PDB Short entry for 1RQD HEADER TRANSFERASE 04-DEC-03 1RQD TITLE DEOXYHYPUSINE SYNTHASE HOLOENZYME IN ITS LOW IONIC STRENGTH, HIGH PH TITLE 2 CRYSTAL FORM WITH THE INHIBITOR GC7 BOUND IN THE ACTIVE SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYHYPUSINE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DHS; COMPND 5 EC: 2.5.1.46; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DHPS, DS; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-11A KEYWDS ROSSMANN FOLD, NAD COFACTOR, DEOXYHYPUSINE, HYPUSINE, SPERMIDINE, KEYWDS 2 GC7, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR T.C.UMLAND,E.C.WOLFF,M.-H.PARK,D.R.DAVIES REVDAT 5 23-AUG-23 1RQD 1 REMARK LINK REVDAT 4 12-NOV-14 1RQD 1 KEYWDS REVDAT 3 13-JUL-11 1RQD 1 VERSN REVDAT 2 24-FEB-09 1RQD 1 VERSN REVDAT 1 13-JUL-04 1RQD 0 JRNL AUTH T.C.UMLAND,E.C.WOLFF,M.-H.PARK,D.R.DAVIES JRNL TITL A NEW CRYSTAL STRUCTURE OF DEOXYHYPUSINE SYNTHASE REVEALS JRNL TITL 2 THE CONFIGURATION OF THE ACTIVE ENZYME AND OF AN JRNL TITL 3 ENZYME-NAD-INHIBITOR TERNARY COMPLEX JRNL REF J.BIOL.CHEM. V. 279 28697 2004 JRNL REFN ISSN 0021-9258 JRNL PMID 15100216 JRNL DOI 10.1074/JBC.M404095200 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.I.LIAO,E.WOLFF,M.-H.PARK,D.R.DAVIES REMARK 1 TITL CRYSTAL STRUCTURE OF THE NAD COMPLEX OF HUMAN DEOXYHYPUSINE REMARK 1 TITL 2 SYNTHASE: AN ENZYME WITH A BALL-AND-CHAIN MECHANISM FOR REMARK 1 TITL 3 BLOCKING THE ACTIVE SITE REMARK 1 REF STRUCTURE V. 6 23 1998 REMARK 1 REFN ISSN 0969-2126 REMARK 1 DOI 10.1016/S0969-2126(98)00004-5 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.9 REMARK 3 NUMBER OF REFLECTIONS : 19545 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : SELECTED SO INDICES OF REMARK 3 SELECTED REFLECTIONS REMARK 3 IDENTICAL TO THOSE USED IN REMARK 3 TEST SET FOR REFINEMENT OF REMARK 3 THE ISOMORPHOUS 1ROZ REMARK 3 STRUCTURE, WHICH WAS THE REMARK 3 STARTING MODEL REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 942 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5154 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 112 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) : 41.60 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.32 REMARK 3 ESD FROM SIGMAA (A) : 0.41 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.45 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.48 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 2.700 ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : 4.200 ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1RQD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-DEC-03. REMARK 100 THE DEPOSITION ID IS D_1000020951. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUN-99 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X9B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : SI (111) REMARK 200 OPTICS : MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20171 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.25400 REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1ROZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TRIS-HCL, KCL, NAD, 2-METHYL-2,4 REMARK 280 -PENTANEDIOL,1-GUANIDINIUM-7-AMINOHEPTANE, PH 8.