HEADER ISOMERASE 05-OCT-11 3U3H TITLE X-RAY CRYSTALLOGRAPHIC ANALYSIS OF D-XYLOSE ISOMERASE-CATALYZED TITLE 2 ISOMERIZATION OF (R)-GLYCERALDEHYDE 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; SOURCE 3 ORGANISM_TAXID: 1929 KEYWDS ALDOSE-KETOSE ISOMERASES, GLYCERALDEHYDE, HYDRIDE SHIFT, ENZYME KEYWDS 2 PROMISCUITY, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR K.N.ALLEN,N.R.SILVAGGI,M.M.TOTEVA,J.P.RICHARD REVDAT 3 28-FEB-24 3U3H 1 REMARK LINK REVDAT 2 07-DEC-11 3U3H 1 JRNL REVDAT 1 26-OCT-11 3U3H 0 JRNL AUTH M.M.TOTEVA,N.R.SILVAGGI,K.N.ALLEN,J.P.RICHARD JRNL TITL BINDING ENERGY AND CATALYSIS BY D-XYLOSE ISOMERASE: KINETIC, JRNL TITL 2 PRODUCT, AND X-RAY CRYSTALLOGRAPHIC ANALYSIS OF JRNL TITL 3 ENZYME-CATALYZED ISOMERIZATION OF (R)-GLYCERALDEHYDE. JRNL REF BIOCHEMISTRY V. 50 10170 2011 JRNL REFN ISSN 0006-2960 JRNL PMID 21995300 JRNL DOI 10.1021/BI201378C REMARK 2 REMARK 2 RESOLUTION. 0.97 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.2_858) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 0.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 262128 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.116 REMARK 3 R VALUE (WORKING SET) : 0.116 REMARK 3 FREE R VALUE : 0.125 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.960 REMARK 3 FREE R VALUE TEST SET COUNT : 13001 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 19.9766 - 3.0106 0.99 8986 470 0.1407 0.1480 REMARK 3 2 3.0106 - 2.3908 0.99 8765 462 0.1343 0.1475 REMARK 3 3 2.3908 - 2.0890 0.99 8653 463 0.1167 0.1192 REMARK 3 4 2.0890 - 1.8982 0.99 8651 457 0.1206 0.1226 REMARK 3 5 1.8982 - 1.7622 0.98 8576 414 0.1140 0.1183 REMARK 3 6 1.7622 - 1.6584 0.98 8501 458 0.1050 0.1144 REMARK 3 7 1.6584 - 1.5753 0.98 8485 481 0.1006 0.1063 REMARK 3 8 1.5753 - 1.5068 0.98 8530 428 0.0974 0.1111 REMARK 3 9 1.5068 - 1.4488 0.98 8389 479 0.0963 0.1009 REMARK 3 10 1.4488 - 1.3988 0.98 8503 462 0.0964 0.1017 REMARK 3 11 1.3988 - 1.3551 0.98 8442 425 0.0948 0.0959 REMARK 3 12 1.3551 - 1.3164 0.97 8433 434 0.0914 0.0973 REMARK 3 13 1.3164 - 1.2817 0.97 8382 423 0.0893 0.1058 REMARK 3 14 1.2817 - 1.2504 0.97 8457 422 0.0900 0.1016 REMARK 3 15 1.2504 - 1.2220 0.97 8478 393 0.0863 0.0934 REMARK 3 16 1.2220 - 1.1960 0.97 8358 439 0.0821 0.0919 REMARK 3 17 1.1960 - 1.1721 0.97 8343 450 0.0794 0.0951 REMARK 3 18 1.1721 - 1.1500 0.97 8357 464 0.0750 0.0805 REMARK 3 19 1.1500 - 1.1294 0.97 8258 444 0.0750 0.0937 REMARK 3 20 1.1294 - 1.1103 0.96 8362 449 0.0791 0.0945 REMARK 3 21 1.1103 - 1.0924 0.96 8259 413 0.0829 0.0996 REMARK 3 22 1.0924 - 1.0756 0.96 8276 417 0.0888 0.0990 REMARK 3 23 1.0756 - 1.0598 0.95 8167 436 0.0981 0.1193 REMARK 3 24 1.0598 - 1.0448 0.94 8156 407 0.1129 0.1329 REMARK 3 25 1.0448 - 1.0307 0.94 8062 414 0.1329 0.1464 REMARK 3 26 1.0307 - 1.0173 0.93 8012 429 0.1552 0.1894 REMARK 3 27 1.0173 - 1.0046 0.92 7908 410 0.1803 0.1999 REMARK 3 28 1.0046 - 0.9925 0.91 7830 413 0.2041 0.2234 REMARK 3 29 0.9925 - 0.9810 0.88 7526 387 0.2334 0.2617 REMARK 3 30 0.9810 - 0.9700 0.81 7022 358 0.2592 0.2804 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 0.90 REMARK 3 SHRINKAGE RADIUS : 0.60 REMARK 3 K_SOL : 0.45 REMARK 3 B_SOL : 42.50 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.090 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 8.430 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.04970 REMARK 3 B22 (A**2) : -0.13280 REMARK 3 B33 (A**2) : 0.08300 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 3289 REMARK 3 ANGLE : 1.343 4463 REMARK 3 CHIRALITY : 0.075 456 REMARK 3 PLANARITY : 0.009 605 REMARK 3 DIHEDRAL : 13.319 1235 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3U3H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000068258. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-FEB-05 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 : NSLS REMARK 200 BEAMLINE : X12B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97890 REMARK 200 MONOCHROMATOR : SI111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 272713 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.970 REMARK 200 RESOLUTION RANGE LOW (A) : 19.972 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 8.500 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 39.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.04 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.29100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20MG/ML XI IN WATER WAS MIXED WITH AN REMARK 280 EQUAL VOLUME OF WELL SOLUTION CONSISTING OF 0.2-0.3M MG FORMATE, REMARK 280 PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 46.32550 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.07400 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 51.29850 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 46.32550 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.07400 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 51.29850 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 46.32550 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.07400 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 51.29850 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 46.32550 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.07400 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 51.29850 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: 32890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 45160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -147.0 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 92.65100 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 196.29600 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 92.65100 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 102.59700 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 196.29600 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 102.59700 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 465 GLY A 388 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 GLU A 69 CD OE1 OE2 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 423 O HOH A 439 4576 1.82 REMARK 500 O HOH A 428 O HOH A 436 7556 2.14 REMARK 500 O HOH A 432 O HOH A 436 7556 2.15 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 -76.26 -85.39 REMARK 500 PHE A 94 -26.39 -140.57 REMARK 500 GLU A 186 102.15 79.30 REMARK 500 GLU A 186 100.82 81.70 REMARK 500 ASN A 247 -169.99 -168.16 REMARK 500 LYS A 253 -176.90 -172.04 REMARK 500 TYR A 254 153.88 -45.74 REMARK 500 ALA A 343 62.09 -151.55 REMARK 500 PHE A 357 -70.09 -156.04 REMARK 500 REMARK 500 REMARK: NULL 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 500 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 181 OE2 REMARK 620 2 GLU A 217 OE1 92.0 REMARK 620 3 ASP A 245 OD2 92.1 97.8 REMARK 620 4 ASP A 287 OD2 170.0 92.5 96.1 REMARK 620 5 03W A 400 O2 87.3 174.9 87.3 87.4 REMARK 620 6 03W A 400 O1 87.6 98.9 163.3 82.9 76.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 217 OE2 REMARK 620 2 ASP A 257 OD1 101.8 REMARK 620 3 HOH A1000 O 104.8 102.