PDB Short entry for 2AGS HEADER HYDROLASE 27-JUL-05 2AGS TITLE TRYPANOSOMA RANGELI SIALIDASE IN COMPLEX WITH 2-KETO-3-DEOXY-D- TITLE 2 GLYCERO-D-GALACTO-2,3-DIFLUORO-NONONIC ACID (2,3-DIFLUORO-KDN) COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIALIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 23-660; COMPND 5 EC: 3.2.1.18; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA RANGELI; SOURCE 3 ORGANISM_TAXID: 5698; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: TOP10; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PTRCHISA KEYWDS BETA-PROPELLER, COVALENT ENZYME-INTERMEDIATE COMPLEX, BETA-SANDWICH, KEYWDS 2 HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.F.AMAYA,P.M.ALZARI,A.BUSCHIAZZO REVDAT 6 23-AUG-23 2AGS 1 HETSYN REVDAT 5 29-JUL-20 2AGS 1 REMARK SEQADV LINK SITE REVDAT 4 24-FEB-09 2AGS 1 VERSN REVDAT 3 28-FEB-06 2AGS 1 JRNL REVDAT 2 17-JAN-06 2AGS 1 AUTHOR JRNL SEQADV REVDAT 1 22-NOV-05 2AGS 0 JRNL AUTH A.G.WATTS,P.OPPEZZO,S.G.WITHERS,P.M.ALZARI,A.BUSCHIAZZO JRNL TITL STRUCTURAL AND KINETIC ANALYSIS OF TWO COVALENT JRNL TITL 2 SIALOSYL-ENZYME INTERMEDIATES ON TRYPANOSOMA RANGELI JRNL TITL 3 SIALIDASE. JRNL REF J.BIOL.CHEM. V. 281 4149 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 16298994 JRNL DOI 10.1074/JBC.M510677200 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 3 NUMBER OF REFLECTIONS : 81306 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) : 0.154 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.189 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4074 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5242 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.77 REMARK 3 BIN R VALUE (WORKING SET) : 0.1850 REMARK 3 BIN FREE R VALUE SET COUNT : 287 REMARK 3 BIN FREE R VALUE : 0.2300 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4881 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 805 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.72000 REMARK 3 B22 (A**2) : -0.34000 REMARK 3 B33 (A**2) : -0.38000 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): 0.088 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.090 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.055 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.620 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.947 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5077 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4551 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6913 ; 1.673 ; 1.948 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10567 ; 0.829 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 645 ; 7.247 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 221 ;32.627 ;23.575 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 822 ;11.818 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 37 ;13.230 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 768 ; 0.101 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5724 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1054 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1086 ; 0.208 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 5250 ; 0.201 