HEADER OXIDOREDUCTASE 24-FEB-09 3GDF TITLE CRYSTAL STRUCTURE OF THE NADP-DEPENDENT MANNITOL DEHYDROGENASE FROM TITLE 2 CLADOSPORIUM HERBARUM. COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE NADP-DEPENDENT MANNITOL DEHYDROGENASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: MTDH, MANNITOL 2-DEHYDROGENASE [NADP+]; COMPND 5 EC: 1.1.1.138; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLADOSPORIUM HERBARUM; SOURCE 3 ORGANISM_TAXID: 29918; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PHIS-PARALLEL2 KEYWDS ROSSMANN FOLD, BETA-ALPHA-BETA MOTIFS, OPEN TWISTED SHEET, ALLERGEN, KEYWDS 2 NADP, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR D.NUESS,P.GOETTIG,I.MAGLER,U.DENK,M.BREITENBACH,P.B.SCHNEIDER, AUTHOR 2 H.BRANDSTETTER,B.SIMON-NOBBE REVDAT 3 06-SEP-23 3GDF 1 REMARK LINK REVDAT 2 04-AUG-10 3GDF 1 JRNL REVDAT 1 26-MAY-10 3GDF 0 JRNL AUTH D.NUSS,P.GOETTIG,I.MAGLER,U.DENK,M.BREITENBACH, JRNL AUTH 2 P.B.SCHNEIDER,H.BRANDSTETTER,B.SIMON-NOBBE JRNL TITL CRYSTAL STRUCTURE OF THE NADP-DEPENDENT MANNITOL JRNL TITL 2 DEHYDROGENASE FROM CLADOSPORIUM HERBARUM: IMPLICATIONS FOR JRNL TITL 3 OLIGOMERISATION AND CATALYSIS. JRNL REF BIOCHIMIE V. 92 985 2010 JRNL REFN ISSN 0300-9084 JRNL PMID 20420880 JRNL DOI 10.1016/J.BIOCHI.2010.04.012 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2343578.470 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 33705 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 SET) : 0.181 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1716 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.30 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5076 REMARK 3 BIN R VALUE (WORKING SET) : 0.2710 REMARK 3 BIN FREE R VALUE : 0.3390 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 282 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.020 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7992 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 4 REMARK 3 SOLVENT ATOMS : 552 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.96000 REMARK 3 B22 (A**2) : 12.15000 REMARK 3 B33 (A**2) : -8.19000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.25 REMARK 3 ESD FROM SIGMAA (A) : 0.33 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.37 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.47 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.110 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.70 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.760 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.790 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 4.130 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 4.530 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 5.910 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 57.90 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 3GDF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000051721. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-SEP-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.28 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33729 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.12800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.45500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1EDO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.44 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 45% MPD, 0.1 M HEPES, PH 7.5, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 277K 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 34.50600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.39150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.26800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 66.39150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.50600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.26800 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -208.0 KCAL/MOL 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 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 MET A 1 REMARK 475 PRO A 2 REMARK 475 MET C 1 REMARK 475 PRO C 2 REMARK 475 MET D 1 REMARK 475 PRO D 2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLN A 58 CD OE1 NE2 REMARK 480 LYS A 93 CG CD REMARK 480 PHE A 214 CE1 REMARK 480 LYS A 217 CB CD CE NZ REMARK 480 GLU A 218 CB CG CD OE1 OE2 REMARK 480 LYS B 19 NZ REMARK 480 LYS B 32 CD CE NZ REMARK 480 GLU B 62 CD OE1 OE2 REMARK 480 LYS B 69 CG CD CE NZ REMARK 480 ILE B 73 CG2 REMARK 480 LYS B 74 CD REMARK 480 LYS B 93 CE NZ REMARK 480 ASP B 132 OD1 REMARK 480 LYS B 217 NZ REMARK 480 GLN B 221 CG REMARK 480 LYS C 32 CD CE NZ REMARK 480 GLN C 58 CB CG CD OE1 NE2 REMARK 480 LYS C 93 CD CE NZ REMARK 480 LYS C 217 CB CG CD CE NZ REMARK 480 GLU C 218 CG CD OE1 OE2 REMARK 480 ARG D 56 CG CD NE CZ NH1 NH2 REMARK 480 ASP D 132 OD1 REMARK 480 LYS D 217 CB CG CD CE NZ REMARK 480 GLN D 220 NE2 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 2 -165.61 -74.90 REMARK 500 GLN A 4 86.52 47.46 REMARK 500 ALA A 28 122.19 -26.04 REMARK 500 SER A 29 -13.97 172.07 REMARK 500 ALA A 54 -63.28 -92.28 REMARK 500 SER A 55 -98.91 -109.28 REMARK 500 ASN A 108 47.01 -154.51 REMARK 500 ALA A 109 103.87 -58.93 REMARK 