HEADER HYDROLASE 21-DEC-17 5Z0U TITLE THERMOACTINOMYCES VULGARIS R-47 ALPHA-AMYLASE I (TVA I) 11 RESIDUES TITLE 2 (FROM A363 TO N373) DELETION MUTANT (DEL11) COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEOPULLULANASE 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 30-666; COMPND 5 SYNONYM: ALPHA-AMYLASE I,TVA I; COMPND 6 EC: 3.2.1.135; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOACTINOMYCES VULGARIS; SOURCE 3 ORGANISM_TAXID: 2026; SOURCE 4 GENE: TVAI; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ALPHA-AMYLASE, NEOPULLULANASE, GH13, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR T.TONOZUKA REVDAT 3 22-NOV-23 5Z0U 1 REMARK REVDAT 2 28-MAR-18 5Z0U 1 JRNL REVDAT 1 21-FEB-18 5Z0U 0 JRNL AUTH T.TONOZUKA,T.NIHIRA,M.MIZUNO,A.NISHIKAWA,S.KAMITORI JRNL TITL MUTAGENESIS-INDUCED CONFORMATIONAL CHANGE IN DOMAIN B OF A JRNL TITL 2 PULLULAN-HYDROLYZING ALPHA-AMYLASE TVA I JRNL REF AMYLASE V. 2 1 2018 JRNL REFN ESSN 2450-9728 JRNL DOI 10.1515/AMYLASE-2018-0001 REMARK 2 REMARK 2 RESOLUTION. 1.37 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0189 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.37 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 3 NUMBER OF REFLECTIONS : 115635 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) : 0.138 REMARK 3 R VALUE (WORKING SET) : 0.138 REMARK 3 FREE R VALUE : 0.150 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 5972 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) : 1.37 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.41 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7521 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 81.52 REMARK 3 BIN R VALUE (WORKING SET) : 0.1890 REMARK 3 BIN FREE R VALUE SET COUNT : 396 REMARK 3 BIN FREE R VALUE : 0.2130 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4965 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 11 REMARK 3 SOLVENT ATOMS : 916 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.49 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.050 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.049 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.028 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.671 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.970 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5177 ; 0.008 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 4309 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7096 ; 1.352 ; 1.908 REMARK 3 BOND ANGLES OTHERS (DEGREES): 10055 ; 0.954 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 644 ; 6.513 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 266 ;35.825 ;24.887 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 734 ;10.730 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;21.875 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 737 ; 0.087 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5949 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1131 ; 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): 