HEADER ISOMERASE 21-APR-08 3CWH TITLE D-XYLOSE ISOMERASE IN COMPLEX WITH LINEAR PRODUCT, PER-DEUTERATED TITLE 2 XYLULOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: XYLOSE ISOMERASE; COMPND 3 CHAIN: A; COMPND 4 EC: 5.3.1.5 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES RUBIGINOSUS KEYWDS ENZYME-PRODUCT COMPLEX, CARBOHYDRATE METABOLISM, ISOMERASE, KEYWDS 2 MAGNESIUM, METAL-BINDING, PENTOSE SHUNT, XYLOSE METABOLISM EXPDTA NEUTRON DIFFRACTION AUTHOR A.Y.KOVALEVSKY,P.LANGAN,J.P.GLUSKER REVDAT 3 13-JUL-11 3CWH 1 VERSN REVDAT 2 24-FEB-09 3CWH 1 VERSN REVDAT 1 05-AUG-08 3CWH 0 JRNL AUTH A.Y.KOVALEVSKY,A.K.KATZ,H.L.CARRELL,L.HANSON,M.MUSTYAKIMOV, JRNL AUTH 2 S.Z.FISHER,L.COATES,B.P.SCHOENBORN,G.J.BUNICK,J.P.GLUSKER, JRNL AUTH 3 P.LANGAN JRNL TITL HYDROGEN LOCATION IN STAGES OF AN ENZYME-CATALYZED REACTION: JRNL TITL 2 TIME-OF-FLIGHT NEUTRON STRUCTURE OF D-XYLOSE ISOMERASE WITH JRNL TITL 3 BOUND D-XYLULOSE JRNL REF BIOCHEMISTRY V. 47 7595 2008 JRNL REFN ISSN 0006-2960 JRNL PMID 18578508 JRNL DOI 10.1021/BI8005434 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 86.3 REMARK 3 CROSS-VALIDATION METHOD : FREE R REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.237 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.288 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 876 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 17072 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3046 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 13 REMARK 3 SOLVENT ATOMS : 227 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : NULL REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : NULL REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : NULL REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : NULL REMARK 3 NUMBER OF RESTRAINTS : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 ANGLE DISTANCES (A) : 0.962 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3CWH COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-JUN-08. REMARK 100 THE RCSB ID CODE IS RCSB047296. REMARK 230 REMARK 230 EXPERIMENTAL DETAILS REMARK 230 EXPERIMENT TYPE : NEUTRON DIFFRACTION REMARK 230 DATE OF DATA COLLECTION : 01-SEP-04 REMARK 230 TEMPERATURE (KELVIN) : 293.0 REMARK 230 PH : 8.00 REMARK 230 NUMBER OF CRYSTALS USED : 2 REMARK 230 REMARK 230 NEUTRON SOURCE : NUCLEAR REACTOR REMARK 230 BEAMLINE : PCS REMARK 230 WAVELENGTH OR RANGE (A) : 0.7 REMARK 230 MONOCHROMATOR : CHOPPER REMARK 230 OPTICS : NULL REMARK 230 REMARK 230 DETECTOR TYPE : AREA DETECTOR REMARK 230 DETECTOR MANUFACTURER : TIME-OF-FLIGHT MULTIWIRE HE3 NE REMARK 230 INTENSITY-INTEGRATION SOFTWARE : D*TREK MODIFIED FOR NEUTRON TIM REMARK 230 DATA SCALING SOFTWARE : LAUENORM MODIFIED FOR NEUTRON T REMARK 230 REMARK 230 NUMBER OF UNIQUE REFLECTIONS : 21892 REMARK 230 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 230 RESOLUTION RANGE LOW (A) : 100.000 REMARK 230 REJECTION CRITERIA (SIGMA(I)) : 1.500 REMARK 230 REMARK 230 OVERALL. REMARK 230 COMPLETENESS FOR RANGE (%) : 89.4 REMARK 230 DATA REDUNDANCY : 5.400 REMARK 230 R MERGE (I) : NULL REMARK 230 R SYM (I) : 0.25000 REMARK 230 FOR THE DATA SET : 5.8000 REMARK 230 REMARK 230 IN THE HIGHEST RESOLUTION SHELL. REMARK 230 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 230 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 230 