500 LEU A 133 -67.64 -95.18 REMARK 500 ALA A 159 -118.57 -88.38 REMARK 500 SER A 160 153.74 167.20 REMARK 500 PHE A 168 -71.01 -79.75 REMARK 500 PRO A 169 -76.23 -32.72 REMARK 500 GLN A 172 44.89 -161.27 REMARK 500 PHE A 196 -15.04 -145.24 REMARK 500 LEU A 211 24.41 -142.31 REMARK 500 SER A 250 43.02 -148.35 REMARK 500 PRO B 2 86.15 -52.15 REMARK 500 THR B 26 -82.84 -74.78 REMARK 500 ALA B 28 33.86 36.85 REMARK 500 PRO B 31 21.90 -66.26 REMARK 500 SER B 55 -75.34 -112.75 REMARK 500 LEU B 133 -74.45 -88.28 REMARK 500 ALA B 159 -129.16 -100.48 REMARK 500 GLN B 172 43.09 -156.55 REMARK 500 PHE B 196 -23.54 -143.71 REMARK 500 ALA C 28 87.15 -31.00 REMARK 500 SER C 29 -21.38 -143.25 REMARK 500 SER C 55 20.53 -176.09 REMARK 500 ARG C 56 63.57 -114.91 REMARK 500 GLN C 101 173.97 171.90 REMARK 500 ALA C 159 -122.64 -84.33 REMARK 500 SER C 160 154.87 175.72 REMARK 500 GLN C 172 48.31 -161.42 REMARK 500 ARG C 194 -39.18 -32.75 REMARK 500 PHE C 196 -7.56 -149.11 REMARK 500 SER C 250 41.61 -150.87 REMARK 500 ALA D 28 104.16 -19.91 REMARK 500 SER D 29 15.55 -175.71 REMARK 500 SER D 55 -34.26 -158.93 REMARK 500 LEU D 133 -70.06 -78.24 REMARK 500 ALA D 159 -124.58 -95.46 REMARK 500 PRO D 169 -76.99 -47.24 REMARK 500 GLN D 172 57.65 -144.93 REMARK 500 TYR D 206 99.15 -68.49 REMARK 500 LEU D 211 37.57 -73.56 REMARK 500 SER D 250 30.47 -146.85 REMARK 500 THR D 251 -3.84 -58.90 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 A1003 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 123 OE2 REMARK 620 2 HIS A 127 NE2 122.1 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1004 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 267 O REMARK 620 2 HOH A 376 O 86.6 REMARK 620 3 ARG D 267 O 139.8 89.7 REMARK 620 4 HOH D 366 O 89.8 152.3 75.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 123 OE2 REMARK 620 2 HIS B 127 NE2 106.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG B 267 O REMARK 620 2 ARG C 267 O 161.4 REMARK 620 3 HOH C 349 O 101.0 96.6 REMARK 620 4 HOH C 436 O 79.4 98.4 115.0 REMARK 620 5 HOH C 552 O 98.3 76.8 86.7 158.2 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 1002 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3GDG RELATED DB: PDB DBREF 3GDF A 1 267 UNP P0C0Y5 MTDH_CLAHE 1 267 DBREF 3GDF B 1 267 UNP P0C0Y5 MTDH_CLAHE 1 267 DBREF 3GDF C 1 267 UNP P0C0Y5 MTDH_CLAHE 1 267 DBREF 3GDF D 1 267 UNP P0C0Y5 MTDH_CLAHE 1 267 SEQRES 1 A 267 MET PRO GLY GLN GLN ALA THR LYS HIS GLU SER LEU LEU SEQRES 2 A 267 ASP GLN LEU SER LEU LYS GLY LYS VAL VAL VAL VAL THR SEQRES 3 A 267 GLY ALA SER GLY PRO LYS GLY