HEADER TRANSFERASE 25-AUG-15 5DEO TITLE MYCOBACTERIUM ABSCESSUS NADD IN COMPLEX WITH NICOTINIC ACID ADENINE TITLE 2 DINUCLEOTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NICOTINATE-NUCLEOTIDE ADENYLYLTRANSFERASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: DEAMIDO-NAD(+) DIPHOSPHORYLASE,DEAMIDO-NAD(+) COMPND 5 PYROPHOSPHORYLASE,NICOTINATE MONONUCLEOTIDE ADENYLYLTRANSFERASE; COMPND 6 EC: 2.7.7.18; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM ABSCESSUS; SOURCE 3 ORGANISM_TAXID: 561007; SOURCE 4 STRAIN: ATCC 19977 / DSM 44196; SOURCE 5 GENE: NADD, MAB_1621; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA2(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: AVA0421 KEYWDS ROSSMAN FOLD, TRANSFERASE, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL KEYWDS 2 GENOMICS CENTER FOR INFECTIOUS DISEASE, SSGCID EXPDTA X-RAY DIFFRACTION AUTHOR R.W.REED,K.V.KOROTKOV,SEATTLE STRUCTURAL GENOMICS CENTER FOR AUTHOR 2 INFECTIOUS DISEASE (SSGCID) REVDAT 4 27-SEP-23 5DEO 1 REMARK REVDAT 3 11-DEC-19 5DEO 1 REMARK REVDAT 2 20-SEP-17 5DEO 1 REMARK REVDAT 1 24-AUG-16 5DEO 0 JRNL AUTH R.W.REED,K.V.KOROTKOV JRNL TITL MYCOBACTERIUM ABSCESSUS NADD IN COMPLEX WITH NICOTINIC ACID JRNL TITL 2 ADENINE DINUCLEOTIDE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.22 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0124 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) : 2.22 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 71.08 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 3 NUMBER OF REFLECTIONS : 41530 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) : 0.237 REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.282 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2223 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) : 2.22 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3084 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.3050 REMARK 3 BIN FREE R VALUE SET COUNT : 149 REMARK 3 BIN FREE R VALUE : 0.3740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5646 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 176 REMARK 3 SOLVENT ATOMS : 223 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.24 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 45.08 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.77000 REMARK 3 B22 (A**2) : -0.75000 REMARK 3 B33 (A**2) : -1.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.16000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.315 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.245 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.215 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.675 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.926 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.899 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5964 