2522 ; 0.503 ; 0.936 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2521 ; 0.503 ; 0.936 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3154 ; 0.828 ; 1.405 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3155 ; 0.828 ; 1.405 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2655 ; 0.782 ; 0.982 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2656 ; 0.782 ; 0.982 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3933 ; 1.174 ; 1.457 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 6504 ; 3.600 ;12.625 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6208 ; 3.036 ;11.451 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 : NULL 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 5Z0U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-DEC-17. REMARK 100 THE DEPOSITION ID IS D_1300006231. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 121625 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.370 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 (%) : 92.3 REMARK 200 DATA REDUNDANCY : 2.700 REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.37 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.44 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : 0.16800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.100 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: 1JI1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% MPD, 20% PEG6000, 40 MM MES-NAOH, REMARK 280 PH 6.1, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 27.01100 REMARK 290 SMTRY3 2 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 TOTAL BURIED SURFACE AREA: 90 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -13.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 ASP A 362 C HIS A 374 N 0.177 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 4 31.66 -147.08 REMARK 500 ALA A 23 72.02 -150.64 REMARK 500 ASN A 104 -152.42 -148.96 REMARK 500 ASP A 224 67.47 -100.66 REMARK 500 LEU A 311 15.91 58.68 REMARK 500 TYR A 333 -35.14 -140.12 REMARK 500 TYR A 348 -63.38 -97.76 REMARK 500 GLN A 410 -100.03 -134.65 REMARK 500 PHE A 420 -67.85 -144.02 REMARK 500 ALA A 438 106.65 -169.33 REMARK 500 ASP A 516 121.74 -34.03 REMARK 500 ALA A 528 48.96 -90.15 REMARK 500 ASP A 574 -158.74 -143.75 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 CA A 701 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 2 O REMARK 620 2 ASP A 4 OD1 80.7 REMARK 620 3 ASN A 6 O 165.5 86.4 REMARK 620 4 ASP A 42 O 80.0 142.3 107.1 REMARK 620 5 ASP A 42 OD1 108.8 143.2 85.4 74.1 REMARK 620 6 ASP A 96 OD2 88.4 73.8 81.8 73.6 139.8 REMARK 620 7 HOH A 906 O 77.8 73.0 104.6 132.8 74.5 145.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 702 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 145 OD1 REMARK 620 2 ASP A 147 O 75.1 REMARK 620 3 ASN A 150 OD1 148.4 74.2 REMARK 620 4 ASP A 151 OD1 88.6 86.5 96.7 REMARK 620 5 GLY A 187 O 70.6 145.4 138.9 96.4 REMARK 620 6 ASP A 189 OD2 82.8 83.1 86.5 168.0 88.7 REMARK 620 7 HOH A 902 O 142.4 140.9 69.2 84.4 73.5 107.