HEADER TRANSFERASE 08-MAY-11 2YHW TITLE HIGH-RESOLUTION CRYSTAL STRUCTURES OF N-ACETYLMANNOSAMINE KINASE: TITLE 2 INSIGHTS ABOUT SUBSTRATE SPECIFICITY, ACTIVITY AND INHIBITOR TITLE 3 MODELLING. COMPND MOL_ID: 1; COMPND 2 MOLECULE: BIFUNCTIONAL UDP-N-ACETYLGLUCOSAMINE 2-EPIMERASE/N- COMPND 3 ACETYLMANNOSAMINE KINASE; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: N-ACETYLMANNOSAMINE KINASE DOMAIN, RESIDUES 406-720; COMPND 6 SYNONYM: N-ACETYL MANNOSAMINE KINASE, MANAC KINASE, UDP-GLCNAC-2- COMPND 7 EPIMERASE/MANAC KINASE; COMPND 8 EC: 2.7.1.60; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET28A; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET28A-MNK KEYWDS TRANSFERASE, SIALIC ACID, MANNAC, ROK FAMILY EXPDTA X-RAY DIFFRACTION AUTHOR J.MARTINEZ,L.D.NGUYEN,E.TAUBERGER,S.HINDERLICH,R.ZIMMER,E.TAUBERGER, AUTHOR 2 W.REUTTER,W.SAENGER,H.FAN,S.MONIOT REVDAT 5 13-NOV-24 2YHW 1 REMARK REVDAT 4 15-NOV-23 2YHW 1 HETSYN LINK ATOM REVDAT 3 29-JUL-20 2YHW 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE REVDAT 2 02-MAY-12 2YHW 1 JRNL REVDAT 1 29-FEB-12 2YHW 0 JRNL AUTH J.MARTINEZ,L.D.NGUYEN,E.TAUBERGER,S.HINDERLICH,W.REUTTER, JRNL AUTH 2 H.FAN,W.SAENGER,S.MONIOT JRNL TITL CRYSTAL STRUCTURES OF N-ACETYLMANNOSAMINE KINASE PROVIDE JRNL TITL 2 INSIGHTS INTO ENZYME SPECIFICITY AND INHIBITION JRNL REF J.BIOL.CHEM. V. 287 13656 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22343627 JRNL DOI 10.1074/JBC.M111.318170 REMARK 2 REMARK 2 RESOLUTION. 1.64 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) : 1.64 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 49478 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) : 0.149 REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.170 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2605 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) : 1.64 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.68 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3599 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2240 REMARK 3 BIN FREE R VALUE SET COUNT : 190 REMARK 3 BIN FREE R VALUE : 0.2620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2271 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 71 REMARK 3 SOLVENT ATOMS : 255 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.39000 REMARK 3 B22 (A**2) : 0.39000 REMARK 3 B33 (A**2) : -0.79000 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): 0.067 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.068 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.039 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.270 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.965 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2583 ; 0.026 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1678 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3506 ; 2.068 ; 1.982 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4160 ; 1.184 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 349 ; 6.637 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 96 ;37.213 ;25.