HEADER HYDROLASE 30-SEP-10 2XSS TITLE CRYSTAL STRUCTURE OF GAFB FROM THE HUMAN PHOSPHODIESTERASE 5 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CGMP-SPECIFIC 3', 5'-CYCLIC PHOSPHODIESTERASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: GAFB DOMAIN, RESIDUES 346-508; COMPND 5 SYNONYM: CGMP-BINDING CGMP-SPECIFIC PHOSPHODIESTERASE, CGB-PDE; COMPND 6 EC: 3.1.4.35; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PPR-IBA2 KEYWDS HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.SCHLICKER,M.RUSSWURM,C.STEEGBORN REVDAT 1 18-MAY-11 2XSS 0 JRNL AUTH M.RUSSWURM,C.SCHLICKER,M.WEYAND,D.KOESLING,C.STEEGBORN JRNL TITL CRYSTAL STRUCTURE OF THE GAF-B DOMAIN FROM HUMAN JRNL TITL 2 PHOSPHODIESTERASE 5. JRNL REF PROTEINS V. 79 1682 2011 JRNL REFN ISSN 0887-3585 JRNL PMID 21425347 JRNL DOI 10.1002/PROT.22989 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.39 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.00 REMARK 3 NUMBER OF REFLECTIONS : 12023 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) : 0.25187 REMARK 3 R VALUE (WORKING SET) : 0.24846 REMARK 3 FREE R VALUE : 0.31709 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.0 REMARK 3 FREE R VALUE TEST SET COUNT : 632 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) : 2.500 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.565 REMARK 3 REFLECTION IN BIN (WORKING SET) : 853 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.333 REMARK 3 BIN FREE R VALUE SET COUNT : 45 REMARK 3 BIN FREE R VALUE : 0.434 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2377 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 66.642 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.85 REMARK 3 B22 (A**2) : 1.85 REMARK 3 B33 (A**2) : -2.78 REMARK 3 B12 (A**2) : 0.93 REMARK 3 B13 (A**2) : 0.00 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.614 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.359 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.365 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 38.354 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.917 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.877 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2407 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3227 ; 1.552 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 298 ; 6.503 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 104 ;35.322 ;25.769 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 459 ;22.562 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;21.543 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 372 ; 0.106 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1742 ; 0.007 ; 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): 1521 ; 0.624 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2449 ; 1.189 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 886 ; 1.704 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 778 ; 2.673 ; 4.500 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 : 2 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 339 A 508 REMARK 3 ORIGIN FOR THE GROUP (A): 14.6978 -16.9612 17.2446 REMARK 3 T TENSOR REMARK 3 T11: 0.1875 T22: 0.2226 REMARK 3 T33: 0.3256 T12: 0.0884 REMARK 3 T13: 0.1013 T23: 0.1142 REMARK 3 L TENSOR REMARK 3 L11: 2.1085 L22: 2.0591 REMARK 3 L33: 9.8986 L12: 0.2569 REMARK 3 L13: 0.3458 L23: -0.5947 REMARK 3 S TENSOR REMARK 3 S11: 0.1213 S12: 0.5308 S13: 0.6473 REMARK 3 S21: 0.1521 S22: 0.0953 S23: 0.1854 REMARK 3 S31: -0.7304 S32: 0.2893 S33: -0.2166 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 343 B 509 REMARK 3 ORIGIN FOR