HEADER HYDROLASE 24-FEB-10 3LWT TITLE CRYSTAL STRUCTURE OF THE YEAST SAC1: IMPLICATIONS FOR ITS TITLE 2 PHOSPHOINOSITIDE PHOSPHATASE FUNCTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHOINOSITIDE PHOSPHATASE SAC1; COMPND 3 CHAIN: X; COMPND 4 FRAGMENT: CYTOSOLIC PORTION OF YEAST SAC1; COMPND 5 SYNONYM: RECESSIVE SUPPRESSOR OF SECRETORY DEFECT; COMPND 6 EC: 3.1.3.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BREWER'S YEAST,LAGER BEER YEAST,YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: RSD1, SAC1, YKL212W; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETSUMO KEYWDS SAC1, SAC3/FIG4, PHOSPHOINOSITIDE PHOSPHATASE, LIPID METABOLISM, KEYWDS 2 ENDOPLASMIC RETICULUM, HYDROLASE, MEMBRANE, TRANSMEMBRANE EXPDTA X-RAY DIFFRACTION AUTHOR Y.MAO,A.MANFORD,T.XIA,A.K.SAXENA,C.STEFAN,F.HU,S.D.EMR REVDAT 3 08-NOV-17 3LWT 1 REMARK REVDAT 2 07-JUL-10 3LWT 1 JRNL REVDAT 1 05-MAY-10 3LWT 0 JRNL AUTH A.MANFORD,T.XIA,A.K.SAXENA,C.STEFAN,F.HU,S.D.EMR,Y.MAO JRNL TITL CRYSTAL STRUCTURE OF THE YEAST SAC1: IMPLICATIONS FOR ITS JRNL TITL 2 PHOSPHOINOSITIDE PHOSPHATASE FUNCTION. JRNL REF EMBO J. V. 29 1489 2010 JRNL REFN ISSN 0261-4189 JRNL PMID 20389282 JRNL DOI 10.1038/EMBOJ.2010.57 REMARK 2 REMARK 2 RESOLUTION. 1.96 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0093 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.18 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 43564 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) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2327 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) : 1.96 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.01 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3000 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.2430 REMARK 3 BIN FREE R VALUE SET COUNT : 169 REMARK 3 BIN FREE R VALUE : 0.2740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3683 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 168 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.43 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.67000 REMARK 3 B22 (A**2) : -1.81000 REMARK 3 B33 (A**2) : 1.14000 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): 0.147 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.144 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.089 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.735 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3768 ; 0.027 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5113 ; 2.068 ; 1.928 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 456 ; 6.898 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 198 ;38.785 ;24.596 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 630 ;17.416 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;19.050 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 561 ; 0.183 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2908 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2269 ; 1.672 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3668 ; 2.901 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1499 ; 3.685 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1445 ; 5.774 ; 4.500 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 : 1 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 : X -10 