HEADER ISOMERASE 14-APR-09 3H1W TITLE CRYSTAL STRUCTURE OF MANNOSE 6-PHOSPHATE ISOMERASE BOUND WITH ZINC AND TITLE 2 YTTRIUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: MANNOSE-6-PHOSPHATE ISOMERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PHOSPHOMANNOSE ISOMERASE, PMI, PHOSPHOHEXOMUTASE; COMPND 5 EC: 5.3.1.8; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SALMONELLA TYPHIMURIUM; SOURCE 3 ORGANISM_TAXID: 602; SOURCE 4 STRAIN: LT2; SOURCE 5 GENE: AAL20387, MANA, PMI, STM1467; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21PLYSIS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PRSETC KEYWDS ZINC BOUND, YTTRIUM BOUND, CUPIN, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.R.SAGURTHI,G.GIRI,H.S.SAVITHRI,M.R.N.MURTHY REVDAT 3 01-NOV-23 3H1W 1 REMARK SEQADV REVDAT 2 13-JUL-11 3H1W 1 VERSN REVDAT 1 19-MAY-09 3H1W 0 JRNL AUTH S.R.SAGURTHI,G.GIRI,H.S.SAVITHRI,M.R.N.MURTHY JRNL TITL CRYSTAL STRUCTURE OF MANNOSE 6-PHOSPHATE ISOMERASE JRNL TITL 2 FROMSALMONELLA TYPHIMURIUM BOUND TO METAL ATOMS AND JRNL TITL 3 SUBSTRATE: IMPLICATIONS FOR CATALYTIC MECHANISM JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0069 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) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 26445 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1406 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) : 1.94 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.99 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1786 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.25 REMARK 3 BIN R VALUE (WORKING SET) : 0.2020 REMARK 3 BIN FREE R VALUE SET COUNT : 93 REMARK 3 BIN FREE R VALUE : 0.2660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2967 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 240 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.03000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : -0.01000 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): 0.176 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.164 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.097 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.288 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.909 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3047 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4132 ; 1.202 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 388 ; 5.931 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 129 ;36.621 ;24.884 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 492 ;12.433 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;14.765 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 467 ; 0.081 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2313 ; 0.005 ; 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): 1952 ; 0.674 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3124 ; 1.276 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1095 ; 2.026 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1008 ; 3.440 ; 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A -1 A 391 REMARK 3 ORIGIN FOR THE GROUP (A): 11.9123 37.0579 13.9487 REMARK 3 T TENSOR REMARK 3 T11: -0.0189 T22: -0.0068 REMARK 3 T33: -0.0143 T12: -0.0006 REMARK 3 T13: 0.0017 T23: -0.0034 REMARK 3 L TENSOR REMARK 3 L11: 0.0750 L22: 0.3381 REMARK 3 L33: 0.2381 L12: -0.0878 REMARK 3 L13: 0.0522 L23: -0.1649 REMARK 3 S TENSOR REMARK 3 S11: 0.0072 S12: 0.0119 S13: -0.0084 REMARK 3 S21: 0.0144 S22: -0.0052 S23: 0.0033 REMARK 3 S31: -0.0062 S32: -0.0076 S33: -0.0020 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 REMARK 4 REMARK 4 3H1W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-APR-09. REMARK 100 THE DEPOSITION ID IS D_1000052587. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-APR-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : OSMIC MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27871 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.940 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : 0.03700 REMARK 200 FOR THE DATA SET : 18.