COMPLETENESS FOR SHELL (%) : 81.3 REMARK 230 DATA REDUNDANCY IN SHELL : 3.30 REMARK 230 R MERGE FOR SHELL (I) : NULL REMARK 230 R SYM FOR SHELL (I) : 0.38000 REMARK 230 FOR SHELL : 2.000 REMARK 230 REMARK 230 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 230 SOFTWARE USED : CNS REMARK 230 STARTING MODEL: PDB ENTRY 4XIS REMARK 230 REMARK 230 REMARK: RESDISUE MET1 IS NOT VISIBLE IN THE STRUCTURE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50MM TRIS-HCL, 38%(NH4)2SO4, 2MM MG2+ REMARK 280 XI @ 125 MG/ML, PH=8.0, LIQUID DIFFUSION, T=293K; NATIVE CRYSTAL REMARK 280 WERE SOAKED WITH 0.2M PER-DEUTERATED XYLOSE IN D2O BUFFERED IN REMARK 280 50MM TRIS-DCL, PH=7.6 (PD=8.0), 2MM MGCL2 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 47.32000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.98500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 51.98500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 47.32000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.98500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 51.98500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 47.32000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.98500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 51.98500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 47.32000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.98500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 51.98500 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 34420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 46860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -271.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 99.97000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 103.97000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 99.97000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 103.97000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 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 DOD A 1152 D1 DOD A 1157 1.34 REMARK 500 D2 DOD A 1048 O DOD A 1122 1.45 REMARK 500 O LEU A 193 D1 DOD A 1015 1.46 REMARK 500 HG23 VAL A 196 HG3 PRO A 216 1.50 REMARK 500 O ASP A 255 D2 DOD A 1051 1.51 REMARK 500 D1 DOD A 1009 O DOD A 1194 1.51 REMARK 500 OD1 ASP A 153 D1 DOD A 1003 1.51 REMARK 500 D1 DOD A 1130 O DOD A 1226 1.51 REMARK 500 OD2 ASP A 381 D2 DOD A 1028 1.53 REMARK 500 D1 DOD A 1181 O DOD A 1218 1.54 REMARK 500 D ALA A 349 O DOD A 1019 1.56 REMARK 500 OD2 ASP A 361 D2 DOD A 1047 1.57 REMARK 500 DH12 ARG A 292 O DOD A 1001 1.59 REMARK 500 O PRO A 25 D2 DOD A 1077 1.60 REMARK 500 O LEU A 129 O DOD A 1153 2.09 REMARK 500 NH2 ARG A 68 O DOD A 1057 2.19 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 DOD A 1133 D2 DOD A 1155 4566 1.55 REMARK 500 D1 DOD A 1038 O DOD A 1094 4566 1.57 REMARK 500 O DOD A 1087 D2 DOD A 1198 3556 1.59 REMARK 500 HD3 PRO A 25 HD3 PRO A 25 3556 1.59 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 ASP A 245 CB - CG - OD1 ANGL. DEV. = 5.4 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 17 -68.79 -90.91 REMARK 500 LEU A 93 50.39 -99.70 REMARK 500 PHE A 94 -32.02 -144.87 REMARK 500 ASN A 122 21.34 -77.04 REMARK 500 GLU A 186 101.76 73.58 REMARK 500 LEU A 193 57.61 71.69 REMARK 500 ARG A 208 71.97 -111.34 REMARK 500 VAL A 218 -80.88 -38.54 REMARK 500 ASN A 247 -167.16 178.01 REMARK 500 LYS A 