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 5568 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8144 ; 1.197 ; 1.943 REMARK 3 BOND ANGLES OTHERS (DEGREES): 12721 ; 0.906 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 716 ; 6.007 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 256 ;30.767 ;21.797 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 880 ;12.575 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 60 ;15.607 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 930 ; 0.065 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6986 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1426 ; 0.001 ; 0.020 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): 2900 ; 2.094 ; 4.416 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2899 ; 2.094 ; 4.415 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3604 ; 3.495 ; 6.605 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1.20 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 : REFINED INDIVIDUALLY REMARK 4 REMARK 4 5DEO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000213096. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUN-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX300-HS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS VERSION NOVEMBER 3, 2014 REMARK 200 DATA SCALING SOFTWARE : XSCALE VERSION NOVEMBER 3, 2014 REMARK 200 BUILT=20141118 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43720 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.220 REMARK 200 RESOLUTION RANGE LOW (A) : 71.080 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.10800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.2400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.22 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 1.03000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.230 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.7 REMARK 200 STARTING MODEL: 4YMI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS-HCL PH 8.5, 20% PEG6000, PH REMARK 280 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 29.21900 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16300 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 -4 REMARK 465 PRO A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 MET A 0 REMARK 465 VAL A 1 REMARK 465 GLN A 2 REMARK 465 SER A 3 REMARK 465 PRO A 46 REMARK 465 TRP A 47 REMARK 465 GLN A 48 REMARK 465 LYS A 49 REMARK 465 GLN A 50 REMARK 465 GLU A 151 REMARK 465 LEU A 152 REMARK 465 PRO A 153 REMARK 465 PRO A 154 REMARK 465 GLY A 202 REMARK 465 ASN A 203 REMARK 465 LYS A 204 REMARK 465 GLY A 205 REMARK 465 ASN A 206 REMARK 465 GLN A 207 REMARK 465 GLY A 208 REMARK 465 GLY A 209 REMARK 465 LEU A 210 REMARK 465 ALA A 211 REMARK 465 GLY B -4 REMARK 465 PRO B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 MET B 0 REMARK 465 VAL B 1 REMARK 465 GLN B 2 REMARK 465 SER B 3 