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2666 ; 0.184 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 3353 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 733 ; 0.155 ; 0.200 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): 13 ; 0.083 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 56 ; 0.223 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 28 ; 0.136 ; 0.200 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): 3978 ; 1.335 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1316 ; 0.288 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5122 ; 1.580 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2218 ; 2.554 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1790 ; 3.527 ; 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 : NULL 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 : 1.20 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 2AGS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-SEP-05. REMARK 100 THE DEPOSITION ID IS D_1000033875. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-FEB-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : DIAMOND (111), GE(220) REMARK 200 OPTICS : TOROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 81374 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 35.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : 0.06600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.24700 REMARK 200 R SYM FOR SHELL (I) : 0.24700 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2A75 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, AMMONIUM SULFATE, SODIUM REMARK 280 CACODYLATE, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 36.83600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.90800 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.78450 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 52.90800 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.83600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 47.78450 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 300 REMARK: THE BIOLOGICAL UNIT IS A MONOMER 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 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 -13 REMARK 465 GLY A -12 REMARK 465 GLY A -11 REMARK 465 SER A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 GLY A -3 REMARK 465 GLY A 632 REMARK 465 GLY A 633 REMARK 465 ALA A 634 REMARK 465 GLY A 635 REMARK 465 THR A 636 REMARK 465 ALA A 637 REMARK 465 ALA A 638 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 MET A -2 CB CG SD CE REMARK 470 ALA A -1 CB REMARK 470 PRO A 406 CG CD REMARK 470 SER A 407 OG REMARK 470 LYS A 408 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 O HOH A 1054 O HOH A 1646 2.16 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 52 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ARG A 251 NE - CZ - NH1 ANGL. DEV. = -5.1 DEGREES REMARK 500 ARG A 251 NE - CZ - NH2 ANGL. DEV. = 5.2 DEGREES REMARK 500 ARG A 317 NE - CZ - NH1 ANGL. DEV. = 3.2 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 ALA A -1 115.18 47.68 REMARK 500 ASN A 15 -65.05 -161.25 REMARK 500 ILE A 37 60.49 61.74 REMARK 500 ASN A 61 67.30 -103.11 REMARK 500 