HEADER MEMBRANE PROTEIN 06-APR-18 6G7O TITLE CRYSTAL STRUCTURE OF HUMAN ALKALINE CERAMIDASE 3 (ACER3) AT 2.7 TITLE 2 ANGSTROM RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALKALINE CERAMIDASE 3,SOLUBLE CYTOCHROME B562; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ALKALINE CDASE 3,ALKALINE DIHYDROCERAMIDASE SB89,ALKALINE COMPND 5 PHYTOCERAMIDASE,APHC,CYTOCHROME B-562; COMPND 6 EC: 3.5.1.-; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS, ESCHERICHIA COLI; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606, 562; SOURCE 5 GENE: ACER3, APHC, PHCA, CYBC; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_VARIANT: SF9 KEYWDS HYDROLASE, 7TM, ZINC BINDING PROTEIN, CALCIUM-BINDING PROTEIN, KEYWDS 2 MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.LEYRAT,I.VASILIAUSKAITE-BROOKS,R.D.HEALEY,R.SOUNIER,C.GRISON,F.HOH, AUTHOR 2 S.BASU,S.GRANIER REVDAT 2 17-JAN-24 6G7O 1 REMARK LINK REVDAT 1 02-JAN-19 6G7O 0 JRNL AUTH I.VASILIAUSKAITE-BROOKS,R.D.HEALEY,P.ROCHAIX,J.SAINT-PAUL, JRNL AUTH 2 R.SOUNIER,C.GRISON,T.WALTRICH-AUGUSTO,M.FORTIER,F.HOH, JRNL AUTH 3 E.M.SAIED,C.ARENZ,S.BASU,C.LEYRAT,S.GRANIER JRNL TITL STRUCTURE OF A HUMAN INTRAMEMBRANE CERAMIDASE EXPLAINS JRNL TITL 2 ENZYMATIC DYSFUNCTION FOUND IN LEUKODYSTROPHY. JRNL REF NAT COMMUN V. 9 5437 2018 JRNL REFN ESSN 2041-1723 JRNL PMID 30575723 JRNL DOI 10.1038/S41467-018-07864-W REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.60 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 15325 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) : 0.249 REMARK 3 R VALUE (WORKING SET) : 0.248 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.670 REMARK 3 FREE R VALUE TEST SET COUNT : 716 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 35 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.73 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.54 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 438 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2459 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 414 REMARK 3 BIN R VALUE (WORKING SET) : 0.2483 REMARK 3 BIN FREE R VALUE : 0.2054 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.48 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 24 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2855 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 62 REMARK 3 SOLVENT ATOMS : 122 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 64.64 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 74.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -14.17310 REMARK 3 B22 (A**2) : 1.79800 REMARK 3 B33 (A**2) : 12.37520 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) : 0.460 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.723 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.325 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.652 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.323 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.861 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.873 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 2984 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 4055 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1009 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 480 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 2984 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 381 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 3679 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 0.97 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.06 