HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 26-JUN-08 2K5D TITLE SOLUTION NMR STRUCTURE OF SAG0934 FROM STREPTOCOCCUS AGALACTIAE. TITLE 2 NORTHEAST STRUCTURAL GENOMICS TARGET SAR32[1-108]. COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN SAG0934; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS AGALACTIAE SEROGROUP V; SOURCE 3 ORGANISM_TAXID: 216466; SOURCE 4 GENE: SAG0934; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)MGK; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: SAR32-1-108-21.3; SOURCE 8 OTHER_DETAILS: PET21 VECTOR KEYWDS SOLUTION NMR STRUCTURE, PRIMOSOMAL PROTEIN, DUF961, CONSTRUCT KEYWDS 2 OPTIMIZED, STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, KEYWDS 3 NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, NESG, UNKNOWN FUNCTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.M.ARAMINI,P.ROSSI,L.ZHAO,E.L.FOOTE,M.JIANG,R.XIAO,S.SHARMA, AUTHOR 2 G.VT.SWAPNA,R.NAIR,J.K.EVERETT,T.B.ACTON,B.ROST,G.T.MONTELIONE, AUTHOR 3 NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) REVDAT 4 14-JUN-23 2K5D 1 REMARK REVDAT 3 19-FEB-20 2K5D 1 REMARK SEQADV REVDAT 2 24-FEB-09 2K5D 1 VERSN REVDAT 1 26-AUG-08 2K5D 0 JRNL AUTH J.M.ARAMINI,P.ROSSI,L.ZHAO,E.L.FOOTE,M.JIANG,R.XIAO, JRNL AUTH 2 S.SHARMA,G.VT.SWAPNA,R.NAIR,J.K.EVERETT,T.B.ACTON,B.ROST, JRNL AUTH 3 G.T.MONTELIONE JRNL TITL SOLUTION NMR STRUCTURE OF SAG0934 FROM STREPTOCOCCUS JRNL TITL 2 AGALACTIAE. NORTHEAST STRUCTURAL GENOMICS TARGET JRNL TITL 3 SAR32[1-108]. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 2.0, CNS 1.2 REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), BRUNGER, ADAMS, CLORE, REMARK 3 GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE FINAL STRUCTURES ARE BASED ON A REMARK 3 TOTAL OF 1629 CONFORMATIONALLY-RESTRICTING NOE-DERIVED DISTANCE REMARK 3 CONSTRAINTS, 100 DIHEDRAL ANGLE CONSTRAINTS, AND 38 HYDROGEN REMARK 3 BOND CONSTRAINTS (16.2 CONSTRAINTS PER RESIDUE, 5.0 LONG RANGE REMARK 3 CONSTRAINTS PER RESIDUE, COMPUTED FOR RESIDUES 1 TO 110 BY PSVS REMARK 3 1.3). STRUCTURE DETERMINATION WAS PERFORMED ITERATIVELY USING REMARK 3 CYANA 2.1. THE 20 STRUCTURES OUT OF 100 WITH THE LOWEST TARGET REMARK 3 FUNCTION WERE FURTHER REFINED BY RESTRAINED MOLECULAR DYNAMICS/ REMARK 3 ENERGY MINIMIZATION IN EXPLICIT WATER (CNS) WITH PARAM19. REMARK 4 REMARK 4 2K5D COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000100696. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.1 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.46 MM [U-100% 13C; U-100% 15N] REMARK 210 SAR32, 20 MM MES, 100 MM SODIUM REMARK 210 CHLORIDE, 10 MM DTT, 5 MM REMARK 210 CALCIUM CHLORIDE, 0.02 % SODIUM REMARK 210 AZIDE, 95% H2O/5% D2O; 0.46 MM REMARK 210 [U-100% 13C; U-100% 15N] SAR32, REMARK 210 20 MM MES, 100 MM SODIUM REMARK 210 CHLORIDE, 10 MM DTT, 5 MM REMARK 210 CALCIUM CHLORIDE, 0.02 % SODIUM REMARK 210 AZIDE, 100% D2O; 0.57 MM [U-5% REMARK 210 13C; U-100% 15N] SAR32, 20 MM REMARK 210 MES, 100 MM SODIUM CHLORIDE, 10 REMARK 210 MM DTT, 5 MM CALCIUM CHLORIDE, REMARK 210 0.02 % SODIUM AZIDE, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HNCO; 3D HN(CA)CO; 3D CBCA(CO) REMARK 210 NH; 3D HNCACB; 3D HBHA(CO)NH; 3D REMARK 210 HCCH-COSY; 