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 703 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 276 OD2 REMARK 620 2 ASN A 279 OD1 101.6 REMARK 620 3 PHE A 281 O 86.7 76.4 REMARK 620 4 SER A 283 O 95.5 150.3 80.7 REMARK 620 5 GLU A 288 OE1 91.8 71.8 147.1 132.1 REMARK 620 6 GLU A 288 OE2 82.0 123.2 159.1 82.9 51.4 REMARK 620 7 HOH A1403 O 171.9 86.1 92.7 76.5 93.1 96.0 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 704 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JI1 RELATED DB: PDB REMARK 900 WILD-TYPE ENZYME DBREF 5Z0U A 1 637 UNP Q60053 NEPU1_THEVU 30 666 SEQADV 5Z0U A UNP Q60053 ALA 392 DELETION SEQADV 5Z0U A UNP Q60053 ASN 393 DELETION SEQADV 5Z0U A UNP Q60053 GLY 394 DELETION SEQADV 5Z0U A UNP Q60053 ASN 395 DELETION SEQADV 5Z0U A UNP Q60053 ASN 396 DELETION SEQADV 5Z0U A UNP Q60053 GLY 397 DELETION SEQADV 5Z0U A UNP Q60053 SER 398 DELETION SEQADV 5Z0U A UNP Q60053 ASP 399 DELETION SEQADV 5Z0U A UNP Q60053 VAL 400 DELETION SEQADV 5Z0U A UNP Q60053 THR 401 DELETION SEQADV 5Z0U A UNP Q60053 ASN 402 DELETION SEQRES 1 A 626 ALA ALA ASN ASP ASN ASN VAL GLU TRP ASN GLY LEU PHE SEQRES 2 A 626 HIS ASP GLN GLY PRO LEU PHE ASP ASN ALA PRO GLU PRO SEQRES 3 A 626 THR SER THR GLN SER VAL THR LEU LYS LEU ARG THR PHE SEQRES 4 A 626 LYS GLY ASP ILE THR SER ALA ASN ILE LYS TYR TRP ASP SEQRES 5 A 626 THR ALA ASP ASN ALA PHE HIS TRP VAL PRO MET VAL TRP SEQRES 6 A 626 ASP SER ASN ASP PRO THR GLY THR PHE ASP TYR TRP LYS SEQRES 7 A 626 GLY THR ILE PRO ALA SER PRO SER ILE LYS TYR TYR ARG SEQRES 8 A 626 PHE GLN ILE ASN ASP GLY THR SER THR ALA TRP TYR ASN SEQRES 9 A 626 GLY ASN GLY PRO SER SER THR GLU PRO ASN ALA ASP ASP SEQRES 10 A 626 PHE TYR ILE ILE PRO ASN PHE LYS THR PRO ASP TRP LEU SEQRES 11 A 626 LYS ASN GLY VAL MET TYR GLN ILE PHE PRO ASP ARG PHE SEQRES 12 A 626 TYR ASN GLY ASP SER SER ASN ASP VAL GLN THR GLY SER SEQRES 13 A 626 TYR THR TYR ASN GLY THR PRO THR GLU LYS LYS ALA TRP SEQRES 14 A 626 GLY SER SER VAL TYR ALA ASP PRO GLY TYR ASP ASN SER SEQRES 15 A 626 LEU VAL PHE PHE GLY GLY ASP LEU ALA GLY ILE ASP GLN SEQRES 16 A 626 LYS LEU GLY TYR ILE LYS LYS THR LEU GLY ALA ASN ILE SEQRES 17 A 626 LEU TYR LEU ASN PRO ILE PHE LYS ALA PRO THR ASN HIS SEQRES 18 A 626 LYS TYR ASP THR GLN ASP TYR MET ALA VAL ASP PRO ALA SEQRES 19 A 626 PHE GLY ASP ASN SER THR LEU GLN THR LEU ILE ASN ASP SEQRES 20 A 626 ILE HIS SER THR ALA ASN GLY PRO LYS GLY TYR LEU ILE SEQRES 21 A 626 LEU ASP GLY VAL PHE ASN HIS THR GLY ASP SER HIS PRO SEQRES 22 A 626 TRP PHE ASP LYS TYR ASN ASN PHE SER SER GLN GLY ALA SEQRES 23 A 626 TYR GLU SER GLN SER SER PRO TRP TYR ASN TYR TYR THR SEQRES 24 A 626 PHE TYR THR TRP PRO ASP SER TYR ALA SER PHE LEU GLY SEQRES 25 A 626 PHE ASN SER LEU PRO LYS LEU ASN TYR GLY ASN SER GLY SEQRES 26 A 626 SER ALA VAL ARG GLY VAL ILE TYR ASN ASN SER ASN SER SEQRES 27 A 626 VAL ALA LYS THR TYR LEU ASN PRO PRO TYR SER VAL ASP SEQRES 28 A 626 GLY TRP ARG LEU ASP ALA ALA GLN TYR VAL ASP HIS GLN SEQRES 29 