HEADER ISOMERASE 04-SEP-15 5DLD TITLE CRYSTAL STRUCTURE OF A UDP-N-ACETYLGLUCOSAMINE 2-EPIMERASE FROM TITLE 2 BURKHOLDERIA VIETNAMIENSIS COMPLEXED WITH UDP-GLCNAC AND UDP COMPND MOL_ID: 1; COMPND 2 MOLECULE: UDP-N-ACETYLGLUCOSAMINE 2-EPIMERASE; COMPND 3 CHAIN: A; COMPND 4 EC: 5.1.3.14; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA VIETNAMIENSIS; SOURCE 3 ORGANISM_TAXID: 269482; SOURCE 4 STRAIN: G4 / LMG 22486; SOURCE 5 GENE: BCEP1808_4142; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS SSGCID, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR KEYWDS 2 INFECTIOUS DISEASE, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 2 27-SEP-23 5DLD 1 REMARK REVDAT 1 30-SEP-15 5DLD 0 JRNL AUTH SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE JRNL AUTH 2 (SSGCID),D.M.DRANOW,J.W.FAIRMAN,D.LORIMER,T.E.EDWARDS JRNL TITL CRYSTAL STRUCTURE OF A UDP-N-ACETYLGLUCOSAMINE 2-EPIMERASE JRNL TITL 2 FROM BURKHOLDERIA VIETNAMIENSIS COMPLEXED WITH UDP-GLCNAC JRNL TITL 3 AND UDP JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (DEV_2050: ???) 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.31 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 83489 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.136 REMARK 3 R VALUE (WORKING SET) : 0.134 REMARK 3 FREE R VALUE : 0.159 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.950 REMARK 3 FREE R VALUE TEST SET COUNT : 4134 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 27.3144 - 4.4988 0.98 2869 155 0.1429 0.1656 REMARK 3 2 4.4988 - 3.5734 0.99 2874 135 0.1249 0.1281 REMARK 3 3 3.5734 - 3.1224 0.99 2837 142 0.1401 0.1597 REMARK 3 4 3.1224 - 2.8373 0.99 2844 143 0.1457 0.1490 REMARK 3 5 2.8373 - 2.6341 0.99 2774 147 0.1379 0.1499 REMARK 3 6 2.6341 - 2.4789 0.98 2816 136 0.1316 0.1409 REMARK 3 7 2.4789 - 2.3548 0.98 2778 145 0.1266 0.1550 REMARK 3 8 2.3548 - 2.2524 0.98 2785 127 0.1260 0.1602 REMARK 3 9 2.2524 - 2.1657 0.97 2791 146 0.1237 0.1557 REMARK 3 10 2.1657 - 2.0910 0.97 2728 150 0.1270 0.1678 REMARK 3 11 2.0910 - 2.0256 0.96 2738 147 0.1282 0.1566 REMARK 3 12 2.0256 - 1.9677 0.96 2690 155 0.1290 0.1434 REMARK 3 13 1.9677 - 1.9159 0.96 2735 171 0.1297 0.1540 REMARK 3 14 1.9159 - 1.8692 0.95 2673 150 0.1226 0.1630 REMARK 3 15 1.8692 - 1.8267 0.94 2687 118 0.1238 0.1629 REMARK 3 16 1.8267 - 1.7879 0.94 2658 148 0.1227 0.1482 REMARK 3 17 1.7879 - 1.7521 0.93 2667 134 0.1219 0.1487 REMARK 3 18 1.7521 - 1.7190 0.93 2584 169 0.1236 0.1624 REMARK 3 19 1.7190 - 1.6884 0.92 2615 137 0.1285 0.1630 REMARK 3 20 1.6884 - 1.6597 0.92 2582 147 0.1195 0.1670 REMARK 3 21 1.6597 - 1.6330 0.91 2593 130 0.1248 0.1743 REMARK 3 22 1.6330 - 1.6078 0.90 2549 122 0.1248 