HEADER LYASE 24-APR-02 1LK9 TITLE THE THREE-DIMENSIONAL STRUCTURE OF ALLIINASE FROM GARLIC COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALLIIN LYASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ALLIINASE, CYSTEINE SULPHOXIDE LYASE; COMPND 5 EC: 4.4.1.4 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ALLIUM SATIVUM; SOURCE 3 ORGANISM_COMMON: GARLIC; SOURCE 4 ORGANISM_TAXID: 4682; SOURCE 5 OTHER_DETAILS: BULB KEYWDS EGF-LIKE DOMAIN, PLP TYPE 1, CHLORIDE BINDING, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR E.B.KUETTNER,R.HILGENFELD,M.S.WEISS REVDAT 4 29-JUL-20 1LK9 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 13-JUL-11 1LK9 1 VERSN REVDAT 2 24-FEB-09 1LK9 1 VERSN REVDAT 1 11-DEC-02 1LK9 0 JRNL AUTH E.B.KUETTNER,R.HILGENFELD,M.S.WEISS JRNL TITL THE ACTIVE PRINCIPLE OF GARLIC AT ATOMIC RESOLUTION JRNL REF J.BIOL.CHEM. V. 277 46402 2002 JRNL REFN ISSN 0021-9258 JRNL PMID 12235163 JRNL DOI 10.1074/JBC.M208669200 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH E.B.KUETTNER,R.HILGENFELD,M.S.WEISS REMARK 1 TITL PURIFICATION, CHARACTERIZATION AND CRYSTALLIZATION OF REMARK 1 TITL 2 ALLIINASE FROM GARLIC REMARK 1 REF ARCH.BIOCHEM.BIOPHYS. V. 402 192 2002 REMARK 1 REFN ISSN 0003-9861 REMARK 1 DOI 10.1016/S0003-9861(02)00088-7 REMARK 1 REFERENCE 2 REMARK 1 AUTH E.B.KUETTNER,R.HILGENFELD,M.S.WEISS REMARK 1 TITL ERRATUM TO ``PURIFICATION, CHARACTERIZATION AND REMARK 1 TITL 2 CRYSTALLIZATION OF ALLIINASE FROM GARLIC. [ARCH. BIOCHEM. REMARK 1 TITL 3 BIOPHYS. 402, 192-200.]'' REMARK 1 REF ARCH.BIOCHEM.BIOPHYS. V. 404 339 2002 REMARK 1 REFN ISSN 0003-9861 REMARK 1 DOI 10.1016/S0003-9861(02)00368-5 REMARK 2 REMARK 2 RESOLUTION. 1.53 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 4.0.6 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.53 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 12.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 162892 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.221 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 3264 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6862 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 252 REMARK 3 SOLVENT ATOMS : 830 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.075 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.077 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.055 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.530 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.011 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.026 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.030 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.120 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.174 ; 0.300 REMARK 3 MULTIPLE TORSION (A) : 0.190 ; 0.300 REMARK 3 H-BOND (X...Y) (A) : 0.125 ; 0.300 REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : 3.900 ; 7.000 REMARK 3 STAGGERED (DEGREES) : 13.400; 15.000 REMARK 3 TRANSVERSE (DEGREES) : 25.900; 20.