A 626 ILE TRP SER GLU PHE ARG ASN ALA VAL LYS GLY VAL ASN SEQRES 30 A 626 SER ASN ALA ALA ILE ILE GLY GLU TYR TRP GLY ASN ALA SEQRES 31 A 626 ASN PRO TRP THR ALA GLN GLY ASN GLN TRP ASP ALA ALA SEQRES 32 A 626 THR ASN PHE ASP GLY PHE THR GLN PRO VAL SER GLU TRP SEQRES 33 A 626 ILE THR GLY LYS ASP TYR GLN ASN ASN SER ALA SER ILE SEQRES 34 A 626 SER THR THR GLN PHE ASP SER TRP LEU ARG GLY THR ARG SEQRES 35 A 626 ALA ASN TYR PRO THR ASN VAL GLN GLN SER MET MET ASN SEQRES 36 A 626 PHE LEU SER ASN HIS ASP ILE THR ARG PHE ALA THR ARG SEQRES 37 A 626 SER GLY GLY ASP LEU TRP LYS THR TYR LEU ALA LEU ILE SEQRES 38 A 626 PHE GLN MET THR TYR VAL GLY THR PRO THR ILE TYR TYR SEQRES 39 A 626 GLY ASP GLU TYR GLY MET GLN GLY GLY ALA ASP PRO ASP SEQRES 40 A 626 ASN ARG ARG SER PHE ASP TRP SER GLN ALA THR PRO SER SEQRES 41 A 626 ASN SER ALA VAL ALA LEU THR GLN LYS LEU ILE THR ILE SEQRES 42 A 626 ARG ASN GLN TYR PRO ALA LEU ARG THR GLY SER PHE MET SEQRES 43 A 626 THR LEU ILE THR ASP ASP THR ASN LYS ILE TYR SER TYR SEQRES 44 A 626 GLY ARG PHE ASP ASN VAL ASN ARG ILE ALA VAL VAL LEU SEQRES 45 A 626 ASN ASN ASP SER VAL SER HIS THR VAL ASN VAL PRO VAL SEQRES 46 A 626 TRP GLN LEU SER MET PRO ASN GLY SER THR VAL THR ASP SEQRES 47 A 626 LYS ILE THR GLY HIS SER TYR THR VAL GLN ASN GLY MET SEQRES 48 A 626 VAL THR VAL ALA VAL ASP GLY HIS TYR GLY ALA VAL LEU SEQRES 49 A 626 ALA GLN HET CA A 701 1 HET CA A 702 1 HET CA A 703 1 HET MPD A 704 8 HETNAM CA CALCIUM ION HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL FORMUL 2 CA 3(CA 2+) FORMUL 5 MPD C6 H14 O2 FORMUL 6 HOH *916(H2 O) HELIX 1 AA1 GLU A 8 LEU A 12 5 5 HELIX 2 AA2 PRO A 127 GLY A 133 1 7 HELIX 3 AA3 PHE A 139 TYR A 144 1 6 HELIX 4 AA4 ASP A 147 ASP A 151 5 5 HELIX 5 AA5 ASP A 180 SER A 182 5 3 HELIX 6 AA6 ASP A 189 LYS A 196 1 8 HELIX 7 AA7 LYS A 196 LYS A 202 1 7 HELIX 8 AA8 ASP A 237 SER A 250 1 14 HELIX 9 AA9 TRP A 294 TYR A 298 5 5 HELIX 10 AB1 SER A 326 TYR A 333 1 8 HELIX 11 AB2 SER A 338 ASN A 345 1 8 HELIX 12 AB3 ALA A 357 VAL A 361 5 5 HELIX 13 AB4 ASP A 362 ASN A 388 1 16 HELIX 14 AB5 ALA A 401 THR A 405 5 5 HELIX 15 AB6 PHE A 420 GLY A 430 1 11 HELIX 16 AB7 SER A 441 ALA A 454 1 14 HELIX 17 AB8 PRO A 457 MET A 464 1 8 HELIX 18 AB9 ARG A 475 SER A 480 1 6 HELIX 19 AC1 ASP A 483 TYR A 497 1 15 HELIX 20 AC2 GLY A 506 GLY A 510 5 5 HELIX 21 AC3 ASP A 524 ALA A 528 5 5 HELIX 22 AC4 ASN A 532 TYR A 548 1 17 HELIX 23 AC5 TYR A 548 GLY A 554 1 7 HELIX 24 AC6 PRO A 595 SER A 600 5 6 SHEET 1 AA1 3 VAL A 32 PHE A 39 0 SHEET 2 AA1 3 PHE A 74 ILE A 81 -1 O ILE A 81 N VAL A 32 SHEET 3 AA1 3 VAL A 64 ASN A 68 -1 N ASP A 66 O TYR A 76 SHEET 1 AA2 5 ALA A 57 PRO A 62 0 SHEET 2 AA2 5 SER A 45 ASP A 52 -1 N ILE A 48 O VAL A 61 SHEET 3 AA2 5 LYS A 88 ASP A 96 -1 O ASN A 95 N SER A 45 SHEET 4 AA2 5 SER A 99 ASN A 104 -1 O ALA A 101 N ILE A 94 SHEET 5 AA2 5 GLY A 107 SER A 109 -1 O SER A 109 N TRP A 102 SHEET 1 AA3 4 ALA A 57 PRO A 62 0 SHEET 2 AA3 4 SER A 45 ASP A 52 -1 N ILE A 48 O VAL A 61 SHEET 3 AA3 4 LYS A 88 ASP A 96 -1 O ASN