HEADER HYDROLASE 20-JAN-17 5X09 TITLE CRYSTAL STRUCTURE OF SUBUNIT A MUTANT P235A/S238C OF THE A-ATP TITLE 2 SYNTHASE FROM PYROCOCCUS HORIKOSHII OT3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: V-TYPE ATP SYNTHASE ALPHA CHAIN,V-TYPE ATP SYNTHASE ALPHA COMPND 3 CHAIN; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: UNP RESIDUES 51-240,UNP RESIDUES 617-964; COMPND 6 SYNONYM: V-ATPASE SUBUNIT A,V-ATPASE SUBUNIT A; COMPND 7 EC: 3.6.3.14; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS HORIKOSHII (STRAIN ATCC 700860 / DSM SOURCE 3 12428 / JCM 9974 / NBRC 100139 / OT-3); SOURCE 4 ORGANISM_TAXID: 70601; SOURCE 5 STRAIN: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3; SOURCE 6 GENE: ATPA, PH1975; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21 DE3 RIL; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B(+)-HIS6 KEYWDS P LOOP, PROLINE MUTANT, SERINE MUTANT, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.DHIRENDRA,G.GRUBER REVDAT 3 22-NOV-23 5X09 1 REMARK REVDAT 2 10-JAN-18 5X09 1 JRNL REVDAT 1 29-NOV-17 5X09 0 JRNL AUTH D.SINGH,G.GRUBER JRNL TITL CRYSTALLOGRAPHIC AND ENZYMATIC INSIGHTS INTO THE MECHANISMS JRNL TITL 2 OF MG-ADP INHIBITION IN THE A1 COMPLEX OF THE A1AO ATP JRNL TITL 3 SYNTHASE JRNL REF J. STRUCT. BIOL. V. 201 26 2018 JRNL REFN ESSN 1095-8657 JRNL PMID 29074108 JRNL DOI 10.1016/J.JSB.2017.10.008 REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0049 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) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 34785 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) : 0.237 REMARK 3 R VALUE (WORKING SET) : 0.235 REMARK 3 FREE R VALUE : 0.272 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1830 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) : 2.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.41 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2521 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.59 REMARK 3 BIN R VALUE (WORKING SET) : 0.2570 REMARK 3 BIN FREE R VALUE SET COUNT : 125 REMARK 3 BIN FREE R VALUE : 0.2730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4187 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 131 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 74.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.28000 REMARK 3 B22 (A**2) : -0.28000 REMARK 3 B33 (A**2) : 0.56000 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): 0.281 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.230 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.161 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.608 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.908 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4297 ; 0.006 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4204 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5819 ; 1.069 ; 1.982 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9692 ; 0.717 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 528 ; 5.714 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 187 ;34.425 ;23.529 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 760 ;13.586 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 36 ;16.367 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 