REMARK 465 GLU B 4 REMARK 465 PRO B 46 REMARK 465 TRP B 47 REMARK 465 GLN B 48 REMARK 465 LYS B 49 REMARK 465 GLN B 50 REMARK 465 GLY B 51 REMARK 465 SER B 144 REMARK 465 ASP B 145 REMARK 465 HIS B 146 REMARK 465 ILE B 147 REMARK 465 ALA B 148 REMARK 465 HIS B 149 REMARK 465 ALA B 150 REMARK 465 GLU B 151 REMARK 465 LEU B 152 REMARK 465 PRO B 153 REMARK 465 PRO B 154 REMARK 465 ASP B 155 REMARK 465 GLY B 202 REMARK 465 ASN B 203 REMARK 465 LYS B 204 REMARK 465 GLY B 205 REMARK 465 ASN B 206 REMARK 465 GLN B 207 REMARK 465 GLY B 208 REMARK 465 GLY B 209 REMARK 465 LEU B 210 REMARK 465 ALA B 211 REMARK 465 GLY C -4 REMARK 465 PRO C -3 REMARK 465 GLY C -2 REMARK 465 SER C -1 REMARK 465 MET C 0 REMARK 465 VAL C 1 REMARK 465 GLN C 2 REMARK 465 SER C 3 REMARK 465 GLU C 4 REMARK 465 GLN C 45 REMARK 465 PRO C 46 REMARK 465 TRP C 47 REMARK 465 GLN C 48 REMARK 465 LYS C 49 REMARK 465 GLN C 50 REMARK 465 ASP C 145 REMARK 465 HIS C 146 REMARK 465 ILE C 147 REMARK 465 ALA C 148 REMARK 465 HIS C 149 REMARK 465 ALA C 150 REMARK 465 GLU C 151 REMARK 465 LEU C 152 REMARK 465 PRO C 153 REMARK 465 PRO C 154 REMARK 465 ASP C 155 REMARK 465 GLY C 202 REMARK 465 ASN C 203 REMARK 465 LYS C 204 REMARK 465 GLY C 205 REMARK 465 ASN C 206 REMARK 465 GLN C 207 REMARK 465 GLY C 208 REMARK 465 GLY C 209 REMARK 465 LEU C 210 REMARK 465 ALA C 211 REMARK 465 GLY D -4 REMARK 465 PRO D -3 REMARK 465 GLY D -2 REMARK 465 SER D -1 REMARK 465 MET D 0 REMARK 465 VAL D 1 REMARK 465 GLN D 2 REMARK 465 SER D 3 REMARK 465 GLU D 4 REMARK 465 PRO D 46 REMARK 465 TRP D 47 REMARK 465 GLN D 48 REMARK 465 LYS D 49 REMARK 465 GLN D 50 REMARK 465 GLY D 51 REMARK 465 SER D 144 REMARK 465 ASP D 145 REMARK 465 HIS D 146 REMARK 465 ILE D 147 REMARK 465 ALA D 148 REMARK 465 HIS D 149 REMARK 465 ALA D 150 REMARK 465 GLU D 151 REMARK 465 LEU D 152 REMARK 465 PRO D 153 REMARK 465 PRO D 154 REMARK 465 ASP D 155 REMARK 465 ASN D 203 REMARK 465 LYS D 204 REMARK 465 GLY D 205 REMARK 465 ASN D 206 REMARK 465 GLN D 207 REMARK 465 GLY D 208 REMARK 465 GLY D 209 REMARK 465 LEU D 210 REMARK 465 ALA D 211 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 TYR A 184 -9.07 74.42 REMARK 500 ALA B 34 54.22 37.95 REMARK 500 LYS B 53 95.43 -66.65 REMARK 500 ASP B 102 52.89 -107.17 REMARK 500 GLU B 121 116.30 -39.65 REMARK 500 TYR B 184 -6.79 72.43 REMARK 500 ALA C 34 56.30 35.58 REMARK 500 ASP C 102 61.66 -114.65 REMARK 500 TRP C 120 -158.79 -78.64 REMARK 500 ASN C 122 50.31 72.64 REMARK 500 TYR C 184 -3.22 71.60 REMARK 500 TYR D 184 -8.33 76.65 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 DND A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DND B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DND C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DND D 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4YMI RELATED DB: PDB REMARK 900 M. ABSCESSUS NADD IN COMPLEX