0.1683 REMARK 3 23 1.6078 - 1.5842 0.90 2591 127 0.1319 0.1768 REMARK 3 24 1.5842 - 1.5619 0.88 2487 131 0.1388 0.1675 REMARK 3 25 1.5619 - 1.5408 0.89 2507 126 0.1464 0.2070 REMARK 3 26 1.5408 - 1.5208 0.87 2497 117 0.1639 0.2178 REMARK 3 27 1.5208 - 1.5018 0.87 2428 123 0.1655 0.2269 REMARK 3 28 1.5018 - 1.4837 0.83 2363 127 0.1890 0.2194 REMARK 3 29 1.4837 - 1.4664 0.82 2360 123 0.1980 0.2458 REMARK 3 30 1.4664 - 1.4499 0.82 2255 106 0.2046 0.2564 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.120 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 14.920 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.33 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.79 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 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 : 0.007 3214 REMARK 3 ANGLE : 1.133 4404 REMARK 3 CHIRALITY : 0.068 502 REMARK 3 PLANARITY : 0.005 575 REMARK 3 DIHEDRAL : 20.598 1189 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 5DLD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000211214. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUN-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : DIAMOND [111] REMARK 200 OPTICS : BERYLLIUM LENSES REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 87041 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 4.100 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.0400 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) : 1.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.52700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.220 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: BALBES REMARK 200 STARTING MODEL: 1VGV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BUVIA.00061.C.B1.PS02389 AT 24.8 MG/ML REMARK 280 INCUBATED WITH 3 MM UDP-N-ACETYLGLUCOSAMINE, THEN THEN MIXED 1:1 REMARK 280 WITH MCSG1(F5): 20% PEG-3350, 0.2 M SODIUM ACETATE, REMARK 280 CRYOPROTECTED WITH 20% ETHYLENE GLYCOL, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 290K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z 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 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 58.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.70500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 58.00000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 40.70500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 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 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 988 LIES ON A SPECIAL POSITION. 