HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 29-DEC-06 2JN9 TITLE NMR SOLUTION STRUCTURE OF YKVR PROTEIN FROM BACILLUS SUBTILIS: NESG TITLE 2 TARGET SR358 COMPND MOL_ID: 1; COMPND 2 MOLECULE: YKVR PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SUBTILIS; SOURCE 3 ORGANISM_TAXID: 1423; SOURCE 4 GENE: YKVR; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)MAGIC; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET21 KEYWDS YKVR, SR358, BACILLUS SUBTILIS, NESG, STRUCTURAL GENOMICS, PSI-2, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, NORTHEAST STRUCTURAL GENOMICS KEYWDS 3 CONSORTIUM, UNKNOWN FUNCTION EXPDTA SOLUTION NMR NUMMDL 10 MDLTYP MINIMIZED AVERAGE AUTHOR S.V.T.GURLA,J.M.ARAMINI,K.CHI HO,K.CUNNINGHAM,L.-C.MA,R.XIAO, AUTHOR 2 M.C.BARAN,T.B.ACTON,J.LIU,B.ROST,G.T.MONTELIONE,NORTHEAST STRUCTURAL AUTHOR 3 GENOMICS CONSORTIUM (NESG) REVDAT 5 20-DEC-23 2JN9 1 REMARK REVDAT 4 09-MAR-22 2JN9 1 REMARK SEQADV REVDAT 3 24-FEB-09 2JN9 1 VERSN REVDAT 2 15-MAY-07 2JN9 1 DBREF REVDAT 1 01-MAY-07 2JN9 0 JRNL AUTH S.V.T.GURLA,J.M.ARAMINI,K.CHI HO,K.CUNNINGHAM,L.-C.MA, JRNL AUTH 2 R.XIAO,M.C.BARAN,T.B.ACTON,J.LIU,B.ROST,G.T.MONTELIONE JRNL TITL NMR SOLUTION STRUCTURE OF YKVR PROTEIN FROM BACILLUS JRNL TITL 2 SUBTILIS: NESG TARGET SR358 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AUTOASSIGN 2.1, AUTOSTRUCTURE, DYANA, CNS 1.1, X REMARK 3 -PLOR 2.0.6 REMARK 3 AUTHORS : ZIMMERMAN, MOSELEY, KULIKOWSKI, MONTELIONE REMARK 3 (AUTOASSIGN), HUANG, SWAPANA, RAJAN, KE, XIA, REMARK 3 SHUKLA, INOUYE AND MONTELIONE (AUTOSTRUCTURE), REMARK 3 GUNTERT, BRAUN AND WUTHRICH (DYANA), BRUNGER, REMARK 3 ADAMS, CLORE, GROS, NILGES AND READ (CNS), BRUNGER REMARK 3 (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2JN9 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000100045. 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 : 5.11 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.17 MM PROTEIN, 1.0 MM SODIUM REMARK 210 AZIDE, 95% H2O, 5% D2O; 1.17 MM REMARK 210 PROTEIN, 1.0 MM SODIUM AZIDE, 95% REMARK 210 H2O, 5% D2O; 1.17 MM PROTEIN, REMARK 210 1.0 MM SODIUM AZIDE, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D CBCA(CO)NH; 3D HNCACB; 2D 1H REMARK 210 -15N HSQC; 2D 1H-13C HSQC; 3D REMARK 210 HNCO; 3D HBHA(CO)NH; 3D HNHA; 3D REMARK 210 HCCH-TOCSY; 3D 1H-15N NOESY; 3D REMARK 210 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : VARIAN; BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : AVS, AUTOSTRUCTURE, DYANA REMARK 210 METHOD USED : DISTANCE GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 56 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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: 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: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O GLU A 22 H LYS A 24 1.50 REMARK 500 HZ2 LYS A 24 OD2 ASP A 92 1.60 REMARK 500 REMARK 500 REMARK: NULL 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 ASN A 8 72.93 55.38 REMARK 500 1 ASN A 9 -16.51 72.78 REMARK 500 1 PRO A 23 -26.97 1.05 REMARK 500 1 ARG A 25 90.72 -69.32 REMARK 500 1 LEU A 45 107.98 -161.04 REMARK 500 1 TYR A 46 -64.62 73.73 REMARK 500 1 GLU A 47 -74.37 77.94 REMARK 500 1 ASP A 58 81.63 55.38 REMARK 500 1 THR A 73 169.90 77.61 REMARK 500 1 ASN A 74 -64.33 -147.37 REMARK 500 1 LEU A 75 -148.89 -142.25 REMARK 500 1 TYR A 76 136.66 87.92 REMARK 500 1 GLU A 77 113.55 -24.13 REMARK 500 1 ALA A 80 39.64 -162.89 REMARK 500 1 VAL A 81 -90.81 -113.42 REMARK 500 1 ASP A 96 163.98 66.38 REMARK 500 1 HIS A 102 87.89 -174.17 REMARK 500 1 HIS A 103 -72.82 -107.91 REMARK 500 2 ASN A 9 -16.86 72.56 REMARK 500 2 LYS A 24 173.93 176.74 REMARK 500 2 TYR A 46 82.32 58.63 REMARK 500 2 LYS A 48 -60.22 -103.42 REMARK 500 2 SER A 71 -89.09 -92.75 REMARK 500 2 ASN A 74 -18.19 70.36 REMARK 500 2 LEU A 75 153.03 71.30 REMARK 500 2 TYR A 76 23.00 47.16 REMARK 500 2 ASP A 96 -170.91 61.94 REMARK 500 2 SER A 97 22.04 -140.47 REMARK 500 2 HIS A 100 118.59 -165.75 REMARK 500 2 HIS A 102 -90.03 68.88 REMARK 500 3 VAL A 2 125.04 73.14 REMARK 500 3 ASN A 9 -13.22 73.29 REMARK 500 3 ALA A 15 -53.67 -120.98 REMARK 500 3 GLU A 22 -63.16 -94.00 REMARK 500 3 LYS A 24 -165.53 177.79 REMARK 500 3 THR A 34 -167.27 -102.43 REMARK 500 3 HIS A 39 -72.21 -56.45 REMARK 500 3 TYR A 46 -73.83 59.77 REMARK 500 3 GLU A 47 -84.77 67.16 REMARK 500 3 LYS A 48 -90.19 -168.51 REMARK 500 3 ASP A 58 74.96 49.83 REMARK 500 3 LEU A 72 -67.56 -141.34 REMARK 500 3 TYR A 76 -47.66 -167.92 REMARK 500 3 GLU A 77 93.46 -165.08 REMARK 500 3 ASP A 92 -153.91 -118.32 REMARK 500 3 SER A 97 13.86 174.52 REMARK 500 3 HIS A 100 72.07 60.53 REMARK 500 3 HIS A 103 -75.95 -63.58 REMARK 500 3 HIS A 104 137.01 175.56 REMARK 500 4 VAL A 2 83.05 65.89 REMARK 500 REMARK 500 THIS ENTRY HAS 157 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 GLU A 22 PRO A 23 1 -133.87 REMARK 500 GLU A 22 PRO A 23 6 145.39 REMARK 500 GLU A 22 PRO A 23 7 -136.44 REMARK 500 GLU A 22 PRO A 23 10 -134.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: SR358 RELATED DB: TARGETDB DBREF 2JN9 A 3 97 UNP O31683 O31683_BACSU 2 96 SEQADV 2JN9 MET A 1 UNP O31683 CLONING ARTIFACT SEQADV 2JN9 VAL A 2 UNP O31683 CLONING ARTIFACT SEQADV 2JN9 LEU A 98 UNP O31683 CLONING ARTIFACT SEQADV 2JN9 GLU A 99 UNP O31683 CLONING ARTIFACT SEQADV 2JN9 HIS A 100 UNP O31683 EXPRESSION TAG SEQADV 2JN9 HIS A 101 UNP O31683 EXPRESSION TAG SEQADV 2JN9 HIS A 102 UNP O31683 EXPRESSION TAG SEQADV 2JN9 HIS A 103 UNP O31683 EXPRESSION TAG SEQADV 2JN9 HIS A 104 UNP O31683 EXPRESSION TAG SEQADV 2JN9 HIS A 105 UNP O31683 EXPRESSION TAG SEQRES 1 A 105 MET VAL LYS THR LEU ARG LEU ASN ASN VAL THR LEU GLU SEQRES 2 A 105 MET ALA ALA TYR GLN GLU GLU SER GLU PRO LYS ARG LYS SEQRES 3 A 105 ILE ALA PHE THR LEU ASN VAL THR SER GLU THR TYR HIS SEQRES 4 A 105 ASP ILE ALA VAL LEU LEU TYR GLU LYS THR PHE ASN VAL SEQRES 5 A 105 GLU VAL PRO GLU ARG ASP LEU ALA PHE ARG GLY GLU MET SEQRES 6 A 105 THR ASN TYR SER THR SER LEU THR ASN LEU TYR GLU PRO SEQRES 7 A 105 GLY ALA VAL SER GLU PHE TYR ILE GLU ILE THR GLU ILE SEQRES 8 A 105 ASP LYS ASN ALA ASP SER LEU GLU HIS HIS HIS HIS HIS SEQRES 9 A 105 HIS HELIX 1 1 THR A 37 ALA A 42 1 6 SHEET 1 A 4 VAL A 10 LEU A 12 0 SHEET 2 A 4 LEU A 5 LEU A 7 -1 N LEU A 7 O VAL A 10 SHEET 3 A 4 PHE A 50 VAL A 54 -1 O GLU A 53 N ARG A 6 SHEET 4 A 4 LEU A 59 GLY A 63 -1 O PHE A 61 N VAL A 52 SHEET 1 B 3 ALA A 16 GLU A 20 0 SHEET 2 B 3 LYS A 26 VAL A 33 -1 O ALA A 28 N GLN A 18 SHEET 3 B 3 SER A 82 ILE A 88 -1 O SER A 82 N VAL A 33 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