HEADER HYDROLASE 31-OCT-11 3UET TITLE CRYSTAL STRUCTURE OF ALPHA-1,3/4-FUCOSIDASE FROM BIFIDOBACTERIUM TITLE 2 LONGUM SUBSP. INFANTIS D172A/E217A MUTANT COMPLEXED WITH LACTO-N- TITLE 3 FUCOPENTAOSE II COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-1,3/4-FUCOSIDASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.2.1.111; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BIFIDOBACTERIUM LONGUM SUBSP. INFANTIS; SOURCE 3 ORGANISM_TAXID: 391904; SOURCE 4 STRAIN: ATCC15697; SOURCE 5 GENE: BLIJ_2413, BLON_2236; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DELTA)LACZ (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-30B KEYWDS TIM BARREL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR H.SAKURAMA,S.FUSHINOBU,E.YOSHIDA,Y.HONDA,M.HIDAKA,H.ASHIDA,M.KITAOKA, AUTHOR 2 T.KATAYAMA,K.YAMAMOTO,H.KUMAGAI REVDAT 6 01-NOV-23 3UET 1 REMARK REVDAT 5 14-OCT-20 3UET 1 HETSYN REVDAT 4 05-AUG-20 3UET 1 REMARK REVDAT 3 29-JUL-20 3UET 1 COMPND REMARK SEQADV HETNAM REVDAT 3 2 1 LINK SITE ATOM REVDAT 2 12-DEC-12 3UET 1 JRNL SITE REVDAT 1 04-APR-12 3UET 0 JRNL AUTH H.SAKURAMA,S.FUSHINOBU,M.HIDAKA,E.YOSHIDA,Y.HONDA,H.ASHIDA, JRNL AUTH 2 M.KITAOKA,H.KUMAGAI,K.YAMAMOTO,T.KATAYAMA JRNL TITL 1,3-1,4-ALPHA-L-FUCOSYNTHASE THAT SPECIFICALLY INTRODUCES JRNL TITL 2 LEWIS A/X ANTIGENS INTO TYPE-1/2 CHAINS JRNL REF J.BIOL.CHEM. V. 287 16709 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22451675 JRNL DOI 10.1074/JBC.M111.333781 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 3 NUMBER OF REFLECTIONS : 57111 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) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3047 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3903 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.49 REMARK 3 BIN R VALUE (WORKING SET) : 0.2240 REMARK 3 BIN FREE R VALUE SET COUNT : 212 REMARK 3 BIN FREE R VALUE : 0.2780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7138 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 82 REMARK 3 SOLVENT ATOMS : 463 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : 0.00000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.177 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.115 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.330 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.956 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7390 ; 0.020 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10056 ; 1.987 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 908 ; 6.509 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 360 ;35.220 ;22.944 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1132 ;15.836 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 74 ;20.116 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1092 ; 0.133 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5748 ; 0.011 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 3UET COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 15-NOV-11. REMARK 100 THE DEPOSITION ID IS D_1000068664. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-FEB-11 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NUMERICAL LINK TYPE SI(111) REMARK 200 DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60403 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.10400 REMARK 200 FOR THE DATA SET : 16.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.14 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.4 REMARK 200 DATA REDUNDANCY IN SHELL : 5.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.47400 REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3MO4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CITRATE BUFFER (PH 5.5), REMARK 280 20% PEG 3000, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.0K 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 41.29400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.35750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.98550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 60.35750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 41.29400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 52.98550 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 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 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 1 REMARK 465 ASN A 2 REMARK 465 ASN A 3 REMARK 465 PRO A 4 REMARK 465 ALA A 5 REMARK 465 ASP A 6 REMARK 465 ALA A 7 REMARK 465 GLY A 8 REMARK 465 MET A 240 REMARK 465 GLU A 241 REMARK 465 LYS A 242 REMARK 465 SER A 243 REMARK 465 GLN A 244 REMARK 465 GLN A 245 REMARK 465 GLU A 246 REMARK 465 ASP A 247 REMARK 465 ASP A 248 REMARK 465 ALA A 249 REMARK 465 SER A 250 REMARK 465 PHE A 251 REMARK 465 ALA A 252 REMARK 465 THR A 253 REMARK 465 MET B 1 REMARK 465 ASN B 2 REMARK 465 ASN B 3 REMARK 465 PRO B 4 REMARK 465 ALA B 5 REMARK 465 ASP B 6 REMARK 465 ALA B 7 REMARK 465 GLY B 8 REMARK 465 THR B 239 REMARK 465 MET B 240 REMARK 465 GLU B 241 REMARK 465 LYS B 242 REMARK 465 SER B 243 REMARK 465 GLN B 244 REMARK 465 GLN B 245 REMARK 465 GLU B 246 REMARK 465 ASP B 247 REMARK 465 ASP B 248 REMARK 465 ALA B 249 REMARK 465 SER B 250 REMARK 465 PHE B 251 REMARK 465 ALA B 252 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 36 CG HIS A 36 CD2 0.067 REMARK 500 TRP A 135 CE2 TRP A 135 CD2 0.077 REMARK 500 HIS A 220 CG HIS A 220 CD2 0.055 REMARK 500 HIS A 414 CG HIS A 414 CD2 0.060 REMARK 500 HIS A 420 CG HIS A 420 CD2 0.056 REMARK 500 HIS A 460 CG HIS A 460 CD2 0.055 REMARK 500 HIS B 36 CG HIS B 36 CD2 0.067 REMARK 500 TRP B 47 CG TRP B 47 CD1 0.092 REMARK 500 TRP B 47 CE2 TRP B 47 CD2 0.082 REMARK 500 HIS B 51 CG HIS B 51 CD2 0.069 REMARK 500 HIS B 85 CG HIS B 85 CD2 0.060 REMARK 500 HIS B 99 CG HIS B 99 CD2 0.055 REMARK 500 HIS B 220 CG HIS B 220 CD2 0.056 REMARK 500 HIS B 372 CG HIS B 372 CD2 0.060 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 ARG A 115 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG A 351 NE - CZ - NH1 ANGL. DEV. = 7.7 DEGREES REMARK 500 ARG A 351 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ASP B 149 CB - CG - OD1 ANGL. DEV. = 7.7 DEGREES REMARK 500 ASP B 149 CB - CG - OD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 ARG B 222 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG B 362 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TYR A 13 -70.82 -62.22 REMARK 500 GLU A 30 -55.95 73.09 REMARK 500 ASN A 58 51.27 -143.38 REMARK 500 THR A 82 83.30 -69.02 REMARK 500 VAL A 206 -85.81 76.28 REMARK 500 ASN A 274 49.07 -86.84 REMARK 500 TYR A 278 80.80 -160.32 REMARK 500 ASP A 388 107.05 -57.03 REMARK 500 ASN A 404 20.40 -151.65 REMARK 500 VAL A 441 -75.00 -113.05 REMARK 500 LEU A 466 -172.33 62.29 REMARK 500 GLU B 30 -54.18 70.06 REMARK 500 ASN B 58 51.67 -140.57 REMARK 500 ALA B 174 150.80 -44.54 REMARK 500 LYS B 179 2.03 -66.65 REMARK 500 VAL B 206 -86.61 73.45 REMARK 500 TYR B 278 78.47 -150.32 REMARK 500 ASN B 404 11.62 -147.77 REMARK 500 ASP B 429 20.08 -72.79 REMARK 500 VAL B 441 -65.80 -124.82 REMARK 500 LEU B 466 -170.82 63.76 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 NA A 501 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 372 O REMARK 620 2 ASP A 375 OD1 74.2 REMARK 620 3 ASN A 377 O 167.0 97.6 REMARK 620 4 THR A 380 OG1 101.3 78.2 86.5 REMARK 620 5 THR A 380 O 97.7 149.1 94.4 74.2 REMARK 620 6 SER A 471 O 75.3 119.7 101.1 158.8 85.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 501 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 372 O REMARK 620 2 ASP B 375 OD1 84.4 REMARK 620 3 ASN B 377 O 166.8 89.7 REMARK 620 4 THR B 380 O 100.1 149.3 91.0 REMARK 620 5 THR B 380 OG1 97.5 77.3 92.7 72.1 REMARK 620 6 SER B 471 O 74.1 116.2 98.2 94.1 162.6 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3MO4 RELATED DB: PDB REMARK 900 THE SAME PROTEIN, LIGAND-FREE FORM REMARK 900 RELATED ID: 3UES RELATED DB: PDB DBREF 3UET A 1 478 UNP B7GNN8 B7GNN8_BIFLS 1 478 DBREF 3UET B 1 478 UNP B7GNN8 B7GNN8_BIFLS 1 478 SEQADV 3UET ALA A 172 UNP B7GNN8 ASP 172 ENGINEERED MUTATION SEQADV 3UET ALA A 217 UNP B7GNN8 GLU 217 ENGINEERED MUTATION SEQADV 3UET ALA B 172 UNP B7GNN8 ASP 172 ENGINEERED MUTATION SEQADV 3UET ALA B 217 UNP B7GNN8 GLU 217 ENGINEERED MUTATION SEQRES 1 A 478 MET ASN ASN PRO ALA ASP ALA GLY ILE ASN LEU ASN TYR SEQRES 2 A 478 LEU ALA ASN VAL ARG PRO SER SER ARG GLN LEU ALA TRP SEQRES 3 A 478 GLN ARG MET GLU MET TYR ALA PHE LEU HIS PHE GLY MET SEQRES 4 A 478 ASN THR MET THR ASP ARG GLU TRP GLY LEU GLY HIS GLU SEQRES 5 A 478 ASP PRO ALA LEU PHE ASN PRO ARG ASN VAL ASP VAL ASP SEQRES 6 A 478 GLN TRP MET ASP ALA LEU VAL ALA GLY GLY MET ALA GLY SEQRES 7 A 478 VAL ILE LEU THR CYS LYS HIS HIS ASP GLY PHE CYS LEU SEQRES 8 A 478 TRP PRO SER ARG LEU THR ARG HIS THR VAL ALA SER SER SEQRES 9 A 478 PRO TRP ARG GLU GLY LYS GLY ASP LEU VAL ARG GLU VAL SEQRES 10 A 478 SER GLU SER ALA ARG ARG HIS GLY LEU LYS PHE GLY