HEADER HYDROLASE 09-JUN-10 2KYY TITLE SOLUTION NMR STRUCTURE OF THE N-TERMINAL DOMAIN OF PUTATIVE ATP- TITLE 2 DEPENDENT DNA HELICASE RECG-RELATED PROTEIN FROM NITROSOMONAS TITLE 3 EUROPAEA, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET NER70A COMPND MOL_ID: 1; COMPND 2 MOLECULE: POSSIBLE ATP-DEPENDENT DNA HELICASE RECG-RELATED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 1-145; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NITROSOMONAS EUROPAEA; SOURCE 3 ORGANISM_TAXID: 915; SOURCE 4 STRAIN: ATCC 19718; SOURCE 5 GENE: NE2525; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PMGK; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET 21-23C KEYWDS STRUCTURAL GENOMICS, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG), KEYWDS 2 AAA_4 DOMAIN, PSI-2, PROTEIN STRUCTURE INITIATIVE, HYDROLASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.ELETSKY,J.L.MILLS,H.LEE,M.MAGLAQUI,C.CICCOSANTI,K.HAMILTON,B.ROST, AUTHOR 2 T.B.ACTON,R.XIAO,J.K.EVERETT,G.T.MONTELIONE,J.H.PRESTEGARD, AUTHOR 3 T.SZYPERSKI,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) REVDAT 3 14-JUN-23 2KYY 1 REMARK REVDAT 2 05-FEB-20 2KYY 1 REMARK SEQADV REVDAT 1 11-AUG-10 2KYY 0 JRNL AUTH A.ELETSKY,J.L.MILLS,H.LEE,M.MAGLAQUI,C.CICCOSANTI, JRNL AUTH 2 K.HAMILTON,B.ROST,T.B.ACTON,R.XIAO,J.K.EVERETT, JRNL AUTH 3 G.T.MONTELIONE,J.H.PRESTEGARD,T.SZYPERSKI JRNL TITL SOLUTION NMR STRUCTURE OF THE N-TERMINAL DOMAIN OF PUTATIVE JRNL TITL 2 ATP-DEPENDENT DNA HELICASE RECG-RELATED PROTEIN FROM JRNL TITL 3 NITROSOMONAS EUROPAEA 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, CYANA 3.0 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 (CNS), GUNTERT, MUMENTHALER AND WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE DETERMINATION WAS PERFORMED REMARK 3 BY RUNNING CYANA AND AUTOSTRUCTURE IN PARALLEL USING NOE-BASED REMARK 3 CONSTRAINTS AND PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS FROM REMARK 3 TALOS+. CONSENSUS PEAK ASSIGNMENTS WERE SELECTED AND USED IN REMARK 3 ITERATIVE REFINEMENT WITH CYANA, WITH RDC CONSTRAINTS ADDED AT REMARK 3 LATER STAGES. THE 20 CONFORMERS OUT OF 100 WITH THE LOWEST REMARK 3 TARGET FUNCTION WERE FURTHER REFINED BY SIMULATED ANNEALING IN REMARK 3 EXPLICIT WATER BATH USING THE PROGRAM CNS WITH PARAM19 FORCE REMARK 3 FIELD AND UPPER LIMIT CONSTRAINTS RELAXED BY 5% REMARK 4 REMARK 4 2KYY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-JUN-10. REMARK 100 THE DEPOSITION ID IS D_1000101748. 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 : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.9 MM [U-100% 13C; U-100% 15N] REMARK 210 NER70A, 20 MM MES, 100 MM SODIUM REMARK 210 CHLORIDE, 5 MM CALCIUM CHLORIDE, REMARK 210 10 MM DTT, 0.02 % SODIUM AZIDE, REMARK 210 95% H2O/5% D2O; 0.9 MM [U-5% 13C; REMARK 210 U-100% 15N] NER70A, 20 MM MES, REMARK 210 100 MM SODIUM CHLORIDE, 5 MM REMARK 210 CALCIUM CHLORIDE, 10 MM DTT, REMARK 210 0.02 % SODIUM AZIDE, 95% H2O/5% REMARK 210 D2O; 0.6 MM [U-5% 13C; U-100% REMARK 210 15N] NER70A, 13 MM MES, 66 MM REMARK 210 SODIUM CHLORIDE, 3.3 MM CALCIUM REMARK 210 CHLORIDE, 6.6 MM DTT, 0.013 % REMARK 210 SODIUM AZIDE, 13.5 MG/ML PF1 REMARK 210 PHAGE, 