THE GROUP (A): 25.5329 -43.5534 15.8834 REMARK 3 T TENSOR REMARK 3 T11: 0.5969 T22: 0.4682 REMARK 3 T33: 0.4796 T12: 0.4542 REMARK 3 T13: -0.4038 T23: -0.3060 REMARK 3 L TENSOR REMARK 3 L11: 1.9858 L22: 2.6583 REMARK 3 L33: 7.0870 L12: -0.3608 REMARK 3 L13: -0.0307 L23: 0.8677 REMARK 3 S TENSOR REMARK 3 S11: 0.5042 S12: 0.6637 S13: -0.6475 REMARK 3 S21: 0.3261 S22: 0.1138 S23: -0.5516 REMARK 3 S31: 1.3077 S32: 1.0365 S33: -0.6180 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. U VALUES WITH TLS ADDED. REMARK 4 REMARK 4 2XSS COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-MAY-11. REMARK 100 THE PDBE ID CODE IS EBI-45609. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97881 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12657 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.50 REMARK 200 RESOLUTION RANGE LOW (A) : 44.39 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 11.9 REMARK 200 R MERGE (I) : 0.07 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.0 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) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 12.3 REMARK 200 R MERGE FOR SHELL (I) : 0.64 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.2 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: AUTOSHARP REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 3350, 0.06 M CITRIC ACID, REMARK 280 0.04 M BIS-TRIS PROPANE REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 48.43667 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 96.87333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 96.87333 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 48.43667 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: 15850 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -135.3 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 48.43667 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 330 REMARK 465 ALA A 331 REMARK 465 SER A 332 REMARK 465 TRP A 333 REMARK 465 SER A 334 REMARK 465 HIS A 335 REMARK 465 PRO A 336 REMARK 465 GLN A 337 REMARK 465 PHE A 338 REMARK 465 THR A 397 REMARK 465 LEU A 398 REMARK 465 TRP A 435 REMARK 465 THR A 436 REMARK 465 THR A 437 REMARK 465 GLU A 438 REMARK 465 ASN A 439 REMARK 465 THR A 440 REMARK 465 GLY A 441 REMARK 465 ASN A 442 REMARK 465 VAL A 443 REMARK 465 ASN A 444 REMARK 465 GLN A 445 REMARK 465 GLU A 476 REMARK 465 TYR A 509 REMARK 465 ALA A 510 REMARK 465 MET B 330 REMARK 465 ALA B 331 REMARK 465 SER B 332 REMARK 465 TRP B 333 REMARK 465 SER B 334 REMARK 465 HIS B 335 REMARK 465 PRO B 336 REMARK 465 GLN B 337 REMARK 465 PHE B 338 REMARK 465 GLU B 339 REMARK 465 LYS B 340 REMARK 465 GLY B 341 REMARK 465 ALA B 342 REMARK 465 THR B 397 REMARK 465 LEU B 398 REMARK 465 TRP B 435 REMARK 465 THR B 436 REMARK 465 THR B 437 REMARK 465 GLU B 438 REMARK 465 ASN B 439 REMARK 465 THR B 440 REMARK 465 GLY B 441 REMARK 465 ASN B 442 REMARK 465 VAL B 443 REMARK 465 ASN B 444 REMARK 465 GLN B 445 REMARK 465 GLN B 446 REMARK 465 CYS B 447 REMARK 465 ASN B 477 REMARK 465 THR B 478 REMARK 465 ALA B 510 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 ASP A 396 CG OD1 OD2 REMARK 470 THR A 399 OG1 CG2 REMARK 470 GLU A 401 CG CD OE1 OE2 REMARK 470 GLN A 446 CG CD OE1 NE2 REMARK 470 CYS A 447 SG REMARK 470 ILE A 448 CG1 CG2 CD1 REMARK 470 ASN A 477 CG OD1 ND2 REMARK 470 THR A 478 OG1 CG2 REMARK 470 GLU B 374 CG CD OE1 OE2 REMARK 470 ASP B 375 CG OD1 OD2 REMARK 470 GLU B 390 CG CD OE1 OE2 REMARK 470 ASP B 396 CG OD1 OD2 REMARK 470 THR B 399 OG1 CG2 REMARK 470 GLU B 401 CG CD OE1 OE2 REMARK 470 LYS B 431 CG CD CE NZ REMARK 470 GLU B 476 CG CD OE1 OE2 