HEADER TRANSFERASE 02-NOV-15 5B0Q TITLE BETA-1,2-MANNOBIOSE PHOSPHORYLASE FROM LISTERIA INNOCUA - MANNOSE TITLE 2 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: LIN0857 PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BETA-1,2-MANNOBIOSE PHOSPHORYLASE; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LISTERIA INNOCUA CLIP11262; SOURCE 3 ORGANISM_TAXID: 272626; SOURCE 4 STRAIN: CLIP 11262; SOURCE 5 GENE: LIN0857; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 CODONPLUS (DE3)-RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET24A (+) KEYWDS GLYCOSIDE PHOSPHORYLASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR T.TSUDA,T.ARAKAWA,S.FUSHINOBU REVDAT 5 08-NOV-23 5B0Q 1 HETSYN REVDAT 4 29-JUL-20 5B0Q 1 COMPND REMARK HETNAM SITE REVDAT 3 26-FEB-20 5B0Q 1 JRNL REMARK REVDAT 2 23-DEC-15 5B0Q 1 JRNL REVDAT 1 02-DEC-15 5B0Q 0 JRNL AUTH T.TSUDA,T.NIHIRA,K.CHIKU,E.SUZUKI,T.ARAKAWA,M.NISHIMOTO, JRNL AUTH 2 M.KITAOKA,H.NAKAI,S.FUSHINOBU JRNL TITL CHARACTERIZATION AND CRYSTAL STRUCTURE DETERMINATION OF JRNL TITL 2 BETA-1,2-MANNOBIOSE PHOSPHORYLASE FROM LISTERIA INNOCUA JRNL REF FEBS LETT. V. 589 3816 2015 JRNL REFN ISSN 0014-5793 JRNL PMID 26632508 JRNL DOI 10.1016/J.FEBSLET.2015.11.034 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0107 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.86 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 55135 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2942 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3876 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.70 REMARK 3 BIN R VALUE (WORKING SET) : 0.2220 REMARK 3 BIN FREE R VALUE SET COUNT : 217 REMARK 3 BIN FREE R VALUE : 0.2790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5625 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 56 REMARK 3 SOLVENT ATOMS : 346 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.56 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.05000 REMARK 3 B22 (A**2) : 0.05000 REMARK 3 B33 (A**2) : -0.16000 REMARK 3 B12 (A**2) : 0.02000 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): 0.177 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.168 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.122 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.152 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5813 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5396 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7885 ; 1.919 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12460 ; 1.142 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 705 ; 7.708 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 288 ;34.104 ;24.514 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 954 ;15.664 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;17.207 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 857 ; 0.150 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6561 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1317 ; 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): 2826 ; 3.409 ; 3.694 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2825 ; 3.405 ; 3.694 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3529 ; 4.466 ; 5.532 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3530 ; 4.467 ; 5.533 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2987 ; 4.288 ; 4.143 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2987 ; 4.287 ; 4.143 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4357 ; 6.269 ; 6.034 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6361 ; 7.511 ;29.506 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6361 ; 7.511 ;29.506 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 5B0Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-NOV-15. REMARK 100 THE DEPOSITION ID IS D_1300000322. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.6 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-17A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9800 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 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58114 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 8.700 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 8.50 REMARK 200 R MERGE FOR SHELL (I) : 0.58100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 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: 1VKD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.8 M (NH4)2SO4, 10 MM COCL2, 0.1 M REMARK 280 MES-NAOH, PH 6.6, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 35.28033 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 70.56067 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 70.56067 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 35.28033 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: 5050 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27050 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -71.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 ALA A 354 REMARK 465 LYS A 355 REMARK 465 LEU A 356 REMARK 465 GLU A 357 REMARK 465 HIS A 358 REMARK 465 HIS A 359 REMARK 465 HIS A 360 REMARK 465 HIS A 361 REMARK 465 HIS A 362 REMARK 465 HIS A 363 REMARK 465 LYS B 355 REMARK 465 LEU B 356 REMARK 465 GLU B 357 REMARK 465 HIS B 358 REMARK 465 HIS B 359 REMARK 465 HIS B 360 REMARK 465 HIS B 361 REMARK 465 HIS B 362 REMARK 465 HIS B 363 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 TYR A 64 CE1 TYR A 64 CZ 0.084 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 113 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 226 NE - CZ - NH2 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG A 232 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 246 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ASP A 333 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP A 333 CB - CG - OD2 ANGL. DEV. = -6.1 DEGREES REMARK 500 VAL B 41 CG1 - CB - CG2 ANGL. DEV. = 12.3 DEGREES REMARK 500 ASP B 55 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG B 113 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 LEU B 122 CB - CG - CD2 ANGL. DEV. = 12.3 DEGREES REMARK 500 ASP B 141 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP B 230 CB - CG - OD1 ANGL. DEV. = 6.8 DEGREES REMARK 500 ASP B 230 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ARG B 246 NE - CZ - NH2 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG B 272 NE - CZ - NH2 ANGL. DEV. = 3.6 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 LYS A 96 53.71 -159.75 REMARK 500 PRO A 130 119.26 -34.02 REMARK 500 GLU A 174 -49.81 -132.94 REMARK 500 LYS A 188 -171.54 -170.85 REMARK 500 ARG A 206 76.93 -150.73 REMARK 500 LEU A 234 -61.88 -132.02 REMARK 500 ASP A 333 29.43 46.62 REMARK 500 PRO B 130 122.77 -37.18 REMARK 500 ARG B 206 77.98 -162.04 REMARK 500 LEU B 234 -62.69 -120.05 REMARK 500 VAL B 300 -32.41 -137.48 REMARK 500 ASP B 333 18.22 55.95 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 ASN B 306 GLY B 307 148.25 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5B0P RELATED DB: PDB REMARK 900 RELATED ID: 5B0R RELATED DB: PDB REMARK 900 RELATED ID: 5B0S RELATED DB: PDB DBREF 5B0Q A 1 355 UNP Q92DF6 Q92DF6_LISIN 1 355 DBREF 5B0Q B 1 355 UNP Q92DF6 Q92DF6_LISIN 1 355 SEQADV 5B0Q LEU A 356 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q GLU A 357 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS A 358 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS A 359 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS A 360 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS A 361 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS A 362 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS A 363 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q LEU B 356 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q GLU B 357 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS B 358 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS B 359 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS B 360 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS B 361 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS B 362 UNP Q92DF6 EXPRESSION TAG SEQADV 5B0Q HIS B 363 UNP Q92DF6 EXPRESSION TAG SEQRES 1 A 363 MET ASN ILE TYR ARG TYR GLU GLU ASN PRO LEU ILE THR SEQRES 2 A 363 PRO LEU ASP VAL LYS PRO ILE HIS GLU GLY PHE GLU VAL SEQRES 3 A 363 ILE GLY ALA PHE ASN GLY GLY VAL ALA GLU TYR ASN GLY SEQRES 4 A 363 GLU VAL LEU LEU LEU LEU ARG VAL ALA GLU LYS PRO VAL SEQRES 5 A 363 SER GLU ASP PRO GLU ILE VAL LEU ALA PRO VAL TYR ASN SEQRES 6 A 363 ALA LYS ASN LYS GLU LEU GLU LEU GLN SER PHE ARG LEU SEQRES 7 A 363 ASP ASP GLU ASN TYR ASP PHE GLU ASP PRO ARG MET ILE SEQRES 8 A 363 ARG SER LYS ALA LYS LEU GLU GLY PHE SER TYR LEU THR SEQRES 9 A 363 SER LEU SER TYR ILE ARG ILE ALA ARG SER LYS ASP GLY SEQRES 10 A 363 HIS HIS PHE THR LEU ASP GLU LYS PRO PHE LEU TYR PRO SEQRES 11 A 363 PHE ASN GLU TYR GLN THR PHE GLY ILE GLU ASP ALA ARG SEQRES 12 A 363 VAL THR GLN ILE GLY ASP THR TYR HIS VAL ASN PHE SER SEQRES 13 A 363 ALA VAL SER GLU PHE GLY VAL ALA ASP ALA LEU VAL THR SEQRES 14 A 363 THR LYS ASP PHE GLU ASN LEU GLU TYR GLN GLY ASN ILE SEQRES 15 A 363 PHE ALA PRO GLU ASN LYS ASP VAL LEU ILE PHE PRO GLU SEQRES 16 A 363 LYS ILE ASN GLY LYS TYR TYR ALA LEU HIS ARG PRO SER SEQRES 17 A 363 LEU LYS SER ILE GLY ASN LEU ASP ILE TRP ILE ALA SER SEQRES 18 A 363 SER PRO ASP LEU ARG SER PHE GLY ASP HIS ARG HIS LEU SEQRES 19 A 363 LEU GLY ILE ARG PRO GLY GLU TYR ASP SER GLY ARG VAL SEQRES 20 A 363 GLY GLY GLY CYS VAL PRO ILE LYS THR GLU GLU GLY TRP SEQRES 21 A 363 LEU ILE LEU