HEADER TRANSFERASE 31-JUL-07 2QT0 TITLE HUMAN NICOTINAMIDE RIBOSIDE KINASE 1 IN COMPLEX WITH NICOTINAMIDE TITLE 2 RIBOSIDE AND AN ATP ANALOGUE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NICOTINAMIDE RIBOSIDE KINASE 1; COMPND 3 CHAIN: A; COMPND 4 EC: 2.7.1.-; COMPND 5 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: NRK1, C9ORF95; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) CODON PLUS RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: P28A-LIC KEYWDS NON-PROTEIN KINASE, NAD+, NICOTINAMIDE RIBOSIDE, NRK1, NICOTINAMIDE KEYWDS 2 RIBOSIDE KINASE ACTIVITY, NICOTINIC ACID RIBOSIDE KINASE ACTIVITY, KEYWDS 3 NAD BIOSYNTHESIS, PYRIDINE NUCLEOTIDE BIOSYNTHESIS, ATP ANALOGUE, KEYWDS 4 STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, KEYWDS 5 ALTERNATIVE SPLICING, ATP-BINDING, NUCLEOTIDE-BINDING, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR W.M.RABEH,W.TEMPEL,L.NEDYALKOVA,R.LANDRY,C.H.ARROWSMITH,A.M.EDWARDS, AUTHOR 2 M.SUNDSTROM,J.WEIGELT,A.BOCHKAREV,C.BRENNER,H.PARK,STRUCTURAL AUTHOR 3 GENOMICS CONSORTIUM (SGC) REVDAT 6 15-NOV-23 2QT0 1 REMARK REVDAT 5 30-AUG-23 2QT0 1 REMARK SEQADV LINK REVDAT 4 25-OCT-17 2QT0 1 REMARK REVDAT 3 24-FEB-09 2QT0 1 VERSN REVDAT 2 16-OCT-07 2QT0 1 JRNL REVDAT 1 14-AUG-07 2QT0 0 JRNL AUTH W.TEMPEL,W.M.RABEH,K.L.BOGAN,P.BELENKY,M.WOJCIK,H.F.SEIDLE, JRNL AUTH 2 L.NEDYALKOVA,T.YANG,A.A.SAUVE,H.W.PARK,C.BRENNER JRNL TITL NICOTINAMIDE RIBOSIDE KINASE STRUCTURES REVEAL NEW PATHWAYS JRNL TITL 2 TO NAD(+). JRNL REF PLOS BIOL. V. 5 E263 2007 JRNL REFN ISSN 1544-9173 JRNL PMID 17914902 JRNL DOI 10.1371/JOURNAL.PBIO.0050263 REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 16835 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 851 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) : 1.92 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1165 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.76 REMARK 3 BIN R VALUE (WORKING SET) : 0.2450 REMARK 3 BIN FREE R VALUE SET COUNT : 60 REMARK 3 BIN FREE R VALUE : 0.3120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1451 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 35 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.81 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.30000 REMARK 3 B22 (A**2) : 0.30000 REMARK 3 B33 (A**2) : -0.61000 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): 0.162 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.147 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1548 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1031 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2112 ; 1.416 ; 1.998 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2486 ; 4.146 ; 3.004 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 181 ; 5.811 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 71 ;28.841 ;24.366 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 254 ;13.375 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;10.315 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 229 ; 0.083 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1673 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 311 ; 0.007 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 284 ; 0.207 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 918 ; 0.235 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 750 ; 0.184 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 681 ; 0.123 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 49 ; 0.161 ; 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): 12 ; 0.409 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 27 ; 0.323 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 2 ; 0.099 ; 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): 899 ; 2.349 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 359 ; 0.000 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1464 ; 3.348 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 649 ; 2.408 ; 2.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 646 ; 3.150 ; 3.000 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: 1. THE BIJVOET DIFFERENCES WERE USED REMARK 3 FOR PHASING. 2. ARP/WARP, COOT, PRODRG, MOLPROBITY PROGRAMS HAVE REMARK 3 ALSO BEEN USED IN REFINEMENT. 3. HYDROGENS HAVE BEEN ADDED IN REMARK 3 THE RIDING POSITIONS. REMARK 4 REMARK 4 2QT0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-AUG-07. REMARK 100 THE DEPOSITION ID IS D_1000044017. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 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 : RIGAKU FR-E+ SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31229 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.920 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.99 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 0.99900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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 2P0E REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35% PEG 2000 MME, 0.1M TRIS-HCL. THE REMARK 280 PROTEIN SOLUTION (40MG/ML) CONTAINED 0.01M NICOTINAMIDE RIBOSIDE, REMARK 280 0.01M AMPPNP AND 0.02M MAGNESIUM CHLORIDE, PH 8.0, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-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 22.40050 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 48.51250 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 48.51250 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 11.20025 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 48.51250 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 48.51250 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 33.60075 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 48.51250 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 48.51250 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 11.20025 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 48.51250 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 48.51250 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 33.60075 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 22.40050 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE PROGRAM GENERATED ASSEMBLY REMARK 300 INFORMATION FOR THE STRUCTURE IN THIS ENTRY. REMARK 300 AUTHORS STATE THAT THE BIOLOGICAL UNIT OF THIS REMARK 300 POLYPEPTIDE IS UNKNOWN. 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 MSE A -17 REMARK 465 GLY A -16 REMARK 465 SER A -15 REMARK 465 SER 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 HIS A -8 REMARK 465 SER A -7 REMARK 465 SER A -6 REMARK 465 GLY A -5 REMARK 465 LEU A -4 REMARK 465 VAL A -3 REMARK 465 PRO A -2 REMARK 465 VAL A 82 REMARK 465 SER A 83 REMARK 465 THR A 84 REMARK 465 ASP A 85 REMARK 465 GLN A 86 REMARK 465 GLU A 87 REMARK 465 SER A 88 REMARK 465 ALA A 89 REMARK 465 GLU A 90 REMARK 465 GLU A 91 REMARK 465 GLU A 188 REMARK 465 LEU A 189 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 2 CG CD CE NZ REMARK 470 LYS A 21 CD CE NZ REMARK 470 LYS A 49 CD CE NZ REMARK 470 GLU A 64 CD OE1 OE2 REMARK 470 LYS A 106 CG CD CE NZ REMARK 470 ARG A 114 NE CZ NH1 NH2 REMARK 470 GLN A 187 CG CD OE1 NE2 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 ASP A 56 42.09 -105.47 REMARK 500 HIS A 146 -56.55 -132.45 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 MG A1001 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 17 OG1 REMARK 620 2 ASP A 36 OD2 90.8 REMARK 620 3 HOH A 231 O 87.0 88.0 REMARK 620 4 HOH A 232 O 86.6 91.6 173.6 REMARK 620 5 ANP A1102 O1G 177.9 90.1 94.9 91.4 REMARK 620 6 ANP A1102 O2B 85.3 172.1 84.9 95.1 94.1 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 A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ANP A 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NNR A 1103 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2QSY RELATED DB: PDB REMARK 900 HUMAN NICOTINAMIDE RIBOSIDE KINASE 1 IN COMPLEX WITH ADP REMARK 900 RELATED ID: 2QSZ RELATED DB: PDB REMARK 900 HUMAN NICOTINAMIDE RIBOSIDE KINASE 1 IN COMPLEX WITH NICOTINAMIDE REMARK 900 MONONUCLEOTIDE REMARK 900 RELATED ID: 2QT1 RELATED DB: PDB REMARK 900 HUMAN NICOTINAMIDE RIBOSIDE KINASE 1 IN COMPLEX WITH NICOTINAMIDE REMARK 900 RIBOSIDE DBREF 2QT0 A 2 189 UNP Q9NWW6 NRK1_HUMAN 2 189 SEQADV 2QT0 MSE A -17 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 GLY A -16 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 SER A -15 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 SER A -14 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 HIS A -13 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 HIS A -12 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 HIS A -11 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 HIS A -10 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 HIS A -9 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 HIS A -8 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 SER