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 -7 REMARK 465 ALA A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 THR A 373 REMARK 465 PRO A 374 REMARK 465 ALA A 375 REMARK 465 SER A 376 REMARK 465 SER A 377 REMARK 465 ALA A 378 REMARK 465 ASN A 379 REMARK 465 THR A 380 REMARK 465 THR A 381 REMARK 465 SER A 382 REMARK 465 PHE A 383 REMARK 465 SER A 384 REMARK 465 MET A 385 REMARK 465 GLY A 386 REMARK 465 ALA A 387 REMARK 465 ALA A 394 REMARK 465 LEU A 395 REMARK 465 THR A 396 REMARK 465 LEU A 397 REMARK 465 GLY A 398 REMARK 465 LEU A 399 REMARK 465 GLN A 400 REMARK 465 ALA A 401 REMARK 465 LEU A 402 REMARK 465 ARG A 403 REMARK 465 SER A 404 REMARK 465 PRO A 405 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 HIS A 0 CG ND1 CD2 CE1 NE2 REMARK 470 MET A 1 CG SD CE REMARK 470 ARG A 187 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 372 CG ND1 CD2 CE1 NE2 REMARK 470 LEU A 390 CG CD1 CD2 REMARK 470 ASN A 393 CG OD1 ND2 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 ARG A 41 -81.84 -116.11 REMARK 500 ASP A 96 29.96 -150.47 REMARK 500 GLU A 118 70.70 70.84 REMARK 500 SER A 128 106.56 -161.68 REMARK 500 HIS A 214 9.89 -157.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1054 DISTANCE = 5.92 ANGSTROMS REMARK 525 HOH A1055 DISTANCE = 6.41 ANGSTROMS REMARK 525 HOH A1056 DISTANCE = 8.35 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 NA A 507 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS A 25 O REMARK 620 2 ARG A 27 O 96.4 REMARK 620 3 HOH A 611 O 96.2 86.0 REMARK 620 4 HOH A 699 O 173.3 88.0 89.1 REMARK 620 5 HOH A 922 O 85.4 177.6 95.3 90.0 REMARK 620 6 HOH A 931 O 86.8 95.6 176.5 87.8 82.9 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 UDP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UD1 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 508 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SSGCID-BUVIA.00061.C RELATED DB: TARGETTRACK DBREF 5DLD A 1 405 UNP A4JLG9 A4JLG9_BURVG 1 405 SEQADV 5DLD MET A -7 UNP A4JLG9 INITIATING METHIONINE SEQADV 5DLD ALA A -6 UNP A4JLG9 EXPRESSION TAG SEQADV 5DLD HIS A -5 UNP A4JLG9 EXPRESSION TAG SEQADV 5DLD HIS A -4 UNP A4JLG9 EXPRESSION TAG SEQADV 5DLD HIS A -3 UNP A4JLG9 EXPRESSION TAG SEQADV 5DLD HIS A -2 UNP A4JLG9 EXPRESSION TAG SEQADV 5DLD HIS A -1 UNP A4JLG9 EXPRESSION TAG SEQADV 5DLD HIS A 0 UNP A4JLG9 EXPRESSION TAG SEQRES 1 A 413 MET ALA HIS HIS HIS HIS HIS HIS MET LYS LYS ILE LEU SEQRES 2 A 413 LEU VAL PHE GLY THR ARG PRO GLU ALA ILE LYS MET ALA SEQRES 3 A 413 PRO LEU VAL ARG ALA LEU LYS ALA ARG ALA ASP VAL ASP SEQRES 4 A 413 ALA LYS VAL CYS VAL THR ALA GLN HIS ARG GLN MET LEU SEQRES 5 A 413 ASP GLN VAL LEU SER LEU PHE ASP ILE GLU PRO ASP TYR SEQRES 6 A 413 ASP LEU ASP LEU MET ARG GLN GLY GLN THR LEU SER ASP SEQRES 7 A 413 VAL THR THR GLY ILE