HEADER HYDROLASE 01-JUL-08 2VX5 TITLE CELLVIBRIO JAPONICUS MANNANASE CJMAN26C MANNOSE-BOUND FORM CAVEAT 2VX5 ARG A 419 HAS WRONG CHIRALITY AT ATOM CA COMPND MOL_ID: 1; COMPND 2 MOLECULE: CELLVIBRIO JAPONICUS MANNANASE CJMAN26C; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.1.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CELLVIBRIO JAPONICUS; SOURCE 3 ORGANISM_TAXID: 155077; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS CELLVIBRIO JAPONICUS, MANNANASE, CJMAN26C, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.CARTMELL,E.TOPAKAS,V.M.-A.DUCROS,M.D.L.SUITS,G.J.DAVIES,H.J.GILBERT REVDAT 4 13-DEC-23 2VX5 1 HETSYN REVDAT 3 29-JUL-20 2VX5 1 CAVEAT COMPND REMARK HETNAM REVDAT 3 2 1 LINK SITE REVDAT 2 09-DEC-08 2VX5 1 VERSN JRNL REVDAT 1 16-SEP-08 2VX5 0 JRNL AUTH A.CARTMELL,E.TOPAKAS,V.M.-A.DUCROS,M.D.L.SUITS,G.J.DAVIES, JRNL AUTH 2 H.J.GILBERT JRNL TITL THE CELLVIBRIO JAPONICUS MANNANASE CJMAN26C DISPLAYS A JRNL TITL 2 UNIQUE EXO-MODE OF ACTION THAT IS CONFERRED BY SUBTLE JRNL TITL 3 CHANGES TO THE DISTAL REGION OF THE ACTIVE SITE. JRNL REF J.BIOL.CHEM. V. 283 34403 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18799462 JRNL DOI 10.1074/JBC.M804053200 REMARK 2 REMARK 2 RESOLUTION. 1.47 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0076 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) : 1.47 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 41.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 83897 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) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.169 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4429 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) : 1.47 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.51 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6046 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2070 REMARK 3 BIN FREE R VALUE SET COUNT : 320 REMARK 3 BIN FREE R VALUE : 0.2180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2932 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 13 REMARK 3 SOLVENT ATOMS : 413 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 9.67 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) : -0.02000 REMARK 3 B12 (A**2) : 0.01000 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): 0.057 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.051 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.025 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.420 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3079 ; 0.007 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 2035 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4210 ; 1.144 ; 1.923 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4914 ; 1.232 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 382 ; 5.741 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 160 ;33.064 ;23.625 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 459 ;10.998 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;14.949 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 440 ; 0.139 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3523 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 688 ; 0.002 ; 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): 1844 ; 0.654 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2952 ; 1.104 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1235 ; 1.633 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1250 ; 2.420 ; 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 : 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. U VALUES REFINED INDIVIDUALLY. FIRST 29 RESIDUES WERE REMARK 3 DISORDERED. STARTING RESIDUE IS THEREFORE LEU 53. REMARK 4 REMARK 4 2VX5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1290036430. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-DEC-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.07120 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 804322 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.470 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 9.100 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 47.