PDB Short entry for 2JC9 HEADER HYDROLASE 21-DEC-06 2JC9 TITLE CRYSTAL STRUCTURE OF HUMAN CYTOSOLIC 5'-NUCLEOTIDASE II IN COMPLEX TITLE 2 WITH ADENOSINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOSOLIC PURINE 5'-NUCLEOTIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1-536; COMPND 5 SYNONYM: 5'-NUCLEOTIDASE CYTOSOLIC II, CYTOSOLIC 5'-NUCLEOTIDASE II; COMPND 6 EC: 3.1.3.5; 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: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA2(DE); SOURCE 8 EXPRESSION_SYSTEM_VECTOR: P28A-LIC; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: P28A-LIC KEYWDS CYTOSOLIC 5-PRIME NUCLEOTIDASE II, GMP-IMP SPECIFIC NUCLEOTIDASE, CN- KEYWDS 2 II, NT5C2, HYDROLASE, POLYMORPHISM, CYTOSOLIC PURINE 5-PRIME KEYWDS 3 NUCLEOTIDASE, ALLOSTERIC ENZYME, HIGH KM 5-PRIME NUCLEOTIDASE EXPDTA X-RAY DIFFRACTION AUTHOR K.WALLDEN,P.STENMARK,C.ARROWSMITH,H.BERGLUND,R.BUSAM,R.COLLINS, AUTHOR 2 A.EDWARDS,M.EHN,S.FLODIN,A.FLORES,S.GRASLUND,M.HAMMARSTROM, AUTHOR 3 B.M.HALLBERG,S.L.HOLMBERG,M.HOGBOM,T.KARLBERG,T.KOTENYOVA, AUTHOR 4 A.MAGNUSDOTTIR,P.NILSSON-EHLE,T.NYMAN,D.OGG,C.PERSSON,J.SAGEMARK, AUTHOR 5 M.SUNDSTROM,J.UPPENBERG,A.G.THORSELL,S.VAN DEN BERG,P.LOPPNAU, AUTHOR 6 J.WEIGELT,M.WELIN,P.NORDLUND REVDAT 6 13-DEC-23 2JC9 1 LINK REVDAT 5 24-FEB-09 2JC9 1 VERSN REVDAT 4 19-JUN-07 2JC9 1 JRNL REVDAT 3 03-APR-07 2JC9 1 JRNL REMARK REVDAT 2 30-JAN-07 2JC9 1 SOURCE REVDAT 1 02-JAN-07 2JC9 0 JRNL AUTH K.WALLDEN,P.STENMARK,T.NYMAN,S.FLODIN,S.GRASLUND,P.LOPPNAU, JRNL AUTH 2 V.BIANCHI,P.NORDLUND JRNL TITL CRYSTAL STRUCTURE OF HUMAN CYTOSOLIC 5'-NUCLEOTIDASE II: JRNL TITL 2 INSIGHTS INTO ALLOSTERIC REGULATION AND SUBSTRATE JRNL TITL 3 RECOGNITION JRNL REF J.BIOL.CHEM. V. 282 17828 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17405878 JRNL DOI 10.1074/JBC.M700917200 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 74.33 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 115715 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) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 6117 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8484 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2230 REMARK 3 BIN FREE R VALUE SET COUNT : 447 REMARK 3 BIN FREE R VALUE : 0.2710 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3808 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 76 REMARK 3 SOLVENT ATOMS : 494 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.18 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.18000 REMARK 3 B22 (A**2) : -0.17000 REMARK 3 B33 (A**2) : -0.01000 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): 0.060 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.056 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.034 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.961 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4108 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2843 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5570 ; 1.405 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6855 ; 0.887 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 493 ; 5.739 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 189 ;29.804 ;22.910 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 708 ;12.780 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;16.754 