VAL SEQRES 11 A 478 TYR LEU SER PRO TRP ASP ARG THR GLU GLU SER TYR GLY SEQRES 12 A 478 LYS GLY LYS ALA TYR ASP ASP PHE TYR VAL GLY GLN LEU SEQRES 13 A 478 THR GLU LEU LEU THR GLN TYR GLY PRO ILE PHE SER VAL SEQRES 14 A 478 TRP LEU ALA GLY ALA ASN GLY GLU GLY LYS ASN GLY LYS SEQRES 15 A 478 THR GLN TYR TYR ASP TRP ASP ARG TYR TYR ASN VAL ILE SEQRES 16 A 478 ARG SER LEU GLN PRO ASP ALA VAL ILE SER VAL CYS GLY SEQRES 17 A 478 PRO ASP VAL ARG TRP ALA GLY ASN ALA ALA GLY HIS VAL SEQRES 18 A 478 ARG ASP ASN GLU TRP SER VAL VAL PRO ARG ARG LEU ARG SEQRES 19 A 478 SER ALA GLU LEU THR MET GLU LYS SER GLN GLN GLU ASP SEQRES 20 A 478 ASP ALA SER PHE ALA THR THR VAL SER SER GLN ASP ASP SEQRES 21 A 478 ASP LEU GLY SER ARG GLU ALA VAL ALA GLY TYR GLY ASP SEQRES 22 A 478 ASN VAL CYS TRP TYR PRO ALA GLU VAL ASP THR SER ILE SEQRES 23 A 478 ARG PRO GLY TRP PHE TYR HIS GLN SER GLU ASP ASP LYS SEQRES 24 A 478 VAL MET SER ALA ASP GLN LEU PHE ASP LEU TRP LEU SER SEQRES 25 A 478 ALA VAL GLY GLY ASN SER SER LEU LEU LEU ASN ILE PRO SEQRES 26 A 478 PRO SER PRO GLU GLY LEU LEU ALA GLU PRO ASP VAL GLN SEQRES 27 A 478 SER LEU LYS GLY LEU GLY ARG ARG VAL SER GLU PHE ARG SEQRES 28 A 478 GLU ALA LEU ALA SER VAL ARG CYS GLU ALA ARG THR SER SEQRES 29 A 478 SER ALA SER ALA ALA ALA ALA HIS LEU VAL ASP GLY ASN SEQRES 30 A 478 ARG ASP THR PHE TRP ARG PRO ASP ALA ASP ASP ALA ALA SEQRES 31 A 478 PRO ALA ILE THR LEU THR LEU PRO GLN PRO THR THR ILE SEQRES 32 A 478 ASN ALA ILE VAL ILE GLU GLU ALA ILE GLU HIS GLY GLN SEQRES 33 A 478 ARG ILE GLU HIS LEU ARG VAL THR GLY ALA LEU PRO ASP SEQRES 34 A 478 GLY THR GLU ARG VAL LEU GLY GLN ALA GLY THR VAL GLY SEQRES 35 A 478 TYR ARG ARG ILE LEU ARG PHE ASP ASP VAL GLU VAL SER SEQRES 36 A 478 SER VAL THR LEU HIS VAL ASP GLY SER ARG LEU ALA PRO SEQRES 37 A 478 MET ILE SER ARG ALA ALA ALA VAL ARG ILE SEQRES 1 B 478 MET ASN ASN PRO ALA ASP ALA GLY ILE ASN LEU ASN TYR SEQRES 2 B 478 LEU ALA ASN VAL ARG PRO SER SER ARG GLN LEU ALA TRP SEQRES 3 B 478 GLN ARG MET GLU MET TYR ALA PHE LEU HIS PHE GLY MET SEQRES 4 B 478 ASN THR MET THR ASP ARG GLU TRP GLY LEU GLY HIS GLU SEQRES 5 B 478 ASP PRO ALA LEU PHE ASN PRO ARG ASN VAL ASP VAL ASP SEQRES 6 B 478 GLN TRP MET ASP ALA LEU VAL ALA GLY GLY MET ALA GLY SEQRES 7 B 478 VAL ILE LEU THR CYS LYS HIS HIS ASP GLY PHE CYS LEU SEQRES 8 B 478 TRP PRO SER ARG LEU THR ARG HIS THR VAL ALA SER SER SEQRES 9 B 478 PRO TRP ARG GLU GLY LYS GLY ASP LEU VAL ARG GLU VAL SEQRES 10 B 478 SER GLU SER ALA ARG ARG HIS GLY LEU LYS PHE GLY VAL SEQRES 11 B 478 TYR LEU SER PRO TRP ASP ARG THR GLU GLU SER TYR GLY SEQRES 12 B 478 LYS GLY LYS ALA TYR ASP ASP PHE TYR VAL GLY GLN LEU SEQRES 13 B 478 THR GLU LEU LEU THR GLN TYR GLY PRO ILE PHE SER VAL SEQRES 14 B 478 TRP LEU ALA GLY ALA ASN GLY GLU GLY LYS ASN GLY LYS SEQRES 15 B 478 THR GLN TYR TYR ASP TRP ASP ARG TYR TYR ASN VAL ILE SEQRES 16 B 478 ARG SER LEU GLN PRO ASP ALA VAL ILE SER VAL CYS GLY SEQRES 17 B 478 PRO ASP VAL ARG TRP ALA GLY