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 19.30 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): -10.2440 5.6067 -39.5298 REMARK 3 T TENSOR REMARK 3 T11: -0.1496 T22: -0.1509 REMARK 3 T33: -0.2110 T12: 0.0871 REMARK 3 T13: -0.0178 T23: 0.0400 REMARK 3 L TENSOR REMARK 3 L11: 0.8590 L22: 1.0726 REMARK 3 L33: 2.7114 L12: -0.0779 REMARK 3 L13: 0.5247 L23: 0.6963 REMARK 3 S TENSOR REMARK 3 S11: -0.0956 S12: -0.4465 S13: -0.0783 REMARK 3 S21: 0.4546 S22: 0.0940 S23: 0.0138 REMARK 3 S31: 0.0561 S32: -0.3971 S33: 0.0016 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6G7O COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-APR-18. REMARK 100 THE DEPOSITION ID IS D_1200009505. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-17 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 : 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) : 1.00001 REMARK 200 MONOCHROMATOR : NULL 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 : AIMLESS 0.5.32 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15327 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 45.600 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 27.60 REMARK 200 R MERGE (I) : 0.56600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 27.70 REMARK 200 R MERGE FOR SHELL (I) : 4.49100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4RWD PLUS FRAGMENTS DERIVED FROM AN I-TASSER AB REMARK 200 -INITIO MODEL REMARK 200 REMARK 200 REMARK: ~ 20 X 20 X 30 MICROMETERS , RECTANGULAR REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 75MM MGSO4, 34-40% PEG400, 5% DMSO, PH REMARK 280 7.5, LIPIDIC CUBIC PHASE, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z 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 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 128.76000 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 128.76000 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 30.44000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 34.41500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 30.44000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 34.41500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 128.76000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 30.44000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 34.41500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 128.76000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 30.44000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 34.41500 REMARK 290 SMTRY3 8 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19530 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -135.0 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 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 MG MG A 413 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 593 LIES ON A SPECIAL POSITION. REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 TRP A 29 CB CG CD1 CD2 NE1 CE2 CE3 REMARK 480 TRP A 29 CZ2 CZ3 CH2 REMARK 480 TYR A 30 CB CG CD1 CD2 CE1 CE2 CZ REMARK 480 TYR A 30 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 O ILE A 209 N THR A 213 2.08 REMARK 500 O ILE A 209 OG1 THR A 213 2.08 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 PRO A 208 C - N - CD ANGL. DEV. = -13.5 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 2 75.98 -117.27 REMARK 500 PRO A 3 -149.69 -92.54 REMARK 500 LYS A 140 21.94 -70.13 REMARK 500 VAL A 167 -66.46 -102.87 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 611 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH A 612 DISTANCE = 6.37 ANGSTROMS REMARK 525 HOH A 613 DISTANCE = 6.37 ANGSTROMS REMARK 525 HOH A 614 DISTANCE = 6.78 ANGSTROMS REMARK 525 HOH A 615 DISTANCE = 6.84 ANGSTROMS REMARK 525 HOH A 616 DISTANCE = 7.61 ANGSTROMS REMARK 525 HOH A 617 DISTANCE = 8.00 ANGSTROMS REMARK 525 HOH A 618 DISTANCE = 8.20 ANGSTROMS REMARK 525 HOH A 619 DISTANCE = 8.25 ANGSTROMS REMARK 525 HOH A 620 DISTANCE = 8.38 ANGSTROMS REMARK 525 HOH A 621 DISTANCE = 8.92 ANGSTROMS REMARK 525 HOH A 622 DISTANCE = 8.94 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 412 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 19 OD1 REMARK 620 2 ASP A 19 OD2 45.8 REMARK 620 3 TRP A 20 O 101.9 92.1 REMARK 620 4 GLU A 22 O 149.5 150.9 101.7 REMARK 620 5 ASN A 24 OD1 71.7 77.3 169.4 87.3 REMARK 620 6 GLU A 33 OE2 68.3 112.1 86.3 94.3 98.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 414 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 60 OE1 REMARK 620 2 SO4 A 402 O1 85.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 81 NE2 REMARK 620 2 HIS A 217 NE2 97.2 REMARK 620 3 HIS A 221 NE2 78.7 95.9 REMARK 620 4 HOH A 505 O 74.6 154.7 105.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 409 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 246 OD2 REMARK 620 2 HOH A 526 O 65.8 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 413 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 509 O REMARK 620 2 HOH A 509 O 85.0 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue OLB A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 412 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 413 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 414 DBREF 6G7O A 2 244 UNP Q9NUN7 ACER3_HUMAN 2 244 DBREF 6G7O A 245 349 UNP P0ABE7 C562_ECOLX 23 127 SEQADV 6G7O PHE A 1 UNP Q9NUN7 EXPRESSION TAG SEQADV 6G7O TRP A 251 UNP P0ABE7 MET 29 CONFLICT SEQADV 6G7O ILE A 346 UNP P0ABE7 HIS 124 CONFLICT SEQADV 6G7O LEU A 350 UNP P0ABE7 EXPRESSION TAG SEQRES 1 A 350 PHE ALA PRO ALA ALA ASP ARG GLU GLY TYR TRP GLY PRO SEQRES 2 A 350 THR THR SER THR LEU ASP TRP CYS GLU GLU ASN TYR SER SEQRES 3 A 350 VAL THR TRP TYR ILE ALA GLU PHE TRP ASN THR VAL SER SEQRES 4 A 350 ASN LEU ILE MET ILE ILE PRO PRO MET PHE GLY ALA VAL SEQRES 5 A 350 GLN SER VAL ARG ASP GLY LEU GLU LYS ARG TYR ILE ALA SEQRES 6 A 350 SER TYR LEU ALA LEU THR VAL VAL GLY MET GLY SER TRP SEQRES 7 A 350 CYS PHE HIS MET THR LEU LYS TYR GLU MET GLN LEU LEU SEQRES 8 A 350 ASP GLU LEU PRO MET ILE TYR SER CYS CYS ILE PHE VAL SEQRES 9 A 350 TYR CYS MET PHE GLU CYS PHE LYS ILE LYS ASN SER VAL SEQRES 10 A 350 ASN TYR HIS LEU LEU PHE THR LEU VAL LEU PHE SER LEU SEQRES 11 A 350 ILE VAL THR THR VAL TYR LEU LYS VAL LYS GLU PRO ILE SEQRES 12 A 350 PHE HIS GLN VAL MET TYR GLY MET LEU VAL PHE THR LEU SEQRES 13 A 350 VAL LEU ARG SER ILE TYR ILE VAL THR TRP VAL TYR PRO SEQRES 14 A 350 TRP LEU ARG GLY LEU GLY TYR THR SER LEU GLY ILE PHE SEQRES 15 A 350 LEU LEU GLY PHE LEU PHE TRP ASN ILE ASP ASN ILE PHE SEQRES 16 A 350 CYS GLU SER LEU ARG ASN PHE ARG LYS LYS VAL PRO PRO SEQRES 17 A 350 ILE ILE GLY ILE THR THR GLN PHE HIS ALA TRP TRP HIS SEQRES 18 A 350 ILE LEU THR GLY LEU GLY SER TYR LEU HIS ILE LEU PHE SEQRES 19 A 350 SER LEU TYR THR ARG THR LEU TYR LEU ARG ALA ASP LEU SEQRES 20 A 350 GLU ASP ASN TRP GLU THR LEU ASN ASP ASN LEU LYS VAL SEQRES 21 A 350 ILE GLU LYS ALA ASP ASN ALA ALA GLN VAL LYS ASP ALA SEQRES 22 A 350 LEU THR LYS MET ARG ALA ALA ALA LEU ASP ALA GLN LYS SEQRES 23 A 350 ALA THR PRO PRO LYS LEU GLU ASP LYS SER PRO ASP SER SEQRES 24 A 350 