644 ; 0.060 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4758 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 916 ; 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): 2121 ; 2.988 ; 7.469 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2117 ; 2.989 ; 7.464 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2644 ; 4.958 ;11.183 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2645 ; 4.957 ;11.186 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2176 ; 2.748 ; 7.590 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2177 ; 2.748 ; 7.591 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3176 ; 4.632 ;11.296 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4952 ; 8.441 ;58.390 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4953 ; 8.440 ;58.396 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 REMARK 4 REMARK 4 5X09 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1300002706. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSRRC REMARK 200 BEAMLINE : BL13B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36816 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 90.130 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 9.400 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.0700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.43 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.70 REMARK 200 R MERGE FOR SHELL (I) : 0.62000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.830 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: 3M4Y REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50%(V/V) MPD, 0.1M ACETATE BUFFER PH REMARK 280 4.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 52.67450 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 63.73350 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 63.73350 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 79.01175 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 63.73350 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 63.73350 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 26.33725 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 63.73350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.73350 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 79.01175 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 63.73350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.73350 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 26.33725 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 52.67450 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: 280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 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 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 LEU A 347 REMARK 465 GLU A 348 REMARK 465 GLU A 349 REMARK 465 MET A 350 REMARK 465 PRO A 351 REMARK 465 GLY A 352 REMARK 465 GLU A 353 REMARK 465 GLU A 354 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 OE1 GLN A 578 O HOH A 701 1.76 REMARK 500 O PRO A 210 O GLN A 224 1.78 REMARK 500 NH1 ARG A 382 O HOH A 702 1.97 REMARK 500 O ASN A 576 O HOH A 703 2.17 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 PRO A 78 48.28 -108.86 REMARK 500 LYS A 98 -93.09 55.67 REMARK 500 ASP A 101 -58.95 -159.41 REMARK 500 PRO A 140 101.01 -57.64 REMARK 500 GLU A 208 -47.24 -151.41 REMARK 500 LEU A 211 86.44 72.81 REMARK 500 CYS A 238 29.98 -143.52 REMARK 500 CYS A 261 23.90 -150.89 REMARK 500 SER A 332 86.56 -69.94 REMARK 500 ILE A 343 57.17 -115.89 REMARK 500 ALA A 361 87.56 -66.81 REMARK 500 THR A 407 -149.30 44.76 REMARK 500 LEU A 408 68.59 -107.94 REMARK 500 ARG A 409 80.41 63.20 REMARK 500 ILE A 451 -56.53 -122.91 REMARK 500 TYR A 502 -57.93 -131.