253 -166.86 175.86 REMARK 500 ASP A 295 -165.45 -110.78 REMARK 500 ASP A 353 103.30 -56.21 REMARK 500 PHE A 357 -72.99 -157.83 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 DOD A1076 DISTANCE = 5.92 ANGSTROMS REMARK 525 DOD A1104 DISTANCE = 5.34 ANGSTROMS REMARK 525 DOD A1113 DISTANCE = 5.76 ANGSTROMS REMARK 525 DOD A1141 DISTANCE = 7.35 ANGSTROMS REMARK 525 DOD A1143 DISTANCE = 6.58 ANGSTROMS REMARK 525 DOD A1154 DISTANCE = 5.75 ANGSTROMS REMARK 525 DOD A1168 DISTANCE = 5.93 ANGSTROMS REMARK 525 DOD A1173 DISTANCE = 5.13 ANGSTROMS REMARK 525 DOD A1182 DISTANCE = 7.05 ANGSTROMS REMARK 525 DOD A1187 DISTANCE = 5.72 ANGSTROMS REMARK 525 DOD A1189 DISTANCE = 5.25 ANGSTROMS REMARK 525 DOD A1197 DISTANCE = 7.59 ANGSTROMS REMARK 525 DOD A1201 DISTANCE = 5.64 ANGSTROMS REMARK 525 DOD A1207 DISTANCE = 6.34 ANGSTROMS REMARK 525 DOD A1211 DISTANCE = 5.83 ANGSTROMS REMARK 525 DOD A1213 DISTANCE = 5.64 ANGSTROMS REMARK 525 DOD A1214 DISTANCE = 7.26 ANGSTROMS REMARK 525 DOD A1224 DISTANCE = 5.90 ANGSTROMS REMARK 525 DOD A1225 DISTANCE = 6.07 ANGSTROMS REMARK 525 DOD A1227 DISTANCE = 5.03 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 MG A 392 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 181 OE2 REMARK 620 2 GLU A 217 OE1 95.3 REMARK 620 3 ASP A 245 OD2 94.4 101.6 REMARK 620 4 ASP A 287 OD2 166.6 87.5 97.9 REMARK 620 5 XUL A 401 O2 74.4 92.5 162.9 92.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 391 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 217 OE2 REMARK 620 2 HIS A 220 NE2 85.5 REMARK 620 3 ASP A 255 OD1 117.6 95.7 REMARK 620 4 ASP A 255 OD2 174.0 93.4 56.6 REMARK 620 5 ASP A 257 OD1 89.3 172.4 81.9 91.2 REMARK 620 6 OH A 501 O 96.2 100.5 143.5 89.7 85.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE XUL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 391 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 392 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OH A 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2GVE RELATED DB: PDB REMARK 900 NATIVE D-XYLOSE ISOMERASE DBREF 3CWH A 1 388 UNP P24300 XYLA_STRRU 1 388 SEQRES 1 A 388 MET ASN TYR GLN PRO THR PRO GLU ASP ARG PHE THR PHE SEQRES 2 A 388 GLY LEU TRP THR VAL GLY TRP GLN GLY ARG ASP PRO PHE SEQRES 3 A 388 GLY ASP ALA THR ARG ARG ALA LEU ASP PRO VAL GLU SER SEQRES 4 A 388 VAL ARG ARG LEU ALA GLU LEU GLY ALA HIS GLY VAL THR SEQRES 5 A 388 PHE HIS ASP ASP ASP LEU ILE PRO PHE GLY SER SER ASP SEQRES 6 A 388 SER GLU ARG GLU GLU HIS VAL LYS ARG PHE ARG GLN ALA SEQRES 7 A 388 LEU ASP ASP THR GLY MET LYS VAL PRO MET ALA THR THR SEQRES 8 A 388 ASN LEU PHE THR HIS PRO VAL PHE LYS ASP GLY GLY PHE SEQRES 9 A 388 THR ALA ASN ASP ARG ASP VAL ARG ARG TYR ALA LEU ARG SEQRES 10 A 388 LYS THR ILE ARG ASN ILE ASP LEU ALA VAL GLU LEU GLY SEQRES 11 A 388 ALA GLU THR TYR VAL ALA TRP GLY GLY ARG GLU GLY ALA SEQRES 12 A 388 GLU SER GLY GLY ALA LYS ASP VAL ARG ASP ALA LEU ASP SEQRES 13 A 388 ARG MET LYS GLU ALA PHE ASP LEU LEU GLY GLU TYR VAL SEQRES 14 A 388 THR SER GLN GLY TYR ASP ILE ARG PHE ALA ILE GLU PRO SEQRES 15 A 388 LYS PRO ASN GLU PRO ARG GLY ASP ILE LEU LEU PRO THR SEQRES 16 A 388 VAL GLY HIS ALA LEU ALA PHE ILE GLU ARG LEU GLU ARG SEQRES 17 A 388 PRO GLU LEU TYR GLY VAL ASN PRO GLU VAL GLY HIS GLU SEQRES 18 A 388 GLN MET ALA GLY LEU ASN PHE PRO HIS GLY ILE ALA GLN SEQRES 19 A 