LEU HIS ALA ILE GLY ALA VAL PHE SEQRES 8 A 413 ASP ASP LEU ARG PRO ASP ILE VAL LEU VAL HIS GLY ASP SEQRES 9 A 413 THR THR THR THR LEU ALA VAL SER LEU ALA ALA PHE TYR SEQRES 10 A 413 ARG TYR LEU PRO ILE GLY HIS VAL GLU ALA GLY LEU ARG SEQRES 11 A 413 SER GLY ASP ILE TRP SER PRO TRP PRO GLU GLU LEU ASN SEQRES 12 A 413 ARG ARG VAL THR ASP ALA VAL SER SER TRP HIS PHE ALA SEQRES 13 A 413 PRO THR GLY GLN ALA ARG ASP ASN LEU LEU SER GLU GLY SEQRES 14 A 413 VAL PRO VAL GLY SER VAL VAL MET THR GLY ASN THR VAL SEQRES 15 A 413 ILE ASP ALA LEU HIS ASP VAL LYS HIS MET LEU GLU ARG SEQRES 16 A 413 ASP ASP ALA LEU SER ARG GLU VAL ALA ALA ARG PHE PRO SEQRES 17 A 413 PHE LEU ASP PRO THR ALA ARG MET VAL LEU ILE THR GLY SEQRES 18 A 413 HIS ARG ARG GLU SER PHE GLY GLU PRO PHE ARG ASN PHE SEQRES 19 A 413 CYS GLU ALA LEU ARG THR LEU ALA HIS ARG TYR ARG ASP SEQRES 20 A 413 ALA GLN PHE VAL TYR PRO LEU HIS LEU ASN PRO ASN VAL SEQRES 21 A 413 ARG GLU PRO ALA LEU ALA LEU LEU GLY GLY GLU ALA ASN SEQRES 22 A 413 ILE TYR LEU ILE GLU PRO GLN GLU TYR LEU ALA PHE VAL SEQRES 23 A 413 TYR LEU MET SER ARG SER HIS PHE ILE ILE THR ASP SER SEQRES 24 A 413 GLY GLY ILE GLN GLU GLU GLY PRO ALA LEU GLY LYS PRO SEQRES 25 A 413 VAL LEU VAL THR ARG ASP THR THR GLU ARG PRO GLU ALA SEQRES 26 A 413 ILE ARG ALA GLY THR ALA ARG LEU VAL GLY THR ASP PRO SEQRES 27 A 413 GLU LEU ILE VAL ARG GLU ALA SER ARG LEU PHE ASP SER SEQRES 28 A 413 ALA SER ALA TYR ASP GLU MET ALA ARG ALA SER ASN PRO SEQRES 29 A 413 TYR GLY ASP GLY HIS ALA SER GLU ARG ILE VAL HIS ALA SEQRES 30 A 413 LEU MET HIS THR PRO ALA SER SER ALA ASN THR THR SER SEQRES 31 A 413 PHE SER MET GLY ALA ALA GLU LEU PRO LEU ASN ALA LEU SEQRES 32 A 413 THR LEU GLY LEU GLN ALA LEU ARG SER PRO HET UDP A 501 25 HET UD1 A 502 39 HET EDO A 503 4 HET ACT A 504 4 HET ACT A 505 4 HET ACT A 506 4 HET NA A 507 1 HET GOL A 508 6 HETNAM UDP URIDINE-5'-DIPHOSPHATE HETNAM UD1 URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE HETNAM EDO 1,2-ETHANEDIOL HETNAM ACT ACETATE ION HETNAM NA SODIUM ION HETNAM GOL GLYCEROL HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 UDP C9 H14 N2 O12 P2 FORMUL 3 UD1 C17 H27 N3 O17 P2 FORMUL 4 EDO C2 H6 O2 FORMUL 5 ACT 3(C2 H3 O2 1-) FORMUL 8 NA NA 1+ FORMUL 9 GOL C3 H8 O3 FORMUL 10 HOH *456(H2 O) HELIX 1 AA1 THR A 10 ARG A 27 1 18 HELIX 2 AA2 ARG A 41 PHE A 51 1 11 HELIX 3 AA3 THR A 67 ARG A 87 1 21 HELIX 4 AA4 THR A 97 TYR A 109 1 13 HELIX 5 AA5 PRO A 131 SER A 143 1 13 HELIX 6 AA6 THR A 150 GLU A 160 1 11 HELIX 7 AA7 PRO A 163 GLY A 165 5 3 HELIX 8 AA8 ASN A 172 ASP A 188 1 17 HELIX 9 AA9 ASP A 188 ALA A 197 1 10 HELIX 10 AB1 ARG A 215 PHE A 219 5 5 HELIX 11 AB2 GLY A 220 TYR A 237 1 18 HELIX 12 AB3 