88% H2O/12% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C CT REMARK 210 -HSQC ALIPHATIC; 3D HNCO; 3D REMARK 210 CBCA(CO)NH; 3D HNCACB; 2D 1H-13C REMARK 210 HSQC ALIPHATIC; 3D SIMUTANEOUS REMARK 210 13C-AROMATIC,13C-ALIPHATIC,15N REMARK 210 EDITED 1H-1H NOESY; 2D 1H-13C CT- REMARK 210 HSQC AROMATIC; 3D HN(CA)CO; 3D REMARK 210 HBHA(CO)NH; 3D HCCH-COSY REMARK 210 ALIPHATIC; 3D HCCH-TOCSY REMARK 210 ALIPHATIC; 3D HCCH-COSY AROMATIC; REMARK 210 2D 1H-13C CT-HSQC METHYL; 2D 1H- REMARK 210 15N LR-HSQC (HISTIDINE); 2D 1H- REMARK 210 15N J-MODULATED HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 600 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS 1.2, CYANA 3.0, REMARK 210 AUTOSTRUCTURE 2.2.1, AUTOASSIGN REMARK 210 2.3, NMRPIPE, XEASY 1.3.13, REMARK 210 TOPSPIN 2.1, VNMRJ 2.1B, CARA REMARK 210 1.8.4, TALOS+ 1.2009.0721.18, REMARK 210 PROSA 6.4 REMARK 210 METHOD USED : SIMULATED ANNEALING 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: NULL 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 ARG A 2 144.13 174.43 REMARK 500 1 SER A 17 76.07 -66.44 REMARK 500 1 LYS A 120 -143.43 -50.58 REMARK 500 1 PRO A 121 71.92 7.15 REMARK 500 1 ALA A 133 -62.34 -125.76 REMARK 500 1 GLN A 142 20.69 -144.56 REMARK 500 1 HIS A 148 46.80 -88.74 REMARK 500 1 HIS A 149 90.98 -59.13 REMARK 500 2 ASP A 46 112.50 -32.22 REMARK 500 2 ASN A 90 -58.09 -29.65 REMARK 500 2 ALA A 92 98.77 -67.10 REMARK 500 2 VAL A 117 -38.46 -38.74 REMARK 500 2 LYS A 120 -152.15 -45.06 REMARK 500 2 PRO A 121 65.23 7.68 REMARK 500 2 ALA A 126 -162.49 167.99 REMARK 500 2 HIS A 149 -27.53 70.90 REMARK 500 3 SER A 17 87.13 -69.60 REMARK 500 3 MET A 28 108.45 -59.50 REMARK 500 3 ASP A 46 -169.49 36.93 REMARK 500 3 ASP A 116 -175.61 -62.40 REMARK 500 3 LYS A 120 -140.77 -48.79 REMARK 500 3 PRO A 121 62.93 10.16 REMARK 500 3 HIS A 148 79.05 34.78 REMARK 500 4 ALA A 18 -64.94 -96.46 REMARK 500 4 MET A 28 109.16 -58.30 REMARK 500 4 VAL A 117 -37.83 -38.72 REMARK 500 4 LYS A 120 -152.48 -51.48 REMARK 500 4 PRO A 121 62.83 14.40 REMARK 500 4 GLN A 142 43.03 -96.99 REMARK 500 5 PRO A 43 109.94 -58.03 REMARK 500 5 ALA A 92 97.23 -68.27 REMARK 500 5 HIS A 119 73.65 -104.70 REMARK 500 5 LYS A 120 -139.08 -46.87 REMARK 500 5 PRO A 121 67.78 6.43 REMARK 500 5 LEU A 129 82.12 59.40 REMARK 500 5 SER A 139 -61.52 -93.05 REMARK 500 6 ARG A 19 15.48 -150.88 REMARK 500 6 LYS A 120 -153.00 -44.14 REMARK 500 6 PRO A 121 71.24 -1.85 REMARK 500 6 THR A 127 105.48 -57.30 REMARK 500 6 ARG A 143 27.21 -79.24 REMARK 500 6 HIS A 152 -69.19 67.42 REMARK 500 7 MET A 28 105.84 -52.59 REMARK 500 7 ASP A 46 71.81 39.60 REMARK 500 7 ALA A 92 97.40 -68.73 REMARK 500 7 HIS A 119 -76.65 -79.88 REMARK 500 7 LYS A 120 -142.57 -79.92 REMARK 500 7 PRO A 121 112.28 1.24 REMARK 500 7 THR A 127 -52.14 76.22 REMARK 500 7 LEU A 129 78.84 65.83 REMARK 500 REMARK 500 THIS ENTRY HAS 147 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 HIS A 119 LYS A 120 1 49.08 REMARK 500 LYS A 120 PRO A 121 1 -122.62 REMARK 500 HIS A 119 LYS A 120 2 58.70 REMARK 500 LYS A 120 PRO A 121 2 -126.06 REMARK 500 HIS A 119 LYS A 120 3 50.91 REMARK 500 LYS A 120 PRO A 121 3 -121.30 REMARK 500 HIS A 119 LYS A 120 4 46.34 REMARK 