HEADER UNKNOWN FUNCTION 04-FEB-13 2M4E TITLE SOLUTION NMR STRUCTURE OF VV2_0175 FROM VIBRIO VULNIFICUS, NESG TARGET TITLE 2 VNR1 AND CSGID TARGET IDP91333 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE UNCHARACTERIZED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO VULNIFICUS; SOURCE 3 ORGANISM_TAXID: 216895; SOURCE 4 STRAIN: CMCP6; SOURCE 5 GENE: VV2_0175; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PMCSG7 KEYWDS PATHOGENIC BACTERIAL PROTEIN, UNKNOWN FUNCTION, STRUCTURAL GENOMICS, KEYWDS 2 PSI-BIOLOGY, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, NESG, ONTARIO KEYWDS 3 CENTRE FOR STRUCTURAL PROTEOMICS, OCSP, CENTER FOR STRUCTURAL KEYWDS 4 GENOMICS OF INFECTIOUS DISEASES, CSGID EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.WU,A.YEE,S.HOULISTON,A.LEMAK,M.GARCIA,A.SAVCHENKO,C.H.ARROWSMITH, AUTHOR 2 W.F.ANDERSON,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG),ONTARIO AUTHOR 3 CENTRE FOR STRUCTURAL PROTEOMICS (OCSP),CENTER FOR STRUCTURAL AUTHOR 4 GENOMICS OF INFECTIOUS DISEASES (CSGID) REVDAT 4 14-JUN-23 2M4E 1 REMARK SEQADV REVDAT 3 08-FEB-17 2M4E 1 AUTHOR REVDAT 2 20-MAR-13 2M4E 1 REMARK REVDAT 1 13-MAR-13 2M4E 0 JRNL AUTH B.WU,A.YEE,S.HOULISTON,A.LEMAK,M.GARCIA,A.SAVCHENKO, JRNL AUTH 2 C.H.ARROWSMITH JRNL TITL SOLUTION NMR STRUCTURE OF VV2_0175 FROM VIBRIO VULNIFICUS, JRNL TITL 2 NESG TARGET VNR1 AND CSGID TARGET IDP91333 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE 2.3, CNS REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), BRUNGER, ADAMS, CLORE, GROS, NILGES AND REMARK 3 READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE HETEROGENEITY OF VIV0002 EXPRESSED REMARK 3 IN ESCHERICHIA COLI BL21 (DE3) WAS OBSERVED. THREE EXTRA PEAKS REMARK 3 IN 15N HSQC AND MORE THAN 25 EXTRA PEAKS IN 13C HSQC WERE REMARK 3 IDENTIFIED. THESE PEAKS ARE GROUPED INTO THREE FRAGMENTS, ONE REMARK 3 ASSIGNED AS GLCNAC, THE OTHER TWO FRAGMENTS COULD NOT BE REMARK 3 ACCURATELY ASSIGNED GIVEN THE LIMITED INFORMATION WE HAVE, BUT REMARK 3 THEY ARE LIKELY TO BELONG TO GLYCANS. THESE FRAGMENTS DISPLAY REMARK 3 INTRA NOES ONLY AND REMAIN SOLVENT EXPOSED WITH STRONG AND REMARK 3 NARROW LINE WIDTHS. NMR RELAXATION DATA SHOWED THAT THESE REMARK 3 UNKNOWN MODIFICATIONS ARE HIGHLY MOBILE AND NO INTERACTION WITH REMARK 3 VIV0002. HETEROLOGOUSLY EXPRESSED VIV0002 WAS CONFIRMED BY LC- REMARK 3 MS. A MASS SHIFT OF 178 DA OF 15N-LABELED VIV0002 WAS DETECTED REMARK 3 WHEREAS A SHIFT OF 72 DA FOR 13C/15N-LABELED SAMPLE. HOWEVER, REMARK 3 NEITHER OF RESULTS MATCHES ANY THREE UNKNOWN FRAGMENTS SEEN IN REMARK 3 THE NMR SPECTRUM WITH MW 202 DA, 155 DA AND 204 DA, REMARK 3 RESPECTIVELY. THE NATURE AND FUNCTIONAL CONSEQUENCE OF THE REMARK 3 UNKNOWN FRAGMENTS/MODIFICATIONS TO VIV0002 ARE NOT UNDERSTOOD AT REMARK 3 THIS STAGE. THE STRUCTURE DEPOSITED PROVIDES THE BASIS OF THE REMARK 3 FUTURE INVESTIGATION. REMARK 4 REMARK 4 2M4E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-FEB-13. REMARK 100 THE DEPOSITION ID IS D_1000103194. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 300 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-100% 13C; U-100% 15N] REMARK 210 VV2_0175, 10 MM [U-100% 2H] TRIS, REMARK 210 300 MM SODIUM CHLORIDE, 10 MM REMARK 210 [U-100% 2H] DTT, 0.01 % NAN3, 10 REMARK 210 MM BENZAMIDINE, 1 % INHIBITOR REMARK 210 COCKTAIL, 90% H2O/10% D2O; 0.2 REMARK 210 MM [U-7% 13C; U-100% 15N] VV2_ REMARK 210 0175, 10 MM [U-100% 2H] TRIS, REMARK 210 300 MM SODIUM CHLORIDE, 10 MM [U- REMARK 210 100% 2H] DTT, 0.01 % NAN3, 10 MM REMARK 210 BENZAMIDINE, 1 % INHIBITOR REMARK 210 COCKTAIL, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCO; 3D CBCA(CO)NH; 3D REMARK 210 HBHA(CO)NH; 3D HNCA; 3D HCCH- REMARK 210 TOCSY; 3D CCH-TOCSY; 3D 1H-15N REMARK 210 NOESY; 3D 1H-13C NOESY; 3D 1H- REMARK 210 13C NOESY AROMATIC; 2D 1H-13C REMARK 210 HSQC; 3D HNCACB; 3D HNCB; 3D REMARK 210 C(CO)NH; 3D H(CCO)NH; 3D HCCH- REMARK 210 COSY; 3D TOCSY-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : MDDGUI 1.0, SPARKY 3.95, FMCGUI REMARK 210 2.4, CYANA 2.1, AUTOSTRUCTURE, REMARK 210 PSVS, FAWN 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: 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 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 MET A -23 REMARK 465 HIS A -22 REMARK 465 HIS A -21 REMARK 465 HIS A -20 REMARK 465 HIS A -19 REMARK 465 HIS A -18 REMARK 465 HIS A -17 REMARK 465 SER A -16 REMARK 465 SER A -15 REMARK 465 GLY A -14 REMARK 465 VAL A -13 REMARK 465 ASP A -12 REMARK 465 LEU A -11 REMARK 465 GLY A -10 REMARK 465 THR A -9 REMARK 465 GLU A -8 REMARK 465 ASN A -7 REMARK 465 LEU A -6 REMARK 465 TYR A -5 REMARK 465 PHE A -4 REMARK 465 GLN A -3 REMARK 465 SER A -2 REMARK 465 ASN A -1 REMARK 465 ALA A 0 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 ALA A 5 172.50 69.28 REMARK 500 1 ASN A 8 -91.45 -89.70 REMARK 500 1 PRO A 36 -78.33 -14.64 REMARK 500 1 GLN A 37 -59.22 -169.94 REMARK 500 2 ASN A 9 75.21 63.68 REMARK 500 2 ASP A 31 97.65 -160.93 REMARK 500 2 PRO A 36 -72.40 -12.23 REMARK 500 2 GLN A 37 -61.99 -172.08 REMARK 500 2 LEU A 62 51.97 -91.41 REMARK 500 3 LYS A 3 36.93 -87.77 REMARK 500 3 ASN A 9 89.28 57.14 REMARK 500 3 ASP A 31 91.59 -69.24 REMARK 500 3 GLN A 34 -52.47 -123.55 REMARK 500 3 GLN A 37 -58.13 103.01 REMARK 500 3 ASN A 82 70.09 58.80 REMARK 500 4 ALA A 5 -149.06 -105.00 REMARK 500 4 LYS A 6 90.27 -68.46 REMARK 500 4 ASN A 8 -76.29 -90.70 REMARK 500 4 ASP A 31 111.91 -171.25 REMARK 500 4 PRO A 33 101.64 -48.00 REMARK 500 4 GLN A 37 -68.76 100.54 REMARK 500 5 SER A 2 -69.11 -101.08 REMARK 500 5 ASN A 8 -84.24 -104.24 REMARK 500 5 GLN A 37 -57.43 103.86 REMARK 500 5 ASN A 82 71.78 62.61 REMARK 500 6 LYS A 3 104.53 68.01 REMARK 500 6 ALA A 5 -23.14 -166.00 REMARK 500 6 GLN A 37 -56.34 103.00 REMARK 500 6 ASN A 82 77.84 61.72 REMARK 500 7 ALA A 5 -99.69 -146.43 REMARK 500 7 ASN A 9 76.68 51.97 REMARK 500 7 PRO A 36 -98.58 -16.53 REMARK 500 7 GLN A 37 -60.51 -144.04 REMARK 500 8 THR A 4 98.51 -63.88 REMARK 500 8 ALA A 5 -98.31 51.03 REMARK 500 8 LYS A 6 -71.06 -127.62 