HEADER TRANSFERASE 10-DEC-13 4NY1 TITLE X-RAY STRUCTURE OF THE UNLIGANDED URIDINE PHOSPHORYLASE FROM YERSINIA TITLE 2 PSEUDOTUBERCULOSIS AT 1.7 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: URIDINE PHOSPHORYLASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.4.2.3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: YERSINIA PSEUDOTUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 273123; SOURCE 4 STRAIN: IP32953; SOURCE 5 GENE: UDP, YPTB0250; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: AM2009; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMZ18 KEYWDS ROSSMANN FOLD, TRANSFERASE, PYRIMIDINE BASE, PHOSPHATE ION EXPDTA X-RAY DIFFRACTION AUTHOR V.V.BALAEV,A.G.GABDOULKHAKOV,A.A.LASHKOV,A.M.MIKHAILOV REVDAT 2 28-FEB-24 4NY1 1 REMARK LINK REVDAT 1 07-JAN-15 4NY1 0 JRNL AUTH V.V.BALAEV,A.G.GABDOULKHAKOV,A.A.LASHKOV,A.M.MIKHAILOV JRNL TITL X-RAY STRUCTURE OF THE UNLIGANDED URIDINE PHOSPHORYLASE FROM JRNL TITL 2 YERSINIA PSEUDOTUBERCULOSIS AT 1.7 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 42114 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) : 0.163 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.194 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2124 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2815 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.73 REMARK 3 BIN R VALUE (WORKING SET) : 0.3650 REMARK 3 BIN FREE R VALUE SET COUNT : 131 REMARK 3 BIN FREE R VALUE : 0.3960 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3758 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 482 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 12.57 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.09000 REMARK 3 B22 (A**2) : -0.09000 REMARK 3 B33 (A**2) : 0.13000 REMARK 3 B12 (A**2) : -0.04000 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): 0.667 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.112 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.070 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.755 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3947 ; 0.006 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5366 ; 1.010 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 526 ; 5.496 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 163 ;33.182 ;23.681 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 655 ;12.376 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;16.253 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 630 ; 0.069 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2964 ; 0.003 ; 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): 2530 ; 0.537 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4089 ; 0.996 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1417 ; 1.159 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1264 ; 2.042 ; 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): 3947 ; 0.530 ; 3.000 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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4NY1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JAN-14. REMARK 100 THE DEPOSITION ID IS D_1000083798. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-NOV-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5419 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER PLATINUM 135 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : PROTEUM PLUS PLUS REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42114 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 75.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 1.890 REMARK 200 R MERGE (I) : 0.05780 REMARK 200 R SYM (I) : 0.08710 REMARK 200 FOR THE DATA SET : 9.2900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.5 REMARK 200 DATA REDUNDANCY IN SHELL : 1.52 REMARK 200 R MERGE FOR SHELL (I) : 0.33530 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.640 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 34.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1M TRIS, 5% W/V PGA-LM, 20% W/V PEG REMARK 280 2000 MME, PH 7.8, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 75.37100 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 43.51547 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 15.43667 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 75.37100 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 43.51547 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 15.43667 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 75.37100 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 43.51547 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 15.43667 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 87.03093 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 30.87333 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 87.03093 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 30.87333 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 87.03093 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 30.87333 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 24180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 47830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -118.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 1 REMARK 465 ALA A 2 REMARK 465 MET B 1 REMARK 465 ALA B 2 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 LYS A 235 CD CE NZ REMARK 470 LYS B 3 CB CG CD CE NZ REMARK 470 LYS B 235 CG CD CE NZ 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 ARG A 48 -129.05 51.06 REMARK 500 ARG A 48 -129.57 51.83 REMARK 500 TYR A 163 -81.06 -98.96 REMARK 500 ARG B 48 -130.72 53.58 REMARK 500 TYR B 163 -96.15 -132.52 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 NA A 301 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 49 OE1 REMARK 620 2 ILE A 69 O 158.7 REMARK 620 3 SER A 73 OG 90.8 67.9 REMARK 620 4 GLU B 49 OE1 106.5 85.7 119.7 REMARK 620 5 ILE B 69 O 83.9 93.2 84.9 152.4 REMARK 620 6 SER B 73 OG 113.1 84.7 139.5 85.5 66.