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 0.941 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.364 ; 2.500 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.366 ; 5.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 4.603 ; 10.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1LK9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-MAY-02. REMARK 100 THE DEPOSITION ID IS D_1000016022. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-APR-00 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8423 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, TRUNCATE REMARK 200 DATA SCALING SOFTWARE : CCP4 (TRUNCATE) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 160747 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.530 REMARK 200 RESOLUTION RANGE LOW (A) : 12.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.53 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.50800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIRAS REMARK 200 SOFTWARE USED: MLPHARE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN: 5 MG/ML ALLIINASE, 5 MM HEPES REMARK 280 PH 7.4, 10 % (V/V) GLYCEROL, 0.25 MM PYRIDOXAL-5'-PHOSPHATE, 1 REMARK 280 MM S-ETHYL-L-CYSTEINE; PRECIPITANT: 2.9 M AMMONIUM SULFATE, 50 REMARK 280 MM HEPES PH 7.4 HANGING DROP METHOD(4 MICROL + 4 MICROL), VAPOUR REMARK 280 DIFFUSION, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 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 34.22500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 77.84500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.53500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 77.84500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.22500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 50.53500 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: 14250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -168.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E, F 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 ARG A 426 REMARK 465 LYS A 427 REMARK 465 THR A 428 REMARK 465 PRO A 429 REMARK 465 LEU A 430 REMARK 465 ILE A 431 REMARK 465 LYS A 432 REMARK 465 GLN A 433 REMARK 465 LEU A 434 REMARK 465 PHE A 435 REMARK 465 ILE A 436 REMARK 465 ASP A 437 REMARK 465 GLN A 438 REMARK 465 THR A 439 REMARK 465 GLU A 440 REMARK 465 THR A 441 REMARK 465 ALA A 442 REMARK 465 SER A 443 REMARK 465 ARG A 444 REMARK 465 ARG A 445 REMARK 465 PRO A 446 REMARK 465 PHE A 447 REMARK 465 ILE A 448 REMARK 465 THR B 428 REMARK 465 PRO B 429 REMARK 465 LEU B 430 REMARK 465 ILE B 431 REMARK 465 LYS B 432 REMARK 465 GLN B 433 REMARK 465 LEU B 434 REMARK 465 PHE B 435 REMARK 465 ILE B 436 REMARK 465 ASP B 437 REMARK 465 GLN B 438 REMARK 465 THR B 439 REMARK 465 