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-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 106.16667 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 53.08333 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 53.08333 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 106.16667 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A TETRAMER, AND MAY BE GENERATED REMARK 300 FROM THE DIMER CONTAINED WITHIN THE ASYMMETRIC UNIT BY THE REMARK 300 CRYSTALLOGRAPHIC TWO FOLD AXIS: X-Y, -Y, -Z+1/3 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 29860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 39690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -106.0 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 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 53.08333 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 GLU A 2 REMARK 465 GLY A 3 REMARK 465 SER A 4 REMARK 465 LEU A 5 REMARK 465 GLU A 6 REMARK 465 ARG A 7 REMARK 465 GLU A 8 REMARK 465 ALA A 9 REMARK 465 PRO A 10 REMARK 465 ALA A 11 REMARK 465 GLY A 12 REMARK 465 ALA A 13 REMARK 465 LEU A 14 REMARK 465 ALA A 15 REMARK 465 ALA A 16 REMARK 465 VAL A 17 REMARK 465 LEU A 18 REMARK 465 LYS A 19 REMARK 465 HIS A 20 REMARK 465 SER A 21 REMARK 465 SER A 22 REMARK 465 THR A 23 REMARK 465 LEU A 24 REMARK 465 PRO A 25 REMARK 465 PRO A 26 REMARK 465 GLU A 27 REMARK 465 GLU A 365 REMARK 465 LYS A 366 REMARK 465 ASN A 367 REMARK 465 GLU A 368 REMARK 465 ASP A 369 REMARK 465 MET B 1 REMARK 465 GLU B 2 REMARK 465 GLY B 3 REMARK 465 SER B 4 REMARK 465 LEU B 5 REMARK 465 GLU B 6 REMARK 465 ARG B 7 REMARK 465 GLU B 8 REMARK 465 ALA B 9 REMARK 465 PRO B 10 REMARK 465 ALA B 11 REMARK 465 GLY B 12 REMARK 465 ALA B 13 REMARK 465 LEU B 14 REMARK 465 ALA B 15 REMARK 465 ALA B 16 REMARK 465 VAL B 17 REMARK 465 LEU B 18 REMARK 465 LYS B 19 REMARK 465 HIS B 20 REMARK 465 SER B 21 REMARK 465 SER B 22 REMARK 465 THR B 23 REMARK 465 LEU B 24 REMARK 465 PRO B 25 REMARK 465 PRO B 26 REMARK 465 GLU B 27 REMARK 465 SER B 78 REMARK 465 GLN B 79 REMARK 465 ASP B 80 REMARK 465 GLU B 81 REMARK 465 ASP B 82 REMARK 465 GLN B 83 REMARK 465 HIS B 84 REMARK 465 ALA B 85 REMARK 465 ASP B 86 REMARK 465 LEU B 87 REMARK 465 THR B 88 REMARK 465 GLN B 89 REMARK 465 SER B 90 REMARK 465 ARG B 91 REMARK 465 ARG B 92 REMARK 465 HIS B 364 REMARK 465 GLU B 365 REMARK 465 LYS B 366 REMARK 465 ASN B 367 REMARK 465 GLU B 368 REMARK 465 ASP B 369 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 O7N NAD A 370 N8 GC7 B 371 5555 2.18 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 PHE A 36 4.63 -59.99 REMARK 500 PHE A 54 -139.62 43.88 REMARK 500 LEU A 87 25.40 -79.59 REMARK 500 SER A 90 154.59 -44.04 REMARK 500 LEU A 94 141.15 -39.30 REMARK 500 CYS A 97 115.29 -160.78 REMARK 500 ASN A 215 45.05 39.54 REMARK 500 SER A 233 83.14 -158.63 REMARK 500 ALA A 235 69.44 -104.67 REMARK 500 ASP A 