REMARK 470 LYS B 480 CG CD CE NZ REMARK 470 TYR B 509 CG CD1 CD2 CE1 CE2 CZ OH 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 CYS A 388 CB CYS A 388 SG -0.122 REMARK 500 CYS B 468 CB CYS B 468 SG -0.141 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 GLN A 363 65.41 61.12 REMARK 500 MET A 419 11.60 82.77 REMARK 500 ASN A 472 64.80 62.89 REMARK 500 THR A 478 7.78 46.28 REMARK 500 LYS A 480 -175.80 -66.06 REMARK 500 SER B 394 -129.74 -141.65 REMARK 500 SER B 395 83.67 -161.60 REMARK 500 MET B 419 23.12 81.80 REMARK 500 ARG B 449 -82.38 -155.24 REMARK 500 LYS B 460 50.54 -99.23 REMARK 500 LYS B 463 -144.98 -163.20 REMARK 500 ASN B 472 80.11 60.41 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1XP0 RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 5A IN REMARK 900 COMPLEXWITH VARDENAFIL REMARK 900 RELATED ID: 1UDT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PHOSPHODIESTERASE 5 REMARK 900 COMPLEXEDWITH SILDENAFIL(VIAGRA) REMARK 900 RELATED ID: 2H44 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PDE5A1 IN COMPLEX WITH ICARISID II REMARK 900 RELATED ID: 1UHO RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PHOSPHODIESTERASE 5 REMARK 900 COMPLEXEDWITH VARDENAFIL(LEVITRA) REMARK 900 RELATED ID: 1T9S RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 5A IN REMARK 900 COMPLEXWITH GMP REMARK 900 RELATED ID: 1RKP RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PDE5A1-IBMX REMARK 900 RELATED ID: 1UDU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN PHOSPHODIESTERASE 5 REMARK 900 COMPLEXEDWITH TADALAFIL(CIALIS) REMARK 900 RELATED ID: 2CHM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF N2 SUBSTITUTED PYRAZOLO PYRIMIDINONES REMARK 900 - A FLIPPED BINDING MODE IN PDE5 REMARK 900 RELATED ID: 2H40 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE CATALYTIC DOMAIN OF UNLIGANDED PDE5 REMARK 900 RELATED ID: 1TBF RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 5A IN REMARK 900 COMPLEXWITH SILDENAFIL REMARK 900 RELATED ID: 1T9R RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 5A REMARK 900 RELATED ID: 2H42 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PDE5 IN COMPLEX WITH SILDENAFIL REMARK 900 RELATED ID: 1XOZ RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF HUMAN PHOSPHODIESTERASE 5A IN REMARK 900 COMPLEX WITH TADALAFIL REMARK 999 REMARK 999 SEQUENCE REMARK 999 GAFB DOMAIN COMPRISES RESIDUES 346 TO 503 DBREF 2XSS A 346 509 UNP O76074 PDE5A_HUMAN 346 509 DBREF 2XSS B 346 509 UNP O76074 PDE5A_HUMAN 346 509 SEQADV 2XSS MET A 330 UNP O76074 EXPRESSION TAG SEQADV 2XSS ALA A 331 UNP O76074 EXPRESSION TAG SEQADV 2XSS SER A 332 UNP O76074 EXPRESSION TAG SEQADV 2XSS TRP A 333 UNP O76074 EXPRESSION TAG SEQADV 2XSS SER A 334 UNP O76074 EXPRESSION TAG SEQADV 2XSS HIS A 335 UNP O76074 EXPRESSION TAG SEQADV 2XSS PRO A 336 UNP O76074 EXPRESSION TAG SEQADV 2XSS GLN A 337 UNP O76074 EXPRESSION TAG SEQADV 2XSS PHE A 338 UNP O76074 EXPRESSION TAG SEQADV 2XSS GLU A 339 UNP O76074 EXPRESSION TAG SEQADV 2XSS LYS A 340 UNP O76074 EXPRESSION TAG SEQADV 2XSS GLY A 341 UNP O76074 EXPRESSION TAG SEQADV 2XSS ALA A 342 UNP O76074 EXPRESSION TAG SEQADV 2XSS GLU A 343 UNP O76074 EXPRESSION TAG SEQADV 2XSS THR A 344 UNP O76074 EXPRESSION TAG SEQADV 2XSS ALA A 345 UNP O76074 EXPRESSION TAG SEQADV 2XSS ALA A 510 UNP O76074 EXPRESSION TAG SEQADV 2XSS MET B 330 UNP O76074 EXPRESSION TAG SEQADV 2XSS ALA B 331 UNP O76074 EXPRESSION TAG SEQADV 2XSS SER B 332 UNP O76074 EXPRESSION TAG SEQADV 2XSS TRP B 333 UNP O76074 EXPRESSION TAG SEQADV 2XSS SER B 334 UNP O76074 EXPRESSION TAG SEQADV 2XSS HIS B 335 UNP O76074 