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 432 ;14.316 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;19.749 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 418 ; 0.157 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2936 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 470 ; 0.004 ; 0.020 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): 1657 ; 1.274 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 687 ; 0.435 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2673 ; 2.122 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 926 ; 3.468 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 833 ; 5.643 ; 4.500 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 : 4 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 405 A 487 REMARK 3 ORIGIN FOR THE GROUP (A): 6.6480 32.1090 15.5290 REMARK 3 T TENSOR REMARK 3 T11: 0.0241 T22: 0.0628 REMARK 3 T33: 0.0302 T12: 0.0001 REMARK 3 T13: 0.0055 T23: -0.0056 REMARK 3 L TENSOR REMARK 3 L11: 1.8112 L22: 0.6462 REMARK 3 L33: 1.7849 L12: 0.5107 REMARK 3 L13: 1.1326 L23: 0.4135 REMARK 3 S TENSOR REMARK 3 S11: -0.0671 S12: 0.1875 S13: 0.0058 REMARK 3 S21: -0.0424 S22: 0.0811 S23: 0.0035 REMARK 3 S31: -0.0572 S32: 0.2365 S33: -0.0140 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 488 A 597 REMARK 3 ORIGIN FOR THE GROUP (A): -7.0520 25.9380 19.7590 REMARK 3 T TENSOR REMARK 3 T11: 0.0514 T22: 0.0163 REMARK 3 T33: 0.0418 T12: -0.0018 REMARK 3 T13: -0.0018 T23: -0.0005 REMARK 3 L TENSOR REMARK 3 L11: 0.6508 L22: 0.2065 REMARK 3 L33: 0.9168 L12: 0.1208 REMARK 3 L13: 0.0544 L23: -0.1083 REMARK 3 S TENSOR REMARK 3 S11: 0.0377 S12: 0.0120 S13: -0.0390 REMARK 3 S21: 0.0237 S22: 0.0112 S23: -0.0082 REMARK 3 S31: -0.0557 S32: 0.0660 S33: -0.0489 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 598 A 661 REMARK 3 ORIGIN FOR THE GROUP (A): -18.5960 42.9520 30.2060 REMARK 3 T TENSOR REMARK 3 T11: 0.4415 T22: 0.0228 REMARK 3 T33: 0.0482 T12: -0.0113 REMARK 3 T13: 0.0778 T23: -0.0305 REMARK 3 L TENSOR REMARK 3 L11: 0.7585 L22: 6.1513 REMARK 3 L33: 2.3431 L12: 0.1618 REMARK 3 L13: -0.2447 L23: -1.1398 REMARK 3 S TENSOR REMARK 3 S11: 0.1672 S12: -0.0871 S13: 0.1634 REMARK 3 S21: 0.3127 S22: -0.0536 S23: 0.0003 REMARK 3 S31: -0.9908 S32: 0.0077 S33: -0.1136 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 662 A 717 REMARK 3 ORIGIN FOR THE GROUP (A): -9.2390 26.9550 34.0450 REMARK 3 T TENSOR REMARK 3 T11: 0.0446 T22: 0.0442 REMARK 3 T33: 0.0177 T12: -0.0208 REMARK 3 T13: -0.0074 T23: -0.0133 REMARK 3 L TENSOR REMARK 3 L11: 1.5287 L22: 0.3647 REMARK 3 L33: 0.8037 L12: 0.1364 REMARK 3 L13: -0.6731 L23: -0.0142 REMARK 3 S TENSOR REMARK 3 S11: 0.1359 S12: -0.1976 S13: 0.0264 REMARK 3 S21: 0.0697 S22: -0.0822 S23: 0.0066 REMARK 3 S31: -0.1011 S32: 0.1046 S33: -0.0537 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 2YHW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 08-MAY-11. REMARK 100 THE DEPOSITION ID IS D_1290048215. 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 : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL 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 : 52083 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.640 REMARK 200 RESOLUTION RANGE LOW (A) : 45.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 4.370 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.90 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.6600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M CALCIUM ACETATE, 0.1 M SODIUM REMARK 280 CACODYLATE PH 6.5 AND 40% PEG 300. REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 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+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 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 50.39000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 