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.94 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.29000 REMARK 200 R SYM FOR SHELL (I) : 0.15000 REMARK 200 FOR SHELL : 4.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 1PMI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MAGNESIUM ACETATE, 0.2 M SODIUM REMARK 280 CACODYLATE PH 6.5, 20% PEG 8000, 5% DIOXANE, 10MM ZINC CHLORIDE, REMARK 280 10MM YTTRIUM CHLORIDE, MICRO-BACTCH UNDER OIL, TEMPERATURE 293K 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 17.99000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.74500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 46.18000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.74500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 17.99000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 46.18000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 THR A 50 REMARK 465 ALA A 51 REMARK 465 ASN 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 GLU A 54 CG CD OE1 OE2 REMARK 470 LYS A 64 CG CD CE NZ REMARK 470 GLU A 72 CG CD OE1 OE2 REMARK 470 GLU A 222 CG CD OE1 OE2 REMARK 470 LYS A 292 CE NZ REMARK 470 GLN A 331 CG CD OE1 NE2 REMARK 470 GLU A 356 CG CD OE1 OE2 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 ASN A 10 56.67 -90.07 REMARK 500 ASN A 27 57.98 -147.73 REMARK 500 SER A 44 78.04 -170.79 REMARK 500 ALA A 147 162.99 75.82 REMARK 500 PRO A 317 39.20 -75.12 REMARK 500 ASP A 355 -113.20 56.01 REMARK 500 TYR A 388 -164.24 -160.57 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 ZN A 397 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 99 NE2 REMARK 620 2 GLU A 134 OE2 92.5 REMARK 620 3 HIS A 255 NE2 101.7 125.8 REMARK 620 4 HOH A 625 O 122.0 108.3 107.4 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 392 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 393 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 394 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 395 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 396 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 397 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE Y1 A 398 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2WFP RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MANNOSE 6-PHOSPHATE ISOMERASE (APO-FORM) REMARK 900 RELATED ID: 3H1M RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MANNOSE 6-PHOSPHATE IOSMERASE (ZINC BOUND) REMARK 900 RELATED ID: 3H1Y RELATED DB: PDB DBREF 3H1W A 1 391 UNP P25081 MANA_SALTY 1 391 SEQADV 3H1W ALA A -1 UNP P25081 EXPRESSION TAG SEQADV 3H1W SER A 0 UNP P25081 EXPRESSION TAG SEQRES 1 A 393 ALA SER MET GLN LYS LEU ILE ASN SER VAL GLN ASN TYR SEQRES 2 A 393 ALA TRP GLY SER LYS THR ALA LEU THR GLU LEU TYR GLY SEQRES 3 A 393 ILE ALA ASN PRO GLN GLN GLN PRO MET ALA GLU LEU TRP SEQRES 4 A 393 MET GLY ALA HIS PRO LYS SER SER SER ARG ILE THR THR SEQRES 5 A 393 ALA ASN GLY GLU THR VAL SER LEU ARG ASP ALA ILE GLU SEQRES 6 A 393 LYS ASN LYS THR ALA MET LEU GLY GLU ALA VAL ALA ASN SEQRES 7 A 393 ARG PHE GLY GLU LEU PRO PHE LEU PHE LYS VAL LEU CYS SEQRES 8 A 393 ALA ALA GLN PRO LEU SER ILE GLN VAL HIS PRO ASN LYS SEQRES 9 A 393 ARG ASN SER GLU ILE GLY PHE ALA LYS GLU ASN ALA ALA SEQRES 10 A 393 GLY ILE PRO MET ASP ALA ALA GLU ARG ASN TYR LYS ASP SEQRES 11 A 393 PRO ASN HIS LYS PRO GLU LEU VAL PHE ALA LEU THR PRO SEQRES 12 A 393 PHE LEU ALA MET ASN ALA PHE ARG GLU PHE SER ASP ILE SEQRES 13 A 393 VAL SER LEU LEU GLN PRO VAL ALA GLY ALA HIS SER ALA SEQRES 14 A 393 ILE ALA HIS PHE LEU GLN VAL PRO ASN ALA GLU ARG LEU SEQRES 15 A 393 SER GLN LEU PHE ALA SER LEU LEU ASN MET GLN GLY GLU SEQRES 16 A 393 GLU LYS SER ARG ALA LEU ALA VAL LEU LYS ALA ALA LEU SEQRES 17 A 393 ASN SER GLN GLN GLY GLU PRO TRP GLN THR ILE ARG VAL SEQRES 18 A 393 ILE SER GLU TYR TYR PRO ASP ASP SER GLY LEU PHE SER SEQRES 19 A 393 PRO LEU LEU LEU ASN VAL VAL LYS LEU ASN PRO GLY GLU SEQRES 20 A 393 ALA MET PHE LEU PHE