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACY A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRS A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 604 DBREF 5X09 A 51 240 UNP O57728 VATA_PYRHO 51 240 DBREF 5X09 A 241 588 UNP O57728 VATA_PYRHO 617 964 SEQADV 5X09 ARG A 79 UNP O57728 GLY 79 ENGINEERED MUTATION SEQADV 5X09 ALA A 235 UNP O57728 PRO 235 ENGINEERED MUTATION SEQADV 5X09 CYS A 238 UNP O57728 SER 238 ENGINEERED MUTATION SEQRES 1 A 538 GLN VAL TYR GLU GLU THR ALA GLY VAL ARG PRO GLY GLU SEQRES 2 A 538 PRO VAL VAL GLY THR GLY ALA SER LEU SER VAL GLU LEU SEQRES 3 A 538 GLY PRO ARG LEU LEU THR SER ILE TYR ASP GLY ILE GLN SEQRES 4 A 538 ARG PRO LEU GLU VAL ILE ARG GLU LYS THR GLY ASP PHE SEQRES 5 A 538 ILE ALA ARG GLY VAL THR ALA PRO ALA LEU PRO ARG ASP SEQRES 6 A 538 LYS LYS TRP HIS PHE ILE PRO LYS ALA LYS VAL GLY ASP SEQRES 7 A 538 LYS VAL VAL GLY GLY ASP ILE ILE GLY GLU VAL PRO GLU SEQRES 8 A 538 THR SER ILE ILE VAL HIS LYS ILE MET VAL PRO PRO GLY SEQRES 9 A 538 ILE GLU GLY GLU ILE VAL GLU ILE ALA GLU GLU GLY ASP SEQRES 10 A 538 TYR THR ILE GLU GLU VAL ILE ALA LYS VAL LYS THR PRO SEQRES 11 A 538 SER GLY GLU ILE LYS GLU LEU LYS MET TYR GLN ARG TRP SEQRES 12 A 538 PRO VAL ARG VAL LYS ARG PRO TYR LYS GLU LYS LEU PRO SEQRES 13 A 538 PRO GLU VAL PRO LEU ILE THR GLY GLN ARG VAL ILE ASP SEQRES 14 A 538 THR PHE PHE PRO GLN ALA LYS GLY GLY THR ALA ALA ILE SEQRES 15 A 538 PRO GLY ALA PHE GLY CYS GLY LYS THR VAL THR GLN HIS SEQRES 16 A 538 GLN LEU ALA LYS TRP SER ASP ALA GLN VAL VAL ILE TYR SEQRES 17 A 538 ILE GLY CYS GLY GLU ARG GLY ASN GLU MET THR ASP VAL SEQRES 18 A 538 LEU GLU GLU PHE PRO LYS LEU LYS ASP PRO LYS THR GLY SEQRES 19 A 538 LYS PRO LEU MET GLU ARG THR VAL LEU ILE ALA ASN THR SEQRES 20 A 538 SER ASN MET PRO VAL ALA ALA ARG GLU ALA SER ILE TYR SEQRES 21 A 538 THR GLY ILE THR ILE ALA GLU TYR PHE ARG ASP MET GLY SEQRES 22 A 538 TYR ASP VAL ALA LEU MET ALA ASP SER THR SER ARG TRP SEQRES 23 A 538 ALA GLU ALA LEU ARG GLU ILE SER GLY ARG LEU GLU GLU SEQRES 24 A 538 MET PRO GLY GLU GLU GLY TYR PRO ALA TYR LEU ALA SER SEQRES 25 A 538 LYS LEU ALA GLU PHE TYR GLU ARG ALA GLY ARG VAL VAL SEQRES 26 A 538 THR LEU GLY SER ASP TYR ARG VAL GLY SER VAL SER VAL SEQRES 27 A 538 ILE GLY ALA VAL SER PRO PRO GLY GLY ASP PHE SER GLU SEQRES 28 A 538 PRO VAL VAL GLN ASN THR LEU ARG VAL VAL LYS VAL PHE SEQRES 29 A 538 TRP ALA LEU ASP ALA ASP LEU ALA ARG ARG ARG HIS PHE SEQRES 30 A 538 PRO ALA ILE ASN TRP LEU THR SER TYR SER LEU TYR VAL SEQRES 31 A 538 ASP ALA VAL LYS ASP TRP TRP HIS LYS ASN ILE ASP PRO SEQRES 32 A 538 GLU TRP LYS ALA MET ARG ASP LYS ALA MET ALA LEU LEU SEQRES 33 A 538 GLN LYS GLU SER GLU LEU GLN GLU ILE VAL ARG ILE VAL SEQRES 34 A 538 GLY PRO ASP ALA LEU PRO GLU ARG GLU ARG ALA ILE LEU SEQRES 35 A 538 LEU VAL