HEADER HYDROLASE 12-NOV-13 3WLI TITLE CRYSTAL STRUCTURE ANALYSIS OF PLANT EXOHYDROLASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-D-GLUCAN EXOHYDROLASE ISOENZYME EXOI; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 26-630; COMPND 5 EC: 3.2.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HORDEUM VULGARE SUBSP. VULGARE; SOURCE 3 ORGANISM_COMMON: BARLEY,TWO-ROWED BARLEY; SOURCE 4 ORGANISM_TAXID: 112509; SOURCE 5 EXPRESSION_SYSTEM: KOMAGATAELLA PASTORIS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PPICZALPHABNH8/DEST KEYWDS BETA BARREL, HYDROLASE, GRAIN DEVELOPMENT, ENZYME FUNCTION KEYWDS 2 INITIATIVE, TIM BARREL/BETA SHEET, N-GLYCOSYLATION, PLANT APOPLAST EXPDTA X-RAY DIFFRACTION AUTHOR V.A.STRELTSOV,M.HRMOVA REVDAT 5 08-NOV-23 3WLI 1 HETSYN REVDAT 4 29-JUL-20 3WLI 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE REVDAT 3 20-NOV-19 3WLI 1 JRNL SEQADV REVDAT 2 29-MAY-19 3WLI 1 JRNL LINK REVDAT 1 25-MAR-15 3WLI 0 JRNL AUTH V.A.STRELTSOV,S.LUANG,A.PEISLEY,J.N.VARGHESE, JRNL AUTH 2 J.R.KETUDAT CAIRNS,S.FORT,M.HIJNEN,I.TVAROSKA,A.ARDA, JRNL AUTH 3 J.JIMENEZ-BARBERO,M.ALFONSO-PRIETO,C.ROVIRA,F.MENDOZA, JRNL AUTH 4 L.TIESSLER-SALA,J.E.SANCHEZ-APARICIO,J.RODRIGUEZ-GUERRA, JRNL AUTH 5 J.M.LLUCH,J.D.MARECHAL,L.MASGRAU,M.HRMOVA JRNL TITL DISCOVERY OF PROCESSIVE CATALYSIS BY AN EXO-HYDROLASE WITH A JRNL TITL 2 POCKET-SHAPED ACTIVE SITE. JRNL REF NAT COMMUN V. 10 2222 2019 JRNL REFN ESSN 2041-1723 JRNL PMID 31110237 JRNL DOI 10.1038/S41467-019-09691-Z REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 87.27 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 152633 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) : 0.147 REMARK 3 R VALUE (WORKING SET) : 0.146 REMARK 3 FREE R VALUE : 0.163 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 8059 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) : 1.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.49 REMARK 3 REFLECTION IN BIN (WORKING SET) : 11130 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.49 REMARK 3 BIN R VALUE (WORKING SET) : 0.2180 REMARK 3 BIN FREE R VALUE SET COUNT : 555 REMARK 3 BIN FREE R VALUE : 0.2240 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4596 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 140 REMARK 3 SOLVENT ATOMS : 893 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.55000 REMARK 3 B22 (A**2) : 0.55000 REMARK 3 B33 (A**2) : -1.10000 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): 0.045 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.046 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.028 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.586 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.977 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.972 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; 0.019 ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; 1.753 ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; 6.478 ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ;38.164 ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ;13.181 ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ;18.387 ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 3 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 : A -3 A 357 REMARK 3 ORIGIN FOR THE GROUP (A): 23.5867 15.5660 29.5244 REMARK 3 T TENSOR REMARK 3 T11: 0.0100 T22: 0.0350 REMARK 3 T33: 0.0263 T12: 0.0090 REMARK 3 T13: 0.0111 T23: 0.0125 REMARK 3 L TENSOR REMARK 3 L11: 0.3424 L22: 0.0686 REMARK 3 L33: 0.3151 L12: -0.1066 REMARK 3 L13: -0.2274 L23: 0.1456 REMARK 3 S TENSOR REMARK 3 S11: -0.0487 S12: -0.0290 S13: -0.0525 REMARK 3 S21: 0.0086 S22: 0.0190 S23: 0.0158 REMARK 3 S31: 0.0190 S32: 0.0482 S33: 0.0298 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 358 A 373 REMARK 3 ORIGIN FOR THE GROUP (A): 9.3699 20.5015 15.7318 REMARK 3 T TENSOR REMARK 3 T11: 0.0069 T22: 0.0646 REMARK 3 T33: 0.0295 T12: 0.0055 REMARK 3 T13: -0.0061 T23: -0.0252 REMARK 3 L TENSOR REMARK 3 L11: 0.8728 L22: 0.5014 REMARK 3 L33: 0.4769 L12: -0.4646 REMARK 3 L13: -0.0503 L23: 0.2843 REMARK 3 S TENSOR REMARK 3 S11: 0.0318 S12: 0.1419 S13: -0.0979 REMARK 3 S21: -0.0524 S22: -0.0711 S23: 0.0476 REMARK 3 S31: -0.0438 S32: -0.0953 S33: 0.0393 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 374 A 602 REMARK 3 ORIGIN FOR THE GROUP (A): 2.3039 31.5836 51.8551 REMARK 3 T TENSOR REMARK 3 T11: 0.0095 T22: 0.0419 REMARK 3 T33: 0.0263 T12: 0.0025 REMARK 3 T13: 0.0041 T23: -0.0099 REMARK 3 L TENSOR REMARK 3 L11: 0.3465 L22: 0.0737 REMARK 3 L33: 0.3882 L12: -0.1546 REMARK 3 L13: -0.2513 L23: 0.1225 REMARK 3 S TENSOR REMARK 3 S11: -0.0256 S12: -0.0419 S13: 0.0166 REMARK 3 S21: 0.0118 S22: 0.0097 S23: 0.0027 REMARK 3 S31: 0.0076 S32: 0.0549 S33: 0.0160 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 3WLI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-NOV-13. REMARK 100 THE DEPOSITION ID IS D_1000096485. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL SI(111) REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 152633 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 87.270 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL 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) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.76900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1EX1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 75MM HEPES-NAOH PH7.0 BUFFER, 1.2% PEG REMARK 280 400, 1.7M AMMONIUM SULPHATE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 91.72750 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 49.60900 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 49.60900 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 