HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 16-OCT-09 2KPM TITLE SOLUTION NMR STRUCTURE OF UNCHARACTERIZED PROTEIN FROM GENE LOCUS TITLE 2 NE0665 OF NITROSOMONAS EUROPAEA. NORTHEAST STRUCTURAL GENOMICS TARGET TITLE 3 NER103A COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 174-269; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NITROSOMONAS EUROPAEA; SOURCE 3 ORGANISM_TAXID: 915; SOURCE 4 GENE: NE0665; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) + MAGIC; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET21-23C KEYWDS METHODS DEVELOPMENT, UNCHARACTERIZED PROTEIN, STRUCTURAL GENOMICS, KEYWDS 2 PSI-2, PROTEIN STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL GENOMICS KEYWDS 3 CONSORTIUM, NESG, UNKNOWN FUNCTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR P.ROSSI,R.BELOTE,M.JIANG,R.XIAO,C.CICCOSANTI,T.ACTON,J.EVERETT, AUTHOR 2 B.ROST,G.T.MONTELIONE,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM AUTHOR 3 (NESG) REVDAT 2 26-FEB-20 2KPM 1 REMARK SEQADV REVDAT 1 15-DEC-09 2KPM 0 JRNL AUTH P.ROSSI,R.XIAO,T.ACTON,B.ROST,G.T.MONTELIONE JRNL TITL SOLUTION NMR STRUCTURE OF UNCHARACTERIZED PROTEIN FROM GENE JRNL TITL 2 LOCUS NE0665 OF NITROSOMONAS EUROPAEA. NORTHEAST STRUCTURAL JRNL TITL 3 GENOMICS TARGET NER103A JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: ITERATIVE NOESY ASSIGNMENT FOLLOWED BY REMARK 3 TORSION ANGLE DYNAMICS IN CYANA-3.0, STRUCTURE DETERMINED BY REMARK 3 TRIPLE RESONANCE NMR SPECTROSCOPY. NOESY ASSIGNMENTS BY CYANA- REMARK 3 3.0. 20 OF 100 STRUCTURES LOWEST TARGET FUNCTION SELECTED WITH REMARK 3 CYANA-3.0. SELECTED MODELS ARE FURTHER REFINED USING CNS IN REMARK 3 EXPLICIT WATER SHELL (NILGES PROTOCOL WITH PARAM19). ASSIGNMENT REMARK 3 STATS (ALL RESIDUES INCLUDED): BACKBONE 86.63%, SIDECHAIN 76.84%, REMARK 3 AROMATIC (SC) 100%, STEREOSPECIFIC VL METHYL ASSIGNMENT 100%, REMARK 3 UNAMBIGUOUS SIDECHAIN NH2 100%. STRUCTURE BASED ON 2412 NOE, 230 REMARK 3 DIHE. MAX NOE VIOLATION: 0.23 A (1MODEL); MAX DIHE VIOLATION: REMARK 3 8.1 DEG. 3 TOTAL CLOSE CONTACTS PER 20 MODELS. STRUCTURE QUALITY REMARK 3 FACTOR (PSVS 1.3): ORDERED RESIDUES RANGES: 19-98. SECONDARY REMARK 3 STRUCTURE - ALPHA HELICES: 23-32, 42-52, 66-72. BETA STRANDS: 40- REMARK 3 41, 90-96, 77-83. RMSD(ANG): BACKBONE 0.4, ALL HEAVY ATOMS 0.7. REMARK 3 RAMA. DISTRIBUTION (MOLPROBITY): 97/3/0/0 PROCHECK (PSI-PHI): - REMARK 3 0.12/-0.16 (RAW/Z), PROCHECK (ALL): 0.04/0.24 (RAW/Z), REMARK 3 MOLPROBITY CLASH: 9.92/-0.18 (RAW/Z). RPF SCORES ALL ASSIGNED REMARK 3 RESIDUES (FIT OF NOESY PEAKLISTS TO STRUCTURE): RECALL: 0.91, REMARK 3 PRECISION: 0.93, F-MEASURE: 0.92, DP-SCORE: 0.79. REMARK 4 REMARK 4 2KPM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000101415. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.2 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.957 MM [U-100% 13C; U-100% REMARK 210 15N] PROTEIN, 200 MM SODIUM REMARK 210 CHLORIDE, 20 MM MES, 10 MM DTT, REMARK 210 0.02 % SODIUM AZIDE, 5 MM REMARK 210 CALCIUM CHLORIDE, 50 UM DSS, 90% REMARK 210 H2O/10% D2O; 0.9 MM [U-5% 13C; U- REMARK 210 100% 15N] PROTEIN, 200 MM SODIUM REMARK 210 CHLORIDE, 20 MM MES, 10 MM DTT, REMARK 210 0.02 % SODIUM AZIDE, 5 MM REMARK 210 CALCIUM CHLORIDE, 50 UM DSS, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HCCH-TOCSY; 3D HCCH-COSY; 3D REMARK 210 CCH-TOCSY; 3D HNCO; 3D HNCACB; REMARK 210 3D HBHA(CO)NH; 3D CBCA(CO)NH; 3D REMARK 210 1H-15N NOESY; 3D 1H-13C NOESY; REMARK 210 3D HN(CA)CO; HET-NOE; T1- REMARK 210 PSEUDO2D; T2CPMG-PSEUDO2D; HIGH- REMARK 210 RESC13-HSQC; 1D PRESAT REMARK 210 REFERENCING REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA 3.0, NMRPIPE, SPARKY REMARK 210 3.112, PINE, TALOS +, PSVS 1.3, REMARK 210 TOPSPIN 2.1, PYMOL 1.2 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: MONOMER BY GEL FILTRATION CHROMATOGRAPHY/LIGHT SCATTERING REMARK 210 AND BY NMR. T1/T2(CPMG). CONSISTENT WITH MOLECULAR WEIGHT OF REMARK 210 MONOMERIC UNIT. REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC 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 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 1 GLN A 9 97.42 62.00 REMARK 500 1 ALA A 11 40.95 -77.25 REMARK 500 1 GLU A 16 -159.93 -91.33 REMARK 500 1 ARG A 73 48.40 -85.81 REMARK 500 1 GLU A 99 -175.48 -69.33 REMARK 500 1 HIS A 101 108.57 -46.03 REMARK 500 2 SER A 7 77.17 60.34 REMARK 500 2 GLU A 16 96.61 -58.83 REMARK 500 2 ARG A 73 58.24 -91.61 REMARK 500 2 GLU A 99 39.79 -76.41 REMARK 500 2 HIS A 100 -10.79 67.70 REMARK 500 2 HIS A 103 106.95 -59.67 REMARK 500 3 LYS A 4 -58.12 69.43 REMARK 500 3 ALA A 11 2.67 -64.00 REMARK 500 3 HIS A 102 71.07 47.95 REMARK 500 4 ALA A 11 108.61 -56.94 REMARK 500 4 PRO A 15 99.21 -59.30 REMARK 500 4 THR A 17 107.16 71.91 REMARK 500 5 ASP A 2 116.31 -166.50 REMARK 500 5 GLN A 9 76.03 53.92 REMARK 500 5 PRO A 15 -169.27 -74.16 REMARK 500 5 THR A 17 93.35 -59.17 REMARK 500 5 ARG A 73 49.71 -95.65 REMARK 500 5 HIS A 104 37.87 