MET GLY ILE GLU ALA ALA SEQRES 4 A 267 ARG GLY CYS ALA GLU MET GLY ALA ALA VAL ALA ILE THR SEQRES 5 A 267 TYR ALA SER ARG ALA GLN GLY ALA GLU GLU ASN VAL LYS SEQRES 6 A 267 GLU LEU GLU LYS THR TYR GLY ILE LYS ALA LYS ALA TYR SEQRES 7 A 267 LYS CYS GLN VAL ASP SER TYR GLU SER CYS GLU LYS LEU SEQRES 8 A 267 VAL LYS ASP VAL VAL ALA ASP PHE GLY GLN ILE ASP ALA SEQRES 9 A 267 PHE ILE ALA ASN ALA GLY ALA THR ALA ASP SER GLY ILE SEQRES 10 A 267 LEU ASP GLY SER VAL GLU ALA TRP ASN HIS VAL VAL GLN SEQRES 11 A 267 VAL ASP LEU ASN GLY THR PHE HIS CYS ALA LYS ALA VAL SEQRES 12 A 267 GLY HIS HIS PHE LYS GLU ARG GLY THR GLY SER LEU VAL SEQRES 13 A 267 ILE THR ALA SER MET SER GLY HIS ILE ALA ASN PHE PRO SEQRES 14 A 267 GLN GLU GLN THR SER TYR ASN VAL ALA LYS ALA GLY CYS SEQRES 15 A 267 ILE HIS MET ALA ARG SER LEU ALA ASN GLU TRP ARG ASP SEQRES 16 A 267 PHE ALA ARG VAL ASN SER ILE SER PRO GLY TYR ILE ASP SEQRES 17 A 267 THR GLY LEU SER ASP PHE VAL PRO LYS GLU THR GLN GLN SEQRES 18 A 267 LEU TRP HIS SER MET ILE PRO MET GLY ARG ASP GLY LEU SEQRES 19 A 267 ALA LYS GLU LEU LYS GLY ALA TYR VAL TYR PHE ALA SER SEQRES 20 A 267 ASP ALA SER THR TYR THR THR GLY ALA ASP LEU LEU ILE SEQRES 21 A 267 ASP GLY GLY TYR THR THR ARG SEQRES 1 B 267 MET PRO GLY GLN GLN ALA THR LYS HIS GLU SER LEU LEU SEQRES 2 B 267 ASP GLN LEU SER LEU LYS GLY LYS VAL VAL VAL VAL THR SEQRES 3 B 267 GLY ALA SER GLY PRO LYS GLY MET GLY ILE GLU ALA ALA SEQRES 4 B 267 ARG GLY CYS ALA GLU MET GLY ALA ALA VAL ALA ILE THR SEQRES 5 B 267 TYR ALA SER ARG ALA GLN GLY ALA GLU GLU ASN VAL LYS SEQRES 6 B 267 GLU LEU GLU LYS THR TYR GLY ILE LYS ALA LYS ALA TYR SEQRES 7 B 267 LYS CYS GLN VAL ASP SER TYR GLU SER CYS GLU LYS LEU SEQRES 8 B 267 VAL LYS ASP VAL VAL ALA ASP PHE GLY GLN ILE ASP ALA SEQRES 9 B 267 PHE ILE ALA ASN ALA GLY ALA THR ALA ASP SER GLY ILE SEQRES 10 B 267 LEU ASP GLY SER VAL GLU ALA TRP ASN HIS VAL VAL GLN SEQRES 11 B 267 VAL ASP LEU ASN GLY THR PHE HIS CYS ALA LYS ALA VAL SEQRES 12 B 267 GLY HIS HIS PHE LYS GLU ARG GLY THR GLY SER LEU VAL SEQRES 13 B 267 ILE THR ALA SER MET SER GLY HIS ILE ALA ASN PHE PRO SEQRES 14 B 267 GLN GLU GLN THR SER TYR ASN VAL ALA LYS ALA GLY CYS SEQRES 15 B 267 ILE HIS MET ALA ARG SER LEU ALA ASN GLU TRP ARG ASP SEQRES 16 B 267 PHE ALA ARG VAL ASN SER ILE SER PRO GLY TYR ILE ASP SEQRES 17 B 267 THR GLY LEU SER ASP PHE VAL PRO LYS GLU THR GLN GLN SEQRES 18 B 267 LEU TRP HIS SER MET ILE PRO MET GLY ARG ASP GLY LEU SEQRES 19 B 267 ALA LYS GLU LEU LYS GLY ALA TYR VAL TYR PHE ALA SER SEQRES 20 B 267 ASP ALA SER THR TYR THR THR GLY ALA ASP LEU LEU ILE