137.59125 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 49.60900 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 49.60900 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 45.86375 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 49.60900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.60900 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 137.59125 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 49.60900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.60900 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 45.86375 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 91.72750 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 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 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 LYS A 603 REMARK 465 LYS A 604 REMARK 465 TYR A 605 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 HOH A 1495 O HOH A 1576 1.71 REMARK 500 O HOH A 950 O HOH A 1548 1.77 REMARK 500 O HOH A 897 O HOH A 1290 1.84 REMARK 500 O HOH A 1359 O HOH A 1456 1.85 REMARK 500 O HOH A 900 O HOH A 1528 1.89 REMARK 500 O HOH A 1026 O HOH A 1575 1.91 REMARK 500 OE2 GLU A 161 O HOH A 940 1.94 REMARK 500 O PRO A 504 O HOH A 910 1.97 REMARK 500 O HOH A 1195 O HOH A 1281 1.99 REMARK 500 O HOH A 1284 O HOH A 1562 2.00 REMARK 500 O HOH A 941 O HOH A 1562 2.03 REMARK 500 O HOH A 880 O HOH A 1159 2.04 REMARK 500 O HOH A 1073 O HOH A 1566 2.05 REMARK 500 O HOH A 910 O HOH A 1558 2.08 REMARK 500 O HOH A 895 O HOH A 1510 2.09 REMARK 500 OG SER A 474 O HOH A 1220 2.11 REMARK 500 O SER A 478 NH1 ARG A 517 2.12 REMARK 500 O HOH A 832 O HOH A 1618 2.13 REMARK 500 O HOH A 1260 O HOH A 1511 2.13 REMARK 500 O HOH A 931 O HOH A 1576 2.16 REMARK 500 O HOH A 1292 O HOH A 1536 2.17 REMARK 500 O HOH A 925 O HOH A 1067 2.17 REMARK 500 O HOH A 855 O HOH A 1528 2.18 REMARK 500 O HOH A 1526 O HOH A 1574 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1231 O HOH A 1251 3554 1.95 REMARK 500 O HOH A 1006 O HOH A 1612 3554 2.02 REMARK 500 O HOH A 1255 O HOH A 1565 6455 2.09 REMARK 500 O HOH A 1042 O HOH A 1199 3554 2.11 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 GLU A 503 CD GLU A 503 OE2 0.075 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 37 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 62 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 119 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 126 NE - CZ - NH1 ANGL. DEV. = 7.3 DEGREES REMARK 500 ARG A 126 NE - CZ - NH2 ANGL. DEV. = -8.3 DEGREES REMARK 500 ARG A 136 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 440 NE - CZ - NH1 ANGL. DEV. = 4.9 DEGREES REMARK 500 ARG A 440 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG A 566 NE - CZ - NH2 ANGL. DEV. = -4.0 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 HIS A -2 -64.79 143.51 REMARK 500 HIS A 98 65.41 -154.52 REMARK 500 ASN A 221 -152.00 -96.14 REMARK 500 TYR A 271 -62.39 -98.16 REMARK 500 ASP A 299 78.14 -152.43 REMARK 500 ASN A 394 61.68 -151.41 REMARK 500 ILE A 432 -59.66 71.74 REMARK 500 GLU A 491 -135.79 58.22 REMARK 500 ARG A 526 163.48 178.73 REMARK 500 TRP A 544 -134.66 60.24 REMARK 500 GLU A 549 79.11 -102.