ALA ARG MET LEU ARG GLU ASP TYR LEU GLN GLN SEQRES 36 A 538 ASP ALA PHE ASP GLU VAL ASP THR TYR CYS PRO PRO GLU SEQRES 37 A 538 LYS GLN VAL THR MET MET ARG VAL LEU LEU ASN PHE TYR SEQRES 38 A 538 ASP LYS THR MET GLU ALA ILE ASN ARG GLY VAL PRO LEU SEQRES 39 A 538 GLU GLU ILE ALA LYS LEU PRO VAL ARG GLU GLU ILE GLY SEQRES 40 A 538 ARG MET LYS PHE GLU ARG ASP VAL SER LYS ILE ARG SER SEQRES 41 A 538 LEU ILE ASP LYS THR ASN GLU GLN PHE GLU GLU LEU PHE SEQRES 42 A 538 LYS LYS TYR GLY ALA HET ACY A 601 4 HET ACY A 602 4 HET TRS A 603 8 HET MPD A 604 8 HETNAM ACY ACETIC ACID HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETSYN TRS TRIS BUFFER FORMUL 2 ACY 2(C2 H4 O2) FORMUL 4 TRS C4 H12 N O3 1+ FORMUL 5 MPD C6 H14 O2 FORMUL 6 HOH *131(H2 O) HELIX 1 AA1 GLN A 215 PHE A 222 1 8 HELIX 2 AA2 GLY A 239 SER A 251 1 13 HELIX 3 AA3 ASN A 266 PHE A 275 1 10 HELIX 4 AA4 PRO A 286 GLU A 289 5 4 HELIX 5 AA5 PRO A 301 MET A 322 1 22 HELIX 6 AA6 THR A 333 GLU A 338 1 6 HELIX 7 AA7 SER A 362 GLU A 369 1 8 HELIX 8 AA8 ASP A 418 ARG A 424 1 7 HELIX 9 AA9 TYR A 439 ILE A 451 1 13 HELIX 10 AB1 GLU A 454 GLY A 480 1 27 HELIX 11 AB2 PRO A 485 TYR A 502 1 18 HELIX 12 AB3 PRO A 516 ARG A 540 1 25 HELIX 13 AB4 PRO A 543 LYS A 549 1 7 HELIX 14 AB5 PRO A 551 MET A 559 1 9 HELIX 15 AB6 LYS A 560 GLU A 562 5 3 HELIX 16 AB7 ASP A 564 SER A 570 1 7 HELIX 17 AB8 SER A 570 GLY A 587 1 18 SHEET 1 AA1 2 SER A 73 LEU A 76 0 SHEET 2 AA1 2 GLN A 191 PRO A 194 -1 O GLN A 191 N LEU A 76 SHEET 1 AA2 7 ILE A 84 ASP A 86 0 SHEET 2 AA2 7 THR A 291 ALA A 295 1 O LEU A 293 N TYR A 85 SHEET 3 AA2 7 VAL A 255 TYR A 258 1 N TYR A 258 O ILE A 294 SHEET 4 AA2 7 ASP A 325 ALA A 330 1 O MET A 329 N ILE A 257 SHEET 5 AA2 7 VAL A 383 VAL A 392 1 O ALA A 391 N ALA A 330 SHEET 6 AA2 7 GLY A 372 VAL A 375 -1 N VAL A 374 O GLY A 384 SHEET 7 AA2 7 GLU A 203 LEU A 205 -1 N GLU A 203 O VAL A 375 SHEET 1 AA3 8 ILE A 84 ASP A 86 0 SHEET 2 AA3 8 THR A 291 ALA A 295 1 O LEU A 293 N TYR A 85 SHEET 3 AA3 8 VAL A 255 TYR A 258 1 N TYR A 258 O ILE A 294 SHEET 4 AA3 8 ASP A 325 ALA A 330 1 O MET A 329 N ILE A 257 SHEET 5 AA3 8 VAL A 383 VAL A 392 1 O ALA A 391 N ALA A 330 SHEET 6 AA3 8 THR A 229 PRO A 233 1 N ALA A 230 O VAL A 388 SHEET 7 AA3 8 VAL A 413 PHE A 414 1 O VAL A 413 N ALA A 231 SHEET 8 AA3 8 TYR A 436 SER A 437 -1 O TYR A 436 N PHE A 414 SHEET 1 AA4 4 VAL A 146 MET A 150 0 SHEET 2 AA4 4 ILE A 135 PRO A 140 -1 N VAL A 139 O HIS A 147 SHEET 3 AA4 4 TRP A 118 PRO A 122 -1 N ILE A 121 O GLU A 138 SHEET 4 AA4 4 GLY A 166 TYR A 168 -1 O TYR A 168 N TRP A 118 SHEET 1 AA5 4 LYS A 129 VAL A 130 0 SHEET 2 AA5 4 GLY A 157 ILE A 162 -1 O GLY A 157 N VAL A 130 SHEET 3 AA5 4 ALA A 175 LYS A 178 -1 O LYS A 178 N GLU A 158 SHEET 4 AA5 4 ILE A 184 LEU A 187 -1 O LYS A 185 N VAL A 177 CISPEP 1 GLY A 77 PRO A 78 0 2.41 CISPEP 2 PHE A 427 PRO A 428 0 -7.43 SITE 1 AC1 1 LYS A 468 SITE 1 AC2 3 GLU A 183 ILE A 184 GLU A 581 SITE 1 AC3 7 VAL A 242 HIS A 245 GLN A 246 LYS A 249 SITE 2 AC3 7 LEU A 278 ILE A 475 ALA A 507 CRYST1 127.467 127.467 105.349 90.00 90.00 90.00 P 43 21 2 8 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 0.007845 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007845 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009492 0.00000