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 585 ; 0.089 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4544 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 909 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 847 ; 0.217 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2912 ; 0.190 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2008 ; 0.188 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2035 ; 0.083 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 344 ; 0.149 ; 0.200 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): 13 ; 0.441 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 63 ; 0.359 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 36 ; 0.149 ; 0.200 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): 3134 ; 1.576 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3904 ; 1.871 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2056 ; 2.822 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1666 ; 3.686 ; 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): 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 : 1.40 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. REMARK 4 REMARK 4 2JC9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-DEC-06. REMARK 100 THE DEPOSITION ID IS D_1290030583. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-OCT-06 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93926 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 122218 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 74.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 17.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.58 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.44000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 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: PDB ENTRY 2J2C REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.8 M MAGNESIUM SULFATE, 0.1 M TRIS PH REMARK 280 8.5, PH 8.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-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 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 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 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 45.63650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 63.99150 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 65.30050 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 45.63650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 63.99150 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 65.30050 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 45.63650 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 63.99150 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 65.30050 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 45.63650 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 63.99150 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 65.30050 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 130.60100 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 -18 REMARK 465 GLY A -17 REMARK 465 SER A -16 REMARK 465 SER A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 HIS A -9 REMARK 465 SER A -8 REMARK 465 SER A -7 REMARK 465 GLY A -6 REMARK 465 LEU A -5 REMARK 465 VAL A -4 REMARK 465 PRO A -3 REMARK 465 ARG