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 HIS A -3 HIS A -2 136.48 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EX1 RELATED DB: PDB REMARK 900 NATIVE, AMBIENT T REMARK 900 RELATED ID: 1IEQ RELATED DB: PDB REMARK 900 NATIVE, LAB X-RAY SOURCE, CRYO-T REMARK 900 RELATED ID: 1IEV RELATED DB: PDB REMARK 900 NATIVE WITH CYCLOHEXITOL RING, LAB X-RAY SOURCE, CRYO-T REMARK 900 RELATED ID: 1IEW RELATED DB: PDB REMARK 900 NATIVE WITH 2F-GLC, LAB X-RAY SOURCE, CRYO-T REMARK 900 RELATED ID: 1IEX RELATED DB: PDB REMARK 900 NATIVE WITH CELLOBIOSIDE, LAB X-RAY SOURCE, CRYO-T REMARK 900 RELATED ID: 1J8V RELATED DB: PDB REMARK 900 NATIVE WITH S-LAMINARIBIOSIDE, LAB X-RAY SOURCE, CRYO-T REMARK 900 RELATED ID: 3WLH RELATED DB: PDB REMARK 900 RELATED ID: 3WLJ RELATED DB: PDB REMARK 900 RELATED ID: 3WLK RELATED DB: PDB REMARK 900 RELATED ID: 3WLL RELATED DB: PDB REMARK 900 RELATED ID: 3WLM RELATED DB: PDB REMARK 900 RELATED ID: 3WLN RELATED DB: PDB REMARK 900 RELATED ID: 3WLO RELATED DB: PDB REMARK 900 RELATED ID: 3WLP RELATED DB: PDB REMARK 900 RELATED ID: 3WLQ RELATED DB: PDB REMARK 900 RELATED ID: 3WLR RELATED DB: PDB REMARK 900 RELATED ID: 3WLS RELATED DB: PDB REMARK 900 RELATED ID: 3WLT RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AUTHORS STATE THERE IS AN ERROR IN THE CDNA SEQUENCING OF REMARK 999 AF102868 (GENBANK ACCESSION NUMBER). RESIDUE 320 (SEQUENCE DATABASE REMARK 999 RESIDUE 345) IS LYS AND IS NOT ASN. DBREF 3WLI A 1 605 UNP Q9XEI3 Q9XEI3_HORVD 26 630 SEQADV 3WLI HIS A -3 UNP Q9XEI3 EXPRESSION TAG SEQADV 3WLI HIS A -2 UNP Q9XEI3 EXPRESSION TAG SEQADV 3WLI ALA A -1 UNP Q9XEI3 EXPRESSION TAG SEQADV 3WLI ALA A 0 UNP Q9XEI3 EXPRESSION TAG SEQADV 3WLI LYS A 320 UNP Q9XEI3 ASN 345 SEE REMARK 999 SEQRES 1 A 609 HIS HIS ALA ALA ASP TYR VAL LEU TYR LYS ASP ALA THR SEQRES 2 A 609 LYS PRO VAL GLU ASP ARG VAL ALA ASP LEU LEU GLY ARG SEQRES 3 A 609 MET THR LEU ALA GLU LYS ILE GLY GLN MET THR GLN ILE SEQRES 4 A 609 GLU ARG LEU VAL ALA THR PRO ASP VAL LEU ARG ASP ASN SEQRES 5 A 609 PHE ILE GLY SER LEU LEU SER GLY GLY GLY SER VAL PRO SEQRES 6 A 609 ARG LYS GLY ALA THR ALA LYS GLU TRP GLN ASP MET VAL SEQRES 7 A 609 ASP GLY PHE GLN LYS ALA CYS MET SER THR ARG LEU GLY SEQRES 8 A 609 ILE PRO MET ILE TYR GLY ILE ASP ALA VAL HIS GLY GLN SEQRES 9 A 609 ASN ASN VAL TYR GLY ALA THR ILE PHE PRO HIS ASN VAL SEQRES 10 A 609 GLY LEU GLY ALA THR ARG ASP PRO TYR LEU VAL LYS ARG SEQRES 11 A 609 ILE GLY GLU ALA THR ALA LEU GLU VAL ARG ALA THR GLY SEQRES 12 A 609 ILE GLN TYR ALA