SEQRES 21 B 267 ASP GLY GLY TYR THR THR ARG SEQRES 1 C 267 MET PRO GLY GLN GLN ALA THR LYS HIS GLU SER LEU LEU SEQRES 2 C 267 ASP GLN LEU SER LEU LYS GLY LYS VAL VAL VAL VAL THR SEQRES 3 C 267 GLY ALA SER GLY PRO LYS GLY MET GLY ILE GLU ALA ALA SEQRES 4 C 267 ARG GLY CYS ALA GLU MET GLY ALA ALA VAL ALA ILE THR SEQRES 5 C 267 TYR ALA SER ARG ALA GLN GLY ALA GLU GLU ASN VAL LYS SEQRES 6 C 267 GLU LEU GLU LYS THR TYR GLY ILE LYS ALA LYS ALA TYR SEQRES 7 C 267 LYS CYS GLN VAL ASP SER TYR GLU SER CYS GLU LYS LEU SEQRES 8 C 267 VAL LYS ASP VAL VAL ALA ASP PHE GLY GLN ILE ASP ALA SEQRES 9 C 267 PHE ILE ALA ASN ALA GLY ALA THR ALA ASP SER GLY ILE SEQRES 10 C 267 LEU ASP GLY SER VAL GLU ALA TRP ASN HIS VAL VAL GLN SEQRES 11 C 267 VAL ASP LEU ASN GLY THR PHE HIS CYS ALA LYS ALA VAL SEQRES 12 C 267 GLY HIS HIS PHE LYS GLU ARG GLY THR GLY SER LEU VAL SEQRES 13 C 267 ILE THR ALA SER MET SER GLY HIS ILE ALA ASN PHE PRO SEQRES 14 C 267 GLN GLU GLN THR SER TYR ASN VAL ALA LYS ALA GLY CYS SEQRES 15 C 267 ILE HIS MET ALA ARG SER LEU ALA ASN GLU TRP ARG ASP SEQRES 16 C 267 PHE ALA ARG VAL ASN SER ILE SER PRO GLY TYR ILE ASP SEQRES 17 C 267 THR GLY LEU SER ASP PHE VAL PRO LYS GLU THR GLN GLN SEQRES 18 C 267 LEU TRP HIS SER MET ILE PRO MET GLY ARG ASP GLY LEU SEQRES 19 C 267 ALA LYS GLU LEU LYS GLY ALA TYR VAL TYR PHE ALA SER SEQRES 20 C 267 ASP ALA SER THR TYR THR THR GLY ALA ASP LEU LEU ILE SEQRES 21 C 267 ASP GLY GLY TYR THR THR ARG SEQRES 1 D 267 MET PRO GLY GLN GLN ALA THR LYS HIS GLU SER LEU LEU SEQRES 2 D 267 ASP GLN LEU SER LEU LYS GLY LYS VAL VAL VAL VAL THR SEQRES 3 D 267 GLY ALA SER GLY PRO LYS GLY MET GLY ILE GLU ALA ALA SEQRES 4 D 267 ARG GLY CYS ALA GLU MET GLY ALA ALA VAL ALA ILE THR SEQRES 5 D 267 TYR ALA SER ARG ALA GLN GLY ALA GLU GLU ASN VAL LYS SEQRES 6 D 267 GLU LEU GLU LYS THR TYR GLY ILE LYS ALA LYS ALA TYR SEQRES 7 D 267 LYS CYS GLN VAL ASP SER TYR GLU SER CYS GLU LYS LEU SEQRES 8 D 267 VAL LYS ASP VAL VAL ALA ASP PHE GLY GLN ILE ASP ALA SEQRES 9 D 267 PHE ILE ALA ASN ALA GLY ALA THR ALA ASP SER GLY ILE SEQRES 10 D 267 LEU ASP GLY SER VAL GLU ALA TRP ASN HIS VAL VAL GLN SEQRES 11 D 267 VAL ASP LEU ASN GLY THR PHE HIS CYS ALA LYS ALA VAL SEQRES 12 D 267 GLY HIS HIS PHE LYS GLU ARG GLY THR GLY SER LEU VAL SEQRES 13 D 267 ILE THR ALA SER MET SER GLY HIS ILE ALA ASN PHE PRO SEQRES 14 D 267 GLN GLU GLN THR SER TYR ASN VAL ALA LYS ALA GLY CYS SEQRES 15 D 267 ILE HIS MET ALA ARG SER LEU ALA ASN GLU TRP ARG ASP SEQRES 16 D 267 PHE ALA ARG VAL ASN SER ILE SER PRO GLY TYR ILE ASP SEQRES 17 D 267 THR GLY LEU SER ASP PHE VAL PRO LYS