238 57.11 -92.22 REMARK 500 THR A 354 -96.74 -124.51 REMARK 500 PHE B 36 4.91 -62.64 REMARK 500 PHE B 54 -136.26 40.48 REMARK 500 CYS B 97 118.75 -163.23 REMARK 500 ILE B 112 -7.61 -59.98 REMARK 500 LYS B 200 77.02 -100.43 REMARK 500 ASN B 215 58.33 37.27 REMARK 500 SER B 233 88.27 -153.95 REMARK 500 ALA B 235 63.76 -104.54 REMARK 500 SER B 240 -37.06 -35.42 REMARK 500 ASN B 252 81.76 -155.02 REMARK 500 ASN B 298 38.45 72.41 REMARK 500 THR B 354 -90.98 -130.00 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 NAD A 370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD B 370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GC7 A 371 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GC7 B 371 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DHS RELATED DB: PDB REMARK 900 DEOXYHYPUSINE SYNTHASE HOLOENZYME IN ITS HIGH IONIC STRENGTH, LOW REMARK 900 PH CRYSTAL FORM; GROWN FROM A DIFFERENT DHS PREPARATION THAN THE REMARK 900 CURRENT STUDY REMARK 900 RELATED ID: 1RLZ RELATED DB: PDB REMARK 900 DEOXYHYPUSINE SYNTHASE HOLOENZYME IN ITS HIGH IONIC STRENGTH, LOW REMARK 900 PH CRYSTAL FORM; GROWN FROM THE SAME DHS PREPARATION AS THE CURRENT REMARK 900 STUDY REMARK 900 RELATED ID: 1ROZ RELATED DB: PDB REMARK 900 DEOXYHYPUSINE SYNTHASE HOLOENZYME IN ITS LOW IONIC STRENGTH, HIGH REMARK 900 PH CRYSTAL FORM DBREF 1RQD A 1 369 UNP P49366 DHYS_HUMAN 1 369 DBREF 1RQD B 1 369 UNP P49366 DHYS_HUMAN 1 369 SEQRES 1 A 369 MET GLU GLY SER LEU GLU ARG GLU ALA PRO ALA GLY ALA SEQRES 2 A 369 LEU ALA ALA VAL LEU LYS HIS SER SER THR LEU PRO PRO SEQRES 3 A 369 GLU SER THR GLN VAL ARG GLY TYR ASP PHE ASN ARG GLY SEQRES 4 A 369 VAL ASN TYR ARG ALA LEU LEU GLU ALA PHE GLY THR THR SEQRES 5 A 369 GLY PHE GLN ALA THR ASN PHE GLY ARG ALA VAL GLN GLN SEQRES 6 A 369 VAL ASN ALA MET ILE GLU LYS LYS LEU GLU PRO LEU SER SEQRES 7 A 369 GLN ASP GLU ASP GLN HIS ALA ASP LEU THR GLN SER ARG SEQRES 8 A 369 ARG PRO LEU THR SER CYS THR ILE PHE LEU GLY TYR THR SEQRES 9 A 369 SER ASN LEU ILE SER SER GLY ILE ARG GLU THR ILE ARG SEQRES 10 A 369 TYR LEU VAL GLN HIS ASN MET VAL ASP VAL LEU VAL THR SEQRES 11 A 369 THR ALA GLY GLY VAL GLU GLU ASP LEU ILE LYS CYS LEU SEQRES 12 A 369 ALA PRO THR TYR LEU GLY GLU PHE SER LEU ARG GLY LYS SEQRES 13 A 369 GLU LEU ARG GLU ASN GLY ILE ASN ARG ILE GLY ASN LEU SEQRES 14 A 369 LEU VAL PRO ASN GLU ASN TYR CYS LYS PHE GLU ASP TRP SEQRES 15 A 369 LEU MET PRO ILE LEU ASP GLN MET VAL MET GLU GLN ASN SEQRES 16 A 369 THR GLU GLY VAL LYS TRP THR PRO SER LYS MET ILE ALA SEQRES 17 A 369 ARG LEU GLY LYS GLU ILE ASN ASN PRO GLU SER VAL TYR SEQRES 18 A 369 TYR TRP ALA GLN LYS ASN HIS ILE PRO VAL PHE SER PRO SEQRES 19 A 369 ALA LEU THR ASP GLY SER LEU GLY ASP MET ILE PHE PHE SEQRES 20 A 369 HIS SER TYR LYS ASN PRO GLY LEU VAL LEU ASP ILE VAL SEQRES 21 A 369 GLU ASP LEU ARG LEU ILE ASN THR GLN ALA ILE PHE ALA SEQRES 22 A 369 LYS CYS THR GLY MET ILE ILE LEU GLY GLY GLY VAL VAL SEQRES 23 A 369 LYS HIS HIS ILE ALA ASN ALA ASN LEU MET ARG ASN GLY SEQRES 24 A 369 ALA ASP TYR ALA VAL TYR