LYS A 116 -2.86 -146.88 REMARK 500 ASN A 145 46.36 34.03 REMARK 500 VAL A 180 132.95 85.74 REMARK 500 ALA A 183 -163.56 -104.58 REMARK 500 GLU A 231 60.50 31.43 REMARK 500 THR A 270 -78.18 -141.01 REMARK 500 SER A 278 169.81 179.47 REMARK 500 ARG A 312 -142.31 58.64 REMARK 500 ARG A 317 69.16 67.50 REMARK 500 GLN A 326 -67.00 -133.57 REMARK 500 SER A 341 -126.13 -107.04 REMARK 500 PRO A 406 50.53 -3.62 REMARK 500 SER A 407 -136.28 -76.29 REMARK 500 SER A 425 -129.30 -141.29 REMARK 500 ASN A 429 -158.26 -134.85 REMARK 500 VAL A 467 -93.00 -114.21 REMARK 500 ASP A 511 46.55 -143.71 REMARK 500 HIS A 543 -8.96 74.33 REMARK 500 ASN A 610 32.02 -92.45 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 MET A -2 ALA A -1 -136.46 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1N1S RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TRYPANOSOMA RANGELI SIALIDASE REMARK 900 RELATED ID: 2A75 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF TRYPANOSOMA RANGELI SIALIDASE IN COMPLEX WITH REMARK 900 2,3-DIFLUOROSIALIC ACID (COVALENT INTERMEDIATE) REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHORS INDICATE THAT THE AMINOACID SEQUENCE IN THE REMARK 999 SEQUENCE DATABASE IS INCORRECT DBREF 2AGS A 1 638 UNP O44049 O44049_TRYRA 23 660 SEQADV 2AGS MET A -13 UNP O44049 CLONING ARTIFACT SEQADV 2AGS GLY A -12 UNP O44049 CLONING ARTIFACT SEQADV 2AGS GLY A -11 UNP O44049 CLONING ARTIFACT SEQADV 2AGS SER A -10 UNP O44049 CLONING ARTIFACT SEQADV 2AGS HIS A -9 UNP O44049 EXPRESSION TAG SEQADV 2AGS HIS A -8 UNP O44049 EXPRESSION TAG SEQADV 2AGS HIS A -7 UNP O44049 EXPRESSION TAG SEQADV 2AGS HIS A -6 UNP O44049 EXPRESSION TAG SEQADV 2AGS HIS A -5 UNP O44049 EXPRESSION TAG SEQADV 2AGS HIS A -4 UNP O44049 EXPRESSION TAG SEQADV 2AGS GLY A -3 UNP O44049 CLONING ARTIFACT SEQADV 2AGS MET A -2 UNP O44049 CLONING ARTIFACT SEQADV 2AGS ALA A -1 UNP O44049 CLONING ARTIFACT SEQADV 2AGS SER A 0 UNP O44049 CLONING ARTIFACT SEQADV 2AGS ILE A 50 UNP O44049 THR 72 SEE REMARK 999 SEQADV 2AGS ALA A 186 UNP O44049 GLY 208 SEE REMARK 999 SEQADV 2AGS LEU A 372 UNP O44049 PHE 394 SEE REMARK 999 SEQADV 2AGS VAL A 606 UNP O44049 ILE 628 SEE REMARK 999 SEQRES 1 A 652 MET GLY GLY SER HIS HIS HIS HIS HIS HIS GLY MET ALA SEQRES 2 A 652 SER LEU ALA PRO GLY SER SER ARG VAL GLU LEU PHE LYS SEQRES 3 A 652 ARG LYS ASN SER THR VAL PRO PHE GLU GLU SER ASN GLY SEQRES 4 A 652 THR ILE ARG GLU ARG VAL VAL HIS SER PHE ARG ILE PRO SEQRES 5 A 652 THR ILE VAL ASN VAL ASP GLY VAL MET VAL ALA ILE ALA SEQRES 6 A 652 ASP ALA ARG TYR GLU THR SER PHE ASP ASN SER PHE ILE SEQRES 7 A 652 GLU THR ALA VAL LYS TYR SER VAL ASP ASP GLY ALA THR SEQRES 8 A 652 TRP ASN THR GLN ILE ALA ILE LYS ASN SER ARG ALA SER SEQRES 9 A 652 SER VAL SER ARG VAL MET ASP ALA THR VAL ILE VAL LYS SEQRES 10 A 652 GLY ASN LYS LEU TYR ILE LEU VAL GLY SER PHE ASN LYS SEQRES 11 A 652 THR ARG ASN SER TRP THR GLN HIS ARG ASP GLY SER ASP SEQRES 12 A 652 TRP GLU PRO LEU LEU VAL VAL GLY GLU VAL THR LYS SER SEQRES 13 A 652 ALA ALA ASN GLY LYS THR THR ALA THR ILE SER TRP GLY SEQRES 14 A 652 LYS PRO VAL SER LEU LYS PRO LEU PHE PRO ALA GLU PHE SEQRES 15 A 652 ASP GLY ILE LEU THR LYS GLU PHE ILE GLY GLY VAL GLY SEQRES 