GLU THR GLN GLN SEQRES 18 D 267 LEU TRP HIS SER MET ILE PRO MET GLY ARG ASP GLY LEU SEQRES 19 D 267 ALA LYS GLU LEU LYS GLY ALA TYR VAL TYR PHE ALA SER SEQRES 20 D 267 ASP ALA SER THR TYR THR THR GLY ALA ASP LEU LEU ILE SEQRES 21 D 267 ASP GLY GLY TYR THR THR ARG HET ZN A1003 1 HET ZN A1004 1 HET ZN B1001 1 HET ZN B1002 1 HETNAM ZN ZINC ION FORMUL 5 ZN 4(ZN 2+) FORMUL 9 HOH *552(H2 O) HELIX 1 1 SER A 11 SER A 17 1 7 HELIX 2 2 GLY A 33 MET A 45 1 13 HELIX 3 3 ALA A 57 GLY A 72 1 16 HELIX 4 4 SER A 84 GLY A 100 1 17 HELIX 5 5 SER A 121 LEU A 133 1 13 HELIX 6 6 LEU A 133 GLY A 151 1 19 HELIX 7 7 SER A 160 HIS A 164 5 5 HELIX 8 8 GLN A 172 TRP A 193 1 22 HELIX 9 9 LEU A 211 VAL A 215 5 5 HELIX 10 10 PRO A 216 ILE A 227 1 12 HELIX 11 11 LEU A 238 SER A 247 1 10 HELIX 12 12 ASP A 248 THR A 251 5 4 HELIX 13 13 GLY A 263 ARG A 267 5 5 HELIX 14 14 SER B 11 SER B 17 1 7 HELIX 15 15 GLY B 33 MET B 45 1 13 HELIX 16 16 ALA B 57 GLY B 72 1 16 HELIX 17 17 SER B 84 GLY B 100 1 17 HELIX 18 18 SER B 121 LEU B 133 1 13 HELIX 19 19 LEU B 133 GLY B 151 1 19 HELIX 20 20 SER B 160 HIS B 164 5 5 HELIX 21 21 GLN B 172 TRP B 193 1 22 HELIX 22 22 LEU B 211 VAL B 215 5 5 HELIX 23 23 PRO B 216 ILE B 227 1 12 HELIX 24 24 LEU B 238 SER B 247 1 10 HELIX 25 25 ASP B 248 THR B 251 5 4 HELIX 26 26 GLY B 263 ARG B 267 5 5 HELIX 27 27 SER C 11 SER C 17 1 7 HELIX 28 28 GLY C 33 MET C 45 1 13 HELIX 29 29 ARG C 56 GLY C 72 1 17 HELIX 30 30 SER C 84 GLY C 100 1 17 HELIX 31 31 SER C 121 GLY C 151 1 31 HELIX 32 32 SER C 160 HIS C 164 5 5 HELIX 33 33 GLN C 172 TRP C 193 1 22 HELIX 34 34 LEU C 211 VAL C 215 5 5 HELIX 35 35 PRO C 216 ILE C 227 1 12 HELIX 36 36 LEU C 238 SER C 247 1 10 HELIX 37 37 ASP C 248 THR C 251 5 4 HELIX 38 38 GLY C 263 ARG C 267 5 5 HELIX 39 39 SER D 11 SER D 17 1 7 HELIX 40 40 GLY D 33 MET D 45 1 13 HELIX 41 41 ARG D 56 GLY D 72 1 17 HELIX 42 42 SER D 84 GLY D 100 1 17 HELIX 43 43 SER D 121 GLY D 151 1 31 HELIX 44 44 SER D 160 HIS D 164 5 5 HELIX 45 45 GLN D 172 TRP D 193 1 22 HELIX 46 46 PRO D 216 ILE D 227 1 12 HELIX 47 47 LEU D 238 SER D 247 1 10 HELIX 48 48 GLY D 263 ARG D 267 5 5 SHEET 1 A 7 ALA A 75 LYS A 79 0 SHEET 2 A 7 ALA A 48 TYR A 53 1 N ILE A 51 O TYR A 78 SHEET 3 A 7 VAL A 22 VAL A 25 1 N VAL A 23 O ALA A 48 SHEET 4 A 7 ALA A 104 ALA A 107 1 O ILE A 106 N VAL A 24 SHEET 5 A 7 SER A 154 THR A 158 1 O VAL A 156 N PHE A 105 SHEET 6 A 7 ARG A 198 PRO A 204 1 O ARG A 198 N LEU A 155 SHEET 7 A 7 ASP A 257 ILE A 260 1 O LEU A 258 N SER A 203 SHEET 1 B 2 ILE A 207 ASP A 208 0 SHEET 2 B 2 GLY A 233 LEU A 234 1 O GLY A 233 N ASP A 208 SHEET 1 