A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 GLU A 401 REMARK 465 LEU A 402 REMARK 465 TYR A 403 REMARK 465 LYS A 404 REMARK 465 HIS A 405 REMARK 465 LEU A 406 REMARK 465 ASP A 407 REMARK 465 SER A 408 REMARK 465 SER A 409 REMARK 465 SER A 410 REMARK 465 ASN A 411 REMARK 465 GLU A 412 REMARK 465 ARG A 413 REMARK 465 PRO A 414 REMARK 465 ASP A 415 REMARK 465 ILE A 416 REMARK 465 SER A 417 REMARK 465 SER A 418 REMARK 465 ILE A 419 REMARK 465 THR A 489 REMARK 465 VAL A 490 REMARK 465 GLU A 491 REMARK 465 HIS A 492 REMARK 465 THR A 493 REMARK 465 HIS A 494 REMARK 465 VAL A 495 REMARK 465 ASP A 496 REMARK 465 ILE A 497 REMARK 465 ASN A 498 REMARK 465 GLU A 499 REMARK 465 MET A 500 REMARK 465 GLU A 501 REMARK 465 SER A 502 REMARK 465 PRO A 503 REMARK 465 LEU A 504 REMARK 465 ALA A 505 REMARK 465 THR A 506 REMARK 465 ARG A 507 REMARK 465 ASN A 508 REMARK 465 ARG A 509 REMARK 465 THR A 510 REMARK 465 SER A 511 REMARK 465 VAL A 512 REMARK 465 ASP A 513 REMARK 465 PHE A 514 REMARK 465 LYS A 515 REMARK 465 ASP A 516 REMARK 465 THR A 517 REMARK 465 ASP A 518 REMARK 465 TYR A 519 REMARK 465 LYS A 520 REMARK 465 ARG A 521 REMARK 465 HIS A 522 REMARK 465 GLN A 523 REMARK 465 LEU A 524 REMARK 465 THR A 525 REMARK 465 ARG A 526 REMARK 465 SER A 527 REMARK 465 ILE A 528 REMARK 465 SER A 529 REMARK 465 GLU A 530 REMARK 465 ILE A 531 REMARK 465 LYS A 532 REMARK 465 PRO A 533 REMARK 465 PRO A 534 REMARK 465 ASN A 535 REMARK 465 LEU A 536 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 CE LYS A 271 O HOH A 2319 1.91 REMARK 500 NZ LYS A 140 O1 SO4 A 1495 2.19 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 MET A 53 -73.35 -96.40 REMARK 500 THR A 56 -79.34 -122.90 REMARK 500 PRO A 267 28.33 -79.38 REMARK 500 ILE A 357 -61.14 -107.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2016 DISTANCE = 7.97 ANGSTROMS 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 MG A1491 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 52 OD2 REMARK 620 2 ASP A 54 O 89.6 REMARK 620 3 ASP A 351 OD1 87.3 87.2 REMARK 620 4 HOH A2410 O 177.0 92.0 90.2 REMARK 620 5 HOH A2487 O 88.3 176.3 89.6 90.0 REMARK 620 6 HOH A2488 O 94.2 93.9 178.1 88.2 89.4 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 MG A1491 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1492 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1493 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1494 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1495 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1496 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADN A1497 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADN A1498 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1489 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1490 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2J2C RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN CYTOSOLIC 5'- NUCLEOTIDASE II (NT5C2, CN- REMARK 900 II) DBREF 2JC9 A -18 0 PDB 2JC9 2JC9 -18 0 DBREF 2JC9 A 1 536 UNP P49902 5NTC_HUMAN 1 536 SEQRES 1 A 555 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 555 LEU VAL PRO ARG GLY SER MET SER THR SER TRP SER ASP SEQRES 3 A 555 ARG LEU GLN ASN ALA ALA ASP MET PRO ALA ASN MET ASP SEQRES 4 A 555 LYS HIS ALA LEU LYS LYS TYR ARG ARG GLU ALA TYR HIS SEQRES 5 A 555 ARG VAL PHE VAL ASN ARG SER LEU ALA MET GLU