ASN ALA ALA GLY HIS VAL SEQRES 18 B 478 ARG ASP ASN GLU TRP SER VAL VAL PRO ARG ARG LEU ARG SEQRES 19 B 478 SER ALA GLU LEU THR MET GLU LYS SER GLN GLN GLU ASP SEQRES 20 B 478 ASP ALA SER PHE ALA THR THR VAL SER SER GLN ASP ASP SEQRES 21 B 478 ASP LEU GLY SER ARG GLU ALA VAL ALA GLY TYR GLY ASP SEQRES 22 B 478 ASN VAL CYS TRP TYR PRO ALA GLU VAL ASP THR SER ILE SEQRES 23 B 478 ARG PRO GLY TRP PHE TYR HIS GLN SER GLU ASP ASP LYS SEQRES 24 B 478 VAL MET SER ALA ASP GLN LEU PHE ASP LEU TRP LEU SER SEQRES 25 B 478 ALA VAL GLY GLY ASN SER SER LEU LEU LEU ASN ILE PRO SEQRES 26 B 478 PRO SER PRO GLU GLY LEU LEU ALA GLU PRO ASP VAL GLN SEQRES 27 B 478 SER LEU LYS GLY LEU GLY ARG ARG VAL SER GLU PHE ARG SEQRES 28 B 478 GLU ALA LEU ALA SER VAL ARG CYS GLU ALA ARG THR SER SEQRES 29 B 478 SER ALA SER ALA ALA ALA ALA HIS LEU VAL ASP GLY ASN SEQRES 30 B 478 ARG ASP THR PHE TRP ARG PRO ASP ALA ASP ASP ALA ALA SEQRES 31 B 478 PRO ALA ILE THR LEU THR LEU PRO GLN PRO THR THR ILE SEQRES 32 B 478 ASN ALA ILE VAL ILE GLU GLU ALA ILE GLU HIS GLY GLN SEQRES 33 B 478 ARG ILE GLU HIS LEU ARG VAL THR GLY ALA LEU PRO ASP SEQRES 34 B 478 GLY THR GLU ARG VAL LEU GLY GLN ALA GLY THR VAL GLY SEQRES 35 B 478 TYR ARG ARG ILE LEU ARG PHE ASP ASP VAL GLU VAL SER SEQRES 36 B 478 SER VAL THR LEU HIS VAL ASP GLY SER ARG LEU ALA PRO SEQRES 37 B 478 MET ILE SER ARG ALA ALA ALA VAL ARG ILE HET NAG C 1 15 HET GAL C 2 11 HET FUC C 3 10 HET NAG D 1 15 HET GAL D 2 11 HET FUC D 3 10 HET NA A 501 1 HET EDO A 505 4 HET NA B 501 1 HET EDO B 505 4 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM NA SODIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NAG 2(C8 H15 N O6) FORMUL 3 GAL 2(C6 H12 O6) FORMUL 3 FUC 2(C6 H12 O5) FORMUL 5 NA 2(NA 1+) FORMUL 6 EDO 2(C2 H6 O2) FORMUL 9 HOH *463(H2 O) HELIX 1 1 ASN A 10 ALA A 15 1 6 HELIX 2 2 SER A 20 ARG A 28 1 9 HELIX 3 3 GLY A 38 ASP A 44 1 7 HELIX 4 4 ASP A 53 PHE A 57 5 5 HELIX 5 5 ASP A 63 GLY A 74 1 12 HELIX 6 6 THR A 100 SER A 104 5 5 HELIX 7 7 PRO A 105 LYS A 110 5 6 HELIX 8 8 ASP A 112 HIS A 124 1 13 HELIX 9 9 GLY A 145 TYR A 163 1 19 HELIX 10 10 ASP A 187 GLN A 199 1 13 HELIX 11 11 ARG A 232 ALA A 236 5 5 HELIX 12 12 SER A 264 ALA A 269 1 6 HELIX 13 13 GLY A 270 GLY A 272 5 3 HELIX 14 14 HIS A 293 VAL A 300 5 8 HELIX 15 15 SER A 302 GLY A 315 1 14 HELIX 16 16 ALA A 333 VAL A 357 1 25 HELIX 17 17 ALA A 366 VAL A 374 5 9 HELIX 18 18 ILE A 412 GLY A 415 5 4 HELIX 19 19 ASN B 10 ALA B 15 1 6 HELIX 20 20 SER B 20 GLU B 30 1 11 HELIX 21 21 GLY B 38 THR B 43 1 6 HELIX 22 22 ASP B 53 PHE B 57 5 5 HELIX 23 23 ASP B 63 GLY B 74 1 12 HELIX 24 24 THR B 100 SER B 104 5 5 HELIX 25 25 PRO B 105 LYS B 110 5 6 HELIX 26 26 ASP B 112 HIS B 124 1 13 HELIX 27 27 GLY B 145 GLN B 162 1 18 HELIX 28 28 ASP B 187 GLN B 199 1 13 HELIX 29 29 ARG B 232 ALA B 236 5 5 HELIX 30 30 SER B 264 ALA B 269 1 6 HELIX 31 31 GLY B 270 GLY B 272 5 3 HELIX 32 32 HIS B 293 LYS B 299 5 7 HELIX 33 33 SER B 302 GLY B 315 1 14 HELIX 