HEADER HYDROLASE 17-JAN-15 4XPO TITLE CRYSTAL STRUCTURE OF A NOVEL ALPHA-GALACTOSIDASE FROM PEDOBACTER TITLE 2 SALTANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-GLUCOSIDASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.22; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PEDOBACTER SALTANS; SOURCE 3 ORGANISM_TAXID: 151895; SOURCE 4 STRAIN: NBRC 100064; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS HYDROLASE, TIM-BARREL, GH31 EXPDTA X-RAY DIFFRACTION AUTHOR T.MIYAZAKI,Y.ISHIZAKI,M.ICHIKAWA,A.NISHIKAWA,T.TONOZUKA REVDAT 4 20-MAR-24 4XPO 1 REMARK REVDAT 3 05-FEB-20 4XPO 1 JRNL REMARK REVDAT 2 09-SEP-15 4XPO 1 JRNL REVDAT 1 20-MAY-15 4XPO 0 JRNL AUTH T.MIYAZAKI,Y.ISHIZAKI,M.ICHIKAWA,A.NISHIKAWA,T.TONOZUKA JRNL TITL STRUCTURAL AND BIOCHEMICAL CHARACTERIZATION OF NOVEL JRNL TITL 2 BACTERIAL ALPHA-GALACTOSIDASES BELONGING TO GLYCOSIDE JRNL TITL 3 HYDROLASE FAMILY 31 JRNL REF BIOCHEM.J. V. 469 145 2015 JRNL REFN ESSN 1470-8728 JRNL PMID 25942325 JRNL DOI 10.1042/BJ20150261 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 37.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 40667 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) : 0.155 REMARK 3 R VALUE (WORKING SET) : 0.153 REMARK 3 FREE R VALUE : 0.187 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2164 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) : 2.16 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2954 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.90 REMARK 3 BIN R VALUE (WORKING SET) : 0.1920 REMARK 3 BIN FREE R VALUE SET COUNT : 150 REMARK 3 BIN FREE R VALUE : 0.2660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5335 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 415 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.03000 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): 0.188 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.151 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.100 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.773 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5515 ; 0.010 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 5115 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7463 ; 1.395 ; 1.957 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11811 ; 0.762 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 663 ; 6.419 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 256 ;33.730 ;23.594 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 902 ;12.936 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;13.912 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 749 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6227 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1310 ; 0.001 ; 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): 2659 ; 1.518 ; 2.487 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2657 ; 1.508 ; 2.486 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3319 ; 2.341 ; 3.719 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3320 ; 2.341 ; 3.719 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2856 ; 2.002 ; 2.709 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2856 ; 2.002 ; 2.709 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4145 ; 3.223 ; 3.948 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6701 ; 4.770 ;20.656 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6553 ; 4.631 ;20.415 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 4XPO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000206079. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 - 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A 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 : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42956 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.90 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 38.4000 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) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.70 REMARK 200 R MERGE FOR SHELL (I) : 0.42300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 6.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG MME 2000, 100 MM TRIS-HCL, PH REMARK 280 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 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 57.09300 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 55.93450 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.93450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 85.63950 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.93450 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.93450 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 28.54650 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.93450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.93450 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 85.63950 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.93450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.93450 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 28.54650 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 57.09300 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: 7270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 45480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 20.0 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 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 57.09300 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 0 REMARK 465 GLY A 1 REMARK 465 SER A 2 REMARK 465 SER A 3 REMARK 465 HIS A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 SER A 10 REMARK 465 SER A 11 REMARK 465 GLY A 12 REMARK 465 LEU A 13 REMARK 465 VAL A 14 REMARK 465 PRO A 15 REMARK 465 ARG A 16 REMARK 465 GLY A 17 REMARK 465 SER A 18 REMARK 465 HIS A 19 REMARK 465 MET A 20 REMARK 465 ALA A 21 REMARK 465 SER A 22 REMARK 465 SER A 23 REMARK 465 HIS A 24 REMARK 465 ALA A 25 REMARK 465 GLN A 26 REMARK 465 THR A 27 REMARK 465 ALA A 28 REMARK 465 GLU A 538 REMARK 465 GLY A 539 REMARK 465 PHE A 540 REMARK 465 ARG A 541 