HEADER HYDROLASE 30-OCT-12 2YPH TITLE CATALYTIC DOMAIN OF MOUSE 2',3'-CYCLIC NUCLEOTIDE 3'- TITLE 2 PHOSPHODIESTERASE, WITH MUTATION H230S, CRYSTALLIZED WITH 2',3-(RP)- TITLE 3 CYCLIC-AMPS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2', 3'-CYCLIC-NUCLEOTIDE 3'-PHOSPHODIESTERASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL CATALYTIC DOMAIN, RESIDUES 159-278; COMPND 5 SYNONYM: CNP, CNPASE; COMPND 6 EC: 3.1.4.37; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PTH 27 KEYWDS HYDROLASE, MYELIN, NERVOUS SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR M.MYLLYKOSKI,A.RAASAKKA,M.LEHTIMAKI,H.HAN,P.KURSULA REVDAT 6 20-DEC-23 2YPH 1 REMARK REVDAT 5 15-MAY-19 2YPH 1 REMARK REVDAT 4 17-JAN-18 2YPH 1 REMARK ATOM REVDAT 3 13-NOV-13 2YPH 1 JRNL REVDAT 2 17-JUL-13 2YPH 1 JRNL REVDAT 1 10-JUL-13 2YPH 0 JRNL AUTH M.MYLLYKOSKI,A.RAASAKKA,M.LEHTIMAKI,H.HAN,I.KURSULA, JRNL AUTH 2 P.KURSULA JRNL TITL CRYSTALLOGRAPHIC ANALYSIS OF THE REACTION CYCLE OF JRNL TITL 2 2',3'-CYCLIC NUCLEOTIDE 3'-PHOSPHODIESTERASE, A UNIQUE JRNL TITL 3 MEMBER OF THE 2H PHOSPHOESTERASE FAMILY JRNL REF J.MOL.BIOL. V. 425 4307 2013 JRNL REFN ISSN 0022-2836 JRNL PMID 23831225 JRNL DOI 10.1016/J.JMB.2013.06.012 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.89 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.990 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 3 NUMBER OF REFLECTIONS : 12327 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.233 REMARK 3 R VALUE (WORKING SET) : 0.230 REMARK 3 FREE R VALUE : 0.289 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 614 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 26.8897 - 3.3317 0.99 3132 163 0.1849 0.2521 REMARK 3 2 3.3317 - 2.6452 0.99 2965 156 0.2397 0.3038 REMARK 3 3 2.6452 - 2.3111 0.97 2904 153 0.2831 0.3163 REMARK 3 4 2.3111 - 2.0999 0.92 2712 142 0.3625 0.3890 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.690 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.002 1741 REMARK 3 ANGLE : 0.502 2358 REMARK 3 CHIRALITY : 0.032 256 REMARK 3 PLANARITY : 0.002 298 REMARK 3 DIHEDRAL : 11.441 648 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND (RESID 163 THROUGH 280 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.6661 7.1914 -18.4362 REMARK 3 T TENSOR REMARK 3 T11: 0.2819 T22: 0.3210 REMARK 3 T33: 0.2824 T12: -0.0556 REMARK 3 T13: 0.0858 T23: -0.0151 REMARK 3 L TENSOR REMARK 3 L11: 3.4131 L22: 4.3342 REMARK 3 L33: 3.8091 L12: -1.2079 REMARK 3 L13: 1.4613 L23: -0.6850 REMARK 3 S TENSOR REMARK 3 S11: 0.0184 S12: -0.0017 S13: 0.0209 REMARK 3 S21: 0.3310 S22: -0.0502 S23: 0.0158 REMARK 3 S31: -0.0584 S32: 0.2406 S33: 0.0459 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND (RESID 281 THROUGH 308 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.4661 9.5424 -13.5592 REMARK 3 T TENSOR REMARK 3 T11: 0.5272 T22: 0.5376 REMARK 3 T33: 0.7249 T12: 0.0357 REMARK 3 T13: 0.2805 T23: -0.0057 REMARK 3 L TENSOR REMARK 3 L11: 5.5294 L22: 3.5499 REMARK 3 L33: 7.1676 L12: 0.6276 REMARK 3 L13: 1.4824 L23: -0.9008 REMARK 3 S TENSOR REMARK 3 S11: 0.0471 S12: -0.2607 S13: -0.7329 REMARK 3 S21: 0.2014 S22: -0.2383 S23: 0.8215 REMARK 3 S31: 0.1354 S32: -0.7397 S33: 0.2081 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND (RESID 309 THROUGH 378 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.5483 5.0435 -9.9437 REMARK 3 T TENSOR REMARK 3 T11: 0.5088 T22: 0.3976 REMARK 3 T33: 0.3695 T12: -0.0147 REMARK 3 T13: 0.0735 T23: -0.0156 REMARK 3 L TENSOR REMARK 3 L11: 2.1328 L22: 4.2129 REMARK 3 L33: 3.3058 L12: -1.2101 REMARK 3 L13: 0.8573 L23: -1.5602 REMARK 3 S TENSOR REMARK 3 S11: -0.0969 S12: -0.3646 S13: -0.0888 REMARK 3 S21: 1.0379 S22: 0.0741 S23: 0.0466 REMARK 3 S31: -0.1219 S32: 0.0666 S33: 0.0355 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS WERE INCLUDED IN RIDING REMARK 3 POSITION. RESIDUES 158-162 AND 209-212 WERE EXCLUDED DUE TO REMARK 3 INSUFFICIENT ELECTRON DENSITY. REMARK 4 REMARK 4 2YPH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-OCT-12. REMARK 100 THE DEPOSITION ID IS D_1290054652. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-FEB-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I911-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.04 REMARK 200 MONOCHROMATOR : BENT SI (111) CRYSTAL, REMARK 200 HORIZONTALLY FOCUSING REMARK 200 OPTICS : MULTILAYER MIRROR, CURVED TO REMARK 200 FOCUS IN THE VERTICAL (R 400 M) REMARK 200 REMARK 200 DETECTOR TYPE : CCD 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 : 12336 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 39.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.84000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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: PDB ENTRY 2XMI REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 250 UM PROTEIN AND 10 MM 23-(RP) REMARK 280 -CYCLIC AMPS WAS MIXED IN 0.5 PLUS 0.5 UL DROPS WITH 30% PEG4000 REMARK 280 AND 50 MM ACETATE (2:1 PH 3 AND 5) IN 4C TEMP, PH 4, TEMPERATURE REMARK 280 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 20.31500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.77500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.76500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.77500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.31500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 23.76500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 GLY A 158 REMARK 465 GLY A 159 REMARK 465 LEU A 160 REMARK 465 GLU A 161 REMARK 465 LYS A 162 REMARK 465 ASP A 209 REMARK 465 GLU A 210 REMARK 465 PRO A 211 REMARK 465 LYS A 212 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 O PRO A 303 OG SER A 306 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 N ASP A 163 O LYS A 214 3554 2.14 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 THR A 233 -68.76 -107.52 REMARK 500 SER A 299 42.06 -90.14 REMARK 500 THR A 374 -169.49 -167.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 ADENOSINE-2',3'-CYCLOPHOSPHOROTHIOATE (QQY): RP-ISOMER REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT A 1379 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1380 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE QQY A 1381 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XMI RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF MOUSE 2',3'-CYCLIC NUCLEOTIDE 3'- REMARK 900 PHOSPHODIESTERASE, COMPLEXED WITH CITRATE REMARK 900 RELATED ID: 2Y1P RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF MOUSE 2',3'-CYCLIC NUCLEOTIDE 3'- REMARK 900 PHOSPHODIESTERASE, COMPLEXED WITH CITRATE REMARK 900 RELATED ID: 2Y3X RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF MOUSE 2',3'-CYCLIC NUCLEOTIDE 3'- REMARK 900 PHOSPHODIESTERASE, COMPLEXED WITH SULFATE REMARK 900 RELATED ID: 2YDB RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF MOUSE 2',3'-CYCLIC NUCLEOTIDE 3'- REMARK 900 PHOSPHODIESTERASE, SOAKED WITH 2',3'-CYCLIC NADP REMARK 900 RELATED ID: 2YDC RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF MOUSE 2',3'-CYCLIC NUCLEOTIDE 3'- REMARK 900 PHOSPHODIESTERASE, SOAKED WITH GTP REMARK 900 RELATED ID: 2YDD RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF MOUSE 2',3'-CYCLIC NUCLEOTIDE 3'- REMARK 900 PHOSPHODIESTERASE, SOAKED WITH 2',3'-CYCLIC AMP REMARK 900 RELATED ID: 2YOZ RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF MOUSE 2',3'-CYCLIC NUCLEOTIDE 3 '- REMARK 