73.18 REMARK 500 6 ALA A 11 93.73 -51.37 REMARK 500 6 PRO A 15 -176.20 -62.27 REMARK 500 6 HIS A 100 9.32 -69.28 REMARK 500 6 HIS A 102 46.26 -75.97 REMARK 500 6 HIS A 103 86.86 -66.59 REMARK 500 7 ARG A 73 51.21 -112.85 REMARK 500 8 PRO A 8 91.42 -68.00 REMARK 500 8 GLN A 9 87.32 56.91 REMARK 500 8 PRO A 15 -169.23 -68.96 REMARK 500 8 THR A 17 95.85 -68.01 REMARK 500 8 HIS A 100 91.18 -65.48 REMARK 500 8 HIS A 101 80.88 -67.93 REMARK 500 8 HIS A 102 89.67 -62.08 REMARK 500 8 HIS A 104 87.93 -63.02 REMARK 500 9 SER A 7 52.68 -146.12 REMARK 500 9 ARG A 73 46.08 -99.37 REMARK 500 9 HIS A 102 106.19 -56.36 REMARK 500 10 ALA A 11 -3.71 73.13 REMARK 500 10 PRO A 15 -164.35 -68.24 REMARK 500 10 ARG A 73 51.70 -109.81 REMARK 500 10 HIS A 100 -6.71 -164.50 REMARK 500 10 HIS A 101 -22.74 65.10 REMARK 500 11 PRO A 8 -145.55 -84.71 REMARK 500 11 ARG A 73 49.26 -108.53 REMARK 500 11 HIS A 101 100.98 -47.30 REMARK 500 12 ASP A 2 -76.51 -85.61 REMARK 500 REMARK 500 THIS ENTRY HAS 77 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NER103A RELATED DB: TARGETDB REMARK 900 RELATED ID: 16560 RELATED DB: BMRB DBREF 2KPM A 2 97 UNP Q82WK8 Q82WK8_NITEU 174 269 SEQADV 2KPM MET A 1 UNP Q82WK8 INITIATING METHIONINE SEQADV 2KPM LEU A 98 UNP Q82WK8 EXPRESSION TAG SEQADV 2KPM GLU A 99 UNP Q82WK8 EXPRESSION TAG SEQADV 2KPM HIS A 100 UNP Q82WK8 EXPRESSION TAG SEQADV 2KPM HIS A 101 UNP Q82WK8 EXPRESSION TAG SEQADV 2KPM HIS A 102 UNP Q82WK8 EXPRESSION TAG SEQADV 2KPM HIS A 103 UNP Q82WK8 EXPRESSION TAG SEQADV 2KPM HIS A 104 UNP Q82WK8 EXPRESSION TAG SEQADV 2KPM HIS A 105 UNP Q82WK8 EXPRESSION TAG SEQRES 1 A 105 MET ASP GLN LYS SER SER SER PRO GLN PRO ALA ALA GLN SEQRES 2 A 105 ALA PRO GLU THR LYS GLN ALA PHE PRO ARG LYS PHE VAL SEQRES 3 A 105 LEU ALA ALA LEU GLU GLN SER SER ASP ASP ALA GLY TRP SEQRES 4 A 105 ALA ASN LEU GLY ASN PHE GLY ASN TYR LEU ASN LYS LEU SEQRES 5 A 105 GLN PRO ASP PHE ASP SER ARG LEU TYR GLY TYR LYS LYS SEQRES 6 A 105 LEU SER ASP LEU VAL LYS ALA ARG THR ASP LEU PHE VAL SEQRES 7 A 105 THR GLU GLU ARG GLN VAL PRO GLY SER THR GLN LYS ALA SEQRES 8 A 105 LEU TYR LEU ARG ALA LYS LEU GLU HIS HIS HIS HIS HIS SEQRES 9 A 105 HIS HELIX 1 1 PRO A 22 SER A 33 1 12 HELIX 2 2 LEU A 42 GLN A 53 1 12 HELIX 3 3 ASP A 57 TYR A 61 5 5 HELIX 4 4 LYS A 65 ARG A 73 1 9 SHEET 1 A 3 ALA A 40 ASN A 41 0 SHEET 2 A 3 LYS A 90 ALA A 96 -1 O LEU A 94 N ALA A 40 SHEET 3 A 3 PHE A 77 GLN A 83 -1 N VAL A 78 O ARG A 95 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1