ILE ASN THR ALA GLN GLU PHE SEQRES 25 A 369 ASP GLY SER ASP SER GLY ALA ARG PRO ASP GLU ALA VAL SEQRES 26 A 369 SER TRP GLY LYS ILE ARG VAL ASP ALA GLN PRO VAL LYS SEQRES 27 A 369 VAL TYR ALA ASP ALA SER LEU VAL PHE PRO LEU LEU VAL SEQRES 28 A 369 ALA GLU THR PHE ALA GLN LYS MET ASP ALA PHE MET HIS SEQRES 29 A 369 GLU LYS ASN GLU ASP SEQRES 1 B 369 MET GLU GLY SER LEU GLU ARG GLU ALA PRO ALA GLY ALA SEQRES 2 B 369 LEU ALA ALA VAL LEU LYS HIS SER SER THR LEU PRO PRO SEQRES 3 B 369 GLU SER THR GLN VAL ARG GLY TYR ASP PHE ASN ARG GLY SEQRES 4 B 369 VAL ASN TYR ARG ALA LEU LEU GLU ALA PHE GLY THR THR SEQRES 5 B 369 GLY PHE GLN ALA THR ASN PHE GLY ARG ALA VAL GLN GLN SEQRES 6 B 369 VAL ASN ALA MET ILE GLU LYS LYS LEU GLU PRO LEU SER SEQRES 7 B 369 GLN ASP GLU ASP GLN HIS ALA ASP LEU THR GLN SER ARG SEQRES 8 B 369 ARG PRO LEU THR SER CYS THR ILE PHE LEU GLY TYR THR SEQRES 9 B 369 SER ASN LEU ILE SER SER GLY ILE ARG GLU THR ILE ARG SEQRES 10 B 369 TYR LEU VAL GLN HIS ASN MET VAL ASP VAL LEU VAL THR SEQRES 11 B 369 THR ALA GLY GLY VAL GLU GLU ASP LEU ILE LYS CYS LEU SEQRES 12 B 369 ALA PRO THR TYR LEU GLY GLU PHE SER LEU ARG GLY LYS SEQRES 13 B 369 GLU LEU ARG GLU ASN GLY ILE ASN ARG ILE GLY ASN LEU SEQRES 14 B 369 LEU VAL PRO ASN GLU ASN TYR CYS LYS PHE GLU ASP TRP SEQRES 15 B 369 LEU MET PRO ILE LEU ASP GLN MET VAL MET GLU GLN ASN SEQRES 16 B 369 THR GLU GLY VAL LYS TRP THR PRO SER LYS MET ILE ALA SEQRES 17 B 369 ARG LEU GLY LYS GLU ILE ASN ASN PRO GLU SER VAL TYR SEQRES 18 B 369 TYR TRP ALA GLN LYS ASN HIS ILE PRO VAL PHE SER PRO SEQRES 19 B 369 ALA LEU THR ASP GLY SER LEU GLY ASP MET ILE PHE PHE SEQRES 20 B 369 HIS SER TYR LYS ASN PRO GLY LEU VAL LEU ASP ILE VAL SEQRES 21 B 369 GLU ASP LEU ARG LEU ILE ASN THR GLN ALA ILE PHE ALA SEQRES 22 B 369 LYS CYS THR GLY MET ILE ILE LEU GLY GLY GLY VAL VAL SEQRES 23 B 369 LYS HIS HIS ILE ALA ASN ALA ASN LEU MET ARG ASN GLY SEQRES 24 B 369 ALA ASP TYR ALA VAL TYR ILE ASN THR ALA GLN GLU PHE SEQRES 25 B 369 ASP GLY SER ASP SER GLY ALA ARG PRO ASP GLU ALA VAL SEQRES 26 B 369 SER TRP GLY LYS ILE ARG VAL ASP ALA GLN PRO VAL LYS SEQRES 27 B 369 VAL TYR ALA ASP ALA SER LEU VAL PHE PRO LEU LEU VAL SEQRES 28 B 369 ALA GLU THR PHE ALA GLN LYS MET ASP ALA PHE MET HIS SEQRES 29 B 369 GLU LYS ASN GLU ASP HET NAD A 370 44 HET GC7 A 371 12 HET NAD B 370 44 HET GC7 B 371 12 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM GC7 1-GUANIDINIUM-7-AMINOHEPTANE FORMUL 3 NAD 2(C21 H27 N7 O14 P2) FORMUL 4 GC7 2(C8 H22 N4) HELIX 1 1 ASP A 35 GLY A 39 5 5 HELIX 2 2 ASN A 41 ALA A 48 1 8 HELIX 3 3 PHE A 49 THR A 52 5 4 HELIX 4 4 GLY A 53 LEU A 74 1 22 HELIX 5 5 SER A 78 ASP A 86 1 9 HELIX 6 6 SER A 105 SER A 110 1 6 HELIX 7 7 GLY A 111 HIS A 122 1 12 HELIX 8 8 THR A 131 LYS A 141 1 11 HELIX 9 9 ARG A 154 ASN A 161 1 8 HELIX 10 10 ASN A 173 THR A 196 1 24 HELIX 11 11 THR A 202 ASN A 215 1 14 HELIX 12 12 SER A 219 ASN A 227 1 9 HELIX 13 13 GLY A 239 ASN A 252 1 14 HELIX 14 14 ASP A 258 PHE A 272 1 15 HELIX 15 15 GLY A 284 MET A 296 1 13 HELIX 16 16 ARG A 320 