16 A 652 ALA ALA ILE VAL ALA SER ASN GLY ASN LEU VAL TYR PRO SEQRES 17 A 652 VAL GLN ILE ALA ASP MET GLY GLY ARG VAL PHE THR LYS SEQRES 18 A 652 ILE MET TYR SER GLU ASP ASP GLY ASN THR TRP LYS PHE SEQRES 19 A 652 ALA GLU GLY ARG SER LYS PHE GLY CYS SER GLU PRO ALA SEQRES 20 A 652 VAL LEU GLU TRP GLU GLY LYS LEU ILE ILE ASN ASN ARG SEQRES 21 A 652 VAL ASP GLY ASN ARG ARG LEU VAL TYR GLU SER SER ASP SEQRES 22 A 652 MET GLY LYS THR TRP VAL GLU ALA LEU GLY THR LEU SER SEQRES 23 A 652 HIS VAL TRP THR ASN SER PRO THR SER ASN GLN GLN ASP SEQRES 24 A 652 CYS GLN SER SER PHE VAL ALA VAL THR ILE GLU GLY LYS SEQRES 25 A 652 ARG VAL MET LEU PHE THR HIS PRO LEU ASN LEU LYS GLY SEQRES 26 A 652 ARG TRP MET ARG ASP ARG LEU HIS LEU TRP MET THR ASP SEQRES 27 A 652 ASN GLN ARG ILE PHE ASP VAL GLY GLN ILE SER ILE GLY SEQRES 28 A 652 ASP GLU ASN SER GLY TYR SER SER VAL LEU TYR LYS ASP SEQRES 29 A 652 ASP LYS LEU TYR SER LEU HIS GLU ILE ASN THR ASN ASP SEQRES 30 A 652 VAL TYR SER LEU VAL PHE VAL ARG LEU ILE GLY GLU LEU SEQRES 31 A 652 GLN LEU MET LYS SER VAL VAL ARG THR TRP LYS GLU GLU SEQRES 32 A 652 ASP ASN HIS LEU ALA SER ILE CYS THR PRO VAL VAL PRO SEQRES 33 A 652 ALA THR PRO PRO SER LYS GLY GLY CYS GLY ALA ALA VAL SEQRES 34 A 652 PRO THR ALA GLY LEU VAL GLY PHE LEU SER HIS SER ALA SEQRES 35 A 652 ASN GLY SER VAL TRP GLU ASP VAL TYR ARG CYS VAL ASP SEQRES 36 A 652 ALA ASN VAL ALA ASN ALA GLU ARG VAL PRO ASN GLY LEU SEQRES 37 A 652 LYS PHE ASN GLY VAL GLY GLY GLY ALA VAL TRP PRO VAL SEQRES 38 A 652 ALA ARG GLN GLY GLN THR ARG ARG TYR GLN PHE ALA ASN SEQRES 39 A 652 TYR ARG PHE THR LEU VAL ALA THR VAL THR ILE ASP GLU SEQRES 40 A 652 LEU PRO LYS GLY THR SER PRO LEU LEU GLY ALA GLY LEU SEQRES 41 A 652 GLU GLY PRO GLY ASP ALA LYS LEU LEU GLY LEU SER TYR SEQRES 42 A 652 ASP LYS ASN ARG GLN TRP ARG PRO LEU TYR GLY ALA ALA SEQRES 43 A 652 PRO ALA SER PRO THR GLY SER TRP GLU LEU HIS LYS LYS SEQRES 44 A 652 TYR HIS VAL VAL LEU THR MET ALA ASP ARG GLN GLY SER SEQRES 45 A 652 VAL TYR VAL ASP GLY GLN PRO LEU ALA GLY SER GLY ASN SEQRES 46 A 652 THR VAL VAL ARG GLY ALA THR LEU PRO ASP ILE SER HIS SEQRES 47 A 652 PHE TYR ILE GLY GLY PRO ARG SER LYS GLY ALA PRO THR SEQRES 48 A 652 ASP SER ARG VAL THR VAL THR ASN VAL VAL LEU TYR ASN SEQRES 49 A 652 ARG ARG LEU ASN SER SER GLU ILE ARG THR LEU PHE LEU SEQRES 50 A 652 SER GLN ASP MET ILE GLY THR ASP GLY GLY ALA GLY THR SEQRES 51 A 652 ALA ALA HET SO4 A 901 5 HET SO4 A 902 5 HET FKD A 700 18 HETNAM SO4 SULFATE ION HETNAM FKD 3-DEOXY-3-FLUORO-D-ERYTHRO-ALPHA-L-MANNO-NON-2- HETNAM 2 FKD ULOPYRANOSONIC ACID HETSYN FKD 3-DEOXY-3-FLUORO-D-ERYTHRO-ALPHA-L-MANNO-NON-2-ULOSONIC HETSYN 2 FKD ACID; 3-DEOXY-3-FLUORO-D-ERYTHRO-L-MANNO-NON-2- HETSYN 3 FKD ULOSONIC ACID; 3-DEOXY-3-FLUORO-D-ERYTHRO-MANNO-NON-2- HETSYN 4 FKD ULOSONIC ACID FORMUL 2 SO4 2(O4 S 2-) FORMUL 4 FKD C9 H15 F O9 FORMUL 5 HOH *805(H2 O) HELIX 1 1 SER A 120 HIS A 124 5 5 HELIX 2 2 LYS A 161 PHE A 164 5 4 HELIX 3 3 LEU A 372 ILE A 396 1 25 HELIX 4 4 ALA A 468 GLY A 471 5 4 HELIX 5 5 TYR A 476 ASN A 480 5 5 HELIX 6 6 ASN A 614 SER A 624 1 11 SHEET 1 A 4 SER A 6 PHE A 11 0 SHEET 2 A 4 VAL A 364 ARG A 371 -1 O ARG A 371 N SER A 6 SHEET 3 A 4 LYS A 352 