LYS ILE SEQRES 6 A 555 LYS CYS PHE GLY PHE ASP MET ASP TYR THR LEU ALA VAL SEQRES 7 A 555 TYR LYS SER PRO GLU TYR GLU SER LEU GLY PHE GLU LEU SEQRES 8 A 555 THR VAL GLU ARG LEU VAL SER ILE GLY TYR PRO GLN GLU SEQRES 9 A 555 LEU LEU SER PHE ALA TYR ASP SER THR PHE PRO THR ARG SEQRES 10 A 555 GLY LEU VAL PHE ASP THR LEU TYR GLY ASN LEU LEU LYS SEQRES 11 A 555 VAL ASP ALA TYR GLY ASN LEU LEU VAL CYS ALA HIS GLY SEQRES 12 A 555 PHE ASN PHE ILE ARG GLY PRO GLU THR ARG GLU GLN TYR SEQRES 13 A 555 PRO ASN LYS PHE ILE GLN ARG ASP ASP THR GLU ARG PHE SEQRES 14 A 555 TYR ILE LEU ASN THR LEU PHE ASN LEU PRO GLU THR TYR SEQRES 15 A 555 LEU LEU ALA CYS LEU VAL ASP PHE PHE THR ASN CYS PRO SEQRES 16 A 555 ARG TYR THR SER CYS GLU THR GLY PHE LYS ASP GLY ASP SEQRES 17 A 555 LEU PHE MET SER TYR ARG SER MET PHE GLN ASP VAL ARG SEQRES 18 A 555 ASP ALA VAL ASP TRP VAL HIS TYR LYS GLY SER LEU LYS SEQRES 19 A 555 GLU LYS THR VAL GLU ASN LEU GLU LYS TYR VAL VAL LYS SEQRES 20 A 555 ASP GLY LYS LEU PRO LEU LEU LEU SER ARG MET LYS GLU SEQRES 21 A 555 VAL GLY LYS VAL PHE LEU ALA THR ASN SER ASP TYR LYS SEQRES 22 A 555 TYR THR ASP LYS ILE MET THR TYR LEU PHE ASP PHE PRO SEQRES 23 A 555 HIS GLY PRO LYS PRO GLY SER SER HIS ARG PRO TRP GLN SEQRES 24 A 555 SER TYR PHE ASP LEU ILE LEU VAL ASP ALA ARG LYS PRO SEQRES 25 A 555 LEU PHE PHE GLY GLU GLY THR VAL LEU ARG GLN VAL ASP SEQRES 26 A 555 THR LYS THR GLY LYS LEU LYS ILE GLY THR TYR THR GLY SEQRES 27 A 555 PRO LEU GLN HIS GLY ILE VAL TYR SER GLY GLY SER SER SEQRES 28 A 555 ASP THR ILE CYS ASP LEU LEU GLY ALA LYS GLY LYS ASP SEQRES 29 A 555 ILE LEU TYR ILE GLY ASP HIS ILE PHE GLY ASP ILE LEU SEQRES 30 A 555 LYS SER LYS LYS ARG GLN GLY TRP ARG THR PHE LEU VAL SEQRES 31 A 555 ILE PRO GLU LEU ALA GLN GLU LEU HIS VAL TRP THR ASP SEQRES 32 A 555 LYS SER SER LEU PHE GLU GLU LEU GLN SER LEU ASP ILE SEQRES 33 A 555 PHE LEU ALA GLU LEU TYR LYS HIS LEU ASP SER SER SER SEQRES 34 A 555 ASN GLU ARG PRO ASP ILE SER SER ILE GLN ARG ARG ILE SEQRES 35 A 555 LYS LYS VAL THR HIS ASP MET ASP MET CYS TYR GLY MET SEQRES 36 A 555 MET GLY SER LEU PHE ARG SER GLY SER ARG GLN THR LEU SEQRES 37 A 555 PHE ALA SER GLN VAL MET ARG TYR ALA ASP LEU TYR ALA SEQRES 38 A 555 ALA SER PHE ILE ASN LEU LEU TYR TYR PRO PHE SER TYR SEQRES 39 A 555 LEU PHE ARG ALA ALA HIS VAL LEU MET PRO HIS GLU SER SEQRES 40 A 555 THR VAL GLU HIS THR HIS VAL ASP ILE ASN GLU MET GLU SEQRES 41 A 555 SER PRO LEU ALA THR ARG ASN ARG THR SER VAL ASP PHE SEQRES 42 A 555 LYS ASP THR ASP TYR LYS ARG HIS GLN LEU THR ARG SER SEQRES 43 A 555 ILE SER GLU ILE LYS PRO PRO ASN LEU HET GOL A1489 6 HET GOL A1490 6 HET MG A1491 1 HET SO4 A1492 5 HET SO4 A1493 5 HET SO4 A1494 5 HET SO4 A1495 5 HET SO4 A1496 5 HET ADN A1497 19 HET ADN A1498 19 HETNAM GOL GLYCEROL HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETNAM ADN ADENOSINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 GOL 2(C3 H8 O3) FORMUL 4 MG MG 2+ FORMUL 5 SO4 5(O4 S 2-) FORMUL 10 ADN 2(C10 H13 N5 O4) FORMUL 12 HOH *494(H2 O) HELIX 1 1 SER A 4 ASP A 14 1 11 HELIX 2 2 ASP A 20 ARG A 29 1 10 HELIX 3 3 GLU A 30 ARG A 34 5 5 HELIX 4 4 GLU A 44 ILE A 46 5 3 HELIX 5 5 PRO A 63 ILE A 80 1 18 HELIX 6 6 PRO A 83 PHE A 89 5 7 HELIX 7 7 ARG A 129 TYR A 137 1 9 HELIX 8 8 THR A 155 PHE A 157 5 3 HELIX 9 9 ASN A 158 CYS A 175 1 18 HELIX 10 10 TYR A 194 LYS A 