ALA GLU THR PRO HIS ALA TYR LEU SEQRES 21 A 393 GLN GLY VAL ALA LEU GLU VAL MET ALA ASN SER ASP ASN SEQRES 22 A 393 VAL LEU ARG ALA GLY LEU THR PRO LYS TYR ILE ASP ILE SEQRES 23 A 393 PRO GLU LEU VAL ALA ASN VAL LYS PHE GLU PRO LYS PRO SEQRES 24 A 393 ALA GLY GLU LEU LEU THR ALA PRO VAL LYS SER GLY ALA SEQRES 25 A 393 GLU LEU ASP PHE PRO ILE PRO VAL ASP ASP PHE ALA PHE SEQRES 26 A 393 SER LEU HIS ASP LEU ALA LEU GLN GLU THR SER ILE GLY SEQRES 27 A 393 GLN HIS SER ALA ALA ILE LEU PHE CYS VAL GLU GLY GLU SEQRES 28 A 393 ALA VAL LEU ARG LYS ASP GLU GLN ARG LEU VAL LEU LYS SEQRES 29 A 393 PRO GLY GLU SER ALA PHE ILE GLY ALA ASP GLU SER PRO SEQRES 30 A 393 VAL ASN ALA SER GLY THR GLY ARG LEU ALA ARG VAL TYR SEQRES 31 A 393 ASN LYS LEU HET EDO A 392 4 HET EDO A 393 4 HET EDO A 394 4 HET EDO A 395 4 HET EDO A 396 4 HET ZN A 397 1 HET Y1 A 398 1 HETNAM EDO 1,2-ETHANEDIOL HETNAM ZN ZINC ION HETNAM Y1 YTTRIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 EDO 5(C2 H6 O2) FORMUL 7 ZN ZN 2+ FORMUL 8 Y1 Y 2+ FORMUL 9 HOH *240(H2 O) HELIX 1 1 THR A 17 GLY A 24 1 8 HELIX 2 2 LEU A 58 ASN A 65 1 8 HELIX 3 3 ASN A 65 GLY A 71 1 7 HELIX 4 4 GLY A 71 PHE A 78 1 8 HELIX 5 5 ASN A 101 ALA A 115 1 15 HELIX 6 6 GLU A 150 GLN A 159 1 10 HELIX 7 7 PRO A 160 ALA A 164 5 5 HELIX 8 8 HIS A 165 VAL A 174 1 10 HELIX 9 9 ASN A 176 ASN A 189 1 14 HELIX 10 10 GLN A 191 GLN A 209 1 19 HELIX 11 11 PRO A 213 GLU A 222 1 10 HELIX 12 12 ASP A 227 LEU A 234 5 8 HELIX 13 13 ASP A 283 ASN A 290 1 8 HELIX 14 14 PRO A 297 LEU A 301 5 5 HELIX 15 15 ALA A 371 SER A 374 5 4 SHEET 1 A 5 MET A 1 LYS A 3 0 SHEET 2 A 5 SER A 366 ILE A 369 -1 O PHE A 368 N GLN A 2 SHEET 3 A 5 ALA A 341 LYS A 354 -1 N ALA A 341 O ILE A 369 SHEET 4 A 5 VAL A 376 TYR A 388 -1 O ALA A 385 N PHE A 344 SHEET 5 A 5 THR A 333 ILE A 335 -1 N ILE A 335 O VAL A 376 SHEET 1 B 6 VAL A 306 SER A 308 0 SHEET 2 B 6 GLU A 311 ASP A 313 -1 O GLU A 311 N SER A 308 SHEET 3 B 6 ALA A 322 ASP A 327 -1 O LEU A 325 N LEU A 312 SHEET 4 B 6 VAL A 376 TYR A 388 -1 O ARG A 386 N SER A 324 SHEET 5 B 6 ALA A 341 LYS A 354 -1 N PHE A 344 O ALA A 385 SHEET 6 B 6 GLN A 357 LEU A 361 -1 O LEU A 359 N LEU A 352 SHEET 1 C 6 SER A 7 GLN A 9 0 SHEET 2 C 6 GLU A 35 MET A 38 -1 O TRP A 37 N SER A 7 SHEET 3 C 6 LEU A 84 ALA A 90 -1 O PHE A 85 N MET A 38 SHEET 4 C 6 HIS A 255 MET A 266 -1 O ALA A 262 N LEU A 88 SHEET 5 C 6 PHE A 142 PHE A 148 -1 N LEU A 143 O LEU A 258 SHEET 6 C 6 LEU A 236 LEU A 241 -1 O VAL A 239 N ALA A 144 SHEET 1 D 6 SER A 7 GLN A 9 0 SHEET 2 D 6 GLU A 35 MET A 38 -1 O TRP A 37 N SER A 7 SHEET 3 D 6 LEU A 84 ALA A 90 -1 O PHE A 85 N MET A 38 SHEET 4 D 6 HIS A 255 MET A 266 -1 O ALA A 262 N LEU A 88 SHEET 5 D 6 LEU A 135 ALA A 138 -1 N PHE A 137 O LEU A 263 SHEET 6 D 6 ALA A 246 PHE A 248 -1 O MET A 247 N VAL A 136 SHEET 1 E 2 ARG A 47 ILE A 48 0 SHEET 2 E 2 VAL A 56 SER A 57 -1 O VAL A 56 N ILE A 48 SHEET 1 F 2 GLN A 97 VAL A 98 0 SHEET 2 F 2 LEU A 273 ARG A 274 -1 O LEU A 273 N VAL A 98 LINK NE2 HIS A 99 ZN ZN A 397 1555 1555 2.22 LINK OE2 GLU A 134 ZN ZN A 397 1555 1555 1.99 LINK NE2 HIS A 255 ZN ZN A 397 1555 1555 2.10 LINK ZN ZN A 397 O HOH A 625 1555 1555 1.85 CISPEP 1 GLU A 212 PRO A 213 0 3.56 CISPEP 2 SER A 374 PRO A 375 0 1.28 SITE 1 AC1 5 ARG A 353 LYS A 354 ASP A 355 PRO A 375 SITE 2 AC1 5 ASN A 377 SITE 1 AC2 4 ASP A 227 SER A 228 THR A 278 HOH A 575 SITE 1 AC3 8 ILE A 96 PHE A 184 LEU A 188 SER A 228 SITE 2 AC3 8 GLY A 229 PHE A 231 SER A 232 ALA A 275 SITE 1 AC4 5 ASN A 6 LYS A 307 GLY A 309 EDO A 396 SITE 2 AC4 5 HOH A 443 SITE 1 AC5 5 ASN A 6 GLY A 364 EDO A 395 HOH A 404 SITE 2 AC5 5 HOH A 443 SITE 1 AC6 6 HIS A 99 GLU A 134 LEU A 249 HIS A 255 SITE 2 AC6 6 Y1 A 398 HOH A 625 SITE 1 AC7 7 GLU A 134 GLU A 264 ZN A 397 HOH A 582 SITE 2 AC7 7 HOH A 597 HOH A 598 HOH A 625 CRYST1 35.980 92.360 111.490 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.027793 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010827 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008969 0.00000