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PEG A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4I2V RELATED DB: PDB DBREF 4NY1 A 1 253 UNP I3NID1 I3NID1_YERPS 1 253 DBREF 4NY1 B 1 253 UNP I3NID1 I3NID1_YERPS 1 253 SEQRES 1 A 253 MET ALA LYS SER ASP VAL PHE HIS LEU GLY LEU THR LYS SEQRES 2 A 253 ASN ASP LEU GLN GLY ALA THR LEU ALA ILE VAL PRO GLY SEQRES 3 A 253 ASP PRO GLN ARG VAL GLU LYS ILE ALA LYS LEU MET ASP SEQRES 4 A 253 ASN PRO VAL HIS LEU ALA SER HIS ARG GLU PHE THR SER SEQRES 5 A 253 TRP ARG ALA GLU LEU ASP GLY LYS ALA VAL ILE VAL CYS SEQRES 6 A 253 SER THR GLY ILE GLY GLY PRO SER THR SER ILE ALA VAL SEQRES 7 A 253 GLU GLU LEU ALA GLN LEU GLY VAL ARG THR PHE LEU ARG SEQRES 8 A 253 ILE GLY THR THR GLY ALA ILE GLN PRO HIS ILE ASN VAL SEQRES 9 A 253 GLY ASP VAL LEU VAL THR THR ALA ALA VAL ARG LEU ASP SEQRES 10 A 253 GLY ALA SER LEU HIS PHE ALA PRO MET GLU PHE PRO ALA SEQRES 11 A 253 VAL ALA ASP PHE SER CYS THR THR ALA LEU VAL ASN ALA SEQRES 12 A 253 ALA LYS SER VAL GLY ALA THR THR HIS ILE GLY ILE THR SEQRES 13 A 253 ALA SER SER ASP THR PHE TYR PRO GLY GLN GLU ARG TYR SEQRES 14 A 253 ASP THR PHE SER GLY ARG VAL VAL ARG HIS PHE LYS GLY SEQRES 15 A 253 SER MET GLU GLU TRP GLN SER MET GLY VAL MET ASN TYR SEQRES 16 A 253 GLU MET GLU SER ALA THR LEU LEU THR MET CYS ALA SER SEQRES 17 A 253 GLN GLY LEU ARG ALA GLY MET VAL ALA GLY VAL ILE VAL SEQRES 18 A 253 ASN ARG THR GLN GLN GLU ILE PRO ASN GLU GLU THR MET SEQRES 19 A 253 LYS ALA THR GLU SER HIS ALA VAL LYS ILE VAL VAL GLU SEQRES 20 A 253 ALA ALA ARG HIS LEU LEU SEQRES 1 B 253 MET ALA LYS SER ASP VAL PHE HIS LEU GLY LEU THR LYS SEQRES 2 B 253 ASN ASP LEU GLN GLY ALA THR LEU ALA ILE VAL PRO GLY SEQRES 3 B 253 ASP PRO GLN ARG VAL GLU LYS ILE ALA LYS LEU MET ASP SEQRES 4 B 253 ASN PRO VAL HIS LEU ALA SER HIS ARG GLU PHE THR SER SEQRES 5 B 253 TRP ARG ALA GLU LEU ASP GLY LYS ALA VAL ILE VAL CYS SEQRES 6 B 253 SER THR GLY ILE GLY GLY PRO SER THR SER ILE ALA VAL SEQRES 7 B 253 GLU GLU LEU ALA GLN LEU GLY VAL ARG THR PHE LEU ARG SEQRES 8 B 253 ILE GLY THR THR GLY ALA ILE GLN PRO HIS ILE ASN VAL SEQRES 9 B 253 GLY ASP VAL LEU VAL THR THR ALA ALA VAL ARG LEU ASP SEQRES 10 B 253 GLY ALA SER LEU HIS PHE ALA PRO MET GLU PHE PRO ALA SEQRES 11 B 253 VAL ALA ASP PHE SER CYS THR THR ALA LEU VAL ASN ALA SEQRES 12 B 253 ALA LYS SER VAL GLY ALA THR THR HIS ILE GLY ILE THR SEQRES 13 B 253 ALA SER SER ASP THR PHE TYR PRO GLY GLN GLU ARG TYR SEQRES 14 B 253 ASP THR PHE SER GLY ARG VAL VAL ARG HIS PHE LYS GLY SEQRES 15 B 253 SER MET GLU GLU TRP GLN SER MET GLY VAL MET ASN TYR SEQRES 16 B 253 GLU MET GLU SER ALA THR LEU LEU THR MET CYS ALA SER SEQRES 17 B 253 GLN GLY LEU ARG ALA GLY MET VAL ALA GLY VAL ILE VAL SEQRES 18 B 253 ASN ARG THR GLN GLN GLU ILE PRO ASN GLU GLU THR MET SEQRES 19 B 253 LYS ALA THR GLU SER HIS ALA VAL LYS ILE VAL VAL GLU SEQRES 20 B 253 ALA ALA ARG HIS LEU LEU HET NA A 301 1 HET EDO A 302 4 HET EDO A 303 4 HET EDO A 304 4 HET PEG A 305 7 HET EDO B 301 4 HETNAM NA SODIUM ION HETNAM EDO 1,2-ETHANEDIOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN EDO ETHYLENE GLYCOL FORMUL 3 NA NA 1+ FORMUL 4 EDO 4(C2 H6 O2) FORMUL 7 PEG C4 H10 O3 FORMUL 9 HOH *482(H2 O) HELIX 1 1 LYS A 13 GLN A 17 5 5 HELIX 2 2 ASP A 27 GLN A 29 5 3 HELIX 3 3 ARG A 30 LYS A 36 1 7 HELIX 4 4 GLY A 70 LEU A 84 1 15 HELIX 5 5 GLY A 118 PHE A 123 5 6 HELIX 6 6 ASP A 133 VAL A 147 1 15 HELIX 7 7 TYR A 163 GLU A 167 5 5 HELIX 8 8 GLY A 182 MET A 190 1 9 HELIX 9 9 GLU A 