45.36500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 45.36500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 25.19500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 45.36500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 45.36500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 75.58500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 45.36500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.36500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 25.19500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 45.36500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.36500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 75.58500 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 50.39000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25110 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.3 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 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 50.39000 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 378 REMARK 465 GLY A 379 REMARK 465 SER A 380 REMARK 465 SER A 381 REMARK 465 HIS A 382 REMARK 465 HIS A 383 REMARK 465 HIS A 384 REMARK 465 HIS A 385 REMARK 465 HIS A 386 REMARK 465 HIS A 387 REMARK 465 SER A 388 REMARK 465 SER A 389 REMARK 465 GLY A 390 REMARK 465 LEU A 391 REMARK 465 VAL A 392 REMARK 465 PRO A 393 REMARK 465 ARG A 394 REMARK 465 GLY A 395 REMARK 465 SER A 396 REMARK 465 HIS A 397 REMARK 465 MET A 398 REMARK 465 GLU A 399 REMARK 465 ASN A 400 REMARK 465 LEU A 401 REMARK 465 TYR A 402 REMARK 465 PHE A 403 REMARK 465 GLN A 404 REMARK 465 PRO A 617 REMARK 465 LYS A 618 REMARK 465 ASP A 619 REMARK 465 GLU A 620 REMARK 465 THR A 718 REMARK 465 ARG A 719 REMARK 465 ARG A 720 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 GLU A 612 CD OE1 OE2 REMARK 470 VAL A 622 CG1 CG2 REMARK 470 LYS A 632 CG CD CE NZ REMARK 470 LYS A 637 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OD1 ASN A 536 O HOH A 2135 2.14 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 417 -48.07 -136.80 REMARK 500 TRP A 495 64.54 -150.63 REMARK 500 HIS A 554 -3.50 76.09 REMARK 500 LYS A 602 -70.65 -46.20 REMARK 500 GLU A 606 30.05 -94.18 REMARK 500 ASP A 607 51.50 38.58 REMARK 500 GLU A 612 -62.85 43.57 REMARK 500 THR A 659 -65.64 -91.34 REMARK 500 THR A 659 -65.41 -91.34 REMARK 500 ASP A 703 82.66 -150.37 REMARK 500 ASP A 703 82.66 -161.62 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 2PE A 1720 REMARK 610 PGE A 1725 REMARK 610 PGE A 1727 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 CA A1724 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 516 OD1 REMARK 620 2 GLY A 548 O 101.0 REMARK 620 3 ALA A 565 O 154.0 77.5 REMARK 620 4 HOH A2108 O 77.6 92.5 76.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1724 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 516 OD1 REMARK 620 2 ASN A 519 OD1 81.5 REMARK 620 3 ALA A 564 O 172.0 96.7 REMARK 620 4 ALA A 565 O 108.7 107.7 79.3 REMARK 620 5 HOH A2067 O 80.6 129.9 94.8 122.