REMARK 500 8 LEU A 7 105.89 68.64 REMARK 500 8 ASN A 8 -45.51 -135.67 REMARK 500 8 GLN A 37 -61.94 103.33 REMARK 500 9 THR A 4 71.62 60.54 REMARK 500 9 LYS A 6 96.65 -47.18 REMARK 500 9 ASN A 8 -82.19 -96.53 REMARK 500 9 GLN A 37 -67.40 105.55 REMARK 500 10 THR A 4 -161.42 58.60 REMARK 500 10 LEU A 7 84.84 -152.98 REMARK 500 10 ASN A 8 -68.20 -102.76 REMARK 500 10 PRO A 36 -96.14 -14.74 REMARK 500 10 GLN A 37 -60.78 -150.37 REMARK 500 11 LYS A 3 -63.65 72.17 REMARK 500 11 THR A 4 118.39 69.15 REMARK 500 REMARK 500 THIS ENTRY HAS 110 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19000 RELATED DB: BMRB REMARK 900 RELATED ID: CSGID-IDP91333 RELATED DB: TARGETTRACK REMARK 900 RELATED ID: NESG-VNR1 RELATED DB: TARGETTRACK DBREF 2M4E A 1 86 UNP Q8D7H8 Q8D7H8_VIBVU 1 86 SEQADV 2M4E MET A -23 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E HIS A -22 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E HIS A -21 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E HIS A -20 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E HIS A -19 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E HIS A -18 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E HIS A -17 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E SER A -16 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E SER A -15 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E GLY A -14 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E VAL A -13 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E ASP A -12 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E LEU A -11 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E GLY A -10 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E THR A -9 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E GLU A -8 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E ASN A -7 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E LEU A -6 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E TYR A -5 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E PHE A -4 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E GLN A -3 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E SER A -2 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E ASN A -1 UNP Q8D7H8 EXPRESSION TAG SEQADV 2M4E ALA A 0 UNP Q8D7H8 EXPRESSION TAG SEQRES 1 A 110 MET HIS HIS HIS HIS HIS HIS SER SER GLY VAL ASP LEU SEQRES 2 A 110 GLY THR GLU ASN LEU TYR PHE GLN SER ASN ALA MET SER SEQRES 3 A 110 LYS THR ALA LYS LEU ASN ASN GLU GLU LYS LEU VAL LYS SEQRES 4 A 110 LYS ALA LEU GLU ILE GLY GLY LYS MET ALA LYS MET GLN SEQRES 5 A 110 GLY PHE ASP LEU PRO GLN SER PRO GLN PRO VAL ARG VAL SEQRES 6 A 110 LYS ALA VAL TYR LEU PHE LEU VAL ASP ALA LYS GLN ILE SEQRES 7 A 110 ALA PRO LEU PRO ASP SER LYS LEU ASP GLY ALA ASN ILE SEQRES 8 A 110 LYS HIS ARG LEU ALA LEU TRP ILE HIS ALA ALA LEU PRO SEQRES 9 A 110 ASP ASN ASP PRO LEU LYS HELIX 1 1 ASN A 9 PHE A 30 1 22 HELIX 2 2 GLN A 37 ALA A 51 1 15 HELIX 3 3 ASP A 63 LEU A 79 1 17 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