TYR HIS GLY ALA THR GLU GLU ASN ARG TYR SEQRES 22 A 363 VAL MET GLY ALA ALA LEU LEU ASP LEU ASN ASP PRO THR SEQRES 23 A 363 ILE VAL LEU LYS ARG THR LYS THR PRO ILE LEU GLU PRO SEQRES 24 A 363 VAL ALA ASP TYR GLU LYS ASN GLY PHE PHE GLY ASP VAL SEQRES 25 A 363 VAL PHE ALA CYS GLY ALA ILE GLN GLU GLY ASP THR LEU SEQRES 26 A 363 HIS MET TYR TYR GLY VAL ALA ASP THR SER MET ALA GLY SEQRES 27 A 363 CYS ASP MET LYS ILE SER GLU ILE LEU HIS GLN LEU GLU SEQRES 28 A 363 VAL GLU ALA LYS LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 363 MET ASN ILE TYR ARG TYR GLU GLU ASN PRO LEU ILE THR SEQRES 2 B 363 PRO LEU ASP VAL LYS PRO ILE HIS GLU GLY PHE GLU VAL SEQRES 3 B 363 ILE GLY ALA PHE ASN GLY GLY VAL ALA GLU TYR ASN GLY SEQRES 4 B 363 GLU VAL LEU LEU LEU LEU ARG VAL ALA GLU LYS PRO VAL SEQRES 5 B 363 SER GLU ASP PRO GLU ILE VAL LEU ALA PRO VAL TYR ASN SEQRES 6 B 363 ALA LYS ASN LYS GLU LEU GLU LEU GLN SER PHE ARG LEU SEQRES 7 B 363 ASP ASP GLU ASN TYR ASP PHE GLU ASP PRO ARG MET ILE SEQRES 8 B 363 ARG SER LYS ALA LYS LEU GLU GLY PHE SER TYR LEU THR SEQRES 9 B 363 SER LEU SER TYR ILE ARG ILE ALA ARG SER LYS ASP GLY SEQRES 10 B 363 HIS HIS PHE THR LEU ASP GLU LYS PRO PHE LEU TYR PRO SEQRES 11 B 363 PHE ASN GLU TYR GLN THR PHE GLY ILE GLU ASP ALA ARG SEQRES 12 B 363 VAL THR GLN ILE GLY ASP THR TYR HIS VAL ASN PHE SER SEQRES 13 B 363 ALA VAL SER GLU PHE GLY VAL ALA ASP ALA LEU VAL THR SEQRES 14 B 363 THR LYS ASP PHE GLU ASN LEU GLU TYR GLN GLY ASN ILE SEQRES 15 B 363 PHE ALA PRO GLU ASN LYS ASP VAL LEU ILE PHE PRO GLU SEQRES 16 B 363 LYS ILE ASN GLY LYS TYR TYR ALA LEU HIS ARG PRO SER SEQRES 17 B 363 LEU LYS SER ILE GLY ASN LEU ASP ILE TRP ILE ALA SER SEQRES 18 B 363 SER PRO ASP LEU ARG SER PHE GLY ASP HIS ARG HIS LEU SEQRES 19 B 363 LEU GLY ILE ARG PRO GLY GLU TYR ASP SER GLY ARG VAL SEQRES 20 B 363 GLY GLY GLY CYS VAL PRO ILE LYS THR GLU GLU GLY TRP SEQRES 21 B 363 LEU ILE LEU TYR HIS GLY ALA THR GLU GLU ASN ARG TYR SEQRES 22 B 363 VAL MET GLY ALA ALA LEU LEU ASP LEU ASN ASP PRO THR SEQRES 23 B 363 ILE VAL LEU LYS ARG THR LYS THR PRO ILE LEU GLU PRO SEQRES 24 B 363 VAL ALA ASP TYR GLU LYS ASN GLY PHE PHE GLY ASP VAL SEQRES 25 B 363 VAL PHE ALA CYS GLY ALA ILE GLN GLU GLY ASP THR LEU SEQRES 26 B 363 HIS MET TYR TYR GLY VAL ALA ASP THR SER MET ALA GLY SEQRES 27 B 363 CYS ASP MET LYS ILE SER GLU ILE LEU HIS GLN LEU GLU SEQRES 28 B 363 VAL GLU ALA LYS LEU GLU HIS HIS HIS HIS HIS HIS HET MAN A 401 12 HET SO4 A 402 5 HET SO4 A 403 5 HET MAN B 401 12 HET SO4 B 402 5 HET SO4 B 403 5 HET MES B 404 12 HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM SO4 SULFATE ION HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 3 MAN 2(C6 H12 O6) FORMUL 4 SO4 4(O4 S 2-) FORMUL 9 MES C6 H13 N O4 S FORMUL 10 HOH *346(H2 O) HELIX 1 AA1 THR A 13 VAL A 17 5 5 HELIX 2 AA2 ALA A 95 LEU A 97 5 3 HELIX 3 AA3 ALA A 301 ASN A 306 1 6 HELIX 4 AA4 ILE A 343 GLU A 353 1 11 HELIX 5 AA5 THR B 13 VAL B 17 5 5 HELIX 6 AA6 ALA B 301 LYS B 305 5 5 HELIX 7 AA7 ILE B 343 ALA B 354 1 12 SHEET 1 AA1 4 TYR A 4 ARG A 5 0 SHEET 2 AA1 4 SER A 335 LYS A 342 -1 O ASP A 340 N TYR A 4 SHEET 3 AA1 4 THR A 324 VAL A 331 -1 N LEU A 325 O MET A 341 SHEET 4 AA1 4 VAL A 313 GLU A 321 -1 