GLU B 440 REMARK 465 THR B 441 REMARK 465 ALA B 442 REMARK 465 SER B 443 REMARK 465 ARG B 444 REMARK 465 ARG B 445 REMARK 465 PRO B 446 REMARK 465 PHE B 447 REMARK 465 ILE B 448 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 LYS A 1 N CB CG CD CE NZ REMARK 470 LYS B 1 N CB CG CD CE NZ 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 O4 NAG C 2 O5 BMA C 3 2.11 REMARK 500 OD2 ASP B 267 OG SER B 269 2.15 REMARK 500 O4 NAG F 1 O5 NAG F 2 2.16 REMARK 500 O4 NAG D 1 O5 NAG D 2 2.16 REMARK 500 O4 NAG C 1 O5 NAG C 2 2.18 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 A 25 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 25 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 ARG A 89 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 ASP A 123 N - CA - CB ANGL. DEV. = -11.5 DEGREES REMARK 500 PHE A 128 CB - CG - CD2 ANGL. DEV. = -5.1 DEGREES REMARK 500 PHE A 128 CB - CG - CD1 ANGL. DEV. = 4.9 DEGREES REMARK 500 PRO A 208 N - CA - C ANGL. DEV. = 17.0 DEGREES REMARK 500 ARG A 259 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 287 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 323 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG A 357 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG B 89 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 PHE B 128 CB - CG - CD2 ANGL. DEV. = -6.3 DEGREES REMARK 500 PHE B 128 CB - CG - CD1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG B 213 NH1 - CZ - NH2 ANGL. DEV. = 7.0 DEGREES REMARK 500 ARG B 213 NE - CZ - NH2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG B 259 NE - CZ - NH2 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG B 287 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG B 312 CD - NE - CZ ANGL. DEV. = 10.4 DEGREES REMARK 500 ARG B 312 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG B 323 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG B 325 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP B 337 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 ARG B 401 NE - CZ - NH1 ANGL. DEV. = 3.1 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 THR A 3 -91.90 -121.17 REMARK 500 SER A 21 -148.14 57.17 REMARK 500 ARG A 89 67.55 32.67 REMARK 500 SER A 98 43.81 -152.97 REMARK 500 ASP A 123 -6.50 78.21 REMARK 500 ASP A 241 21.85 -144.51 REMARK 500 SER A 360 61.23 -152.67 REMARK 500 ARG A 384 31.30 76.58 REMARK 500 GLU A 394 35.30 73.40 REMARK 500 LYS A 406 -156.12 -88.29 REMARK 500 THR B 3 -94.70 -126.35 REMARK 500 ARG B 89 65.40 30.05 REMARK 500 SER B 98 47.06 -151.03 REMARK 500 GLN B 307 24.15 -140.55 REMARK 500 SER B 360 61.31 -153.11 REMARK 500 ARG B 384 34.29 75.68 REMARK 500 GLU B 394 38.04 74.84 REMARK 500 LYS B 406 -158.98 -91.38 REMARK 500 ARG B 426 159.27 -49.94 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 ASN A 146 0.07 SIDE CHAIN REMARK 500 ASN B 146 