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 217 OE2 REMARK 620 2 GLU A 217 OE1 50.9 REMARK 620 3 HOH A1000 O 99.1 96.3 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 501 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 217 OE2 REMARK 620 2 ASP A 255 OD2 178.1 REMARK 620 3 ASP A 255 OD1 116.1 62.0 REMARK 620 4 ASP A 257 OD1 92.1 86.9 71.2 REMARK 620 5 HOH A1000 O 85.0 96.4 145.8 82.0 REMARK 620 6 HOH A1329 O 62.3 115.8 53.8 73.8 137.8 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 03W A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MRD A 2000 DBREF 3U3H 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 03W A 400 7 HET FMT A 401 4 HET MG A 500 1 HET MG A 501 3 HET MRD A2000 22 HETNAM 03W (2R)-PROPANE-1,1,2,3-TETROL HETNAM FMT FORMIC ACID HETNAM MG MAGNESIUM ION HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL FORMUL 2 03W C3 H8 O4 FORMUL 3 FMT C H2 O2 FORMUL 4 MG 2(MG 2+) FORMUL 6 MRD C6 H14 O2 FORMUL 7 HOH *524(H2 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 LEU A 46 1 12 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 LEU A 129 1 22 HELIX 8 8 SER A 145 LYS A 149 5 5 HELIX 9 9 ASP A 150 GLY A 173 1 24 HELIX 10 10 THR A 195 GLU A 204 1 10 HELIX 11 11 ARG A 208 GLU A 210 5 3 HELIX 12 12 GLU A 217 MET A 223 1 7 HELIX 13 13 ASN A 227 ALA A 238 1 12 HELIX 14 14 ASP A 264 GLY A 279 1 16 HELIX 15 15 ASP A 295 ASP A 323 1 29 HELIX 16 16 ASP A 323 SER A 333 1 11 HELIX 17 17 ARG A 334 ALA A 339 1 6 HELIX 18 18 GLY A 346 ASP A 353 1 8 HELIX 19 19 ARG A 354 PHE A 357 5 4 HELIX 20 20 ASP A 361 ARG A 368 1 8 HELIX 21 21 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 ARG A 177 SHEET 4 A 8 LYS A 85 THR A 90 1 N ALA A 89 O VAL A 135 SHEET 5 A 8 GLY A 50 HIS A 54 1 N VAL A 51 O LYS A 85 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 THR A 12 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 A MG A 500 1555 1555 2.09 LINK OE1 GLU A 217 MG A MG A 500 1555 1555 2.03 LINK OE2 GLU A 217 MG B MG A 501 1555 1555 2.07 LINK OE2 GLU A 217 MG C MG A 501 1555 1555 2.15 LINK OE2 GLU A 217 MG A MG A 501 1555 1555 2.16 LINK OE1 GLU A 217 MG C MG A 501 1555 1555 2.74 LINK OD2 ASP A 245 MG A MG A 500 1555 1555 2.09 LINK OD2AASP A 255 MG A MG A 501 1555 1555 2.10 LINK OD1AASP A 255 MG A MG A 501 1555 1555 2.21 LINK OD1 ASP A 257 MG B MG A 501 1555 1555 2.28 LINK OD1 ASP A 257 MG A MG A 501 1555 1555 2.52 LINK OD2 ASP A 287 MG A MG A 500 1555 1555 2.11 LINK O2 A03W A 400 MG A MG A 500 1555 1555 2.12 LINK O1 A03W A 400 MG A MG A 500 1555 1555 2.16 LINK MG B MG A 501 O HOH A1000 1555 1555 2.03 LINK MG C MG A 501 O HOH A1000 1555 1555 2.12 LINK MG A MG A 501 O HOH A1000 1555 1555 2.62 LINK MG A MG A 501 O HOH A1329 1555 1555 2.76 CISPEP 1 GLU A 186 PRO A 187 0 22.05 CISPEP 2 GLU A 186 PRO A 187 0 20.78 SITE 1 AC1 13 TRP A 16 HIS A 54 TRP A 137 GLU A 181 SITE 2 AC1 13 GLU A 217 ASP A 245 ASP A 287 HOH A 431 SITE 3 AC1 13 MG A 500 MG A 501 HOH A1076 HOH A1093 SITE 4 AC1 13 HOH A1370 SITE 1 AC2 11 PHE A 26 TRP A 137 GLU A 181 LYS A 183 SITE 2 AC2 11 GLU A 217 HIS A 220 ASP A 255 ASP A 287 SITE 3 AC2 11 MG A 500 MG A 501 HOH A1000 SITE 1 AC3 6 GLU A 181 GLU A 217 ASP A 245 ASP A 287 SITE 2 AC3 6 03W A 400 FMT A 401 SITE 1 AC4 8 GLU A 217 HIS A 220 ASP A 255 ASP A 257 SITE 2 AC4 8 03W A 400 FMT A 401 HOH A1000 HOH A1329 SITE 1 AC5 7 PRO A 25 PHE A 26 HIS A 54 THR A 95 SITE 2 AC5 7 HOH A 486 HOH A1152 HOH A1323 CRYST1 92.651 98.148 102.597 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 0.010793 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010189 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009747 0.00000