PRO GLU MET LYS ASP PHE ARG HIS GLY PHE ASP ILE LEU SEQRES 25 A 350 VAL GLY GLN ILE ASP ASP ALA LEU LYS LEU ALA ASN GLU SEQRES 26 A 350 GLY LYS VAL LYS GLU ALA GLN ALA ALA ALA GLU GLN LEU SEQRES 27 A 350 LYS THR THR ARG ASN ALA TYR ILE GLN LYS TYR LEU HET ZN A 401 1 HET SO4 A 402 5 HET SO4 A 403 5 HET SO4 A 404 5 HET SO4 A 405 5 HET SO4 A 406 5 HET SO4 A 407 5 HET NA A 408 1 HET NA A 409 1 HET NA A 410 1 HET OLB A 411 25 HET CA A 412 1 HET MG A 413 1 HET MG A 414 1 HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION HETNAM NA SODIUM ION HETNAM OLB (2S)-2,3-DIHYDROXYPROPYL (9Z)-OCTADEC-9-ENOATE HETNAM CA CALCIUM ION HETNAM MG MAGNESIUM ION FORMUL 2 ZN ZN 2+ FORMUL 3 SO4 6(O4 S 2-) FORMUL 9 NA 3(NA 1+) FORMUL 12 OLB C21 H40 O4 FORMUL 13 CA CA 2+ FORMUL 14 MG 2(MG 2+) FORMUL 16 HOH *122(H2 O) HELIX 1 AA1 GLU A 33 SER A 39 1 7 HELIX 2 AA2 ASN A 40 MET A 43 5 4 HELIX 3 AA3 ILE A 44 ASP A 57 1 14 HELIX 4 AA4 GLU A 60 LEU A 84 1 25 HELIX 5 AA5 LYS A 85 GLU A 109 1 25 HELIX 6 AA6 ASN A 118 VAL A 139 1 22 HELIX 7 AA7 GLU A 141 VAL A 167 1 27 HELIX 8 AA8 TYR A 168 TRP A 170 5 3 HELIX 9 AA9 LEU A 171 PHE A 195 1 25 HELIX 10 AB1 SER A 198 LYS A 204 1 7 HELIX 11 AB2 PRO A 208 THR A 214 1 7 HELIX 12 AB3 GLN A 215 ARG A 244 1 30 HELIX 13 AB4 ASP A 246 ALA A 264 1 19 HELIX 14 AB5 ASN A 266 ALA A 287 1 22 HELIX 15 AB6 PRO A 289 GLU A 293 5 5 HELIX 16 AB7 SER A 299 ASN A 324 1 26 HELIX 17 AB8 LYS A 327 ALA A 333 1 7 HELIX 18 AB9 ALA A 333 ILE A 346 1 14 HELIX 19 AC1 GLN A 347 LEU A 350 5 4 SSBOND 1 CYS A 21 CYS A 196 1555 1555 2.03 LINK OD2 ASP A 19 NA NA A 410 1555 1555 3.11 LINK OD1 ASP A 19 CA CA A 412 1555 1555 2.70 LINK OD2 ASP A 19 CA CA A 412 1555 1555 2.92 LINK O TRP A 20 CA CA A 412 1555 1555 2.18 LINK O GLU A 22 CA CA A 412 1555 1555 2.26 LINK OD1 ASN A 24 CA CA A 412 1555 1555 2.54 LINK OE2 GLU A 33 CA CA A 412 1555 1555 2.71 LINK OE1 GLU A 60 MG MG A 414 1555 1555 2.53 LINK NE2 HIS A 81 ZN ZN A 401 1555 1555 2.42 LINK NE2 HIS A 217 ZN ZN A 401 1555 1555 2.41 LINK NE2 HIS A 221 ZN ZN A 401 1555 1555 2.38 LINK OD2 ASP A 246 NA NA A 409 1555 1555 2.48 LINK ZN ZN A 401 O HOH A 505 1555 1555 2.21 LINK O1 SO4 A 402 MG MG A 414 1555 1555 2.81 LINK NA NA A 409 O HOH A 526 1555 1555 2.78 LINK MG MG A 413 O HOH A 509 1555 1555 2.49 LINK MG MG A 413 O HOH A 509 1555 3554 2.49 SITE 1 AC1 5 HIS A 81 HIS A 217 HIS A 221 OLB A 411 SITE 2 AC1 5 HOH A 505 SITE 1 AC2 5 GLU A 60 LYS A 61 ARG A 62 SO4 A 403 SITE 2 AC2 5 MG A 414 SITE 1 AC3 6 LYS A 61 LYS A 259 LYS A 339 ARG A 342 SITE 2 AC3 6 SO4 A 402 HOH A 515 SITE 1 AC4 3 PHE A 111 ARG A 159 TYR A 162 SITE 1 AC5 6 TYR A 119 ASN A 343 ALA A 344 LYS A 348 SITE 2 AC5 6 HOH A 527 HOH A 528 SITE 1 AC6 6 LYS A 303 ARG A 306 HOH A 509 HOH A 514 SITE 2 AC6 6 HOH A 525 HOH A 532 SITE 1 AC7 6 ASP A 265 ASN A 266 ALA A 267 MG A 413 SITE 2 AC7 6 HOH A 516 HOH A 541 SITE 1 AC8 1 TRP A 219 SITE 1 AC9 2 ASP A 246 HOH A 526 SITE 1 AD1 2 THR A 14 ASP A 19 SITE 1 AD2 15 ASP A 92 GLU A 93 MET A 96 SER A 99 SITE 2 AD2 15 PHE A 103 HIS A 145 TYR A 149 PHE A 182 SITE 3 AD2 15 PHE A 186 TRP A 189 TRP A 220 HIS A 221 SITE 4 AD2 15 THR A 224 SER A 228 ZN A 401 SITE 1 AD3 5 ASP A 19 TRP A 20 GLU A 22 ASN A 24 SITE 2 AD3 5 GLU A 33 SITE 1 AD4 3 SO4 A 407 HOH A 509 HOH A 516 SITE 1 AD5 4 GLU A 60 LYS A 114 ASN A 115 SO4 A 402 CRYST1 60.880 68.830 257.520 90.00 90.00 90.00 C 2 2 21 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 0.016426 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014529 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003883 0.00000