X 9999 REMARK 3 ORIGIN FOR THE GROUP (A): 10.7173 34.7116 49.7214 REMARK 3 T TENSOR REMARK 3 T11: 0.0374 T22: 0.0601 REMARK 3 T33: 0.0613 T12: 0.0056 REMARK 3 T13: 0.0244 T23: -0.0408 REMARK 3 L TENSOR REMARK 3 L11: 1.1679 L22: 2.7025 REMARK 3 L33: 1.6697 L12: 0.7448 REMARK 3 L13: -0.6980 L23: -1.2924 REMARK 3 S TENSOR REMARK 3 S11: -0.0379 S12: -0.0597 S13: 0.0274 REMARK 3 S21: 0.1247 S22: 0.0413 S23: -0.0369 REMARK 3 S31: -0.0301 S32: -0.0624 S33: -0.0034 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 REMARK 4 REMARK 4 3LWT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000057828. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 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) : 0.9789 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43565 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.970 REMARK 200 RESOLUTION RANGE LOW (A) : 33.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: SAD REMARK 200 SOFTWARE USED: HKL2MAP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5 M NACL, 0.55 M SODIUM CITRATE, PH REMARK 280 7.5., VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 43.07900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 47.36600 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 77.71950 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 43.07900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 47.36600 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 77.71950 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 43.07900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 47.36600 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 77.71950 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 43.07900 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 47.36600 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 77.71950 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: X 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: X 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 94.73200 REMARK 350 BIOMT3 2 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 ALA X 457 REMARK 465 LEU X 458 REMARK 465 LYS X 459 REMARK 465 THR X 460 REMARK 465 ASP X 461 REMARK 465 PHE X 462 REMARK 465 THR X 463 REMARK 465 ARG X 464 REMARK 465 THR X 465 REMARK 465 GLY X 466 REMARK 465 LYS X 467 REMARK 465 ARG X 468 REMARK 465 THR X 469 REMARK 465 ARG X 470 REMARK 465 LEU X 471 REMARK 465 GLY X 472 REMARK 465 ALA X 473 REMARK 465 PHE X 474 REMARK 465 ASN X 475 REMARK 465 ASP X 476 REMARK 465 PHE X 477 REMARK 465 LEU X 478 REMARK 465 ASN X 479 REMARK 465 SER X 480 REMARK 465 ALA X 481 REMARK 465 SER X 482 REMARK 465 ARG X 483 REMARK 465 TYR X 484 REMARK 465 TYR X 485 REMARK 465 GLN X 486 REMARK 465 ASN X 487 REMARK 465 ASN X 488 REMARK 465 TRP X 489 REMARK 465 THR X 490 REMARK 465 ASP X 491 REMARK 465 GLY X 492 REMARK 465 PRO X 493 REMARK 465 ARG X 494 REMARK 465 GLN X 495 REMARK 465 ASP X 496 REMARK 465 SER X 497 REMARK 465 TYR X 498 REMARK 465 ASP X 499 REMARK 465 LEU X 500 REMARK 465 PHE X 501 REMARK 465 LEU X 502 REMARK 465 GLY X 503 REMARK 465 GLY X 504 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 TYR X 452 CG CD1 CD2 CE1 CE2 CZ OH REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 N GLY X 185 O HOH X 660 1.62 REMARK 500 O THR X 123 O TYR X 184 1.67 REMARK 500 O SER X 208 O HOH X 661 1.90 REMARK 500 O HOH X 623 O HOH X 651 2.09 REMARK 500 C TYR X 184 O HOH X 660 2.