WITH NADP REMARK 900 RELATED ID: 5DB4 RELATED DB: PDB REMARK 900 M. ABSCESSUS NADD IN COMPLEX WITH MG-ATP REMARK 900 RELATED ID: 4S1O RELATED DB: PDB REMARK 900 M. TUBERCULOSIS NADD IN COMPLEX WITH NADP REMARK 900 RELATED ID: 4YBR RELATED DB: PDB REMARK 900 M. TUBERCULOSIS NADD IN COMPLEX WITH NADP REMARK 900 RELATED ID: 5DAS RELATED DB: PDB REMARK 900 M. TUBERCULOSIS NADD IN COMPLEX WITH NADP REMARK 900 RELATED ID: 4X0E RELATED DB: PDB REMARK 900 M. TUBERCULOSIS NADD IN APO FORM REMARK 900 RELATED ID: 4RPI RELATED DB: PDB REMARK 900 M. TUBERCULOSIS NADD W117A MUTANT IN APO FORM REMARK 900 RELATED ID: SSGCID-MYABA.00448.A RELATED DB: TARGETTRACK DBREF 5DEO A 2 211 UNP B1MMZ4 B1MMZ4_MYCA9 2 211 DBREF 5DEO B 2 211 UNP B1MMZ4 B1MMZ4_MYCA9 2 211 DBREF 5DEO C 2 211 UNP B1MMZ4 B1MMZ4_MYCA9 2 211 DBREF 5DEO D 2 211 UNP B1MMZ4 B1MMZ4_MYCA9 2 211 SEQADV 5DEO GLY A -4 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO PRO A -3 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO GLY A -2 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO SER A -1 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO MET A 0 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO VAL A 1 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO GLY B -4 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO PRO B -3 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO GLY B -2 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO SER B -1 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO MET B 0 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO VAL B 1 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO GLY C -4 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO PRO C -3 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO GLY C -2 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO SER C -1 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO MET C 0 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO VAL C 1 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO GLY D -4 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO PRO D -3 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO GLY D -2 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO SER D -1 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO MET D 0 UNP B1MMZ4 EXPRESSION TAG SEQADV 5DEO VAL D 1 UNP B1MMZ4 EXPRESSION TAG SEQRES 1 A 216 GLY PRO GLY SER MET VAL GLN SER GLU ARG ARG ARG LEU SEQRES 2 A 216 GLY VAL MET GLY GLY THR PHE ASP PRO ILE HIS ASN GLY SEQRES 3 A 216 HIS LEU VAL ALA ALA SER GLU VAL ALA ASP ARG PHE ALA SEQRES 4 A 216 LEU ASP GLU VAL ILE PHE VAL PRO THR GLY GLN PRO TRP SEQRES 5 A 216 GLN LYS GLN GLY ARG LYS VAL SER PRO ALA GLU HIS ARG SEQRES 6 A 216 TYR LEU MET THR VAL ILE ALA THR ALA SER ASN PRO ARG SEQRES 7 A 216 PHE THR VAL SER ARG ALA ASP ILE ASP ARG GLY GLY ALA SEQRES 8 A 216 THR TYR THR VAL ASP THR LEU THR