A -7 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 SER A -6 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 GLY A -5 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 LEU A -4 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 VAL A -3 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 PRO A -2 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 ARG A -1 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 GLY A 0 UNP Q9NWW6 EXPRESSION TAG SEQADV 2QT0 SER A 1 UNP Q9NWW6 EXPRESSION TAG SEQRES 1 A 207 MSE GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 207 LEU VAL PRO ARG GLY SER LYS THR PHE ILE ILE GLY ILE SEQRES 3 A 207 SER GLY VAL THR ASN SER GLY LYS THR THR LEU ALA LYS SEQRES 4 A 207 ASN LEU GLN LYS HIS LEU PRO ASN CYS SER VAL ILE SER SEQRES 5 A 207 GLN ASP ASP PHE PHE LYS PRO GLU SER GLU ILE GLU THR SEQRES 6 A 207 ASP LYS ASN GLY PHE LEU GLN TYR ASP VAL LEU GLU ALA SEQRES 7 A 207 LEU ASN MSE GLU LYS MSE MSE SER ALA ILE SER CYS TRP SEQRES 8 A 207 MSE GLU SER ALA ARG HIS SER VAL VAL SER THR ASP GLN SEQRES 9 A 207 GLU SER ALA GLU GLU ILE PRO ILE LEU ILE ILE GLU GLY SEQRES 10 A 207 PHE LEU LEU PHE ASN TYR LYS PRO LEU ASP THR ILE TRP SEQRES 11 A 207 ASN ARG SER TYR PHE LEU THR ILE PRO TYR GLU GLU CYS SEQRES 12 A 207 LYS ARG ARG ARG SER THR ARG VAL TYR GLN PRO PRO ASP SEQRES 13 A 207 SER PRO GLY TYR PHE ASP GLY HIS VAL TRP PRO MSE TYR SEQRES 14 A 207 LEU LYS TYR ARG GLN GLU MSE GLN ASP ILE THR TRP GLU SEQRES 15 A 207 VAL VAL TYR LEU ASP GLY THR LYS SER GLU GLU ASP LEU SEQRES 16 A 207 PHE LEU GLN VAL TYR GLU ASP LEU ILE GLN GLU LEU MODRES 2QT0 MSE A 63 MET SELENOMETHIONINE MODRES 2QT0 MSE A 66 MET SELENOMETHIONINE MODRES 2QT0 MSE A 67 MET SELENOMETHIONINE MODRES 2QT0 MSE A 74 MET SELENOMETHIONINE MODRES 2QT0 MSE A 150 MET SELENOMETHIONINE MODRES 2QT0 MSE A 158 MET SELENOMETHIONINE HET MSE A 63 8 HET MSE A 66 8 HET MSE A 67 8 HET MSE A 74 8 HET MSE A 150 8 HET MSE A 158 8 HET MG A1001 1 HET ANP A1102 31 HET NNR A1103 18 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER HETNAM NNR NICOTINAMIDE RIBOSIDE HETSYN NNR 3-(AMINOCARBONYL)-1-BETA-D-RIBOFURANOSYLPYRIDINIUM FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 2 MG MG 2+ FORMUL 3 ANP C10 H17 N6 O12 P3 FORMUL 4 NNR C11 H15 N2 O5 1+ FORMUL 5 HOH *35(H2 O) HELIX 1 1 GLY A 15 LEU A 27 1 13 HELIX 2 2 ASP A 36 PHE A 39 5 4 HELIX 3 3 PRO A 41 ILE A 45 5 5 HELIX 4 4 VAL A 57 LEU A 61 5 5 HELIX 5 5 ASN A 62 ALA A 77 1 16 HELIX 6 6 ARG A 78 VAL A 81 5 4 HELIX 7 7 TYR A 105 ASP A 109 5 5 HELIX 8 8 PRO A 121 ARG A 132 1 12 HELIX 9 9 GLY A 141 HIS A 146 1 6 HELIX 10 10 HIS A 146 MSE A 158 1 13 HELIX 11 11 GLN A 159 ILE A 161 5 3 HELIX 12 12 SER A 173 GLN A 187 1 15 SHEET 1 A 5 CYS A 30 SER A 34 0 SHEET 2 A 5 ILE A 94 GLU A 98 1 O ILE A 96 N SER A 31 SHEET 3 A 5 PHE A 4 GLY A 10 1 N ILE A 6 O LEU A 95 SHEET 4 A 5 ARG A 114 THR A 119 1 O ARG A 114 N GLY A 7 SHEET 5 A 5 VAL A 166 ASP A 169 1 O LEU A 168 N PHE A 117 LINK C ASN A 62 N MSE A 63 1555 1555 1.33 LINK C MSE A 63 N GLU A 64 1555 1555 1.34 LINK C LYS A 65 N MSE A 66 1555 1555 1.33 LINK C MSE A 66 N MSE A 67 1555 1555 1.33 LINK C MSE A 67 N SER A 68 1555 1555 1.33 LINK C TRP A 73 N MSE A 74 1555 1555 1.33 LINK C MSE A 74 N GLU A 75 1555 1555 1.31 LINK C PRO A 149 N MSE A 150 1555 1555 1.33 LINK C MSE A 150 N TYR A 151 1555 1555 1.32 LINK C GLU A 157 N MSE A 158 1555 1555 1.33 LINK C MSE A 158 N GLN A 159 1555 1555 1.34 LINK OG1 THR A 17 MG MG A1001 1555 1555 2.14 LINK OD2 ASP A 36 MG MG A1001 1555 1555 2.10 LINK O HOH A 231 MG MG A1001 1555 1555 2.16 LINK O HOH A 232 MG MG A1001 1555 1555 2.13 LINK MG MG A1001 O1G ANP A1102 1555 1555 2.08 LINK MG MG A1001 O2B ANP A1102 1555 1555 2.00 CISPEP 1 GLN A 135 PRO A 136 0 -0.31 SITE 1 AC1 5 THR A 17 ASP A 36 HOH A 231 HOH A 232 SITE 2 AC1 5 ANP A1102 SITE 1 AC2 19 THR A 12 ASN A 13 SER A 14 GLY A 15 SITE 2 AC2 19 LYS A 16 THR A 17 THR A 18 ASP A 36 SITE 3 AC2 19 ARG A 128 ARG A 132 TYR A 134 LYS A 172 SITE 4 AC2 19 SER A 173 GLU A 174 LEU A 177 HOH A 231 SITE 5 AC2 19 HOH A 232 MG A1001 NNR A1103 SITE 1 AC3 10 THR A 12 ASP A 36 PHE A 39 TYR A 55 SITE 2 AC3 10 ASP A 56 ARG A 129 TYR A 134 GLN A 135 SITE 3 AC3 10 HOH A 208 ANP A1102 CRYST1 97.025 97.025 44.801 90.00 90.00 90.00 P 41 21 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 0.010310 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010310 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022320 0.00000