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 PHE X 16 CZ PHE X 16 CE2 0.129 REMARK 500 TYR X 130 CE2 TYR X 130 CD2 0.100 REMARK 500 SER X 135 CB SER X 135 OG 0.079 REMARK 500 PHE X 156 N PHE X 156 CA 0.128 REMARK 500 LYS X 329 CD LYS X 329 CE 0.156 REMARK 500 ARG X 389 CG ARG X 389 CD -0.209 REMARK 500 CYS X 392 CB CYS X 392 SG -0.211 REMARK 500 REMARK 500 REMARK: NULL 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 X 89 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 SER X 147 N - CA - CB ANGL. DEV. = -11.2 DEGREES REMARK 500 GLY X 185 N - CA - C ANGL. DEV. = 15.6 DEGREES REMARK 500 ARG X 206 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG X 256 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 LEU X 406 CA - CB - CG ANGL. DEV. = 17.1 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 ASN X 25 23.86 -140.87 REMARK 500 GLN X 36 13.31 59.61 REMARK 500 LYS X 65 -119.13 49.52 REMARK 500 LEU X 91 -68.58 -96.78 REMARK 500 PRO X 144 19.74 -28.71 REMARK 500 ALA X 145 -31.58 63.32 REMARK 500 SER X 147 -142.50 -134.27 REMARK 500 ARG X 211 132.77 172.52 REMARK 500 PHE X 217 125.05 165.46 REMARK 500 SER X 244 -42.36 107.68 REMARK 500 GLU X 245 18.44 56.29 REMARK 500 ALA X 264 92.06 -58.93 REMARK 500 ASN X 267 36.47 -78.53 REMARK 500 LEU X 269 -82.76 -77.05 REMARK 500 TYR X 271 -119.70 -121.95 REMARK 500 LEU X 277 75.05 -110.20 REMARK 500 VAL X 305 -81.04 -69.77 REMARK 500 LYS X 308 28.04 -140.49 REMARK 500 LYS X 343 -51.89 -143.35 REMARK 500 VAL X 450 28.01 -58.35 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG X 389 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 3LWT X 1 504 UNP P32368 SAC1_YEAST 1 504 SEQADV 3LWT SER X 0 UNP P32368 EXPRESSION TAG SEQRES 1 X 505 SER MET THR GLY PRO ILE VAL TYR VAL GLN ASN ALA ASP SEQRES 2 X 505 GLY ILE PHE PHE LYS LEU ALA GLU GLY LYS GLY THR ASN SEQRES 3 X 505 ASP ALA VAL ILE HIS LEU ALA ASN GLN ASP GLN GLY VAL SEQRES 4 X 505 ARG VAL LEU GLY ALA GLU GLU PHE PRO VAL GLN GLY GLU SEQRES 5 X 505 VAL VAL LYS ILE ALA SER LEU MET GLY PHE ILE LYS LEU SEQRES 6 X 505 LYS LEU ASN ARG TYR ALA ILE ILE ALA ASN THR VAL GLU SEQRES 7 X 505 GLU THR GLY ARG PHE ASN GLY HIS VAL PHE TYR ARG VAL SEQRES 8 X 505 LEU GLN HIS SER ILE VAL SER THR LYS PHE ASN SER ARG SEQRES 9 X 505 ILE ASP SER GLU GLU ALA GLU TYR ILE LYS LEU LEU GLU SEQRES 10 X 505 LEU HIS LEU LYS ASN SER THR PHE TYR PHE SER TYR THR SEQRES 11 X 505 TYR ASP LEU THR ASN SER LEU GLN ARG ASN GLU LYS VAL SEQRES 12 X 505 GLY PRO ALA ALA SER TRP LYS THR ALA ASP GLU ARG PHE SEQRES 13 X 505 PHE TRP ASN HIS TYR LEU THR GLU ASP LEU ARG ASN PHE SEQRES 14 X 505 ALA HIS GLN ASP PRO ARG ILE ASP SER PHE ILE GLN PRO SEQRES 15 X 505 VAL ILE TYR GLY TYR ALA LYS THR VAL ASP ALA VAL LEU SEQRES 16 X 505 ASN ALA THR PRO ILE VAL LEU GLY LEU ILE THR ARG ARG SEQRES 17 X 505 SER ILE PHE ARG ALA GLY THR ARG TYR PHE ARG ARG GLY SEQRES 18 X 505 VAL ASP LYS ASP GLY ASN VAL GLY ASN PHE ASN GLU THR SEQRES 19 X 505 GLU GLN ILE LEU LEU ALA GLU ASN PRO GLU SER GLU LYS SEQRES 20 X 505 ILE HIS VAL PHE SER PHE LEU GLN THR ARG GLY SER VAL SEQRES 21 X 505 PRO ILE TYR TRP ALA GLU ILE ASN ASN LEU LYS TYR LYS SEQRES 22 X 505 PRO ASN LEU VAL