REMARK 465 GLN A 542 REMARK 465 ASP A 543 REMARK 465 ALA A 544 REMARK 465 LYS A 545 REMARK 465 VAL A 546 REMARK 465 GLU A 547 REMARK 465 LYS A 548 REMARK 465 LEU A 549 REMARK 465 ASN A 550 REMARK 465 LYS A 551 REMARK 465 VAL A 552 REMARK 465 ASN A 553 REMARK 465 LEU A 554 REMARK 465 GLU A 555 REMARK 465 GLU A 556 REMARK 465 ASN A 557 REMARK 465 PRO A 558 REMARK 465 TYR A 559 REMARK 465 ALA A 560 REMARK 465 GLU A 561 REMARK 465 ALA A 562 REMARK 465 ALA A 563 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 PRO A 308 34.36 -92.73 REMARK 500 GLN A 354 -55.65 -126.46 REMARK 500 TYR A 436 -1.37 -150.50 REMARK 500 PHE A 477 57.80 -101.50 REMARK 500 ALA A 485 31.39 -99.56 REMARK 500 ASP A 667 -166.53 -163.07 REMARK 500 GLU A 670 -15.53 -152.14 REMARK 500 ASP A 689 -169.59 -79.43 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 ILE A 306 ASN A 307 146.52 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRS A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1005 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4XPP RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH D-GALACTOSE REMARK 900 RELATED ID: 4XPQ RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH L-FUCOSE REMARK 900 RELATED ID: 4XPR RELATED DB: PDB REMARK 900 THE MUTANT D365A REMARK 900 RELATED ID: 4XPS RELATED DB: PDB REMARK 900 THE MUTANT D365A COMPLEXED WITH P-NITROPHENYL-ALPHA-D- REMARK 900 GALACTOPYRANOSIDE REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE IS BASED ON GENBANK BAR72452.1. N-TERMINAL RESIDUES REMARK 999 MGSSHHHHHHSSGLVPRGSHMA REPRESENT EXPRESSION TAGS. DBREF 4XPO A 0 719 PDB 4XPO 4XPO 0 719 SEQRES 1 A 720 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 720 LEU VAL PRO ARG GLY SER HIS MET ALA SER SER HIS ALA SEQRES 3 A 720 GLN THR ALA ASN TRP THR GLU ILE TYR PRO GLY VAL TRP SEQRES 4 A 720 LYS ALA THR VAL GLY LYS PRO GLU SER TYR ASP LEU LEU SEQRES 5 A 720 LYS ALA ALA GLY ALA GLN PRO ASN LYS ASP ALA LEU SER SEQRES 6 A 720 LYS THR GLU LYS VAL SER PHE PRO PHE ALA ASN GLY GLY SEQRES 7 A 720 VAL SER LEU GLU VAL SER GLY GLY LYS THR TYR LEU ARG SEQRES 8 A 720 PHE PRO LEU GLN LYS GLU GLU GLN LEU TYR GLY PHE GLY SEQRES 9 A 720 LEU ASN PHE GLN THR VAL HIS GLN ARG GLY LYS ILE LEU SEQRES 10 A 720 GLU LEU HIS VAL ASP HIS TYR GLY GLY LYS ASP SER GLY SEQRES 11 A 720 ARG THR HIS ALA PRO THR PRO PHE TYR VAL SER SER ASN SEQRES 12 A 720 GLY TYR GLY VAL PHE ILE ASN SER ALA ARG TYR ILE LYS SEQRES 13 A 720 VAL TRP ALA GLY THR GLY VAL ARG LYS ASP SER GLU ASN SEQRES 14 A 720 PHE PRO THR PRO LYS ASP ARG ASN THR ASP LYS THR TRP SEQRES 15 A 720 SER SER ARG PRO TYR SER ASP ALA VAL GLU ILE LEU VAL SEQRES 16 A 720 PRO ALA GLU GLY VAL GLU VAL TYR VAL PHE GLY GLY PRO SEQRES 17 A 720 LYS PRO ILE ASP ALA VAL LYS ARG TYR ASN LEU LEU ASN SEQRES 18 A 720 GLY GLY GLY TYR LEU PRO PRO ARG TRP GLY LEU GLY PHE SEQRES 19 A 720 THR GLN ARG VAL MET THR ARG TYR THR ASP LYS ASP VAL SEQRES 20 A 720 GLU LYS GLU VAL ASN ASP PHE LYS GLU LYS GLY TYR PRO SEQRES 21 A 720 LEU ASP PHE VAL GLY LEU GLU