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 THE MOLECULES EPE AND DHA ARE ONLY PRESENT AT AN REMARK 600 OCCUPANCY OF 50%. THEIR PRESENCE IS MUTUALLY EXCLUSIVE. REMARK 999 REMARK 999 SEQUENCE REMARK 999 THERE ARE TWO DIFFERENT SEQUENCES IN THE LITERATURE, REMARK 999 ONE CONTAINS AN ASP IN POSITION 176 AND ONE CONTAINS ASN. REMARK 999 THE AUTHORS HAVE BUILT AND REFINED THE STRUCTURE WITH AN REMARK 999 ASP PRESENT IN THIS POSITION. DBREF 1LK9 A 1 448 UNP Q01594 ALLN_ALLSA 39 486 DBREF 1LK9 B 1 448 UNP Q01594 ALLN_ALLSA 39 486 SEQADV 1LK9 ASP A 176 UNP Q01594 ASN 214 SEE REMARK 999 SEQADV 1LK9 ASP B 176 UNP Q01594 ASN 214 SEE REMARK 999 SEQRES 1 A 448 LYS MET THR TRP THR MET LYS ALA ALA GLU GLU ALA GLU SEQRES 2 A 448 ALA VAL ALA ASN ILE ASN CYS SER GLU HIS GLY ARG ALA SEQRES 3 A 448 PHE LEU ASP GLY ILE ILE SER GLU GLY SER PRO LYS CYS SEQRES 4 A 448 GLU CYS ASN THR CYS TYR THR GLY PRO ASP CYS SER GLU SEQRES 5 A 448 LYS ILE GLN GLY CYS SER ALA ASP VAL ALA SER GLY ASP SEQRES 6 A 448 GLY LEU PHE LEU GLU GLU TYR TRP LYS GLN HIS LYS GLU SEQRES 7 A 448 ALA SER ALA VAL LEU VAL SER PRO TRP HIS ARG MET SER SEQRES 8 A 448 TYR PHE PHE ASN PRO VAL SER ASN PHE ILE SER PHE GLU SEQRES 9 A 448 LEU GLU LYS THR ILE LYS GLU LEU HIS GLU VAL VAL GLY SEQRES 10 A 448 ASN ALA ALA ALA LYS ASP ARG TYR ILE VAL PHE GLY VAL SEQRES 11 A 448 GLY VAL THR GLN LEU ILE HIS GLY LEU VAL ILE SER LEU SEQRES 12 A 448 SER PRO ASN MET THR ALA THR PRO ASP ALA PRO GLU SER SEQRES 13 A 448 LYS VAL VAL ALA HIS ALA PRO PHE TYR PRO VAL PHE ARG SEQRES 14 A 448 GLU GLN THR LYS TYR PHE ASP LYS LYS GLY TYR VAL TRP SEQRES 15 A 448 ALA GLY ASN ALA ALA ASN TYR VAL ASN VAL SER ASN PRO SEQRES 16 A 448 GLU GLN TYR ILE GLU MET VAL THR SER PRO ASN ASN PRO SEQRES 17 A 448 GLU GLY LEU LEU ARG HIS ALA VAL ILE LYS GLY CYS LYS SEQRES 18 A 448 SER ILE TYR ASP MET VAL TYR TYR TRP PRO HIS TYR THR SEQRES 19 A 448 PRO ILE LYS TYR LYS ALA ASP GLU ASP ILE LEU LEU PHE SEQRES 20 A 448 THR MET SER LYS PHE THR GLY HIS SER GLY SER ARG PHE SEQRES 21 A 448 GLY TRP ALA LEU ILE LYS ASP GLU SER VAL TYR ASN ASN SEQRES 22 A 448 LEU LEU ASN TYR MET THR LYS ASN THR GLU GLY THR PRO SEQRES 23 A 448 ARG GLU THR GLN LEU ARG SER LEU LYS VAL LEU LYS GLU SEQRES 24 A 448 VAL VAL ALA MET VAL LYS THR GLN LYS GLY THR MET ARG SEQRES 25 A 448 ASP LEU ASN THR PHE GLY PHE LYS LYS LEU ARG GLU ARG SEQRES 26 A 448 TRP VAL ASN ILE THR ALA LEU LEU ASP GLN SER ASP ARG SEQRES 27 A 448 PHE SER TYR GLN GLU LEU PRO GLN SER GLU TYR CYS ASN SEQRES 28 A 448 TYR PHE ARG ARG MET ARG PRO PRO SER PRO SER TYR ALA SEQRES 29 A 448 TRP VAL LYS CYS GLU TRP GLU GLU ASP LYS ASP CYS TYR SEQRES 30 A 448 GLN THR PHE GLN ASN GLY ARG ILE ASN THR GLN ASN GLY SEQRES 31 A 448 VAL GLY PHE GLU ALA SER SER ARG TYR VAL ARG LEU SER SEQRES 32 A 448 LEU ILE LYS THR GLN ASP ASP PHE ASP GLN LEU MET TYR SEQRES 33 A 448 TYR LEU LYS ASP