211 1 18 HELIX 11 11 SER A 213 ASN A 221 1 9 HELIX 12 12 ASN A 221 VAL A 226 1 6 HELIX 13 13 GLY A 230 GLY A 243 1 14 HELIX 14 14 ASP A 252 PHE A 264 1 13 HELIX 15 15 PRO A 278 PHE A 283 5 6 HELIX 16 16 PRO A 293 GLY A 297 5 5 HELIX 17 17 SER A 331 GLY A 340 1 10 HELIX 18 18 LYS A 342 LYS A 344 5 3 HELIX 19 19 THR A 3 ASP A 356 5 354 HELIX 20 20 ILE A 357 GLY A 365 1 9 HELIX 21 21 GLU A 374 LYS A 385 1 12 HELIX 22 22 LYS A 385 LEU A 399 1 15 HELIX 23 23 GLN A 420 CYS A 433 1 14 HELIX 24 24 THR A 448 ALA A 458 1 11 HELIX 25 25 SER A 464 TYR A 471 5 8 HELIX 26 26 MET A 484 SER A 488 5 5 SHEET 1 AA10 PHE A 36 VAL A 37 0 SHEET 2 AA10 LEU A 460 ALA A 462 -1 O TYR A 461 N PHE A 36 SHEET 3 AA10 ARG A 367 VAL A 371 1 O THR A 368 N LEU A 460 SHEET 4 AA10 ILE A 346 GLY A 350 1 O ILE A 346 N ARG A 367 SHEET 5 AA10 CYS A 48 PHE A 51 1 O CYS A 48 N LEU A 347 SHEET 6 AA10 LYS A 244 ALA A 248 1 O LYS A 244 N PHE A 49 SHEET 7 AA10 LEU A 285 VAL A 288 1 O LEU A 285 N LEU A 247 SHEET 8 AA10 TYR A 327 GLY A 329 1 O TYR A 327 N VAL A 288 SHEET 9 AA10 LEU A 302 ASP A 306 -1 O ARG A 303 N SER A 328 SHEET 10 AA10 LYS A 311 LEU A 312 -1 O LYS A 311 N ASP A 306 SHEET 1 AB 2 LEU A 41 ALA A 42 0 SHEET 2 AB 2 LEU A 476 PHE A 477 -1 O PHE A 477 N LEU A 41 SHEET 1 AC 5 ASN A 126 PHE A 127 0 SHEET 2 AC 5 LEU A 118 HIS A 123 -1 O HIS A 123 N ASN A 126 SHEET 3 AC 5 ASN A 108 VAL A 112 -1 O LEU A 109 N ALA A 122 SHEET 4 AC 5 VAL A 101 ASP A 103 -1 O VAL A 101 N LEU A 110 SHEET 5 AC 5 PHE A 150 ILE A 152 -1 O TYR A 151 N PHE A 102 SHEET 1 AD 3 THR A 179 CYS A 181 0 SHEET 2 AD 3 GLY A 184 ASP A 187 -1 O GLY A 184 N CYS A 181 SHEET 3 AD 3 LEU A 190 SER A 193 -1 O LEU A 190 N ASP A 187 SHEET 1 AE 2 ARG A 442 SER A 443 0 SHEET 2 AE 2 ARG A 446 GLN A 447 -1 O ARG A 446 N SER A 443 LINK OD2 ASP A 52 MG MG A1491 1555 1555 2.03 LINK O ASP A 54 MG MG A1491 1555 1555 2.08 LINK OD1 ASP A 351 MG MG A1491 1555 1555 2.07 LINK MG MG A1491 O HOH A2410 1555 1555 2.04 LINK MG MG A1491 O HOH A2487 1555 1555 2.10 LINK MG MG A1491 O HOH A2488 1555 1555 2.08 CISPEP 1 SER A 62 PRO A 63 0 3.51 CISPEP 2 LYS A 292 PRO A 293 0 3.80 SITE 1 AC1 6 ASP A 52 ASP A 54 ASP A 351 HOH A2410 SITE 2 AC1 6 HOH A2487 HOH A2488 SITE 1 AC2 10 ARG A 144 GLN A 453 ARG A 456 TYR A 457 SITE 2 AC2 10 ADN A1497 HOH A2415 HOH A2456 HOH A2483 SITE 3 AC2 10 HOH A2484 HOH A2485 SITE 1 AC3 10 ASN A 250 HOH A2072 HOH A2211 HOH A2410 SITE 2 AC3 10 HOH A2486 HOH A2487 HOH A2488 HOH A2489 SITE 3 AC3 10 HOH A2490 HOH A2491 SITE 1 AC4 2 ARG A 76 TRP A 207 SITE 1 AC5 4 GLY A 130 PRO A 131 ARG A 134 LYS A 140 SITE 1 AC6 3 ASN A 117 LYS A 344 ARG A 446 SITE 1 AC7 10 ARG A 144 ASP A 145 ILE A 152 ASN A 154 SITE 2 AC7 10 PHE A 354 GLN A 453 SO4 A1492 HOH A2492 SITE 3 AC7 10 HOH A2493 HOH A2494 SITE 1 AC8 8 PHE A 127 ARG A 129 LYS A 424 HIS A 428 SITE 2 AC8 8 MET A 432 MET A 436 HOH A2316 HOH A2439 SITE 1 AC9 10 PHE A 283 ASP A 284 ILE A 286 GLN A 322 SITE 2 AC9 10 HIS A 323 GLY A 324 ILE A 325 HOH A2337 SITE 3 AC9 10 HOH A2393 HOH A2482 SITE 1 BC1 6 ASP A 7 LYS A 61 SER A 62 GLU A 64 SITE 2 BC1 6 HOH A2004 HOH A2085 CRYST1 91.273 127.983 130.601 90.00 90.00 90.00 I 2 2 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 0.010956 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007814 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007657 0.00000