EXPRESSION TAG SEQADV 2XSS PRO B 336 UNP O76074 EXPRESSION TAG SEQADV 2XSS GLN B 337 UNP O76074 EXPRESSION TAG SEQADV 2XSS PHE B 338 UNP O76074 EXPRESSION TAG SEQADV 2XSS GLU B 339 UNP O76074 EXPRESSION TAG SEQADV 2XSS LYS B 340 UNP O76074 EXPRESSION TAG SEQADV 2XSS GLY B 341 UNP O76074 EXPRESSION TAG SEQADV 2XSS ALA B 342 UNP O76074 EXPRESSION TAG SEQADV 2XSS GLU B 343 UNP O76074 EXPRESSION TAG SEQADV 2XSS THR B 344 UNP O76074 EXPRESSION TAG SEQADV 2XSS ALA B 345 UNP O76074 EXPRESSION TAG SEQADV 2XSS ALA B 510 UNP O76074 EXPRESSION TAG SEQRES 1 A 181 MET ALA SER TRP SER HIS PRO GLN PHE GLU LYS GLY ALA SEQRES 2 A 181 GLU THR ALA SER LEU GLU VAL ILE LEU LYS LYS ILE ALA SEQRES 3 A 181 ALA THR ILE ILE SER PHE MET GLN VAL GLN LYS CYS THR SEQRES 4 A 181 ILE PHE ILE VAL ASP GLU ASP CYS SER ASP SER PHE SER SEQRES 5 A 181 SER VAL PHE HIS MET GLU CYS GLU GLU LEU GLU LYS SER SEQRES 6 A 181 SER ASP THR LEU THR ARG GLU HIS ASP ALA ASN LYS ILE SEQRES 7 A 181 ASN TYR MET TYR ALA GLN TYR VAL LYS ASN THR MET GLU SEQRES 8 A 181 PRO LEU ASN ILE PRO ASP VAL SER LYS ASP LYS ARG PHE SEQRES 9 A 181 PRO TRP THR THR GLU ASN THR GLY ASN VAL ASN GLN GLN SEQRES 10 A 181 CYS ILE ARG SER LEU LEU CYS THR PRO ILE LYS ASN GLY SEQRES 11 A 181 LYS LYS ASN LYS VAL ILE GLY VAL CYS GLN LEU VAL ASN SEQRES 12 A 181 LYS MET GLU GLU ASN THR GLY LYS VAL LYS PRO PHE ASN SEQRES 13 A 181 ARG ASN ASP GLU GLN PHE LEU GLU ALA PHE VAL ILE PHE SEQRES 14 A 181 CYS GLY LEU GLY ILE GLN ASN THR GLN MET TYR ALA SEQRES 1 B 181 MET ALA SER TRP SER HIS PRO GLN PHE GLU LYS GLY ALA SEQRES 2 B 181 GLU THR ALA SER LEU GLU VAL ILE LEU LYS LYS ILE ALA SEQRES 3 B 181 ALA THR ILE ILE SER PHE MET GLN VAL GLN LYS CYS THR SEQRES 4 B 181 ILE PHE ILE VAL ASP GLU ASP CYS SER ASP SER PHE SER SEQRES 5 B 181 SER VAL PHE HIS MET GLU CYS GLU GLU LEU GLU LYS SER SEQRES 6 B 181 SER ASP THR LEU THR ARG GLU HIS ASP ALA ASN LYS ILE SEQRES 7 B 181 ASN TYR MET TYR ALA GLN TYR VAL LYS ASN THR MET GLU SEQRES 8 B 181 PRO LEU ASN ILE PRO ASP VAL SER LYS ASP LYS ARG PHE SEQRES 9 B 181 PRO TRP THR THR GLU ASN THR GLY ASN VAL ASN GLN GLN SEQRES 10 B 181 CYS ILE ARG SER LEU LEU CYS THR PRO ILE LYS ASN GLY SEQRES 11 B 181 LYS LYS ASN LYS VAL ILE GLY VAL CYS GLN LEU VAL ASN SEQRES 12 B 181 LYS MET GLU GLU ASN THR GLY LYS VAL LYS PRO PHE ASN SEQRES 13 B 181 ARG ASN ASP GLU GLN PHE LEU GLU ALA PHE VAL ILE PHE SEQRES 14 B 181 CYS GLY LEU GLY ILE GLN ASN THR GLN MET TYR ALA HELIX 1 1 GLY A 341 GLN A 363 1 23 HELIX 2 2 THR A 399 ALA A 404 1 6 HELIX 3 3 ASN A 405 ASN A 408 5 4 HELIX 4 4 TYR A 409 MET A 419 1 11 HELIX 5 5 ASN A 485 GLN A 507 1 23 HELIX 6 6 GLU B 343 GLN B 363 1 21 HELIX 7 7 ARG B 400 ASN B 405 1 6 HELIX 8 8 TYR B 409 ASN B 417 1 9 HELIX 9 9 ASN B 485 GLN B 504 1 20 HELIX 10 10 GLN B 504 TYR B 509 1 6 SHEET 1 AA 2 LYS A 366 VAL A 372 0 SHEET 2 AA 2 PHE A 380 GLU A 387 -1 N SER A 381 O ILE A 371 SHEET 1 AB 3 LEU A 422 ILE A 424 0 SHEET 2 AB 3 LEU A 451 LYS A 457 -1 O LEU A 451 N ILE A 424 SHEET 3 AB 3 VAL A 464 VAL A 471 -1 N ILE A 465 O ILE A 456 SHEET 1 BA 2 LYS B 366 VAL B 372 0 SHEET 2 BA 2 PHE B 380 GLU B 387 -1 N SER B 381 O ILE B 371 SHEET 1 BB 3 LEU B 422 ILE B 424 0 SHEET 2 BB 3 LEU B 451 LYS B 457 -1 O LEU B 451 N ILE B 424 SHEET 3 BB 3 VAL B 464 VAL B 471 -1 N ILE B 465 O ILE B 456 SHEET 1 BC 2 LYS B 473 MET B 474 0 SHEET 2 BC 2 VAL B 481 LYS B 482 -1 O LYS B 482 N LYS B 473 CRYST1 64.750 64.750 145.310 90.00 90.00 120.00 P 31 2 1 12 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 0.015444 0.008917 0.000000 0.00000 SCALE2 0.000000 0.017833 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006882 0.00000