MET VAL LYS ALA LYS ARG LYS THR PRO SEQRES 34 A 448 LEU ILE LYS GLN LEU PHE ILE ASP GLN THR GLU THR ALA SEQRES 35 A 448 SER ARG ARG PRO PHE ILE SEQRES 1 B 448 LYS MET THR TRP THR MET LYS ALA ALA GLU GLU ALA GLU SEQRES 2 B 448 ALA VAL ALA ASN ILE ASN CYS SER GLU HIS GLY ARG ALA SEQRES 3 B 448 PHE LEU ASP GLY ILE ILE SER GLU GLY SER PRO LYS CYS SEQRES 4 B 448 GLU CYS ASN THR CYS TYR THR GLY PRO ASP CYS SER GLU SEQRES 5 B 448 LYS ILE GLN GLY CYS SER ALA ASP VAL ALA SER GLY ASP SEQRES 6 B 448 GLY LEU PHE LEU GLU GLU TYR TRP LYS GLN HIS LYS GLU SEQRES 7 B 448 ALA SER ALA VAL LEU VAL SER PRO TRP HIS ARG MET SER SEQRES 8 B 448 TYR PHE PHE ASN PRO VAL SER ASN PHE ILE SER PHE GLU SEQRES 9 B 448 LEU GLU LYS THR ILE LYS GLU LEU HIS GLU VAL VAL GLY SEQRES 10 B 448 ASN ALA ALA ALA LYS ASP ARG TYR ILE VAL PHE GLY VAL SEQRES 11 B 448 GLY VAL THR GLN LEU ILE HIS GLY LEU VAL ILE SER LEU SEQRES 12 B 448 SER PRO ASN MET THR ALA THR PRO ASP ALA PRO GLU SER SEQRES 13 B 448 LYS VAL VAL ALA HIS ALA PRO PHE TYR PRO VAL PHE ARG SEQRES 14 B 448 GLU GLN THR LYS TYR PHE ASP LYS LYS GLY TYR VAL TRP SEQRES 15 B 448 ALA GLY ASN ALA ALA ASN TYR VAL ASN VAL SER ASN PRO SEQRES 16 B 448 GLU GLN TYR ILE GLU MET VAL THR SER PRO ASN ASN PRO SEQRES 17 B 448 GLU GLY LEU LEU ARG HIS ALA VAL ILE LYS GLY CYS LYS SEQRES 18 B 448 SER ILE TYR ASP MET VAL TYR TYR TRP PRO HIS TYR THR SEQRES 19 B 448 PRO ILE LYS TYR LYS ALA ASP GLU ASP ILE LEU LEU PHE SEQRES 20 B 448 THR MET SER LYS PHE THR GLY HIS SER GLY SER ARG PHE SEQRES 21 B 448 GLY TRP ALA LEU ILE LYS ASP GLU SER VAL TYR ASN ASN SEQRES 22 B 448 LEU LEU ASN TYR MET THR LYS ASN THR GLU GLY THR PRO SEQRES 23 B 448 ARG GLU THR GLN LEU ARG SER LEU LYS VAL LEU LYS GLU SEQRES 24 B 448 VAL VAL ALA MET VAL LYS THR GLN LYS GLY THR MET ARG SEQRES 25 B 448 ASP LEU ASN THR PHE GLY PHE LYS LYS LEU ARG GLU ARG SEQRES 26 B 448 TRP VAL ASN ILE THR ALA LEU LEU ASP GLN SER ASP ARG SEQRES 27 B 448 PHE SER TYR GLN GLU LEU PRO GLN SER GLU TYR CYS ASN SEQRES 28 B 448 TYR PHE ARG ARG MET ARG PRO PRO SER PRO SER TYR ALA SEQRES 29 B 448 TRP VAL LYS CYS GLU TRP GLU GLU ASP LYS ASP CYS TYR SEQRES 30 B 448 GLN THR PHE GLN ASN GLY ARG ILE ASN THR GLN ASN GLY SEQRES 31 B 448 VAL GLY PHE GLU ALA SER SER ARG TYR VAL ARG LEU SER SEQRES 32 B 448 LEU ILE LYS THR GLN ASP ASP PHE ASP GLN LEU MET TYR SEQRES 33 B 448 TYR LEU LYS ASP MET VAL LYS ALA LYS ARG LYS THR PRO SEQRES 34 B 448 LEU ILE LYS GLN LEU PHE ILE ASP GLN THR GLU THR ALA SEQRES 35 B 448 SER ARG ARG PRO PHE ILE MODRES 1LK9 ASN A 146 ASN GLYCOSYLATION SITE MODRES 1LK9 ASN A 328 ASN GLYCOSYLATION SITE MODRES 1LK9 ASN B 146 ASN GLYCOSYLATION SITE MODRES 1LK9 ASN B 328 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET BMA C 3 11 HET FUC C 4 10 HET NAG D 1 14 HET NAG D 2 14 HET NAG E 1 14 HET FUC E 2 10 HET NAG F 1 14 HET NAG F 2 14 HET SO4 A 904 5 HET SO4 A 905 5 HET