N ILE A 319 O HIS A 326 SHEET 1 AA2 4 PHE A 24 TYR A 37 0 SHEET 2 AA2 4 GLU A 40 PRO A 51 -1 O LEU A 42 N ALA A 35 SHEET 3 AA2 4 LEU A 106 SER A 114 -1 O TYR A 108 N VAL A 47 SHEET 4 AA2 4 THR A 121 LEU A 122 -1 O THR A 121 N ARG A 113 SHEET 1 AA3 2 ILE A 58 ASN A 65 0 SHEET 2 AA3 2 GLU A 70 ARG A 77 -1 O GLU A 72 N VAL A 63 SHEET 1 AA4 3 TYR A 83 ASP A 84 0 SHEET 2 AA4 3 MET A 90 SER A 93 -1 O ARG A 92 N ASP A 84 SHEET 3 AA4 3 TYR A 102 LEU A 103 -1 O TYR A 102 N ILE A 91 SHEET 1 AA5 4 GLY A 138 ILE A 147 0 SHEET 2 AA5 4 THR A 150 SER A 159 -1 O ASN A 154 N ARG A 143 SHEET 3 AA5 4 GLY A 162 THR A 170 -1 O THR A 170 N TYR A 151 SHEET 4 AA5 4 LEU A 176 PHE A 183 -1 O GLN A 179 N LEU A 167 SHEET 1 AA6 8 LEU A 191 ILE A 192 0 SHEET 2 AA6 8 TYR A 201 HIS A 205 -1 O LEU A 204 N LEU A 191 SHEET 3 AA6 8 ILE A 217 SER A 222 -1 O SER A 222 N TYR A 201 SHEET 4 AA6 8 SER A 227 LEU A 235 -1 O GLY A 229 N SER A 221 SHEET 5 AA6 8 SER B 227 LEU B 235 -1 O PHE B 228 N PHE A 228 SHEET 6 AA6 8 ILE B 217 SER B 222 -1 N SER B 221 O GLY B 229 SHEET 7 AA6 8 TYR B 201 HIS B 205 -1 N HIS B 205 O TRP B 218 SHEET 8 AA6 8 LEU B 191 ILE B 192 -1 N LEU B 191 O LEU B 204 SHEET 1 AA7 3 ARG A 246 GLY A 249 0 SHEET 2 AA7 3 GLY A 259 ALA A 267 -1 O HIS A 265 N GLY A 248 SHEET 3 AA7 3 ILE A 254 THR A 256 -1 N ILE A 254 O LEU A 261 SHEET 1 AA8 4 ARG A 246 GLY A 249 0 SHEET 2 AA8 4 GLY A 259 ALA A 267 -1 O HIS A 265 N GLY A 248 SHEET 3 AA8 4 TYR A 273 LEU A 280 -1 O ALA A 278 N ILE A 262 SHEET 4 AA8 4 VAL A 288 ARG A 291 -1 O LEU A 289 N LEU A 279 SHEET 1 AA9 4 TYR B 4 ARG B 5 0 SHEET 2 AA9 4 SER B 335 LYS B 342 -1 O ASP B 340 N TYR B 4 SHEET 3 AA9 4 THR B 324 VAL B 331 -1 N TYR B 329 O ALA B 337 SHEET 4 AA9 4 VAL B 313 GLU B 321 -1 N ILE B 319 O HIS B 326 SHEET 1 AB1 4 PHE B 24 TYR B 37 0 SHEET 2 AB1 4 GLU B 40 PRO B 51 -1 O LEU B 42 N ALA B 35 SHEET 3 AB1 4 LEU B 106 SER B 114 -1 O ALA B 112 N LEU B 43 SHEET 4 AB1 4 THR B 121 LEU B 122 -1 O THR B 121 N ARG B 113 SHEET 1 AB2 2 ILE B 58 ASN B 65 0 SHEET 2 AB2 2 GLU B 70 ARG B 77 -1 O PHE B 76 N VAL B 59 SHEET 1 AB3 3 TYR B 83 ASP B 84 0 SHEET 2 AB3 3 MET B 90 SER B 93 -1 O ARG B 92 N ASP B 84 SHEET 3 AB3 3 TYR B 102 LEU B 103 -1 O TYR B 102 N ILE B 91 SHEET 1 AB4 4 GLY B 138 ILE B 147 0 SHEET 2 AB4 4 THR B 150 SER B 159 -1 O THR B 150 N ILE B 147 SHEET 3 AB4 4 GLY B 162 THR B 170 -1 O THR B 170 N TYR B 151 SHEET 4 AB4 4 LEU B 176 PHE B 183 -1 O GLN B 179 N LEU B 167 SHEET 1 AB5 3 ARG B 246 GLY B 249 0 SHEET 2 AB5 3 GLY B 259 ALA B 267 -1 O HIS B 265 N GLY B 248 SHEET 3 AB5 3 ILE B 254 THR B 256 -1 N ILE B 254 O LEU B 261 SHEET 1 AB6 4 ARG B 246 GLY B 249 0 SHEET 2 AB6 4 GLY B 259 ALA B 267 -1 O HIS B 265 N GLY B 248 SHEET 3 AB6 4 TYR B 273 LEU B 280 -1 O ALA B 278 N ILE B 262 SHEET 4 AB6 4 VAL B 288 ARG B 291 -1 O LYS B 290 N LEU B 279 CISPEP 1 ASN A 9 PRO A 10 0 -6.57 CISPEP 2 PRO A 185 GLU A 186 0 -2.47 CISPEP 3 ASN B 9 PRO B 10 0 -1.34 CISPEP 4 PRO B 185 GLU B 186 0 -1.12 CRYST1 146.212 146.212 105.841 90.00 90.00 120.00 P 31 2 1 12 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 0.006839 0.003949 0.000000 0.00000 SCALE2 0.000000 0.007897 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009448 0.00000