A 95 N SER A 45 SHEET 4 AA3 4 PHE A 118 ILE A 120 -1 O ILE A 120 N LYS A 88 SHEET 1 AA4 8 ALA A 413 ALA A 414 0 SHEET 2 AA4 8 ALA A 392 GLY A 395 1 N GLY A 395 O ALA A 413 SHEET 3 AA4 8 GLY A 352 LEU A 355 1 N LEU A 355 O ILE A 394 SHEET 4 AA4 8 TYR A 258 GLY A 263 1 N GLY A 263 O ARG A 354 SHEET 5 AA4 8 ILE A 208 LEU A 211 1 N LEU A 209 O ILE A 260 SHEET 6 AA4 8 MET A 135 ILE A 138 1 N ILE A 138 O TYR A 210 SHEET 7 AA4 8 THR A 500 TYR A 504 1 O PRO A 501 N MET A 135 SHEET 8 AA4 8 MET A 465 PHE A 467 1 N ASN A 466 O THR A 502 SHEET 1 AA5 2 THR A 158 TYR A 159 0 SHEET 2 AA5 2 THR A 162 PRO A 163 -1 O THR A 162 N TYR A 159 SHEET 1 AA6 2 GLU A 165 LYS A 166 0 SHEET 2 AA6 2 VAL A 184 PHE A 185 1 O PHE A 185 N GLU A 165 SHEET 1 AA7 2 PHE A 215 LYS A 216 0 SHEET 2 AA7 2 ASP A 227 VAL A 231 -1 O ALA A 230 N LYS A 216 SHEET 1 AA8 2 PHE A 300 THR A 302 0 SHEET 2 AA8 2 SER A 306 TYR A 307 -1 O SER A 306 N TYR A 301 SHEET 1 AA9 6 SER A 555 ASP A 562 0 SHEET 2 AA9 6 ILE A 567 PHE A 573 -1 O GLY A 571 N MET A 557 SHEET 3 AA9 6 ARG A 578 ASN A 584 -1 O LEU A 583 N TYR A 568 SHEET 4 AA9 6 TYR A 631 GLN A 637 -1 O LEU A 635 N ALA A 580 SHEET 5 AA9 6 THR A 606 ASP A 609 -1 N THR A 608 O ALA A 636 SHEET 6 AA9 6 SER A 615 THR A 617 -1 O TYR A 616 N VAL A 607 SHEET 1 AB1 2 HIS A 590 VAL A 594 0 SHEET 2 AB1 2 VAL A 623 VAL A 627 -1 O VAL A 623 N VAL A 594 LINK O ALA A 2 CA CA A 701 1555 1555 2.34 LINK OD1 ASP A 4 CA CA A 701 1555 1555 2.42 LINK O ASN A 6 CA CA A 701 1555 1555 2.35 LINK O ASP A 42 CA CA A 701 1555 1555 2.53 LINK OD1 ASP A 42 CA CA A 701 1555 1555 2.34 LINK OD2 ASP A 96 CA CA A 701 1555 1555 2.37 LINK OD1 ASN A 145 CA CA A 702 1555 1555 2.45 LINK O ASP A 147 CA CA A 702 1555 1555 2.38 LINK OD1 ASN A 150 CA CA A 702 1555 1555 2.38 LINK OD1 ASP A 151 CA CA A 702 1555 1555 2.31 LINK O GLY A 187 CA CA A 702 1555 1555 2.46 LINK OD2 ASP A 189 CA CA A 702 1555 1555 2.35 LINK OD2 ASP A 276 CA CA A 703 1555 1555 2.31 LINK OD1 ASN A 279 CA CA A 703 1555 1555 2.43 LINK O PHE A 281 CA CA A 703 1555 1555 2.39 LINK O SER A 283 CA CA A 703 1555 1555 2.45 LINK OE1 GLU A 288 CA CA A 703 1555 1555 2.57 LINK OE2 GLU A 288 CA CA A 703 1555 1555 2.46 LINK CA CA A 701 O HOH A 906 1555 1555 2.42 LINK CA CA A 702 O HOH A 902 1555 1555 2.40 LINK CA CA A 703 O HOH A1403 1555 1555 2.34 CISPEP 1 TRP A 303 PRO A 304 0 3.25 CISPEP 2 PRO A 346 PRO A 347 0 10.26 CISPEP 3 ASP A 516 PRO A 517 0 14.65 SITE 1 AC1 6 ALA A 2 ASP A 4 ASN A 6 ASP A 42 SITE 2 AC1 6 ASP A 96 HOH A 906 SITE 1 AC2 7 ASN A 145 ASP A 147 ASN A 150 ASP A 151 SITE 2 AC2 7 GLY A 187 ASP A 189 HOH A 902 SITE 1 AC3 6 ASP A 276 ASN A 279 PHE A 281 SER A 283 SITE 2 AC3 6 GLU A 288 HOH A1403 SITE 1 AC4 8 SER A 182 HIS A 221 PHE A 313 SER A 315 SITE 2 AC4 8 HOH A 857 HOH A1160 HOH A1205 HOH A1262 CRYST1 76.972 54.022 77.907 90.00 100.07 90.00 P 1 21 1 2 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 0.012992 0.000000 0.002308 0.00000 SCALE2 0.000000 0.018511 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013037 0.00000