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1719 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 569 ND1 REMARK 620 2 CYS A 579 SG 105.3 REMARK 620 3 CYS A 581 SG 104.6 103.7 REMARK 620 4 CYS A 586 SG 118.4 110.8 112.8 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2YHY RELATED DB: PDB REMARK 900 STRUCTURE OF N-ACETYLMANNOSAMINE KINASE IN COMPLEX WITH N- REMARK 900 ACETYLMANNOSAMINE AND ADP REMARK 900 RELATED ID: 2YI1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF N-ACETYLMANNOSAMINE KINASE IN COMPLEX WITH N- REMARK 900 ACETYL MANNOSAMINE 6-PHOSPHATE AND ADP DBREF 2YHW A 406 720 UNP Q9Y223 GLCNE_HUMAN 406 720 SEQADV 2YHW MET A 378 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW GLY A 379 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW SER A 380 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW SER A 381 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW HIS A 382 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW HIS A 383 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW HIS A 384 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW HIS A 385 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW HIS A 386 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW HIS A 387 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW SER A 388 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW SER A 389 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW GLY A 390 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW LEU A 391 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW VAL A 392 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW PRO A 393 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW ARG A 394 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW GLY A 395 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW SER A 396 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW HIS A 397 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW MET A 398 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW GLU A 399 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW ASN A 400 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW LEU A 401 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW TYR A 402 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW PHE A 403 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW GLN A 404 UNP Q9Y223 EXPRESSION TAG SEQADV 2YHW GLY A 405 UNP Q9Y223 EXPRESSION TAG SEQRES 1 A 343 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 343 LEU VAL PRO ARG GLY SER HIS MET GLU ASN LEU TYR PHE SEQRES 3 A 343 GLN GLY THR LEU SER ALA LEU ALA VAL ASP LEU GLY GLY SEQRES 4 A 343 THR ASN LEU ARG VAL ALA ILE VAL SER MET LYS GLY GLU SEQRES 5 A 343 ILE VAL LYS LYS TYR THR GLN PHE ASN PRO LYS THR TYR SEQRES 6 A 343 GLU GLU ARG ILE ASN LEU ILE LEU GLN MET CYS VAL GLU SEQRES 7 A 343 ALA ALA ALA GLU ALA VAL LYS LEU ASN CYS ARG ILE LEU SEQRES 8 A 343 GLY VAL GLY ILE SER THR GLY GLY ARG VAL ASN PRO ARG SEQRES 9 A 343 GLU GLY ILE VAL LEU HIS SER THR LYS LEU ILE GLN GLU SEQRES 10 A 343 TRP ASN SER VAL ASP LEU ARG THR PRO LEU SER ASP THR SEQRES 11 A 343 LEU HIS LEU PRO VAL TRP VAL ASP ASN ASP GLY ASN CYS SEQRES 12 A 343 ALA ALA LEU ALA GLU ARG LYS PHE GLY GLN GLY LYS GLY SEQRES 13 A 343 LEU GLU ASN PHE VAL THR LEU ILE THR GLY THR GLY ILE SEQRES 14 A 343 GLY GLY GLY ILE ILE HIS GLN HIS GLU LEU ILE HIS GLY SEQRES 15 A 343 SER SER PHE CYS ALA ALA GLU LEU GLY HIS LEU VAL VAL SEQRES 16 A 343 SER LEU SNN GLY PRO ASP CYS SER CYS GLY SER HIS GLY SEQRES 17 A 343 CYS ILE GLU ALA TYR ALA SER GLY MET ALA LEU GLN ARG SEQRES 18 A 343 GLU ALA LYS LYS LEU HIS ASP GLU ASP LEU LEU LEU VAL SEQRES 19 A 343 GLU GLY MET SER VAL PRO LYS ASP GLU ALA VAL GLY ALA SEQRES 20 A 343 LEU HIS LEU ILE GLN ALA ALA LYS LEU GLY ASN ALA LYS SEQRES 21 A 343 ALA GLN SER ILE LEU ARG THR ALA GLY THR ALA LEU GLY SEQRES 22 A 343 LEU GLY VAL VAL ASN ILE LEU HIS THR MET ASN