900 PHOSPHODIESTERASE, CRYSTALLIZED WITH 2'-AMPS REMARK 900 RELATED ID: 2YP0 RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF MOUSE 2',3'-CYCLIC NUCLEOTIDE 3 '- REMARK 900 PHOSPHODIESTERASE, CRYSTALLIZED WITH 2'-AMPS REMARK 900 RELATED ID: 2YPE RELATED DB: PDB REMARK 900 CATALYTIC DOMAIN OF MOUSE 2',3'-CYCLIC NUCLEOTIDE 3 '- REMARK 900 PHOSPHODIESTERASE, WITH MUTATION H309S, CRYSTALLIZED WITH 2',3'- REMARK 900 CYCLIC AMP REMARK 999 REMARK 999 SEQUENCE REMARK 999 N-TERMINAL GLYCINE REMAINS FROM TEV-CLEAVAGE OF EXPRESSION REMARK 999 TAG. RESIDUE NUMBERING IS ACCORDING TO CNPASE ISOFORM 1 ( REMARK 999 P16330-2). HISTIDINE 230 IS MUTATED TO SERINE. DBREF 2YPH A 159 378 UNP P16330 CN37_MOUSE 159 378 SEQADV 2YPH GLY A 158 UNP P16330 EXPRESSION TAG SEQADV 2YPH SER A 230 UNP P16330 HIS 230 ENGINEERED MUTATION SEQRES 1 A 221 GLY GLY LEU GLU LYS ASP PHE LEU PRO LEU TYR PHE GLY SEQRES 2 A 221 TRP PHE LEU THR LYS LYS SER SER GLU THR LEU ARG LYS SEQRES 3 A 221 ALA GLY GLN VAL PHE LEU GLU GLU LEU GLY ASN HIS LYS SEQRES 4 A 221 ALA PHE LYS LYS GLU LEU ARG HIS PHE ILE SER GLY ASP SEQRES 5 A 221 GLU PRO LYS GLU LYS LEU GLU LEU VAL SER TYR PHE GLY SEQRES 6 A 221 LYS ARG PRO PRO GLY VAL LEU SER CYS THR THR LYS PHE SEQRES 7 A 221 CYS ASP TYR GLY LYS ALA ALA GLY ALA GLU GLU TYR ALA SEQRES 8 A 221 GLN GLN GLU VAL VAL LYS ARG SER TYR GLY LYS ALA PHE SEQRES 9 A 221 LYS LEU SER ILE SER ALA LEU PHE VAL THR PRO LYS THR SEQRES 10 A 221 ALA GLY ALA GLN VAL VAL LEU THR ASP GLN GLU LEU GLN SEQRES 11 A 221 LEU TRP PRO SER ASP LEU ASP LYS PRO SER ALA SER GLU SEQRES 12 A 221 GLY LEU PRO PRO GLY SER ARG ALA HIS VAL THR LEU GLY SEQRES 13 A 221 CYS ALA ALA ASP VAL GLN PRO VAL GLN THR GLY LEU ASP SEQRES 14 A 221 LEU LEU ASP ILE LEU GLN GLN VAL LYS GLY GLY SER GLN SEQRES 15 A 221 GLY GLU ALA VAL GLY GLU LEU PRO ARG GLY LYS LEU TYR SEQRES 16 A 221 SER LEU GLY LYS GLY ARG TRP MET LEU SER LEU THR LYS SEQRES 17 A 221 LYS MET GLU VAL LYS ALA ILE PHE THR GLY TYR TYR GLY HET ACT A1379 7 HET CL A1380 1 HET QQY A1381 22 HETNAM ACT ACETATE ION HETNAM CL CHLORIDE ION HETNAM QQY [(3AR,4R,6R,6AR)-4-(6-AMINOPURIN-9-YL)-2-OXIDANYLIDENE- HETNAM 2 QQY 2-SULFANYL-3A,4,6,6A-TETRAHYDROFURO[3,4-D][1,3, HETNAM 3 QQY 2]DIOXAPHOSPHOL-6-YL]METHANOL FORMUL 2 ACT C2 H3 O2 1- FORMUL 3 CL CL 1- FORMUL 4 QQY C10 H12 N5 O5 P S FORMUL 5 HOH *79(H2 O) HELIX 1 1 THR A 174 HIS A 195 1 22 HELIX 2 2 HIS A 195 LYS A 200 1 6 HELIX 3 3 GLU A 201 PHE A 205 5 5 HELIX 4 4 GLU A 216 PHE A 221 1 6 HELIX 5 5 ASP A 237 LYS A 240 5 4 HELIX 6 6 GLY A 243 GLN A 249 1 7 HELIX 7 7 GLN A 250 TYR A 257 1 8 HELIX 8 8 THR A 282 GLN A 287 1 6 HELIX 9 9 VAL A 321 LYS A 335 1 15 SHEET 1 AA 5 SER A 230 PHE A 235 0 SHEET 2 AA 5 TYR A 168 LEU A 173 -1 O PHE A 169 N THR A 233 SHEET 3 AA 5 ARG A 358 TYR A 376 -1 O ILE A 372 N PHE A 172 SHEET 4 AA 5 GLY A 349 GLY A 355 -1 O LYS A 350 N SER A 362 SHEET 5 AA 5 GLY A 344 LEU A 346 1 O GLY A 344 N LEU A 351 SHEET 1 AB 6 SER A 230 PHE A 235 0 SHEET 2 AB 6 TYR A 168 LEU A 173 -1 O PHE A 169 N THR A 233 SHEET 3 AB 6 ARG A 358 TYR A 376 -1 O ILE A 372 N PHE A 172 SHEET 4 AB 6 ALA A 260 VAL A 270 -1 O PHE A 261 N ALA A 371 SHEET 5 AB 6 THR A 274 VAL A 280 -1 O GLY A 276 N PHE A 269 SHEET 6 AB 6 HIS A 309 CYS A 314 -1 O VAL A 310 N ALA A 277 SITE 1 AC1 5 LYS A 223 ARG A 224 PRO A 225 CYS A 314 SITE 2 AC1 5 HOH A2079 SITE 1 AC2 1 LYS A 273 SITE 1 AC3 7 TYR A 168 THR A 232 PHE A 235 HIS A 309 SITE 2 AC3 7 THR A 311 PRO A 320 VAL A 321 CRYST1 40.630 47.530 107.550 90.00 90.00 90.00 P 21 21 21 4 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 0.024612 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021039 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009298 0.00000