388 ALA LEU TRP ALA GLY LYS LEU PHE HIS ILE ASP LEU ASN SEQRES 20 A 388 GLY GLN ASN GLY ILE LYS TYR ASP GLN ASP LEU ARG PHE SEQRES 21 A 388 GLY ALA GLY ASP LEU ARG ALA ALA PHE TRP LEU VAL ASP SEQRES 22 A 388 LEU LEU GLU SER ALA GLY TYR SER GLY PRO ARG HIS PHE SEQRES 23 A 388 ASP PHE LYS PRO PRO ARG THR GLU ASP PHE ASP GLY VAL SEQRES 24 A 388 TRP ALA SER ALA ALA GLY CYS MET ARG ASN TYR LEU ILE SEQRES 25 A 388 LEU LYS GLU ARG ALA ALA ALA PHE ARG ALA ASP PRO GLU SEQRES 26 A 388 VAL GLN GLU ALA LEU ARG ALA SER ARG LEU ASP GLU LEU SEQRES 27 A 388 ALA ARG PRO THR ALA ALA ASP GLY LEU GLN ALA LEU LEU SEQRES 28 A 388 ASP ASP ARG SER ALA PHE GLU GLU PHE ASP VAL ASP ALA SEQRES 29 A 388 ALA ALA ALA ARG GLY MET ALA PHE GLU ARG LEU ASP GLN SEQRES 30 A 388 LEU ALA MET ASP HIS LEU LEU GLY ALA ARG GLY HET XUL A 401 19 HET MG A 391 1 HET MG A 392 1 HET OH A 501 2 HETNAM XUL D-XYLULOSE HETNAM MG MAGNESIUM ION HETNAM OH HYDROXIDE ION FORMUL 2 XUL C5 H10 O5 FORMUL 3 MG 2(MG 2+) FORMUL 5 OH H O 1- FORMUL 6 DOD *227(D2 O) HELIX 1 1 THR A 6 ASP A 9 5 4 HELIX 2 2 LEU A 15 GLY A 19 1 5 HELIX 3 3 ASP A 35 GLY A 47 1 13 HELIX 4 4 ASP A 55 ILE A 59 1 5 HELIX 5 5 SER A 64 GLY A 83 1 20 HELIX 6 6 HIS A 96 LYS A 100 5 5 HELIX 7 7 ASP A 108 GLY A 130 1 23 HELIX 8 8 ASP A 150 GLN A 172 1 23 HELIX 9 9 THR A 195 GLU A 204 1 10 HELIX 10 10 ARG A 208 GLU A 210 5 3 HELIX 11 11 GLU A 217 GLN A 222 1 6 HELIX 12 12 ASN A 227 ALA A 238 1 12 HELIX 13 13 ASP A 264 ALA A 278 1 15 HELIX 14 14 ASP A 295 ASP A 323 1 29 HELIX 15 15 ASP A 323 SER A 333 1 11 HELIX 16 16 ARG A 334 ARG A 340 1 7 HELIX 17 17 ASP A 345 ASP A 353 1 9 HELIX 18 18 ASP A 361 ALA A 367 1 7 HELIX 19 19 ALA A 371 GLY A 385 1 15 SHEET 1 A 8 TYR A 212 VAL A 214 0 SHEET 2 A 8 ARG A 177 ILE A 180 1 N ILE A 180 O GLY A 213 SHEET 3 A 8 THR A 133 ALA A 136 1 N TYR A 134 O ALA A 179 SHEET 4 A 8 MET A 88 THR A 90 1 N ALA A 89 O VAL A 135 SHEET 5 A 8 GLY A 50 HIS A 54 1 N PHE A 53 O THR A 90 SHEET 6 A 8 PHE A 11 GLY A 14 1 N PHE A 13 O THR A 52 SHEET 7 A 8 ARG A 284 PHE A 286 1 O PHE A 286 N GLY A 14 SHEET 8 A 8 ASP A 245 LEU A 246 1 N LEU A 246 O HIS A 285 SHEET 1 B 2 GLY A 142 ALA A 143 0 SHEET 2 B 2 ASP A 190 ILE A 191 -1 O ASP A 190 N ALA A 143 LINK OE2 GLU A 181 MG MG A 392 1555 1555 2.17 LINK OE1 GLU A 217 MG MG A 392 1555 1555 2.00 LINK OE2 GLU A 217 MG MG A 391 1555 1555 2.17 LINK NE2 HIS A 220 MG MG A 391 1555 1555 2.47 LINK OD2 ASP A 245 MG MG A 392 1555 1555 2.21 LINK OD1 ASP A 255 MG MG A 391 1555 1555 2.16 LINK OD2 ASP A 255 MG MG A 391 1555 1555 2.42 LINK OD1 ASP A 257 MG MG A 391 1555 1555 2.25 LINK OD2 ASP A 287 MG MG A 392 1555 1555 2.15 LINK O2 XUL A 401 MG MG A 392 1555 1555 2.40 LINK MG MG A 391 O OH A 501 1555 1555 2.22 CISPEP 1 GLU A 186 PRO A 187 0 25.64 SITE 1 AC1 11 TRP A 16 HIS A 54 PHE A 94 TRP A 137 SITE 2 AC1 11 GLU A 181 LYS A 183 GLU A 217 HIS A 220 SITE 3 AC1 11 ASP A 245 ASP A 255 ASP A 287 SITE 1 AC2 4 GLU A 217 HIS A 220 ASP A 255 ASP A 257 SITE 1 AC3 4 GLU A 181 GLU A 217 ASP A 245 ASP A 287 SITE 1 AC4 5 GLU A 217 HIS A 220 ASP A 255 ASP A 257 SITE 2 AC4 5 ASP A 287 CRYST1 94.640 99.970 103.970 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 0.010566 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010003 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009618 0.00000 MASTER 385 0 4 19 10 0 7 6 0 0 0 30 END