THR A 361 -1 N SER A 355 O VAL A 370 SHEET 4 A 4 SER A 344 LYS A 349 -1 N LEU A 347 O TYR A 354 SHEET 1 B 2 THR A 17 GLU A 21 0 SHEET 2 B 2 ILE A 27 VAL A 31 -1 O ARG A 28 N PHE A 20 SHEET 1 C 4 SER A 34 VAL A 43 0 SHEET 2 C 4 VAL A 46 ARG A 54 -1 O ILE A 50 N THR A 39 SHEET 3 C 4 ILE A 64 SER A 71 -1 O LYS A 69 N ALA A 49 SHEET 4 C 4 ASN A 79 ILE A 84 -1 O GLN A 81 N VAL A 68 SHEET 1 D 3 LYS A 147 TRP A 154 0 SHEET 2 D 3 TRP A 130 ALA A 144 -1 N GLU A 138 O SER A 153 SHEET 3 D 3 VAL A 158 SER A 159 -1 O VAL A 158 N LEU A 134 SHEET 1 E 5 LYS A 147 TRP A 154 0 SHEET 2 E 5 TRP A 130 ALA A 144 -1 N GLU A 138 O SER A 153 SHEET 3 E 5 LYS A 106 PHE A 114 -1 N ILE A 109 O VAL A 135 SHEET 4 E 5 ARG A 94 LYS A 103 -1 N ILE A 101 O TYR A 108 SHEET 5 E 5 GLY A 181 ALA A 182 1 O GLY A 181 N ALA A 98 SHEET 1 F 4 GLU A 167 PHE A 168 0 SHEET 2 F 4 ILE A 171 GLY A 178 -1 O ILE A 171 N PHE A 168 SHEET 3 F 4 LEU A 191 ASP A 199 -1 O GLN A 196 N ILE A 177 SHEET 4 F 4 ILE A 184 VAL A 185 -1 N ILE A 184 O VAL A 192 SHEET 1 G 5 GLU A 167 PHE A 168 0 SHEET 2 G 5 ILE A 171 GLY A 178 -1 O ILE A 171 N PHE A 168 SHEET 3 G 5 LEU A 191 ASP A 199 -1 O GLN A 196 N ILE A 177 SHEET 4 G 5 VAL A 204 SER A 211 -1 O PHE A 205 N ILE A 197 SHEET 5 G 5 LYS A 219 PHE A 220 -1 O LYS A 219 N TYR A 210 SHEET 1 H 4 CYS A 229 TRP A 237 0 SHEET 2 H 4 LYS A 240 VAL A 247 -1 O LYS A 240 N TRP A 237 SHEET 3 H 4 VAL A 254 SER A 257 -1 O TYR A 255 N ILE A 243 SHEET 4 H 4 VAL A 265 GLU A 266 -1 O VAL A 265 N GLU A 256 SHEET 1 I 4 PHE A 290 ILE A 295 0 SHEET 2 I 4 LYS A 298 PRO A 306 -1 O LEU A 302 N VAL A 291 SHEET 3 I 4 LEU A 318 THR A 323 -1 O THR A 323 N MET A 301 SHEET 4 I 4 ILE A 328 GLN A 333 -1 O PHE A 329 N MET A 322 SHEET 1 J 7 ALA A 447 VAL A 450 0 SHEET 2 J 7 GLY A 453 PHE A 456 -1 O LYS A 455 N GLU A 448 SHEET 3 J 7 VAL A 601 TYR A 609 -1 O VAL A 601 N PHE A 456 SHEET 4 J 7 ARG A 482 ILE A 491 -1 N THR A 488 O THR A 604 SHEET 5 J 7 TYR A 546 ALA A 553 -1 O VAL A 548 N ALA A 487 SHEET 6 J 7 GLN A 556 VAL A 561 -1 O TYR A 560 N VAL A 549 SHEET 7 J 7 GLN A 564 PRO A 565 -1 O GLN A 564 N VAL A 561 SHEET 1 K13 TRP A 525 TYR A 529 0 SHEET 2 K13 LYS A 513 ASP A 520 -1 N GLY A 516 O LEU A 528 SHEET 3 K13 THR A 498 LEU A 506 -1 N LEU A 502 O LEU A 517 SHEET 4 K13 ILE A 582 GLY A 588 -1 O GLY A 588 N LEU A 501 SHEET 5 K13 GLY A 462 PRO A 466 -1 N TRP A 465 O PHE A 585 SHEET 6 K13 ALA A 442 ALA A 445 -1 N ASN A 443 O VAL A 464 SHEET 7 K13 VAL A 432 ASP A 435 -1 N TRP A 433 O ALA A 442 SHEET 8 K13 LEU A 420 ALA A 428 -1 N SER A 427 O GLU A 434 SHEET 9 K13 VAL A 601 TYR A 609 -1 O VAL A 606 N LEU A 424 SHEET 10 K13 ARG A 482 ILE A 491 -1 N THR A 488 O THR A 604 SHEET 11 K13 TYR A 546 ALA A 553 -1 O VAL A 548 N ALA A 487 SHEET 12 K13 GLN A 556 VAL A 561 -1 O TYR A 560 N VAL A 549 SHEET 13 K13 ASN A 571 THR A 572 -1 O ASN A 571 N GLY A 557 SSBOND 1 CYS A 397 CYS A 411 1555 1555 2.05 LINK OH TYR A 343 C2 FKD A 700 1555 1555 1.43 CRYST1 73.672 95.569 105.816 90.00 90.00 90.00 P 21 21 21 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 0.013574 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010464 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009450 0.00000