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.47 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.52 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.7 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.29000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.300 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 1J9Y REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.49 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 81.56233 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 163.12467 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 122.34350 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 203.90583 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 40.78117 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 81.56233 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 163.12467 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 203.90583 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 122.34350 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 40.78117 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 24 REMARK 465 SER A 25 REMARK 465 GLU A 26 REMARK 465 LYS A 27 REMARK 465 PRO A 28 REMARK 465 ALA A 29 REMARK 465 GLU A 30 REMARK 465 SER A 31 REMARK 465 ALA A 32 REMARK 465 ALA A 33 REMARK 465 ALA A 34 REMARK 465 VAL A 35 REMARK 465 ALA A 36 REMARK 465 ASP A 37 REMARK 465 SER A 38 REMARK 465 ALA A 39 REMARK 465 THR A 40 REMARK 465 THR A 41 REMARK 465 THR A 42 REMARK 465 ALA A 43 REMARK 465 PRO A 44 REMARK 465 GLN A 45 REMARK 465 SER A 46 REMARK 465 GLY A 47 REMARK 465 LYS A 48 REMARK 465 PRO A 49 REMARK 465 GLU A 50 REMARK 465 THR A 51 REMARK 465 ALA A 52 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 LEU A 53 CG CD1 CD2 REMARK 470 LYS A 78 CD CE NZ REMARK 470 LYS A 169 NZ REMARK 470 GLU A 303 CD OE1 OE2 REMARK 470 GLU A 381 CG CD OE1 OE2 REMARK 470 LYS A 382 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 2370 O HOH A 2371 1.77 REMARK 500 O HOH A 2001 O HOH A 2413 1.99 REMARK 500 O HOH A 2334 O HOH A 2335 2.01 REMARK 500 OE1 GLU A 366 O HOH A 2366 2.02 REMARK 500 O HOH A 2412 O HOH A 2413 2.03 REMARK 500 O HOH A 2136 O HOH A 2142 2.08 REMARK 500 O HOH A 2270 O HOH A 2271 2.08 REMARK 500 O HOH A 2088 O HOH A 2142 2.16 REMARK 500 O HOH A 2088 O HOH A 2136 2.18 REMARK 500 O HOH A 2369 O HOH A 2371 2.19 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 ASP A 99 73.27 -150.15 REMARK 500 ALA A 172 -22.61 -143.22 REMARK 500 ASN A 274 56.85 -148.91 REMARK 500 ASN A 274 53.17 -147.20 REMARK 500 ASN A 375 79.31 -102.32 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2037 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH A2045 DISTANCE = 6.92 ANGSTROMS REMARK 525 HOH A2100 DISTANCE = 6.25 ANGSTROMS REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 BETA-MANNOSE (MAN): BETA-MANNOSE 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 A1421 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR A 403 O REMARK 620 2 SER A 405 O 90.6 REMARK 620 3 VAL A 408 O 107.0 85.7 REMARK 620 4 GLU A 413 OE2 98.2 147.0 121.2 REMARK 620 5 HOH A2397 O 89.6 77.9 156.8 70.4 REMARK 620 6 HOH A2402 O 170.8 86.1 81.3 80.3 81.3 REMARK 620 N 1 2 3 4 5 REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "AA" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 8-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 9-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2VX7 RELATED DB: PDB REMARK 900 CELLVIBRIO JAPONICUS MANNANASE CJMAN26C MANNOBIOSE-BOUND FORM REMARK 900 RELATED ID: 2VX6 RELATED DB: PDB REMARK 900 CELLVIBRIO JAPONICUS MANNANASE CJMAN26C GAL1MAN4 -BOUND FORM REMARK 900 RELATED ID: 2VX4 RELATED DB: PDB REMARK 900 CELLVIBRIO JAPONICUS MANNANASE CJMAN26C MANNOSE -NATIVE REMARK 999 REMARK 999 SEQUENCE REMARK 999 FIRST 29 RESIDUES ARE DISORDERED. FIRST RESIDUE IS LEU 53. DBREF 2VX5 A 24 419 PDB 2VX5 2VX5 24 419 SEQRES 1 A 396 MET SER GLU LYS PRO ALA GLU SER ALA ALA ALA VAL ALA SEQRES 2 A 396 ASP SER ALA THR THR THR ALA PRO GLN SER GLY LYS PRO SEQRES 3 A 396 GLU THR ALA LEU PRO ALA LEU ILE ASP THR GLN ALA THR SEQRES 4 A 396 ALA GLU THR ARG ALA LEU TYR ARG ASN LEU ALA LYS LEU SEQRES 5 A 396 ARG TYR LYS HIS LEU LEU PHE GLY HIS GLU ASP SER LEU SEQRES 