SO4 A 906 5 HET SO4 A 907 5 HET SO4 A 910 5 HET SO4 A 911 5 HET CL A1001 1 HET PLP A 600 15 HET EPE A 851 15 HET EPE A 852 15 HET SO4 B 901 5 HET SO4 B 902 5 HET SO4 B 903 5 HET SO4 B 908 5 HET SO4 B 909 5 HET CL B1002 1 HET PLP B 600 15 HET DHA B 850 6 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM SO4 SULFATE ION HETNAM CL CHLORIDE ION HETNAM PLP PYRIDOXAL-5'-PHOSPHATE HETNAM EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID HETNAM DHA 2-AMINO-ACRYLIC ACID HETSYN PLP VITAMIN B6 PHOSPHATE HETSYN EPE HEPES HETSYN DHA 2,3-DIDEHYDROALANINE FORMUL 3 NAG 7(C8 H15 N O6) FORMUL 3 BMA C6 H12 O6 FORMUL 3 FUC 2(C6 H12 O5) FORMUL 7 SO4 11(O4 S 2-) FORMUL 13 CL 2(CL 1-) FORMUL 14 PLP 2(C8 H10 N O6 P) FORMUL 15 EPE 2(C8 H18 N2 O4 S) FORMUL 24 DHA C3 H5 N O2 FORMUL 25 HOH *830(H2 O) HELIX 1 1 THR A 5 ASN A 17 1 13 HELIX 2 2 GLY A 66 PHE A 68 5 3 HELIX 3 3 LEU A 69 LYS A 74 1 6 HELIX 4 4 HIS A 76 ALA A 81 1 6 HELIX 5 5 SER A 102 GLY A 117 1 16 HELIX 6 6 VAL A 130 SER A 144 1 15 HELIX 7 7 TYR A 165 PHE A 175 1 11 HELIX 8 8 ALA A 187 VAL A 190 5 4 HELIX 9 9 ASN A 194 GLU A 196 5 3 HELIX 10 10 MET A 249 THR A 253 1 5 HELIX 11 11 HIS A 255 ARG A 259 5 5 HELIX 12 12 ASP A 267 THR A 282 1 16 HELIX 13 13 PRO A 286 LYS A 308 1 23 HELIX 14 14 ASP A 313 ASP A 334 1 22 HELIX 15 15 TRP A 370 LYS A 374 5 5 HELIX 16 16 ASP A 375 GLY A 383 1 9 HELIX 17 17 VAL A 391 GLU A 394 5 4 HELIX 18 18 THR A 407 LYS A 423 1 17 HELIX 19 19 THR B 5 ASN B 17 1 13 HELIX 20 20 GLY B 66 PHE B 68 5 3 HELIX 21 21 LEU B 69 LYS B 74 1 6 HELIX 22 22 HIS B 76 ALA B 81 1 6 HELIX 23 23 SER B 102 GLY B 117 1 16 HELIX 24 24 VAL B 130 SER B 144 1 15 HELIX 25 25 TYR B 165 PHE B 175 1 11 HELIX 26 26 ALA B 187 VAL B 190 5 4 HELIX 27 27 ASN B 194 GLU B 196 5 3 HELIX 28 28 MET B 249 THR B 253 1 5 HELIX 29 29 HIS B 255 ARG B 259 5 5 HELIX 30 30 ASP B 267 GLU B 283 1 17 HELIX 31 31 PRO B 286 LYS B 308 1 23 HELIX 32 32 ASP B 313 ASP B 334 1 22 HELIX 33 33 TRP B 370 LYS B 374 5 5 HELIX 34 34 ASP B 375 GLY B 383 1 9 HELIX 35 35 VAL B 391 GLU B 394 5 4 HELIX 36 36 THR B 407 ALA B 424 1 18 SHEET 1 A 2 GLY A 24 ARG A 25 0 SHEET 2 A 2 GLU A 40 CYS A 41 -1 O GLU A 40 N ARG A 25 SHEET 1 B 2 ILE A 32 SER A 33 0 SHEET 2 B 2 SER A 36 PRO A 37 -1 O SER A 36 N SER A 33 SHEET 1 C 2 TYR A 45 THR A 46 0 SHEET 2 C 2 GLU A 52 LYS A 53 -1 O GLU A 52 N THR A 46 SHEET 1 D 2 ALA A 59 ASP A 60 0 SHEET 2 D 2 ILE A 385 ASN A 386 1 O ASN A 386 N ALA A 59 SHEET 1 E 2 VAL A 82 VAL A 84 0 SHEET 2 E 2 VAL B 82 VAL B 84 -1 O VAL B 82 N VAL A 84 SHEET 1 F 7 TYR A 125 GLY A 129 0 SHEET 2 F 7 GLY A 261 ILE A 265 -1 O ILE A 265 N TYR A 125 SHEET 3 F 7 ILE A 244 THR A 248 -1 N PHE A 247 O TRP A 262 SHEET 4 F 7 LYS A 221 ASP A 225 1 N TYR A 224 O LEU A 246 SHEET 5 F 7 TYR A 198 THR A 203 1 N VAL A 202 O ASP A 225 SHEET 6 F 7 SER A 156 ALA A 160 1 N VAL A 159 O MET A 201 SHEET 7 F 7 