PHE ALA PRO CYS ILE ALA VAL CYS ARG SEQRES 13 A 609 ASP PRO ARG TRP GLY ARG CYS TYR GLU SER TYR SER GLU SEQRES 14 A 609 ASP ARG ARG ILE VAL GLN SER MET THR GLU LEU ILE PRO SEQRES 15 A 609 GLY LEU GLN GLY ASP VAL PRO LYS ASP PHE THR SER GLY SEQRES 16 A 609 MET PRO PHE VAL ALA GLY LYS ASN LYS VAL ALA ALA CYS SEQRES 17 A 609 ALA LYS HIS PHE VAL GLY ASP GLY GLY THR VAL ASP GLY SEQRES 18 A 609 ILE ASN GLU ASN ASN THR ILE ILE ASN ARG GLU GLY LEU SEQRES 19 A 609 MET ASN ILE HIS MET PRO ALA TYR LYS ASN ALA MET ASP SEQRES 20 A 609 LYS GLY VAL SER THR VAL MET ILE SER TYR SER SER TRP SEQRES 21 A 609 ASN GLY VAL LYS MET HIS ALA ASN GLN ASP LEU VAL THR SEQRES 22 A 609 GLY TYR LEU LYS ASP THR LEU LYS PHE LYS GLY PHE VAL SEQRES 23 A 609 ILE SER ASP TRP GLU GLY ILE ASP ARG ILE THR THR PRO SEQRES 24 A 609 ALA GLY SER ASP TYR SER TYR SER VAL LYS ALA SER ILE SEQRES 25 A 609 LEU ALA GLY LEU ASP MET ILE MET VAL PRO ASN LYS TYR SEQRES 26 A 609 GLN GLN PHE ILE SER ILE LEU THR GLY HIS VAL ASN GLY SEQRES 27 A 609 GLY VAL ILE PRO MET SER ARG ILE ASP ASP ALA VAL THR SEQRES 28 A 609 ARG ILE LEU ARG VAL LYS PHE THR MET GLY LEU PHE GLU SEQRES 29 A 609 ASN PRO TYR ALA ASP PRO ALA MET ALA GLU GLN LEU GLY SEQRES 30 A 609 LYS GLN GLU HIS ARG ASP LEU ALA ARG GLU ALA ALA ARG SEQRES 31 A 609 LYS SER LEU VAL LEU LEU LYS ASN GLY LYS THR SER THR SEQRES 32 A 609 ASP ALA PRO LEU LEU PRO LEU PRO LYS LYS ALA PRO LYS SEQRES 33 A 609 ILE LEU VAL ALA GLY SER HIS ALA ASP ASN LEU GLY TYR SEQRES 34 A 609 GLN CYS GLY GLY TRP THR ILE GLU TRP GLN GLY ASP THR SEQRES 35 A 609 GLY ARG THR THR VAL GLY THR THR ILE LEU GLU ALA VAL SEQRES 36 A 609 LYS ALA ALA VAL ASP PRO SER THR VAL VAL VAL PHE ALA SEQRES 37 A 609 GLU ASN PRO ASP ALA GLU PHE VAL LYS SER GLY GLY PHE SEQRES 38 A 609 SER TYR ALA ILE VAL ALA VAL GLY GLU HIS PRO TYR THR SEQRES 39 A 609 GLU THR LYS GLY ASP ASN LEU ASN LEU THR ILE PRO GLU SEQRES 40 A 609 PRO GLY LEU SER THR VAL GLN ALA VAL CYS GLY GLY VAL SEQRES 41 A 609 ARG CYS ALA THR VAL LEU ILE SER GLY ARG PRO VAL VAL SEQRES 42 A 609 VAL GLN PRO LEU LEU ALA ALA SER ASP ALA LEU VAL ALA SEQRES 43 A 609 ALA TRP LEU PRO GLY SER GLU GLY GLN GLY VAL THR ASP SEQRES 44 A 609 ALA LEU PHE GLY ASP PHE GLY PHE THR GLY ARG LEU PRO SEQRES 45 A 609 ARG THR TRP PHE LYS SER VAL ASP GLN LEU PRO MET ASN SEQRES 46 A 609 VAL GLY ASP ALA HIS TYR ASP PRO LEU PHE ARG LEU GLY SEQRES 47 A 609 TYR GLY LEU THR THR ASN ALA THR LYS LYS TYR MODRES 3WLI ASN A 600 ASN GLYCOSYLATION SITE MODRES 3WLI ASN A 498 ASN GLYCOSYLATION SITE MODRES 3WLI ASN A 221 ASN GLYCOSYLATION SITE HET NAG A 701 14 HET NAG A 702 14 HET NAG A 703 14 HET GOL A 704 6 HET GOL A 705 6 HET GOL A 706 6 HET GOL A 707 6 HET GOL A 708 6 HET GOL A 709 6 HET GOL A 710 6 HET GOL A 711 6 HET GOL A 712 6 HET GOL A 713 6 HET GOL A 714 6 HET GOL A 715 6 HET GOL A 716 6 HET SO4 A 717 5 HET SO4 A 718 5 HET SO4 