRO PRO SEQRES 2 B 518 LEU PRO CYS ASP PRO ALA ARG SER HIS PRO THR PRO GLU SEQRES 3 B 518 PHE PRO SER SER LEU GLN ASP TYR CYS GLU ILE ARG GLY SEQRES 4 B 518 ILE GLN SER GLN PRO PRO ALA ARG ARG ASP PRO THR MET SEQRES 5 B 518 ASP TRP LEU ALA SER LEU ARG SER GLN ILE LYS PRO TYR SEQRES 6 B 518 ARG ASP ARG PHE PRO SER HIS ALA ARG LEU PRO ARG ALA SEQRES 7 B 518 GLY LEU PRO ARG ALA GLU ILE LEU ALA GLU ILE ALA ALA SEQRES 8 B 518 MET GLY ALA ALA GLU SER PRO ALA TRP ARG ASP GLY TYR SEQRES 9 B 518 ALA SER GLY ALA VAL TYR HIS GLY ASP GLU HIS HIS ILE SEQRES 10 B 518 ALA PHE LEU ASN GLU VAL TYR ALA LEU GLN SER GLN SER SEQRES 11 B 518 ASN PRO LEU HIS PRO ASP LEU TRP PRO SER THR ALA LYS SEQRES 12 B 518 PHE GLU ALA GLU VAL VAL ALA MET THR ALA HIS MET LEU SEQRES 13 B 518 GLY GLY ASP ALA ALA GLY GLY THR VAL CYS GLY THR VAL SEQRES 14 B 518 THR SER GLY GLY THR GLU SER LEU LEU LEU ALA MET LYS SEQRES 15 B 518 THR TYR ARG ASP TRP ALA ARG ALA THR LYS GLY ILE THR SEQRES 16 B 518 ALA PRO GLU ALA VAL VAL PRO VAL SER ALA HIS ALA ALA SEQRES 17 B 518 PHE ASP LYS ALA ALA GLN TYR PHE GLY ILE LYS LEU VAL SEQRES 18 B 518 ARG THR PRO LEU ASP ALA ASP TYR ARG ALA ASP VAL ALA SEQRES 19 B 518 ALA MET ARG GLU ALA ILE THR PRO ASN THR VAL VAL VAL SEQRES 20 B 518 ALA GLY SER ALA PRO GLY TYR PRO HIS GLY VAL VAL ASP SEQRES 21 B 518 PRO ILE PRO GLU ILE ALA ALA LEU ALA ALA GLU HIS GLY SEQRES 22 B 518 ILE GLY CYS HIS VAL ASP ALA CYS LEU GLY GLY PHE ILE SEQRES 23 B 518 LEU PRO TRP ALA GLU ARG LEU GLY TYR PRO VAL PRO PRO SEQRES 24 B 518 PHE ASP PHE ARG LEU GLU GLY VAL THR SER VAL SER ALA SEQRES 25 B 518 ASP THR HIS LYS TYR GLY TYR GLY ALA LYS GLY THR SER SEQRES 26 B 518 VAL ILE LEU TYR ARG ARG PRO ASP LEU LEU HIS TYR GLN SEQRES 27 B 518 TYR PHE ILE ALA ALA ASP TRP PRO GLY GLY LEU TYR PHE SEQRES 28 B 518 SER PRO THR PHE ALA GLY SER ARG PRO GLY ALA LEU SER SEQRES 29 B 518 ALA THR ALA TRP ALA ALA MET LEU SER LEU GLY GLU GLU SEQRES 30 B 518 GLY TYR LEU ASP ALA THR ARG ARG ILE LEU GLN ALA ALA SEQRES 31 B 518 ASP ARG LEU LYS ALA GLY VAL ARG ALA ILE PRO SER LEU SEQRES 32 B 518 LYS ILE LEU GLY ASP PRO LEU TRP VAL ILE ALA VAL ALA SEQRES 33 B 518 SER ASP GLU LEU ASN ILE TYR GLN VAL MET GLU GLU MET SEQRES 34 B 518 ALA GLY ARG GLY TRP ARG LEU ASN GLY LEU HIS ARG PRO SEQRES 35 B 518 PRO ALA PHE HIS VAL ALA LEU THR LEU ARG HIS THR GLU SEQRES 36 B 518 PRO GLY VAL VAL ASP ARG PHE LEU ALA ASP LEU GLN ASP SEQRES 37 B 518 ALA VAL ALA GLN VAL ARG ALA HIS PRO GLU LYS ALA THR SEQRES 38 B 518 GLY MET ALA PRO VAL TYR GLY MET ALA ALA ALA ALA PRO SEQRES 39 B 518 PRO GLU LEU VAL ARG GLN VAL LEU THR GLY PHE ILE ASP SEQRES 40 B 518 LEU LEU TYR GLU VAL HIS HIS HIS HIS HIS HIS MODRES 3MAF LLP A 311 LYS HET LLP A 311 24 HET CL A 514 1 HET PO4 B 514 5 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 CL CHLORIDE ION HETNAM PO4 PHOSPHATE ION HETSYN LLP N'-PYRIDOXYL-LYSINE-5'-MONOPHOSPHATE FORMUL 1 LLP C14 H22 N3 O7 P FORMUL 3 CL CL 1- FORMUL 4 PO4 O4 P 3- FORMUL 5 HOH *126(H2 O) HELIX 1 1 LYS A 58 ASP A 62 5 