198 GLN A 209 1 12 HELIX 10 10 ASN A 230 HIS A 251 1 22 HELIX 11 11 LYS B 13 GLN B 17 5 5 HELIX 12 12 ARG B 30 LYS B 36 1 7 HELIX 13 13 GLY B 70 LEU B 84 1 15 HELIX 14 14 GLY B 118 PHE B 123 5 6 HELIX 15 15 ASP B 133 VAL B 147 1 15 HELIX 16 16 TYR B 163 GLU B 167 5 5 HELIX 17 17 VAL B 177 LYS B 181 5 5 HELIX 18 18 GLY B 182 MET B 190 1 9 HELIX 19 19 GLU B 198 GLN B 209 1 12 HELIX 20 20 ASN B 230 HIS B 251 1 22 SHEET 1 A 9 ASP A 39 HIS A 47 0 SHEET 2 A 9 PHE A 50 LEU A 57 -1 O SER A 52 N LEU A 44 SHEET 3 A 9 LYS A 60 CYS A 65 -1 O VAL A 64 N TRP A 53 SHEET 4 A 9 LEU A 21 ILE A 23 1 N ILE A 23 O ILE A 63 SHEET 5 A 9 THR A 88 ALA A 97 1 O THR A 88 N ALA A 22 SHEET 6 A 9 ASN A 194 GLU A 196 -1 O TYR A 195 N GLY A 96 SHEET 7 A 9 THR A 151 SER A 159 1 N ALA A 157 O ASN A 194 SHEET 8 A 9 VAL A 107 LEU A 116 1 N VAL A 107 O HIS A 152 SHEET 9 A 9 ALA A 130 VAL A 131 -1 O ALA A 130 N ALA A 113 SHEET 1 B 8 ASP A 39 HIS A 47 0 SHEET 2 B 8 PHE A 50 LEU A 57 -1 O SER A 52 N LEU A 44 SHEET 3 B 8 LYS A 60 CYS A 65 -1 O VAL A 64 N TRP A 53 SHEET 4 B 8 LEU A 21 ILE A 23 1 N ILE A 23 O ILE A 63 SHEET 5 B 8 THR A 88 ALA A 97 1 O THR A 88 N ALA A 22 SHEET 6 B 8 ARG A 212 ASN A 222 1 O GLY A 214 N ARG A 91 SHEET 7 B 8 VAL A 107 LEU A 116 -1 N LEU A 108 O ALA A 217 SHEET 8 B 8 ALA A 130 VAL A 131 -1 O ALA A 130 N ALA A 113 SHEET 1 C 8 ASP B 39 HIS B 47 0 SHEET 2 C 8 PHE B 50 LEU B 57 -1 O SER B 52 N LEU B 44 SHEET 3 C 8 LYS B 60 CYS B 65 -1 O VAL B 64 N TRP B 53 SHEET 4 C 8 LEU B 21 VAL B 24 1 N ILE B 23 O ILE B 63 SHEET 5 C 8 THR B 88 ALA B 97 1 O THR B 88 N ALA B 22 SHEET 6 C 8 ARG B 212 ASN B 222 1 O ARG B 212 N PHE B 89 SHEET 7 C 8 VAL B 107 LEU B 116 -1 N LEU B 108 O ALA B 217 SHEET 8 C 8 ALA B 130 VAL B 131 -1 O ALA B 130 N ALA B 113 SHEET 1 D 9 ASP B 39 HIS B 47 0 SHEET 2 D 9 PHE B 50 LEU B 57 -1 O SER B 52 N LEU B 44 SHEET 3 D 9 LYS B 60 CYS B 65 -1 O VAL B 64 N TRP B 53 SHEET 4 D 9 LEU B 21 VAL B 24 1 N ILE B 23 O ILE B 63 SHEET 5 D 9 THR B 88 ALA B 97 1 O THR B 88 N ALA B 22 SHEET 6 D 9 ARG B 212 ASN B 222 1 O ARG B 212 N PHE B 89 SHEET 7 D 9 VAL B 107 LEU B 116 -1 N LEU B 108 O ALA B 217 SHEET 8 D 9 THR B 151 SER B 159 1 O HIS B 152 N VAL B 109 SHEET 9 D 9 ASN B 194 GLU B 196 1 O ASN B 194 N ALA B 157 LINK OE1 GLU A 49 NA NA A 301 1555 1555 2.81 LINK O ILE A 69 NA NA A 301 1555 1555 3.01 LINK OG SER A 73 NA NA A 301 1555 1555 2.97 LINK NA NA A 301 OE1 GLU B 49 1555 1555 2.72 LINK NA NA A 301 O ILE B 69 1555 1555 3.02 LINK NA NA A 301 OG SER B 73 1555 1555 3.14 SITE 1 AC1 6 GLU A 49 ILE A 69 SER A 73 GLU B 49 SITE 2 AC1 6 ILE B 69 SER B 73 SITE 1 AC2 4 ARG A 87 HOH A 421 HOH A 548 HOH A 562 SITE 1 AC3 4 ASP A 133 HOH A 411 HOH A 412 HOH A 427 SITE 1 AC4 4 GLY A 105 THR A 237 HIS A 240 HOH A 540 SITE 1 AC5 6 PHE A 172 SER A 189 GLN B 209 GLY B 210 SITE 2 AC5 6 THR B 224 GLN B 225 SITE 1 AC6 6 ARG A 48 ARG B 91 GLY B 93 THR B 94 SITE 2 AC6 6 GLU B 198 HOH B 612 CRYST1 150.742 150.742 46.310 90.00 90.00 120.00 H 3 18 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 0.006634 0.003830 0.000000 0.00000 SCALE2 0.000000 0.007660 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021594 0.00000