A 719 5 HET SO4 A 720 5 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 NAG 3(C8 H15 N O6) FORMUL 5 GOL 13(C3 H8 O3) FORMUL 18 SO4 4(O4 S 2-) FORMUL 22 HOH *893(H2 O) HELIX 1 1 VAL A 3 ASP A 7 5 5 HELIX 2 2 PRO A 11 GLY A 21 1 11 HELIX 3 3 THR A 24 MET A 32 1 9 HELIX 4 4 LEU A 38 ALA A 40 5 3 HELIX 5 5 THR A 41 ASN A 48 1 8 HELIX 6 6 THR A 66 SER A 83 1 18 HELIX 7 7 HIS A 111 THR A 118 1 8 HELIX 8 8 ASP A 120 THR A 138 1 19 HELIX 9 9 ARG A 158 SER A 162 5 5 HELIX 10 10 ASP A 166 THR A 174 1 9 HELIX 11 11 GLU A 175 GLY A 182 1 8 HELIX 12 12 GLY A 210 ILE A 218 5 9 HELIX 13 13 ASN A 226 HIS A 234 1 9 HELIX 14 14 MET A 235 LYS A 244 1 10 HELIX 15 15 ASN A 264 THR A 269 1 6 HELIX 16 16 ILE A 289 THR A 293 5 5 HELIX 17 17 ASP A 299 GLY A 311 1 13 HELIX 18 18 LYS A 320 GLY A 334 1 15 HELIX 19 19 PRO A 338 MET A 356 1 19 HELIX 20 20 ASP A 365 LEU A 372 5 8 HELIX 21 21 LYS A 374 LEU A 389 1 16 HELIX 22 22 ASN A 422 GLY A 428 1 7 HELIX 23 23 THR A 446 VAL A 455 1 10 HELIX 24 24 ASP A 468 GLY A 475 1 8 HELIX 25 25 THR A 490 ASP A 495 5 6 HELIX 26 26 GLY A 505 VAL A 516 1 12 HELIX 27 27 VAL A 530 SER A 537 1 8 HELIX 28 28 GLY A 550 PHE A 558 1 9 HELIX 29 29 SER A 574 LEU A 578 5 5 SHEET 1 A 5 TYR A 142 ALA A 143 0 SHEET 2 A 5 ILE A 91 ILE A 94 1 N ILE A 94 O TYR A 142 SHEET 3 A 5 SER A 52 SER A 55 1 N LEU A 53 O GLY A 93 SHEET 4 A 5 THR A 33 GLU A 36 1 N ILE A 35 O SER A 52 SHEET 5 A 5 ILE A 315 MET A 316 1 O ILE A 315 N GLN A 34 SHEET 1 B 3 CYS A 204 PHE A 208 0 SHEET 2 B 3 THR A 248 ILE A 251 1 O MET A 250 N PHE A 208 SHEET 3 B 3 PHE A 281 ILE A 283 1 O ILE A 283 N VAL A 249 SHEET 1 C 3 ASN A 222 THR A 223 0 SHEET 2 C 3 SER A 255 TRP A 256 1 O SER A 255 N THR A 223 SHEET 3 C 3 VAL A 259 LYS A 260 -1 O VAL A 259 N TRP A 256 SHEET 1 D 6 VAL A 390 ASN A 394 0 SHEET 2 D 6 ALA A 539 TRP A 544 -1 O ALA A 542 N VAL A 390 SHEET 3 D 6 CYS A 518 ILE A 523 1 N LEU A 522 O VAL A 541 SHEET 4 D 6 ALA A 480 GLY A 485 1 N VAL A 482 O VAL A 521 SHEET 5 D 6 LYS A 412 ALA A 416 1 N ALA A 416 O ALA A 483 SHEET 6 D 6 VAL A 460 ALA A 464 1 O VAL A 462 N VAL A 415 SSBOND 1 CYS A 151 CYS A 159 1555 1555 2.25 SSBOND 2 CYS A 513 CYS A 518 1555 1555 2.03 LINK ND2 ASN A 221 C1 NAG A 701 1555 1555 1.46 LINK ND2 ASN A 498 C1 NAG A 703 1555 1555 1.46 LINK ND2 ASN A 600 C1 NAG A 702 1555 1555 1.45 CISPEP 1 ALA A 145 PRO A 146 0 3.35 CISPEP 2 LYS A 206 HIS A 207 0 -9.10 CISPEP 3 PHE A 208 VAL A 209 0 -6.04 CISPEP 4 THR A 294 PRO A 295 0 -1.28 CISPEP 5 VAL A 317 PRO A 318 0 -12.43 CISPEP 6 LEU A 404 PRO A 405 0 -1.01 CISPEP 7 GLU A 503 PRO A 504 0 2.24 CISPEP 8 LEU A 578 PRO A 579 0 -3.30 CRYST1 99.218 99.218 183.455 90.00 90.00 90.00 P 43 21 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 0.010079 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010079 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005451 0.00000