PRO GLY TRP GLN SER LYS SEQRES 22 A 720 ALA TYR PRO GLY THR PHE SER TRP ASP LYS SER ARG TYR SEQRES 23 A 720 PRO ASP PRO THR SER PHE VAL LYS LYS MET LYS ASP GLN SEQRES 24 A 720 GLY ILE ARG LEU ASN LEU TRP ILE ASN PRO TYR ILE SER SEQRES 25 A 720 PRO ASP ALA PRO PHE TYR LYS GLU ILE LYS PRO TYR THR SEQRES 26 A 720 GLY SER HIS THR VAL TRP LEU GLY LEU VAL PRO ASP PHE SEQRES 27 A 720 THR MET ALA GLU ALA ARG LYS PRO PHE PHE ASN GLN LEU SEQRES 28 A 720 LEU LYS ASP GLN ILE GLU ARG GLY VAL SER GLY TYR LYS SEQRES 29 A 720 ILE ASP GLU VAL ASP GLY TYR ASP TYR TYR LEU TRP PRO SEQRES 30 A 720 ASP ALA ALA LYS PHE PRO SER GLY LEU SER ALA GLU GLN SEQRES 31 A 720 MET ARG GLN THR TYR GLY LEU LEU VAL GLN ARG TYR SER SEQRES 32 A 720 ALA GLU LEU TYR LYS GLN ARG ASN GLU ARG THR PHE GLY SEQRES 33 A 720 LEU VAL ARG ALA SER ASN GLY GLY GLY THR SER PHE PRO SEQRES 34 A 720 TYR VAL ILE TYR ASN ASP TYR TYR ASN HIS GLN ASP PHE SEQRES 35 A 720 ILE THR ALA LEU ILE ASN SER GLY PHE ALA GLY VAL LEU SEQRES 36 A 720 TRP THR PRO GLU VAL ARG ALA SER LYS SER GLY GLU GLU SEQRES 37 A 720 TRP LEU ARG ARG PHE GLN SER ASN VAL PHE SER PRO MET SEQRES 38 A 720 ALA MET ILE ASN ALA TRP ALA SER GLY THR LYS PRO TRP SEQRES 39 A 720 SER TYR PRO GLU VAL GLU ALA ASP VAL LYS LYS PHE ALA SEQRES 40 A 720 LEU LEU ARG MET GLN MET MET PRO TYR TRP TYR SER ALA SEQRES 41 A 720 PHE ALA ARG TYR HIS PHE GLU GLY MET PRO PRO PHE ARG SEQRES 42 A 720 GLY MET GLY LEU GLU GLU GLY PHE ARG GLN ASP ALA LYS SEQRES 43 A 720 VAL GLU LYS LEU ASN LYS VAL ASN LEU GLU GLU ASN PRO SEQRES 44 A 720 TYR ALA GLU ALA ALA SER LYS GLU ILE LYS ASP GLN TYR SEQRES 45 A 720 MET ALA GLY ASP ASP LEU LEU VAL ALA PRO MET PHE ALA SEQRES 46 A 720 GLY GLU LYS SER ARG LYS VAL VAL LEU PRO LYS GLY LYS SEQRES 47 A 720 TRP TYR ASP PHE TYR THR GLY GLU TYR ALA GLY ASP GLY SEQRES 48 A 720 GLU VAL LEU ASP VAL THR PRO GLY LEU ASP LYS ILE PRO SEQRES 49 A 720 VAL TYR VAL ARG ASP GLY GLY ILE VAL PRO MET MET PRO SEQRES 50 A 720 ALA LEU LEU ASN SER PRO LYS SER ASN GLN LYS VAL ASP SEQRES 51 A 720 LEU GLU ILE ARG TYR TYR GLY ASN LYS PRO GLY GLU PHE SEQRES 52 A 720 LYS LEU TYR ASP ASP ASP GLY GLU THR PHE ASN TYR GLU SEQRES 53 A 720 LYS GLY ASP PHE SER TRP ARG THR ILE ARG VAL GLU LYS SEQRES 54 A 720 ASP LYS SER GLY LYS VAL LYS GLY SER ILE SER ALA ALA SEQRES 55 A 720 VAL LYS GLY LYS VAL ASN THR VAL GLY LYS VAL THR PHE SEQRES 56 A 720 THR ALA MET THR LYS HET TRS A1001 8 HET EDO A1002 4 HET EDO A1003 4 HET EDO A1004 4 HET EDO A1005 4 HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM EDO 1,2-ETHANEDIOL HETSYN TRS TRIS BUFFER HETSYN EDO ETHYLENE GLYCOL FORMUL 2 TRS C4 H12 N O3 1+ FORMUL 3 EDO 4(C2 H6 O2) FORMUL 7 HOH *415(H2 O) HELIX 1 AA1 ASP A 49 GLY A 55 1 7 HELIX 2 AA2 ASN A 59 LYS A 65 1 7 HELIX 3 AA3 LYS A 208 ASN A 220 1 13 HELIX 4 AA4 PRO A 227 LEU A 231 5 5 HELIX 5 AA5 THR A 242 GLY A 257 1 16 HELIX 6 AA6 GLU A 266 GLN A 270 5 5 HELIX 7 AA7 ASP A 287 GLN A 298 1 12 HELIX 8 AA8 PHE A 316 LYS A 321 1 6 HELIX 9 AA9 PRO A 322 THR A 324 5 3 HELIX 10 AB1 MET A 339 GLN A 354 