PRO SER SEQRES 23 A 343 LEU VAL ILE LEU SER GLY VAL LEU ALA SER HIS TYR ILE SEQRES 24 A 343 HIS ILE VAL LYS ASP VAL ILE ARG GLN GLN ALA LEU SER SEQRES 25 A 343 SER VAL GLN ASP VAL ASP VAL VAL VAL SER ASP LEU VAL SEQRES 26 A 343 ASP PRO ALA LEU LEU GLY ALA ALA SER MET VAL LEU ASP SEQRES 27 A 343 TYR THR THR ARG ARG MODRES 2YHW SNN A 575 ASN L-3-AMINOSUCCINIMIDE HET SNN A 575 8 HET BM3 A1718 15 HET ZN A1719 1 HET 2PE A1720 19 HET EDO A1721 4 HET EDO A1722 4 HET EDO A1723 4 HET CA A1724 2 HET PGE A1725 7 HET EDO A1726 8 HET PGE A1727 7 HET ACT A1728 4 HET CL A1729 1 HETNAM SNN L-3-AMINOSUCCINIMIDE HETNAM BM3 2-ACETAMIDO-2-DEOXY-ALPHA-D-MANNOPYRANOSE HETNAM ZN ZINC ION HETNAM 2PE NONAETHYLENE GLYCOL HETNAM EDO 1,2-ETHANEDIOL HETNAM CA CALCIUM ION HETNAM PGE TRIETHYLENE GLYCOL HETNAM ACT ACETATE ION HETNAM CL CHLORIDE ION HETSYN BM3 N-ACETYL-ALPHA-D-MANNOSAMINE; 2-ACETAMIDO-2-DEOXY- HETSYN 2 BM3 ALPHA-D-MANNOSE; 2-ACETAMIDO-2-DEOXY-D-MANNOSE; 2- HETSYN 3 BM3 ACETAMIDO-2-DEOXY-MANNOSE; 2-(ACETYLAMINO)-2-DEOXY- HETSYN 4 BM3 ALPHA-D-MANNOPYRANOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 1 SNN C4 H6 N2 O2 FORMUL 2 BM3 C8 H15 N O6 FORMUL 3 ZN ZN 2+ FORMUL 4 2PE C18 H38 O10 FORMUL 5 EDO 4(C2 H6 O2) FORMUL 8 CA CA 2+ FORMUL 9 PGE 2(C6 H14 O4) FORMUL 12 ACT C2 H3 O2 1- FORMUL 13 CL CL 1- FORMUL 14 HOH *255(H2 O) HELIX 1 1 THR A 441 LEU A 463 1 23 HELIX 2 2 LEU A 500 HIS A 509 1 10 HELIX 3 3 ASP A 517 PHE A 528 1 12 HELIX 4 4 GLU A 566 HIS A 569 5 4 HELIX 5 5 ILE A 587 SER A 592 1 6 HELIX 6 6 SER A 592 GLU A 606 1 15 HELIX 7 7 GLY A 623 LEU A 633 1 11 HELIX 8 8 ASN A 635 MET A 660 1 26 HELIX 9 9 LEU A 671 ALA A 687 1 17 HELIX 10 10 LEU A 688 GLN A 692 5 5 HELIX 11 11 ASP A 703 THR A 717 1 15 SHEET 1 AA 5 ILE A 430 PHE A 437 0 SHEET 2 AA 5 ASN A 418 SER A 425 -1 O LEU A 419 N GLN A 436 SHEET 3 AA 5 THR A 406 LEU A 414 -1 O ALA A 409 N VAL A 424 SHEET 4 AA 5 CYS A 465 THR A 474 1 O ARG A 466 N SER A 408 SHEET 5 AA 5 VAL A 512 ASN A 516 1 O TRP A 513 N ILE A 472 SHEET 1 AB 3 ARG A 477 ASN A 479 0 SHEET 2 AB 3 ILE A 484 HIS A 487 -1 O ILE A 484 N ASN A 479 SHEET 3 AB 3 VAL A 498 ASP A 499 -1 O VAL A 498 N VAL A 485 SHEET 1 AC 5 GLU A 555 LEU A 556 0 SHEET 2 AC 5 ILE A 546 HIS A 552 -1 O HIS A 552 N GLU A 555 SHEET 3 AC 5 PHE A 537 THR A 542 -1 O PHE A 537 N ILE A 551 SHEET 4 AC 5 LEU A 664 SER A 668 1 O LEU A 664 N VAL A 538 SHEET 5 AC 5 ASP A 695 VAL A 698 1 O ASP A 695 N VAL A 665 SHEET 1 AD 2 VAL A 571 ASP A 578 0 SHEET 2 AD 2 HIS A 584 CYS A 586 -1 O GLY A 585 N VAL A 572 LINK C LEU A 574 N SNN A 575 1555 1555 1.46 LINK N1 SNN A 575 CA GLY A 576 1555 1555 1.58 LINK OD1 ASN A 516 CA A CA A1724 1555 1555 2.54 LINK OD1 ASN A 516 CA B CA A1724 1555 1555 3.12 LINK OD1 ASN A 519 CA B CA A1724 1555 1555 3.14 LINK O GLY A 548 CA A CA A1724 1555 1555 2.39 LINK O ALA A 564 CA B CA A1724 1555 1555 2.82 LINK O ALA A 565 CA A CA A1724 1555 1555 2.61 LINK O ALA A 565 CA B CA A1724 1555 1555 3.06 LINK ND1 HIS A 569 ZN ZN A1719 1555 1555 2.06 LINK SG CYS A 579 ZN ZN A1719 1555 1555 2.36 LINK SG CYS A 581 ZN ZN A1719 1555 1555 2.34 LINK SG CYS A 586 ZN ZN A1719 1555 1555 2.26 LINK CA B CA A1724 O HOH A2067 1555 1555 3.06 LINK CA A CA A1724 O HOH A2108 1555 1555 2.62 CRYST1 90.730 90.730 100.780 90.00 90.00 90.00 P 41 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 0.011022 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011022 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009923 0.00000