GLY A 328 1 9 HELIX 17 17 ASP A 342 THR A 354 1 13 HELIX 18 18 PHE A 355 MET A 359 5 5 HELIX 19 19 ASP B 35 GLY B 39 5 5 HELIX 20 20 ASN B 41 PHE B 49 1 9 HELIX 21 21 GLY B 50 THR B 52 5 3 HELIX 22 22 GLY B 53 LEU B 74 1 22 HELIX 23 23 SER B 105 SER B 110 1 6 HELIX 24 24 GLY B 111 HIS B 122 1 12 HELIX 25 25 THR B 131 LYS B 141 1 11 HELIX 26 26 ARG B 154 ASN B 161 1 8 HELIX 27 27 ASN B 173 GLU B 197 1 25 HELIX 28 28 THR B 202 ASN B 215 1 14 HELIX 29 29 SER B 219 ASN B 227 1 9 HELIX 30 30 GLY B 239 ASN B 252 1 14 HELIX 31 31 ILE B 259 PHE B 272 1 14 HELIX 32 32 GLY B 284 MET B 296 1 13 HELIX 33 33 ARG B 320 GLY B 328 1 9 HELIX 34 34 ASP B 342 GLU B 353 1 12 HELIX 35 35 THR B 354 MET B 359 5 6 SHEET 1 A 6 VAL A 231 PHE A 232 0 SHEET 2 A 6 VAL A 127 THR A 130 1 N LEU A 128 O PHE A 232 SHEET 3 A 6 THR A 98 TYR A 103 1 N LEU A 101 O VAL A 127 SHEET 4 A 6 THR A 276 LEU A 281 1 O GLY A 277 N PHE A 100 SHEET 5 A 6 TYR A 302 ASN A 307 1 O VAL A 304 N ILE A 280 SHEET 6 A 6 VAL A 337 TYR A 340 1 O VAL A 339 N TYR A 305 SHEET 1 B 3 TYR A 147 LEU A 148 0 SHEET 2 B 3 LEU A 169 PRO A 172 -1 O LEU A 170 N TYR A 147 SHEET 3 B 3 ILE A 163 ILE A 166 -1 N ASN A 164 O VAL A 171 SHEET 1 C 6 VAL B 231 PHE B 232 0 SHEET 2 C 6 VAL B 127 THR B 130 1 N LEU B 128 O PHE B 232 SHEET 3 C 6 THR B 98 TYR B 103 1 N LEU B 101 O VAL B 127 SHEET 4 C 6 THR B 276 LEU B 281 1 O LEU B 281 N GLY B 102 SHEET 5 C 6 TYR B 302 ASN B 307 1 O VAL B 304 N MET B 278 SHEET 6 C 6 VAL B 337 TYR B 340 1 O VAL B 337 N TYR B 305 SHEET 1 D 3 TYR B 147 LEU B 148 0 SHEET 2 D 3 LEU B 169 PRO B 172 -1 O LEU B 170 N TYR B 147 SHEET 3 D 3 ILE B 163 ILE B 166 -1 N ASN B 164 O VAL B 171 LINK N8 GC7 A 371 O7N NAD B 370 5555 1555 2.00 LINK N8 GC7 A 371 O7N NAD B 370 1555 5555 2.00 SITE 1 AC1 26 THR A 104 SER A 105 ASN A 106 SER A 109 SITE 2 AC1 26 THR A 131 ALA A 132 GLY A 133 GLU A 137 SITE 3 AC1 26 ASP A 238 GLY A 282 GLY A 283 ILE A 306 SITE 4 AC1 26 ASN A 307 THR A 308 ALA A 309 ALA A 341 SITE 5 AC1 26 ASP A 342 ALA A 343 GLY B 284 HIS B 288 SITE 6 AC1 26 ASP B 313 SER B 315 ASP B 316 SER B 317 SITE 7 AC1 26 NAD B 370 GC7 B 371 SITE 1 AC2 27 GLY A 284 VAL A 285 HIS A 288 ASP A 313 SITE 2 AC2 27 SER A 315 ASP A 316 SER A 317 NAD A 370 SITE 3 AC2 27 GC7 A 371 THR B 104 SER B 105 ASN B 106 SITE 4 AC2 27 LEU B 107 SER B 109 THR B 131 ALA B 132 SITE 5 AC2 27 GLY B 133 GLU B 137 ASP B 238 GLY B 282 SITE 6 AC2 27 GLY B 283 ASN B 307 THR B 308 ALA B 309 SITE 7 AC2 27 ALA B 341 ASP B 342 ALA B 343 SITE 1 AC3 11 HIS A 288 ASN A 292 LEU A 295 GLY A 314 SITE 2 AC3 11 SER A 315 ASP A 316 GLU A 323 TRP A 327 SITE 3 AC3 11 LYS A 329 ASP B 243 NAD B 370 SITE 1 AC4 12 ILE A 166 GLY A 167 ASP A 243 NAD A 370 SITE 2 AC4 12 HIS B 288 ASN B 292 GLY B 314 SER B 315 SITE 3 AC4 12 ASP B 316 GLU B 323 TRP B 327 LYS B 329 CRYST1 104.780 104.780 159.250 90.00 90.00 120.00 P 32 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 0.009544 0.005510 0.000000 0.00000 SCALE2 0.000000 0.011020 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006279 0.00000