LEU GLY GLU ASN SER LEU ASP ALA THR SEQRES 23 X 505 LYS LYS HIS PHE ASP GLN GLN LYS GLU LEU TYR GLY ASP SEQRES 24 X 505 ASN TYR LEU VAL ASN LEU VAL ASN GLN LYS GLY HIS GLU SEQRES 25 X 505 LEU PRO VAL LYS GLU GLY TYR GLU SER VAL VAL HIS ALA SEQRES 26 X 505 LEU ASN ASP PRO LYS ILE HIS TYR VAL TYR PHE ASP PHE SEQRES 27 X 505 HIS HIS GLU CYS ARG LYS MET GLN TRP HIS ARG VAL LYS SEQRES 28 X 505 LEU LEU ILE ASP HIS LEU GLU LYS LEU GLY LEU SER ASN SEQRES 29 X 505 GLU ASP PHE PHE HIS LYS VAL ILE ASP SER ASN GLY ASN SEQRES 30 X 505 THR VAL GLU ILE VAL ASN GLU GLN HIS SER VAL VAL ARG SEQRES 31 X 505 THR ASN CYS MET ASP CYS LEU ASP ARG THR ASN VAL VAL SEQRES 32 X 505 GLN SER VAL LEU ALA GLN TRP VAL LEU GLN LYS GLU PHE SEQRES 33 X 505 GLU SER ALA ASP VAL VAL ALA THR GLY SER THR TRP GLU SEQRES 34 X 505 ASP ASN ALA PRO LEU LEU THR SER TYR GLN ASN LEU TRP SEQRES 35 X 505 ALA ASP ASN ALA ASP ALA VAL SER VAL ALA TYR SER GLY SEQRES 36 X 505 THR GLY ALA LEU LYS THR ASP PHE THR ARG THR GLY LYS SEQRES 37 X 505 ARG THR ARG LEU GLY ALA PHE ASN ASP PHE LEU ASN SER SEQRES 38 X 505 ALA SER ARG TYR TYR GLN ASN ASN TRP THR ASP GLY PRO SEQRES 39 X 505 ARG GLN ASP SER TYR ASP LEU PHE LEU GLY GLY FORMUL 2 HOH *168(H2 O) HELIX 1 1 GLY X 42 PHE X 46 5 5 HELIX 2 2 ASP X 105 SER X 122 1 18 HELIX 3 3 SER X 135 GLY X 143 1 9 HELIX 4 4 SER X 147 ALA X 151 5 5 HELIX 5 5 HIS X 159 LEU X 161 5 3 HELIX 6 6 THR X 162 HIS X 170 1 9 HELIX 7 7 ASP X 172 ILE X 179 5 8 HELIX 8 8 GLY X 278 GLY X 297 1 20 HELIX 9 9 LEU X 312 ASN X 326 1 15 HELIX 10 10 LYS X 343 GLY X 360 1 18 HELIX 11 11 CYS X 395 ALA X 418 1 24 HELIX 12 12 THR X 426 ASP X 429 5 4 HELIX 13 13 ASN X 430 SER X 449 1 20 SHEET 1 A 5 VAL X 38 LEU X 41 0 SHEET 2 A 5 VAL X 28 ALA X 32 -1 N VAL X 28 O LEU X 41 SHEET 3 A 5 GLY X 13 LEU X 18 -1 N ILE X 14 O LEU X 31 SHEET 4 A 5 ILE X 5 ASN X 10 -1 N VAL X 6 O LYS X 17 SHEET 5 A 5 VAL X 53 ILE X 55 -1 O VAL X 53 N TYR X 7 SHEET 1 B 4 SER X 57 LEU X 64 0 SHEET 2 B 4 ASN X 67 PHE X 82 -1 O ILE X 71 N GLY X 60 SHEET 3 B 4 HIS X 85 SER X 97 -1 O PHE X 87 N THR X 79 SHEET 4 B 4 TYR X 125 PHE X 126 -1 O PHE X 126 N TYR X 88 SHEET 1 C 7 TYR X 186 LEU X 194 0 SHEET 2 C 7 THR X 197 ARG X 207 -1 O ILE X 199 N ALA X 192 SHEET 3 C 7 PHE X 230 GLU X 240 -1 O GLU X 234 N ILE X 204 SHEET 4 C 7 ILE X 247 GLY X 257 -1 O HIS X 248 N ALA X 239 SHEET 5 C 7 SER X 386 ASN X 391 1 O THR X 390 N THR X 255 SHEET 6 C 7 ASP X 298 LEU X 304 1 N TYR X 300 O VAL X 387 SHEET 7 C 7 ILE X 330 PHE X 335 1 O HIS X 331 N LEU X 301 SHEET 1 D 6 TYR X 186 LEU X 194 0 SHEET 2 D 6 THR X 197 ARG X 207 -1 O ILE X 199 N ALA X 192 SHEET 3 D 6 PHE X 230 GLU X 240 -1 O GLU X 234 N ILE X 204 SHEET 4 D 6 ILE X 247 GLY X 257 -1 O HIS X 248 N ALA X 239 SHEET 5 D 6 PHE X 367 ILE X 371 -1 O LYS X 369 N VAL X 249 SHEET 6 D 6 THR X 377 ASN X 382 -1 O VAL X 378 N VAL X 370 CISPEP 1 ALA X 146 SER X 147 0 15.04 CISPEP 2 PHE X 210 ARG X 211 0 6.64 CISPEP 3 LYS X 270 TYR X 271 0 -1.83 CISPEP 4 HIS X 339 GLU X 340 0 -7.83 CISPEP 5 GLY X 454 THR X 455 0 -6.47 CRYST1 86.158 94.732 155.439 90.00 90.00 90.00 I 2 2 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011607 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010556 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006433 0.00000 MASTER 459 0 0 13 22 0 0 6 0 0 0 39 END