3D HCCH-TOCSY REMARK 210 ALIPHATIC; 3D SIMULTANEOUS CN REMARK 210 NOESY; 3D 1H-13C NOESY AROMATIC; REMARK 210 3D HNHA; 2D 1H-13C HSQC HIGH REMARK 210 RES. (L/V STEREOASSIGNMENT); 2D REMARK 210 1H-15N HETNOE; 1D 1H-15N T1 AND REMARK 210 T2 REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : AUTOASSIGN 2.4.0, NMRPIPE 2.3, REMARK 210 SPARKY 3.113, CYANA 2.1, CNS 1.2, REMARK 210 AUTOSTRUCTURE 2.2.1, PSVS 1.3, REMARK 210 PDBSTAT 5.0 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 : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE PROTEIN IS MONOMERIC BY GEL FILTRATION CHROMATOGRAPHY, REMARK 210 STATIC LIGHT SCATTERING AND 15N T1/T2 RELAXATION. THE STRUCTURE REMARK 210 WAS DETERMINED USING TRIPLE RESONANCE NMR SPECTROSCOPY. REMARK 210 AUTOMATED BACKBONE ASSIGNMENTS WERE MADE USING AUTOASSIGN, AND REMARK 210 THE SIDE CHAIN ASSIGNMENTS WERE COMPLETED MANUALLY. AUTOMATIC REMARK 210 NOESY ASSIGNMENTS WERE DETERMINED USING CYANA 2.1. BACKBONE (PHI/ REMARK 210 PSI) DIHEDRAL ANGLE CONSTRAINTS WERE OBTAINED FROM TALOS. REMARK 210 HYDROGEN BOND CONSTRAINTS WERE DETERMINED USING BOTH REMARK 210 AUTOSTRUCTURE AND CYANA, AND WERE APPLIED ONLY IN THE FINAL REMARK 210 REFINEMENT STAGE (CNS) OF THE STRUCTURE DETERMINATION. ROTAMER REMARK 210 STATES OF SPECIFIC ORDERED RESIDUES WERE CONSTRAINED IN THE REMARK 210 FINAL STAGE OF THE STRUCTURE REFINEMENT BASED ON PROCHECK. REMARK 210 COMPLETENESS OF NMR ASSIGNMENTS (EXCLUDING C-TERMINAL HHHHHH): REMARK 210 BACKBONE, 99.5%, SIDE CHAIN, 97.2%, AROMATICS, 100%, REMARK 210 STEREOSPECIFIC METHYL, 94.4%, STEREOSPECIFIC SIDE CHAIN NH2: 100% REMARK 210 . FINAL STRUCTURE QUALITY FACTORS (FOR RESIDUES 1 TO 110, PSVS REMARK 210 1.3), WHERE ORDERED RESIDUES [S(PHI) + S(PSI) > 1.8] COMPRISE: REMARK 210 18-50,53-67,70-72,74-78,81-83,99-108: (A) RMSD (ORDERED RESIDUES) REMARK 210 : BB, 0.7, HEAVY ATOM, 1.0. (B) RAMACHANDRAN STATISTICS FOR REMARK 210 ORDERED RESIDUES: MOST FAVORED, 90.5%, ADDITIONALLY ALLOWED, 9.5% REMARK 210 , GENEROUSLY ALLOWED, 0.0%, DISALLOWED, 0.0%. (C) PROCHECK REMARK 210 SCORES FOR ORDERED RESIDUES (RAW/Z-): PHI-PSI, -0.55/-1.85, ALL, REMARK 210 -0.28/-1.66. (D) MOLPROBITY CLASH SCORE (RAW/Z-): 17.32/-1.45 (E) REMARK 210 RPF SCORES FOR GOODNESS OF FIT TO NOESY DATA (RESIDUES 1-110): REMARK 210 RECALL, 0.989, PRECISION, 0.916, F-MEASURE, 0.951, DP-SCORE, REMARK 210 0.751. (F) NUMBER OF CLOSE CONTACTS PER 20 MODELS: 15. THE C- REMARK 210 TERMINAL HIS TAG RESIDUES OF THE PROTEIN (HHHHHH) WERE NOT REMARK 210 INCLUDED IN THE STRUCTURE CALCULATIONS AND HAVE BEEN OMITTED REMARK 210 FROM THIS DEPOSITION. COORDINATES FOR THE FOLLOWING RESIDUES ARE REMARK 210 NOT WELL DETERMINED [S(PHI) + S(PSI) < 1.8]: 1-17,51-52,68-69,73, REMARK 210 84-98,109-110. 