1 16 HELIX 11 AB2 ILE A 355 GLY A 358 5 4 HELIX 12 AB3 SER A 386 ARG A 409 1 24 HELIX 13 AB4 ASN A 437 GLY A 449 1 13 HELIX 14 AB5 SER A 464 PHE A 477 1 14 HELIX 15 AB6 TYR A 495 GLU A 497 5 3 HELIX 16 AB7 VAL A 498 MET A 512 1 15 HELIX 17 AB8 MET A 512 GLY A 527 1 16 HELIX 18 AB9 PHE A 672 GLY A 677 5 6 SHEET 1 AA1 6 THR A 31 TYR A 34 0 SHEET 2 AA1 6 VAL A 37 GLY A 43 -1 O LYS A 39 N THR A 31 SHEET 3 AA1 6 GLY A 198 PHE A 204 -1 O VAL A 199 N VAL A 42 SHEET 4 AA1 6 TYR A 144 ASN A 149 -1 N PHE A 147 O TYR A 202 SHEET 5 AA1 6 PHE A 137 SER A 140 -1 N SER A 140 O TYR A 144 SHEET 6 AA1 6 LEU A 99 GLY A 101 -1 N TYR A 100 O VAL A 139 SHEET 1 AA2 6 SER A 79 SER A 83 0 SHEET 2 AA2 6 LYS A 86 PRO A 92 -1 O TYR A 88 N GLU A 81 SHEET 3 AA2 6 ALA A 189 VAL A 194 -1 O ILE A 192 N LEU A 89 SHEET 4 AA2 6 ILE A 154 ALA A 158 -1 N TRP A 157 O GLU A 191 SHEET 5 AA2 6 LYS A 114 VAL A 120 -1 N LEU A 116 O VAL A 156 SHEET 6 AA2 6 ARG A 130 THR A 131 1 O THR A 131 N HIS A 119 SHEET 1 AA3 8 LEU A 454 TRP A 455 0 SHEET 2 AA3 8 TYR A 429 ILE A 431 1 N ILE A 431 O LEU A 454 SHEET 3 AA3 8 GLY A 415 VAL A 417 1 N VAL A 417 O VAL A 430 SHEET 4 AA3 8 GLY A 361 ILE A 364 1 N ILE A 364 O LEU A 416 SHEET 5 AA3 8 ARG A 301 ILE A 306 1 N LEU A 304 O LYS A 363 SHEET 6 AA3 8 PHE A 262 LEU A 265 1 N VAL A 263 O ARG A 301 SHEET 7 AA3 8 PHE A 233 ARG A 236 1 N GLN A 235 O GLY A 264 SHEET 8 AA3 8 ALA A 481 ASN A 484 1 O ILE A 483 N ARG A 236 SHEET 1 AA4 6 PHE A 531 ARG A 532 0 SHEET 2 AA4 6 TYR A 571 ALA A 573 -1 O MET A 572 N ARG A 532 SHEET 3 AA4 6 LEU A 577 VAL A 579 -1 O VAL A 579 N TYR A 571 SHEET 4 AA4 6 VAL A 624 ARG A 627 -1 O TYR A 625 N LEU A 578 SHEET 5 AA4 6 LYS A 597 ASP A 600 -1 N TYR A 599 O VAL A 626 SHEET 6 AA4 6 TYR A 606 ASP A 609 -1 O ALA A 607 N TRP A 598 SHEET 1 AA5 2 ARG A 589 VAL A 592 0 SHEET 2 AA5 2 VAL A 612 VAL A 615 -1 O VAL A 615 N ARG A 589 SHEET 1 AA6 3 ILE A 631 MET A 634 0 SHEET 2 AA6 3 VAL A 648 TYR A 654 -1 O GLU A 651 N MET A 634 SHEET 3 AA6 3 VAL A 709 ALA A 716 1 O THR A 713 N ILE A 652 SHEET 1 AA7 3 GLY A 660 ASP A 666 0 SHEET 2 AA7 3 SER A 680 LYS A 688 -1 O ILE A 684 N PHE A 662 SHEET 3 AA7 3 VAL A 694 ILE A 698 -1 O LYS A 695 N GLU A 687 CISPEP 1 GLY A 206 PRO A 207 0 8.38 CISPEP 2 TYR A 274 PRO A 275 0 5.88 CISPEP 3 GLY A 369 TYR A 370 0 4.32 SITE 1 AC1 11 GLU A 266 TRP A 305 LYS A 363 ASP A 365 SITE 2 AC1 11 GLU A 366 ASP A 434 ASN A 484 TRP A 486 SITE 3 AC1 11 HOH A1116 HOH A1249 HOH A1377 SITE 1 AC2 6 TYR A 100 PHE A 450 GLY A 533 MET A 534 SITE 2 AC2 6 ILE A 567 HOH A1202 SITE 1 AC3 6 TYR A 515 ALA A 519 ARG A 522 ASP A 575 SITE 2 AC3 6 ASP A 576 HOH A1122 SITE 1 AC4 5 HIS A 122 TYR A 373 ARG A 418 ASP A 434 SITE 2 AC4 5 HOH A1258 SITE 1 AC5 5 PHE A 601 ARG A 653 TYR A 655 HOH A1277 SITE 2 AC5 5 HOH A1432 CRYST1 111.869 111.869 114.186 90.00 90.00 90.00 P 43 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 0.008939 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008939 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008758 0.00000