ASP LEU ARG THR ALA SEQRES 9 A 216 HIS PRO ASP ALA ASP LEU TYR PHE ILE THR GLY ALA ASP SEQRES 10 A 216 ALA LEU ALA SER ILE LEU SER TRP GLU ASN TRP GLU GLN SEQRES 11 A 216 LEU PHE THR LEU ALA LYS PHE ILE GLY VAL SER ARG PRO SEQRES 12 A 216 GLY TYR GLU LEU SER SER ASP HIS ILE ALA HIS ALA GLU SEQRES 13 A 216 LEU PRO PRO ASP GLY LEU SER LEU VAL GLU VAL PRO ALA SEQRES 14 A 216 LEU ALA ILE SER SER THR ASP CYS ARG ILE ARG ALA GLY SEQRES 15 A 216 GLN ALA ARG PRO ILE TRP TYR LEU VAL PRO ASP GLY VAL SEQRES 16 A 216 VAL GLN TYR VAL ALA LYS HIS ARG LEU TYR SER GLY ASN SEQRES 17 A 216 LYS GLY ASN GLN GLY GLY LEU ALA SEQRES 1 B 216 GLY PRO GLY SER MET VAL GLN SER GLU ARG ARG ARG LEU SEQRES 2 B 216 GLY VAL MET GLY GLY THR PHE ASP PRO ILE HIS ASN GLY SEQRES 3 B 216 HIS LEU VAL ALA ALA SER GLU VAL ALA ASP ARG PHE ALA SEQRES 4 B 216 LEU ASP GLU VAL ILE PHE VAL PRO THR GLY GLN PRO TRP SEQRES 5 B 216 GLN LYS GLN GLY ARG LYS VAL SER PRO ALA GLU HIS ARG SEQRES 6 B 216 TYR LEU MET THR VAL ILE ALA THR ALA SER ASN PRO ARG SEQRES 7 B 216 PHE THR VAL SER ARG ALA ASP ILE ASP ARG GLY GLY ALA SEQRES 8 B 216 THR TYR THR VAL ASP THR LEU THR ASP LEU ARG THR ALA SEQRES 9 B 216 HIS PRO ASP ALA ASP LEU TYR PHE ILE THR GLY ALA ASP SEQRES 10 B 216 ALA LEU ALA SER ILE LEU SER TRP GLU ASN TRP GLU GLN SEQRES 11 B 216 LEU PHE THR LEU ALA LYS PHE ILE GLY VAL SER ARG PRO SEQRES 12 B 216 GLY TYR GLU LEU SER SER ASP HIS ILE ALA HIS ALA GLU SEQRES 13 B 216 LEU PRO PRO ASP GLY LEU SER LEU VAL GLU VAL PRO ALA SEQRES 14 B 216 LEU ALA ILE SER SER THR ASP CYS ARG ILE ARG ALA GLY SEQRES 15 B 216 GLN ALA ARG PRO ILE TRP TYR LEU VAL PRO ASP GLY VAL SEQRES 16 B 216 VAL GLN TYR VAL ALA LYS HIS ARG LEU TYR SER GLY ASN SEQRES 17 B 216 LYS GLY ASN GLN GLY GLY LEU ALA SEQRES 1 C 216 GLY PRO GLY SER MET VAL GLN SER GLU ARG ARG ARG LEU SEQRES 2 C 216 GLY VAL MET GLY GLY THR PHE ASP PRO ILE HIS ASN GLY SEQRES 3 C 216 HIS LEU VAL ALA ALA SER GLU VAL ALA ASP ARG PHE ALA SEQRES 4 C 216 LEU ASP GLU VAL ILE PHE VAL PRO THR GLY GLN PRO TRP SEQRES 5 C 216 GLN LYS GLN GLY ARG LYS VAL SER PRO ALA GLU HIS ARG SEQRES 6 C 216 TYR LEU MET THR VAL ILE ALA THR ALA SER ASN PRO ARG SEQRES 7 C 216 PHE THR VAL SER ARG ALA ASP ILE ASP ARG GLY GLY ALA SEQRES 8 C 216 THR TYR THR VAL ASP THR LEU THR ASP LEU ARG THR ALA SEQRES 9 C 216 HIS PRO ASP ALA ASP LEU TYR PHE ILE THR GLY ALA ASP SEQRES 10 C 216 ALA LEU ALA SER ILE LEU SER TRP GLU ASN TRP GLU GLN SEQRES 11 C 216 LEU PHE THR LEU ALA LYS PHE ILE GLY VAL SER ARG PRO SEQRES 12 C 216 GLY TYR GLU LEU SER SER ASP HIS ILE ALA HIS ALA GLU SEQRES 13 C 216 LEU PRO PRO ASP GLY LEU SER LEU VAL GLU VAL PRO ALA SEQRES 14 C 216 LEU ALA ILE SER SER THR ASP CYS ARG ILE ARG ALA GLY SEQRES 15 C 216 GLN ALA ARG PRO ILE TRP TYR LEU VAL PRO ASP GLY VAL SEQRES 16 C 216 VAL GLN TYR VAL ALA LYS HIS ARG LEU TYR SER GLY ASN SEQRES 17 C 216 LYS GLY ASN GLN GLY GLY LEU ALA