34 34 ALA B 333 VAL B 357 1 25 HELIX 35 35 ALA B 366 VAL B 374 5 9 HELIX 36 36 ILE B 412 GLY B 415 5 4 SHEET 1 A 8 VAL A 203 VAL A 206 0 SHEET 2 A 8 SER A 168 LEU A 171 1 N VAL A 169 O SER A 205 SHEET 3 A 8 LYS A 127 LEU A 132 1 N VAL A 130 O TRP A 170 SHEET 4 A 8 GLY A 78 LYS A 84 1 N VAL A 79 O GLY A 129 SHEET 5 A 8 MET A 31 LEU A 35 1 N ALA A 33 O ILE A 80 SHEET 6 A 8 SER A 319 ASN A 323 1 O LEU A 322 N PHE A 34 SHEET 7 A 8 ALA A 280 SER A 285 1 N VAL A 282 O SER A 319 SHEET 8 A 8 ARG A 212 TRP A 213 1 N ARG A 212 O GLU A 281 SHEET 1 B 2 VAL A 228 PRO A 230 0 SHEET 2 B 2 VAL A 275 TRP A 277 -1 O CYS A 276 N VAL A 229 SHEET 1 C 5 GLU A 360 THR A 363 0 SHEET 2 C 5 ALA A 392 GLU A 410 -1 O THR A 394 N ARG A 362 SHEET 3 C 5 ARG A 445 SER A 464 -1 O VAL A 452 N ILE A 403 SHEET 4 C 5 ILE A 418 ALA A 426 -1 N ALA A 426 O SER A 455 SHEET 5 C 5 GLU A 432 ALA A 438 -1 O GLY A 436 N VAL A 423 SHEET 1 D 3 GLU A 360 THR A 363 0 SHEET 2 D 3 ALA A 392 GLU A 410 -1 O THR A 394 N ARG A 362 SHEET 3 D 3 ILE A 470 VAL A 476 -1 O ALA A 474 N VAL A 407 SHEET 1 E 8 VAL B 203 VAL B 206 0 SHEET 2 E 8 SER B 168 LEU B 171 1 N VAL B 169 O SER B 205 SHEET 3 E 8 LYS B 127 LEU B 132 1 N VAL B 130 O TRP B 170 SHEET 4 E 8 GLY B 78 LYS B 84 1 N LEU B 81 O TYR B 131 SHEET 5 E 8 MET B 31 LEU B 35 1 N LEU B 35 O ILE B 80 SHEET 6 E 8 SER B 319 ASN B 323 1 O LEU B 322 N PHE B 34 SHEET 7 E 8 ALA B 280 SER B 285 1 N VAL B 282 O SER B 319 SHEET 8 E 8 ARG B 212 TRP B 213 1 N ARG B 212 O GLU B 281 SHEET 1 F 2 VAL B 228 PRO B 230 0 SHEET 2 F 2 VAL B 275 TRP B 277 -1 O CYS B 276 N VAL B 229 SHEET 1 G 5 GLU B 360 THR B 363 0 SHEET 2 G 5 ALA B 392 GLU B 410 -1 O THR B 394 N ARG B 362 SHEET 3 G 5 ARG B 445 SER B 464 -1 O LEU B 459 N ILE B 393 SHEET 4 G 5 ILE B 418 ALA B 426 -1 N ALA B 426 O SER B 455 SHEET 5 G 5 GLU B 432 ALA B 438 -1 O ALA B 438 N LEU B 421 SHEET 1 H 3 GLU B 360 THR B 363 0 SHEET 2 H 3 ALA B 392 GLU B 410 -1 O THR B 394 N ARG B 362 SHEET 3 H 3 ILE B 470 VAL B 476 -1 O VAL B 476 N ALA B 405 LINK O3 NAG C 1 C1 GAL C 2 1555 1555 1.60 LINK O4 NAG C 1 C1 FUC C 3 1555 1555 1.60 LINK O3 NAG D 1 C1 GAL D 2 1555 1555 1.61 LINK O4 NAG D 1 C1 FUC D 3 1555 1555 1.78 LINK O HIS A 372 NA NA A 501 1555 1555 2.42 LINK OD1 ASP A 375 NA NA A 501 1555 1555 2.58 LINK O ASN A 377 NA NA A 501 1555 1555 2.22 LINK OG1 THR A 380 NA NA A 501 1555 1555 2.43 LINK O THR A 380 NA NA A 501 1555 1555 2.55 LINK O SER A 471 NA NA A 501 1555 1555 2.76 LINK O HIS B 372 NA NA B 501 1555 1555 2.20 LINK OD1 ASP B 375 NA NA B 501 1555 1555 2.76 LINK O ASN B 377 NA NA B 501 1555 1555 2.34 LINK O THR B 380 NA NA B 501 1555 1555 2.36 LINK OG1 THR B 380 NA NA B 501 1555 1555 2.63 LINK O SER B 471 NA NA B 501 1555 1555 2.65 CRYST1 82.588 105.971 120.715 90.00 90.00 90.00 P 21 21 21 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 0.012108 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009437 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008284 0.00000