5 HELIX 2 2 PRO A 76 ASP A 97 1 22 HELIX 3 3 ASP A 108 GLN A 122 1 15 HELIX 4 4 TRP A 133 LEU A 151 1 19 HELIX 5 5 GLY A 167 GLY A 188 1 22 HELIX 6 6 ALA A 202 GLY A 212 1 11 HELIX 7 7 ASP A 227 ILE A 235 1 9 HELIX 8 8 PRO A 256 HIS A 267 1 12 HELIX 9 9 ILE A 281 ARG A 287 1 7 HELIX 10 10 ARG A 326 TYR A 334 1 9 HELIX 11 11 PRO A 355 ILE A 395 1 41 HELIX 12 12 ASN A 416 ARG A 427 1 12 HELIX 13 13 THR A 445 THR A 449 5 5 HELIX 14 14 GLY A 452 ALA A 470 1 19 HELIX 15 15 MET A 478 GLY A 483 1 6 HELIX 16 16 GLU A 491 TYR A 505 1 15 HELIX 17 17 PRO B 76 ALA B 89 1 14 HELIX 18 18 ASP B 108 SER B 123 1 16 HELIX 19 19 TRP B 133 LEU B 151 1 19 HELIX 20 20 GLY B 167 GLY B 188 1 22 HELIX 21 21 ALA B 202 GLY B 212 1 11 HELIX 22 22 ASP B 227 ILE B 235 1 9 HELIX 23 23 PRO B 256 HIS B 267 1 12 HELIX 24 24 ILE B 281 ARG B 287 1 7 HELIX 25 25 ARG B 326 TYR B 334 1 9 HELIX 26 26 PRO B 355 ALA B 394 1 40 HELIX 27 27 ASN B 416 ARG B 427 1 12 HELIX 28 28 THR B 445 THR B 449 5 5 HELIX 29 29 GLY B 452 ALA B 470 1 19 SHEET 1 A 7 CYS A 161 THR A 165 0 SHEET 2 A 7 SER A 320 TYR A 324 -1 O TYR A 324 N CYS A 161 SHEET 3 A 7 SER A 304 ALA A 307 -1 N VAL A 305 O LEU A 323 SHEET 4 A 7 GLY A 270 ASP A 274 1 N VAL A 273 O SER A 304 SHEET 5 A 7 THR A 239 SER A 245 1 N GLY A 244 O ASP A 274 SHEET 6 A 7 GLU A 193 PRO A 197 1 N GLU A 193 O VAL A 240 SHEET 7 A 7 LYS A 214 THR A 218 1 O VAL A 216 N ALA A 194 SHEET 1 B 2 PHE A 335 ALA A 337 0 SHEET 2 B 2 TYR A 345 SER A 347 -1 O TYR A 345 N ALA A 337 SHEET 1 C 4 LYS A 399 ILE A 400 0 SHEET 2 C 4 VAL A 407 ALA A 411 -1 O ALA A 411 N LYS A 399 SHEET 3 C 4 ALA A 439 ALA A 443 -1 O VAL A 442 N ILE A 408 SHEET 4 C 4 ASN A 432 LEU A 434 -1 N LEU A 434 O ALA A 439 SHEET 1 D 7 CYS B 161 THR B 165 0 SHEET 2 D 7 SER B 320 TYR B 324 -1 O TYR B 324 N CYS B 161 SHEET 3 D 7 SER B 304 ALA B 307 -1 N VAL B 305 O LEU B 323 SHEET 4 D 7 GLY B 270 ALA B 275 1 N VAL B 273 O SER B 304 SHEET 5 D 7 THR B 239 SER B 245 1 N GLY B 244 O ASP B 274 SHEET 6 D 7 GLU B 193 PRO B 197 1 N GLU B 193 O VAL B 240 SHEET 7 D 7 LYS B 214 THR B 218 1 O VAL B 216 N ALA B 194 SHEET 1 E 2 PHE B 335 ALA B 337 0 SHEET 2 E 2 TYR B 345 SER B 347 -1 O TYR B 345 N ALA B 337 SHEET 1 F 4 LYS B 399 ILE B 400 0 SHEET 2 F 4 VAL B 407 ALA B 411 -1 O ALA B 411 N LYS B 399 SHEET 3 F 4 ALA B 439 ALA B 443 -1 O VAL B 442 N ILE B 408 SHEET 4 F 4 ASN B 432 LEU B 434 -1 N LEU B 434 O ALA B 439 LINK C LLP A 311 N TYR A 312 1555 1555 1.33 CISPEP 1 ALA A 246 PRO A 247 0 -4.95 CISPEP 2 PRO A 396 SER A 397 0 -1.60 CISPEP 3 ARG A 436 PRO A 437 0 3.68 CISPEP 4 ALA B 246 PRO B 247 0 -4.49 CISPEP 5 ARG B 436 PRO B 437 0 2.67 SITE 1 AC1 2 TYR A 105 HIS B 129 SITE 1 AC2 6 SER A 353 GLY B 168 THR B 169 ASP B 308 SITE 2 AC2 6 HIS B 310 LYS B 311 CRYST1 84.190 84.900 131.320 90.00 90.00 90.00 P 21 21 21 4 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 0.011878 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011779 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007615 0.00000