SEQRES 1 D 216 GLY PRO GLY SER MET VAL GLN SER GLU ARG ARG ARG LEU SEQRES 2 D 216 GLY VAL MET GLY GLY THR PHE ASP PRO ILE HIS ASN GLY SEQRES 3 D 216 HIS LEU VAL ALA ALA SER GLU VAL ALA ASP ARG PHE ALA SEQRES 4 D 216 LEU ASP GLU VAL ILE PHE VAL PRO THR GLY GLN PRO TRP SEQRES 5 D 216 GLN LYS GLN GLY ARG LYS VAL SER PRO ALA GLU HIS ARG SEQRES 6 D 216 TYR LEU MET THR VAL ILE ALA THR ALA SER ASN PRO ARG SEQRES 7 D 216 PHE THR VAL SER ARG ALA ASP ILE ASP ARG GLY GLY ALA SEQRES 8 D 216 THR TYR THR VAL ASP THR LEU THR ASP LEU ARG THR ALA SEQRES 9 D 216 HIS PRO ASP ALA ASP LEU TYR PHE ILE THR GLY ALA ASP SEQRES 10 D 216 ALA LEU ALA SER ILE LEU SER TRP GLU ASN TRP GLU GLN SEQRES 11 D 216 LEU PHE THR LEU ALA LYS PHE ILE GLY VAL SER ARG PRO SEQRES 12 D 216 GLY TYR GLU LEU SER SER ASP HIS ILE ALA HIS ALA GLU SEQRES 13 D 216 LEU PRO PRO ASP GLY LEU SER LEU VAL GLU VAL PRO ALA SEQRES 14 D 216 LEU ALA ILE SER SER THR ASP CYS ARG ILE ARG ALA GLY SEQRES 15 D 216 GLN ALA ARG PRO ILE TRP TYR LEU VAL PRO ASP GLY VAL SEQRES 16 D 216 VAL GLN TYR VAL ALA LYS HIS ARG LEU TYR SER GLY ASN SEQRES 17 D 216 LYS GLY ASN GLN GLY GLY LEU ALA HET DND A 301 44 HET DND B 301 44 HET DND C 301 44 HET DND D 301 44 HETNAM DND NICOTINIC ACID ADENINE DINUCLEOTIDE HETSYN DND DEAMIDO-NAD+ FORMUL 5 DND 4(C21 H27 N6 O15 P2 1+) FORMUL 9 HOH *223(H2 O) HELIX 1 AA1 HIS A 19 PHE A 33 1 15 HELIX 2 AA2 PRO A 56 ALA A 69 1 14 HELIX 3 AA3 ARG A 78 GLY A 84 1 7 HELIX 4 AA4 TYR A 88 HIS A 100 1 13 HELIX 5 AA5 ALA A 111 ALA A 115 1 5 HELIX 6 AA6 SER A 116 TRP A 120 5 5 HELIX 7 AA7 ASN A 122 GLU A 124 5 3 HELIX 8 AA8 GLN A 125 ALA A 130 1 6 HELIX 9 AA9 SER A 144 ALA A 148 5 5 HELIX 10 AB1 SER A 168 GLN A 178 1 11 HELIX 11 AB2 PRO A 187 ARG A 198 1 12 HELIX 12 AB3 HIS B 19 PHE B 33 1 15 HELIX 13 AB4 PRO B 56 ALA B 69 1 14 HELIX 14 AB5 ARG B 78 GLY B 84 1 7 HELIX 15 AB6 TYR B 88 HIS B 100 1 13 HELIX 16 AB7 ALA B 111 SER B 116 1 6 HELIX 17 AB8 ILE B 117 TRP B 120 5 4 HELIX 18 AB9 ASN B 122 ALA B 130 1 9 HELIX 19 AC1 SER B 168 GLN B 178 1 11 HELIX 20 AC2 PRO B 187 HIS B 197 1 11 HELIX 21 AC3 HIS C 19 PHE C 33 1 15 HELIX 22 AC4 PRO C 56 ALA C 69 1 14 HELIX 23 AC5 ARG C 78 GLY C 84 1 7 HELIX 24 AC6 TYR C 88 HIS C 100 1 13 HELIX 25 AC7 ALA C 111 SER C 116 1 6 HELIX 26 AC8 ILE C 117 SER C 119 5 3 HELIX 27 AC9 ASN C 122 LEU C 129 5 8 HELIX 28 AD1 SER C 168 GLN C 178 1 11 HELIX 29 AD2 PRO C 187 ARG C 198 1 12 HELIX 30 AD3 HIS D 19 PHE D 33 1 15 HELIX 31 AD4 PRO D 56 ALA D 69 1 14 HELIX 32 AD5 ARG D 78 GLY D 84 1 7 HELIX 33 AD6 TYR D 88 HIS D 100 1 13 HELIX 34 AD7 ALA D 111 SER D 116 1 6 HELIX 35 AD8 ILE D 117 TRP D 120 5 4 HELIX 36 AD9 GLN D 125 ALA D 130 1 6 HELIX 37 AE1 SER D 168 GLN D 178 1 11 HELIX 38 AE2 PRO D 187 ARG D 198 1 12 SHEET 1 AA1 6 PHE A 74 VAL A 76 0 SHEET 2 AA1 6 VAL A 38 PRO A 42 1 N PHE A 40 O THR A 75 SHEET 3 AA1 6 ARG A 6 GLY A 13 1 N GLY A 9 O ILE A 39 