6 A 396 ALA TYR GLY VAL HIS TRP GLU GLY ASP MET ASP ARG SER SEQRES 7 A 396 ASP VAL ARG ASP VAL THR GLY ALA ASN PRO ALA VAL TYR SEQRES 8 A 396 GLY TRP GLU LEU GLY GLY LEU GLU LEU GLY HIS THR ALA SEQRES 9 A 396 ASN LEU ASP ALA VAL ASN PHE GLU LYS MET GLN HIS TRP SEQRES 10 A 396 ILE LYS ALA GLY TYR SER ARG GLY GLY VAL ILE THR ILE SEQRES 11 A 396 SER TRP HIS VAL PHE ASN PRO VAL SER GLY GLY ASN SER SEQRES 12 A 396 TRP ASP LYS THR PRO ALA VAL HIS GLU LEU ILE PRO GLY SEQRES 13 A 396 GLY ALA ARG HIS ALA THR LEU LYS ALA TYR LEU ASP THR SEQRES 14 A 396 PHE VAL ALA PHE ASN GLU GLY LEU ALA ASP VAL ASP ALA SEQRES 15 A 396 GLN GLY ASN LYS HIS TYR PRO PRO ILE ILE PHE ARG PRO SEQRES 16 A 396 TRP HIS GLU HIS ASN GLY ASP TRP PHE TRP TRP GLY LYS SEQRES 17 A 396 GLY HIS ALA SER GLU GLN ASP TYR ILE ALA LEU TRP ARG SEQRES 18 A 396 PHE THR VAL HIS TYR LEU ARG ASP GLU LYS LYS LEU ARG SEQRES 19 A 396 ASN LEU ILE TYR ALA TYR SER PRO ASP ARG SER ARG ILE SEQRES 20 A 396 ASP MET ALA ASN PHE GLU ALA GLY TYR LEU TYR GLY TYR SEQRES 21 A 396 PRO GLY ASP ALA TYR VAL ASP ILE ILE GLY LEU ASP ASN SEQRES 22 A 396 TYR TRP ASP VAL GLY HIS GLU ALA ASN THR ALA SER ALA SEQRES 23 A 396 ASP GLU GLN LYS ALA ALA LEU THR ALA SER LEU LYS GLN SEQRES 24 A 396 LEU VAL GLN ILE ALA ARG SER LYS GLY LYS ILE ALA ALA SEQRES 25 A 396 LEU THR GLU THR GLY ASN ASN ARG LEU THR ILE ASP ASN SEQRES 26 A 396 PHE TRP THR GLU ARG LEU LEU GLY PRO ILE SER ALA ASP SEQRES 27 A 396 ALA ASP ALA SER GLU ILE ALA TYR VAL MET VAL TRP ARG SEQRES 28 A 396 ASN ALA ASN LEU ALA ARG GLU LYS SER GLU GLN PHE PHE SEQRES 29 A 396 ALA PRO PHE PRO GLY GLN ALA THR ALA ASP ASP PHE LYS SEQRES 30 A 396 ARG PHE TYR GLN SER GLU VAL VAL LEU PHE GLU ASP GLU SEQRES 31 A 396 LEU PRO PRO LEU TYR ARG HET BMA A1420 12 HET NA A1421 1 HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM NA SODIUM ION HETSYN BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 2 BMA C6 H12 O6 FORMUL 3 NA NA 1+ FORMUL 4 HOH *413(H2 O) HELIX 1 1 THR A 62 ARG A 76 1 15 HELIX 2 2 SER A 101 GLY A 108 1 8 HELIX 3 3 GLY A 120 GLY A 124 5 5 HELIX 4 4 ASN A 133 ARG A 147 1 15 HELIX 5 5 ALA A 172 ILE A 177 1 6 HELIX 6 6 ARG A 182 GLY A 199 1 18 HELIX 7 7 SER A 235 ASP A 252 1 18 HELIX 8 8 ARG A 267 ILE A 270 5 4 HELIX 9 9 ASP A 271 ALA A 273 5 3 HELIX 10 10 ASN A 274 LEU A 280 1 7 HELIX 11 11 GLY A 285 VAL A 289 5 5 HELIX 12 12 TYR A 297 GLY A 301 5 5 HELIX 13 13 SER A 308 GLY A 331 1 24 HELIX 14 14 ASN A 348 ARG A 353 1 6 HELIX 15 15 LEU A 354 ALA A 360 1 7 HELIX 16 16 ASP A 363 ILE A 367 5 5 HELIX 17 17 ASN A 377 LYS A 382 1 6 HELIX 18 18 THR A 395 SER A 405 1 11 HELIX 19 19 PHE A 410 LEU A 414 5 5 SHEET 1 AA18 LEU A 80 GLU A 85 0 SHEET 2 AA18 VAL A 408 LEU A 409 1 O LEU A 409 N PHE A 82 SHEET 3 AA18 VAL A 113 GLU A 117 0 SHEET 4 AA18 LEU A 80 GLU A 85 1 O PHE A 82 N VAL A 113 SHEET 5 AA18 VAL A 150 SER A 154 0 SHEET 6 AA18 VAL A 113 GLU A 117 1 O TYR A 114 N THR A 152 SHEET 7 AA18 ILE A 214 ARG A 217 0 SHEET 8 AA18 VAL A 150 SER A 154 1 O ILE A 151 N ILE A 215 SHEET 9 AA18 LEU A 259 TYR A 263 0 SHEET 10 AA18 ILE A 214 ARG A 217 1 O ILE A 214 N ILE A 260 SHEET 11 AA18 ILE A 291 ASP A 295 0 SHEET 12 AA18 LEU A 259 TYR A 263 1 O TYR A 263 N GLY A 293 SHEET 13 AA18 ILE A 333 THR A 339 0 SHEET 14 AA18 ILE A 291 ASP A 295 1 O ILE A 292 N ALA A 335 SHEET 15 AA18 TYR A 369 VAL A 372 0 SHEET 16 AA18 LEU A 80 GLU A 85 1 O LEU A 81 N VAL A 370 SHEET 17 AA18 VAL A 408 LEU A 409 1 O LEU A 409 N PHE A 82 SHEET 18 AA18 LEU A 80 GLU A 85 1 O LEU A 80 N LEU A 409 SHEET 1 AB 2 TYR A 90 GLY A 91 0 SHEET 2 AB 2 TRP A 94 GLU A 95 -1 O TRP A 94 N GLY A 91 SHEET 1 AC 2 ASP A 202 VAL A 203 0 SHEET 2 AC 2 LYS A 209 HIS A 210 -1 O HIS A 210 N ASP A 202 LINK O TYR A 403 NA NA A1421 1555 1555 2.44 LINK O SER A 405 NA NA A1421 1555 1555 2.44 LINK O VAL A 408 NA NA A1421 1555 1555 2.24 LINK OE2 GLU A 413 NA NA A1421 1555 1555 2.46 LINK NA NA A1421 O HOH A2397 1555 1555 2.45 LINK NA NA A1421 O HOH A2402 1555 1555 2.44 CRYST1 84.712 84.712 244.687 90.00 90.00 120.00 P 61 2 2 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 0.011805 0.006815 0.000000 0.00000 SCALE2 0.000000 0.013631 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004087 0.00000