C 7 ALA B 75 LYS B 79 0 SHEET 2 C 7 ALA B 48 TYR B 53 1 N ILE B 51 O TYR B 78 SHEET 3 C 7 VAL B 22 VAL B 25 1 N VAL B 23 O ALA B 48 SHEET 4 C 7 ALA B 104 ALA B 107 1 O ILE B 106 N VAL B 24 SHEET 5 C 7 SER B 154 THR B 158 1 O THR B 158 N ALA B 107 SHEET 6 C 7 ARG B 198 PRO B 204 1 O ARG B 198 N LEU B 155 SHEET 7 C 7 ASP B 257 ILE B 260 1 O LEU B 258 N SER B 203 SHEET 1 D 2 ILE B 207 ASP B 208 0 SHEET 2 D 2 GLY B 233 LEU B 234 1 O GLY B 233 N ASP B 208 SHEET 1 E 7 ALA C 75 LYS C 79 0 SHEET 2 E 7 ALA C 48 TYR C 53 1 N TYR C 53 O TYR C 78 SHEET 3 E 7 VAL C 22 VAL C 25 1 N VAL C 25 O ALA C 50 SHEET 4 E 7 ALA C 104 ALA C 107 1 O ILE C 106 N VAL C 24 SHEET 5 E 7 SER C 154 THR C 158 1 O VAL C 156 N PHE C 105 SHEET 6 E 7 ARG C 198 PRO C 204 1 O ARG C 198 N LEU C 155 SHEET 7 E 7 ALA C 256 ILE C 260 1 O LEU C 258 N SER C 203 SHEET 1 F 2 ILE C 207 ASP C 208 0 SHEET 2 F 2 GLY C 233 LEU C 234 1 O GLY C 233 N ASP C 208 SHEET 1 G 7 ALA D 75 LYS D 79 0 SHEET 2 G 7 ALA D 48 TYR D 53 1 N ILE D 51 O LYS D 76 SHEET 3 G 7 VAL D 22 VAL D 25 1 N VAL D 23 O ALA D 48 SHEET 4 G 7 ALA D 104 ASN D 108 1 O ILE D 106 N VAL D 24 SHEET 5 G 7 SER D 154 THR D 158 1 O VAL D 156 N ALA D 107 SHEET 6 G 7 ARG D 198 PRO D 204 1 O ARG D 198 N LEU D 155 SHEET 7 G 7 ASP D 257 ILE D 260 1 O LEU D 258 N SER D 203 SHEET 1 H 2 ILE D 207 ASP D 208 0 SHEET 2 H 2 GLY D 233 LEU D 234 1 O GLY D 233 N ASP D 208 LINK OE2 GLU A 123 ZN ZN A1003 1555 1555 2.02 LINK NE2 HIS A 127 ZN ZN A1003 1555 1555 2.00 LINK O ARG A 267 ZN ZN A1004 1555 1555 2.06 LINK O HOH A 376 ZN ZN A1004 1555 1555 2.36 LINK ZN ZN A1004 O ARG D 267 1555 1555 2.07 LINK ZN ZN A1004 O HOH D 366 1555 1555 2.47 LINK OE2 GLU B 123 ZN ZN B1002 1555 1555 2.06 LINK NE2 HIS B 127 ZN ZN B1002 1555 1555 1.95 LINK O ARG B 267 ZN ZN B1001 1555 1555 2.15 LINK ZN ZN B1001 O ARG C 267 1555 1555 1.94 LINK ZN ZN B1001 O HOH C 349 1555 1555 2.64 LINK ZN ZN B1001 O HOH C 436 1555 1555 2.28 LINK ZN ZN B1001 O HOH C 552 1555 1555 2.56 CISPEP 1 MET A 1 PRO A 2 0 0.96 CISPEP 2 PHE B 168 PRO B 169 0 2.26 CISPEP 3 PHE C 168 PRO C 169 0 0.16 SITE 1 AC1 4 GLU A 123 HIS A 127 GLU D 86 GLU D 89 SITE 1 AC2 5 ARG A 267 HOH A 376 HOH A 551 ARG D 267 SITE 2 AC2 5 HOH D 366 SITE 1 AC3 5 ARG B 267 ARG C 267 HOH C 349 HOH C 436 SITE 2 AC3 5 HOH C 552 SITE 1 AC4 4 GLU B 123 HIS B 127 GLU C 86 GLU C 89 CRYST1 69.012 106.536 132.783 90.00 90.00 90.00 P 21 21 21 16 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 0.014490 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009386 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007531 0.00000