SHEET 4 AA1 6 ALA A 103 GLY A 110 1 O ILE A 108 N VAL A 10 SHEET 5 AA1 6 LYS A 131 VAL A 135 1 O ILE A 133 N THR A 109 SHEET 6 AA1 6 LEU A 157 VAL A 160 1 O VAL A 160 N GLY A 134 SHEET 1 AA2 6 PHE B 74 VAL B 76 0 SHEET 2 AA2 6 GLU B 37 PRO B 42 1 N PHE B 40 O THR B 75 SHEET 3 AA2 6 ARG B 6 GLY B 13 1 N GLY B 9 O GLU B 37 SHEET 4 AA2 6 ALA B 103 GLY B 110 1 O ILE B 108 N VAL B 10 SHEET 5 AA2 6 LYS B 131 VAL B 135 1 O ILE B 133 N THR B 109 SHEET 6 AA2 6 LEU B 157 VAL B 160 1 O SER B 158 N GLY B 134 SHEET 1 AA3 6 PHE C 74 VAL C 76 0 SHEET 2 AA3 6 GLU C 37 PRO C 42 1 N VAL C 38 O THR C 75 SHEET 3 AA3 6 ARG C 6 GLY C 13 1 N GLY C 9 O GLU C 37 SHEET 4 AA3 6 ALA C 103 GLY C 110 1 O ASP C 104 N LEU C 8 SHEET 5 AA3 6 PHE C 132 VAL C 135 1 O VAL C 135 N THR C 109 SHEET 6 AA3 6 LEU C 157 VAL C 160 1 O VAL C 160 N GLY C 134 SHEET 1 AA4 6 PHE D 74 VAL D 76 0 SHEET 2 AA4 6 GLU D 37 PRO D 42 1 N PHE D 40 O THR D 75 SHEET 3 AA4 6 ARG D 7 GLY D 13 1 N MET D 11 O ILE D 39 SHEET 4 AA4 6 ASP D 104 GLY D 110 1 O ILE D 108 N VAL D 10 SHEET 5 AA4 6 LYS D 131 VAL D 135 1 O VAL D 135 N THR D 109 SHEET 6 AA4 6 LEU D 157 VAL D 160 1 O SER D 158 N PHE D 132 CISPEP 1 ASP A 16 PRO A 17 0 3.70 CISPEP 2 ASP B 16 PRO B 17 0 2.54 CISPEP 3 ASP C 16 PRO C 17 0 5.83 CISPEP 4 ASP D 16 PRO D 17 0 -1.68 SITE 1 AC1 29 MET A 11 GLY A 12 GLY A 13 THR A 14 SITE 2 AC1 29 PHE A 15 HIS A 19 GLY A 21 HIS A 22 SITE 3 AC1 29 THR A 43 TYR A 88 THR A 89 PHE A 107 SITE 4 AC1 29 THR A 109 GLY A 110 ASP A 112 ALA A 113 SITE 5 AC1 29 TRP A 120 GLU A 121 SER A 136 ARG A 137 SITE 6 AC1 29 LEU A 165 ILE A 167 HOH A 405 HOH A 406 SITE 7 AC1 29 HOH A 407 HOH A 416 HOH A 425 HOH A 432 SITE 8 AC1 29 HOH A 444 SITE 1 AC2 28 MET B 11 GLY B 12 GLY B 13 THR B 14 SITE 2 AC2 28 PHE B 15 HIS B 19 GLY B 21 HIS B 22 SITE 3 AC2 28 THR B 43 THR B 87 TYR B 88 THR B 89 SITE 4 AC2 28 THR B 109 GLY B 110 ASP B 112 TRP B 120 SITE 5 AC2 28 GLU B 121 ARG B 137 LEU B 165 ILE B 167 SITE 6 AC2 28 HOH B 406 HOH B 413 HOH B 418 HOH B 422 SITE 7 AC2 28 HOH B 423 HOH B 426 HOH B 440 HOH B 443 SITE 1 AC3 21 MET C 11 GLY C 12 GLY C 13 THR C 14 SITE 2 AC3 21 PHE C 15 HIS C 19 HIS C 22 THR C 43 SITE 3 AC3 21 TYR C 88 THR C 89 THR C 109 GLY C 110 SITE 4 AC3 21 ASP C 112 ALA C 113 TRP C 120 GLU C 121 SITE 5 AC3 21 SER C 136 ARG C 137 LEU C 165 ILE C 167 SITE 6 AC3 21 HOH C 413 SITE 1 AC4 23 MET D 11 GLY D 12 GLY D 13 THR D 14 SITE 2 AC4 23 PHE D 15 HIS D 19 GLY D 21 HIS D 22 SITE 3 AC4 23 THR D 43 THR D 87 TYR D 88 THR D 89 SITE 4 AC4 23 PHE D 107 THR D 109 GLY D 110 ASP D 112 SITE 5 AC4 23 ALA D 113 TRP D 120 GLU D 121 ARG D 137 SITE 6 AC4 23 LEU D 165 ILE D 167 HOH D 415 CRYST1 71.090 58.438 109.884 90.00 90.74 90.00 P 1 21 1 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 0.014067 0.000000 0.000180 0.00000 SCALE2 0.000000 0.017112 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009101 0.00000