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 HIS A 111 REMARK 465 HIS A 112 REMARK 465 HIS A 113 REMARK 465 HIS A 114 REMARK 465 HIS A 115 REMARK 465 HIS A 116 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 PHE A 16 -64.95 72.12 REMARK 500 1 SER A 22 -62.43 -123.55 REMARK 500 1 ILE A 79 -71.16 -63.57 REMARK 500 2 ASP A 13 83.93 62.59 REMARK 500 2 THR A 14 -83.69 -94.41 REMARK 500 2 PHE A 16 -179.50 63.11 REMARK 500 2 SER A 22 -63.51 -106.83 REMARK 500 2 ASP A 34 32.27 -80.91 REMARK 500 2 ALA A 94 32.79 -150.79 REMARK 500 2 LEU A 109 94.26 -66.01 REMARK 500 3 MET A 2 133.49 -176.54 REMARK 500 3 ASP A 11 -60.27 -100.78 REMARK 500 3 LYS A 12 102.41 -174.45 REMARK 500 3 SER A 22 -65.22 -134.14 REMARK 500 3 ARG A 26 131.74 -173.57 REMARK 500 3 ILE A 79 -76.01 -67.77 REMARK 500 3 GLN A 92 91.41 -61.82 REMARK 500 3 ALA A 94 87.33 -64.21 REMARK 500 3 LEU A 109 46.24 -87.45 REMARK 500 4 MET A 2 88.01 -54.25 REMARK 500 4 ARG A 3 -3.34 54.11 REMARK 500 4 ASN A 6 -78.92 64.13 REMARK 500 4 GLU A 18 109.19 -54.53 REMARK 500 4 ARG A 75 97.06 -67.83 REMARK 500 4 ILE A 79 -73.16 -83.21 REMARK 500 4 GLN A 92 44.85 -79.01 REMARK 500 5 ASP A 13 -53.48 72.62 REMARK 500 5 THR A 14 106.28 -56.45 REMARK 500 5 ALA A 87 -7.36 71.50 REMARK 500 5 VAL A 96 114.68 -178.79 REMARK 500 5 LEU A 109 38.80 -75.95 REMARK 500 6 ASP A 11 92.26 -54.72 REMARK 500 6 THR A 15 81.51 61.89 REMARK 500 6 SER A 22 -62.69 -123.72 REMARK 500 6 ARG A 26 143.08 -176.71 REMARK 500 6 GLU A 69 76.88 -101.31 REMARK 500 6 ILE A 79 -70.98 -75.48 REMARK 500 6 THR A 88 46.98 -76.09 REMARK 500 6 THR A 90 -45.57 72.97 REMARK 500 6 VAL A 96 -161.10 -119.35 REMARK 500 7 ALA A 5 -69.40 -137.25 REMARK 500 7 ASP A 13 94.78 -68.17 REMARK 500 7 SER A 22 -60.87 -99.25 REMARK 500 7 ARG A 26 143.10 -170.67 REMARK 500 7 PRO A 66 151.19 -49.64 REMARK 500 7 GLU A 69 72.01 -113.29 REMARK 500 7 LEU A 109 0.76 -64.66 REMARK 500 8 GLU A 18 108.28 -45.14 REMARK 500 8 LYS A 68 -70.99 -83.74 REMARK 500 8 GLN A 92 96.67 -61.72 REMARK 500 REMARK 500 THIS ENTRY HAS 128 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SAR32 RELATED DB: TARGETDB REMARK 900 RELATED ID: 15829 RELATED DB: BMRB DBREF 2K5D A 1 108 UNP Q8E006 Q8E006_STRA5 1 108 SEQADV 2K5D LEU A 109 UNP Q8E006 EXPRESSION TAG SEQADV 2K5D GLU A 110 UNP Q8E006 EXPRESSION TAG SEQADV 2K5D HIS A 111 UNP Q8E006 EXPRESSION TAG SEQADV 2K5D HIS A 112 UNP Q8E006 EXPRESSION TAG SEQADV 2K5D HIS A 113 UNP Q8E006 EXPRESSION TAG SEQADV 2K5D HIS A 114 UNP Q8E006 EXPRESSION TAG SEQADV 2K5D HIS A 115 UNP Q8E006 EXPRESSION TAG SEQADV 2K5D HIS A 116 UNP Q8E006 EXPRESSION TAG SEQRES 1 A 116 MET MET ARG LEU ALA ASN GLY ILE VAL LEU ASP LYS ASP SEQRES 2 A 116 THR THR PHE GLY GLU LEU LYS PHE SER ALA LEU ARG ARG SEQRES 3 A 116 GLU VAL ARG ILE GLN ASN GLU ASP GLY SER VAL SER ASP SEQRES 4 A 116 GLU ILE LYS GLU ARG THR TYR ASP LEU LYS SER LYS GLY SEQRES 5 A 116 GLN GLY ARG MET ILE GLN VAL SER ILE PRO ALA SER VAL SEQRES 6 A 116 PRO LEU LYS GLU PHE ASP TYR ASN ALA ARG VAL GLU LEU SEQRES 7 A 116 ILE ASN PRO ILE ALA ASP THR VAL ALA THR ALA THR TYR SEQRES 8 A 116 GLN GLY ALA ASP VAL ASP TRP TYR ILE LYS ALA ASP ASP SEQRES 9 A 116 ILE VAL LEU THR LEU GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 VAL A 86 TYR A 91 1 6 SHEET 1 A 7 ILE A 82 ALA A 83 0 SHEET 2 A 7 TYR A 99 LYS A 101 -1 O LYS A 101 N ILE A 82 SHEET 3 A 7 MET A 56 PRO A 62 1 N GLN A 58 O ILE A 100 SHEET 4 A 7 VAL A 37 LYS A 49 -1 N TYR A 46 O VAL A 59 SHEET 5 A 7 LEU A 19 GLN A 31 -1 N ALA A 23 O ASP A 47 SHEET 6 A 7 ARG A 75 LEU A 78 -1 O VAL A 76 N LEU A 19 SHEET 7 A 7 ILE A 105 LEU A 107 -1 O VAL A 106 N GLU A 77 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