ASN A 249 GLY A 261 1 13 HELIX 13 AB4 GLU A 273 SER A 284 1 12 HELIX 14 AB5 SER A 291 LEU A 301 1 11 HELIX 15 AB6 ARG A 314 GLY A 321 1 8 HELIX 16 AB7 ASP A 329 SER A 343 1 15 HELIX 17 AB8 SER A 343 ALA A 351 1 9 HELIX 18 AB9 HIS A 361 HIS A 372 1 12 SHEET 1 AA1 7 TYR A 57 ASP A 58 0 SHEET 2 AA1 7 VAL A 30 VAL A 36 1 N VAL A 36 O TYR A 57 SHEET 3 AA1 7 LYS A 2 PHE A 8 1 N LYS A 2 O ASP A 31 SHEET 4 AA1 7 ILE A 90 HIS A 94 1 O LEU A 92 N LEU A 5 SHEET 5 AA1 7 ILE A 114 VAL A 117 1 O VAL A 117 N VAL A 93 SHEET 6 AA1 7 TRP A 145 ALA A 148 1 O TRP A 145 N HIS A 116 SHEET 7 AA1 7 VAL A 167 MET A 169 1 O VAL A 168 N HIS A 146 SHEET 1 AA2 6 ILE A 266 ILE A 269 0 SHEET 2 AA2 6 GLN A 241 PRO A 245 1 N PHE A 242 O TYR A 267 SHEET 3 AA2 6 MET A 208 THR A 212 1 N VAL A 209 O VAL A 243 SHEET 4 AA2 6 PHE A 286 THR A 289 1 O ILE A 288 N LEU A 210 SHEET 5 AA2 6 VAL A 305 VAL A 307 1 O LEU A 306 N ILE A 287 SHEET 6 AA2 6 ALA A 323 LEU A 325 1 O ARG A 324 N VAL A 307 LINK O LYS A 25 NA NA A 507 1555 1555 2.37 LINK O ARG A 27 NA NA A 507 1555 1555 2.42 LINK NA NA A 507 O HOH A 611 1555 1555 2.30 LINK NA NA A 507 O HOH A 699 1555 1555 2.55 LINK NA NA A 507 O HOH A 922 1555 1555 2.51 LINK NA NA A 507 O HOH A 931 1555 1555 2.59 CISPEP 1 SER A 128 PRO A 129 0 2.27 CISPEP 2 TRP A 130 PRO A 131 0 3.68 SITE 1 AC1 22 ARG A 11 PRO A 12 ILE A 15 HIS A 214 SITE 2 AC1 22 ARG A 215 PRO A 245 GLN A 272 TYR A 274 SITE 3 AC1 22 PHE A 277 SER A 291 GLY A 292 GLY A 293 SITE 4 AC1 22 GLU A 297 UD1 A 502 ACT A 505 HOH A 664 SITE 5 AC1 22 HOH A 671 HOH A 672 HOH A 818 HOH A 833 SITE 6 AC1 22 HOH A 853 HOH A 865 SITE 1 AC2 30 PRO A 12 GLN A 39 HIS A 40 ARG A 41 SITE 2 AC2 30 GLN A 42 MET A 43 MET A 62 ARG A 63 SITE 3 AC2 30 GLN A 64 GLY A 65 GLN A 66 LEU A 68 SITE 4 AC2 30 THR A 97 THR A 98 PRO A 131 GLU A 132 SITE 5 AC2 30 HIS A 214 ARG A 215 ARG A 216 HIS A 247 SITE 6 AC2 30 LEU A 248 ASN A 249 PRO A 250 GLU A 349 SITE 7 AC2 30 ARG A 352 UDP A 501 HOH A 678 HOH A 710 SITE 8 AC2 30 HOH A 733 HOH A 743 SITE 1 AC3 8 THR A 212 GLY A 213 HIS A 214 PHE A 223 SITE 2 AC3 8 PHE A 226 ASP A 290 THR A 308 HOH A 807 SITE 1 AC4 2 PHE A 201 TYR A 267 SITE 1 AC5 8 ASP A 96 PRO A 129 ARG A 136 ARG A 215 SITE 2 AC5 8 GLU A 313 ARG A 314 UDP A 501 HOH A 833 SITE 1 AC6 5 ARG A 309 ASP A 310 LEU A 325 GLY A 327 SITE 2 AC6 5 HOH A 650 SITE 1 AC7 7 LYS A 25 ARG A 27 VAL A 30 HOH A 611 SITE 2 AC7 7 HOH A 699 HOH A 922 HOH A 931 SITE 1 AC8 1 HOH A 606 CRYST1 116.000 81.410 55.160 90.00 98.03 90.00 C 1 2 1 4 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 0.008621 0.000000 0.001216 0.00000 SCALE2 0.000000 0.012284 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018309 0.00000