TYR A 180 ASN A 185 1 O ALA A 183 N VAL A 158 SHEET 1 G 4 PHE A 339 TYR A 341 0 SHEET 2 G 4 TYR A 363 CYS A 368 -1 O LYS A 367 N SER A 340 SHEET 3 G 4 TYR A 399 SER A 403 -1 O LEU A 402 N ALA A 364 SHEET 4 G 4 GLN A 388 ASN A 389 -1 N GLN A 388 O ARG A 401 SHEET 1 H 2 GLU A 348 CYS A 350 0 SHEET 2 H 2 ARG A 355 ARG A 357 -1 O ARG A 357 N GLU A 348 SHEET 1 I 2 GLY B 24 ARG B 25 0 SHEET 2 I 2 GLU B 40 CYS B 41 -1 O GLU B 40 N ARG B 25 SHEET 1 J 2 ILE B 32 SER B 33 0 SHEET 2 J 2 SER B 36 PRO B 37 -1 O SER B 36 N SER B 33 SHEET 1 K 2 TYR B 45 THR B 46 0 SHEET 2 K 2 GLU B 52 LYS B 53 -1 O GLU B 52 N THR B 46 SHEET 1 L 2 ALA B 59 ASP B 60 0 SHEET 2 L 2 ILE B 385 ASN B 386 1 O ASN B 386 N ALA B 59 SHEET 1 M 7 TYR B 125 GLY B 129 0 SHEET 2 M 7 GLY B 261 ILE B 265 -1 O ILE B 265 N TYR B 125 SHEET 3 M 7 ILE B 244 THR B 248 -1 N PHE B 247 O TRP B 262 SHEET 4 M 7 LYS B 221 ASP B 225 1 N TYR B 224 O LEU B 246 SHEET 5 M 7 TYR B 198 THR B 203 1 N VAL B 202 O ASP B 225 SHEET 6 M 7 SER B 156 ALA B 160 1 N VAL B 159 O MET B 201 SHEET 7 M 7 TYR B 180 ASN B 185 1 O ALA B 183 N VAL B 158 SHEET 1 N 4 PHE B 339 TYR B 341 0 SHEET 2 N 4 TYR B 363 CYS B 368 -1 O LYS B 367 N SER B 340 SHEET 3 N 4 TYR B 399 SER B 403 -1 O LEU B 402 N ALA B 364 SHEET 4 N 4 GLN B 388 ASN B 389 -1 N GLN B 388 O ARG B 401 SHEET 1 O 2 GLU B 348 CYS B 350 0 SHEET 2 O 2 ARG B 355 ARG B 357 -1 O ARG B 357 N GLU B 348 SSBOND 1 CYS A 20 CYS A 39 1555 1555 2.06 SSBOND 2 CYS A 41 CYS A 50 1555 1555 2.05 SSBOND 3 CYS A 44 CYS A 57 1555 1555 2.05 SSBOND 4 CYS A 368 CYS A 376 1555 1555 2.09 SSBOND 5 CYS B 20 CYS B 39 1555 1555 2.09 SSBOND 6 CYS B 41 CYS B 50 1555 1555 2.12 SSBOND 7 CYS B 44 CYS B 57 1555 1555 2.06 SSBOND 8 CYS B 368 CYS B 376 1555 1555 2.12 LINK ND2 ASN A 146 C1 NAG C 1 1555 1555 1.45 LINK NZ LYS A 251 C4A PLP A 600 1555 1555 1.48 LINK ND2 ASN A 328 C1 NAG D 1 1555 1555 1.46 LINK ND2 ASN B 146 C1 NAG E 1 1555 1555 1.46 LINK NZ LYS B 251 C4A PLP B 600 1555 1555 1.46 LINK ND2 ASN B 328 C1 NAG F 1 1555 1555 1.46 LINK C4A PLP B 600 N ADHA B 850 1555 1555 1.50 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.26 LINK O3 NAG C 1 C1 FUC C 4 1555 1555 1.24 LINK O4 NAG C 2 C1 BMA C 3 1555 1555 1.18 LINK O4 NAG D 1 C1 NAG D 2 1555 1555 1.26 LINK O3 NAG E 1 C1 FUC E 2 1555 1555 1.22 LINK O4 NAG F 1 C1 NAG F 2 1555 1555 1.26 CISPEP 1 ASN A 95 PRO A 96 0 0.51 CISPEP 2 ALA A 162 PRO A 163 0 1.78 CISPEP 3 SER A 204 PRO A 205 0 -4.02 CISPEP 4 ASN A 207 PRO A 208 0 18.14 CISPEP 5 ASN B 95 PRO B 96 0 2.12 CISPEP 6 ALA B 162 PRO B 163 0 3.81 CISPEP 7 SER B 204 PRO B 205 0 -9.66 CISPEP 8 ASN B 207 PRO B 208 0 24.58 CRYST1 68.450 101.070 155.690 90.00 90.00 90.00 P 21 21 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 0.014610 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009894 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006423 0.00000