500 LYS A 120 PRO A 121 4 -123.27 REMARK 500 HIS A 119 LYS A 120 5 53.16 REMARK 500 LYS A 120 PRO A 121 5 -122.54 REMARK 500 HIS A 119 LYS A 120 6 60.13 REMARK 500 LYS A 120 PRO A 121 6 -117.02 REMARK 500 HIS A 119 LYS A 120 7 -49.34 REMARK 500 LYS A 120 PRO A 121 7 -133.83 REMARK 500 HIS A 119 LYS A 120 8 45.52 REMARK 500 LYS A 120 PRO A 121 8 -119.48 REMARK 500 HIS A 119 LYS A 120 9 -49.48 REMARK 500 LYS A 120 PRO A 121 9 -139.13 REMARK 500 HIS A 119 LYS A 120 10 55.79 REMARK 500 LYS A 120 PRO A 121 10 -124.66 REMARK 500 HIS A 119 LYS A 120 11 -45.96 REMARK 500 LYS A 120 PRO A 121 11 -138.90 REMARK 500 HIS A 119 LYS A 120 12 -34.67 REMARK 500 LYS A 120 PRO A 121 12 -137.26 REMARK 500 HIS A 119 LYS A 120 13 61.35 REMARK 500 LYS A 120 PRO A 121 13 -126.31 REMARK 500 HIS A 119 LYS A 120 14 -49.56 REMARK 500 LYS A 120 PRO A 121 14 -136.22 REMARK 500 HIS A 119 LYS A 120 15 57.48 REMARK 500 LYS A 120 PRO A 121 15 -127.68 REMARK 500 HIS A 119 LYS A 120 16 42.26 REMARK 500 LYS A 120 PRO A 121 16 -118.72 REMARK 500 HIS A 119 LYS A 120 17 43.42 REMARK 500 LYS A 120 PRO A 121 17 -121.93 REMARK 500 HIS A 119 LYS A 120 18 46.37 REMARK 500 LYS A 120 PRO A 121 18 -120.96 REMARK 500 HIS A 119 LYS A 120 19 66.84 REMARK 500 LYS A 120 PRO A 121 19 -132.33 REMARK 500 HIS A 119 LYS A 120 20 43.93 REMARK 500 LYS A 120 PRO A 121 20 -113.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NER70A RELATED DB: TARGETDB REMARK 900 RELATED ID: 16991 RELATED DB: BMRB DBREF 2KYY A 1 145 UNP Q82S36 Q82S36_NITEU 1 145 SEQADV 2KYY LEU A 146 UNP Q82S36 EXPRESSION TAG SEQADV 2KYY GLU A 147 UNP Q82S36 EXPRESSION TAG SEQADV 2KYY HIS A 148 UNP Q82S36 EXPRESSION TAG SEQADV 2KYY HIS A 149 UNP Q82S36 EXPRESSION TAG SEQADV 2KYY HIS A 150 UNP Q82S36 EXPRESSION TAG SEQADV 2KYY HIS A 151 UNP Q82S36 EXPRESSION TAG SEQADV 2KYY HIS A 152 UNP Q82S36 EXPRESSION TAG SEQADV 2KYY HIS A 153 UNP Q82S36 EXPRESSION TAG SEQRES 1 A 153 MET ARG SER ALA THR ASP LEU LEU ASP GLU LEU ASN ALA SEQRES 2 A 153 VAL ASP GLU SER ALA ARG ILE GLU ALA LYS ARG ALA SER SEQRES 3 A 153 ASP MET GLY LYS SER VAL MET GLU THR VAL ILE ALA PHE SEQRES 4 A 153 ALA ASN GLU PRO GLY LEU ASP GLY GLY TYR LEU LEU LEU SEQRES 5 A 153 GLY VAL ASP TRP ALA ILE ASN ASP LYS GLY ASP THR VAL SEQRES 6 A 153 TYR ARG PRO VAL GLY LEU PRO ASP PRO ASP LYS VAL GLN SEQRES 7 A 153 ARG ASP LEU ALA SER GLN CYS ALA SER MET LEU ASN VAL SEQRES 8 A 153 ALA LEU ARG PRO GLU MET GLN LEU GLU GLN VAL GLY GLY SEQRES 9 A 153 LYS THR LEU LEU VAL VAL TYR VAL PRO GLU ALA ASP VAL SEQRES 10 A 153 THR HIS LYS PRO ILE TYR LYS LYS ALA THR GLY LEU PRO SEQRES 11 A 153 GLY GLY ALA TYR ARG ARG ILE GLY SER SER ASP GLN ARG SEQRES 12 A 153 CYS VAL LEU GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 SER A 3 VAL A 14 1 12 HELIX 2 2 ARG A 24 MET A 28 5 5 HELIX 3 3 GLY A 29 ASN A 41 1 13 HELIX 4 4 ASP A 73 MET A 88 1 16 SHEET 1 A 4 ILE A 20 LYS A 23 0 SHEET 2 A 4 GLY A 48 LEU A 52 1 O LEU A 51 N LYS A 23 SHEET 3 A 4 LYS A 105 VAL A 112 -1 O LEU A 108 N LEU A 52 SHEET 4 A 4 GLU A 96 VAL A 102 -1 N GLN A 98 O VAL A 109 SHEET 1 B 2 VAL A 54 ILE A 58 0 SHEET 2 B 2 THR A 64 PRO A 68 -1 O ARG A 67 N ASP A 55 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