HEADER CELL ADHESION 04-JAN-09 2KD7 TITLE SOLUTION NMR STRUCTURE OF F5/8 TYPE C-TERMINAL DOMAIN OF A PUTATIVE TITLE 2 CHITOBIASE FROM BACTEROIDES THETAIOTAOMICRON. NORTHEAST STRUCTURAL TITLE 3 GENOMICS CONSORTIUM TARGET BTR324B COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE CHITOBIASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 291-440; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES THETAIOTAOMICRON VPI-5482; SOURCE 3 ORGANISM_TAXID: 226186; SOURCE 4 STRAIN: DSM 2079 / NCTC 10582 / E50 / VPI-5482; SOURCE 5 ATCC: 29148; SOURCE 6 GENE: BT_0865; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)+MAGIC; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET21-23C KEYWDS F5/8 TYPE C-DOMAIN, BETA-SANDWICH, PSI-2, PROTEIN STRUCTURE KEYWDS 2 INITIATIVE, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, NESG, CELL KEYWDS 3 ADHESION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.ELETSKY,J.L.MILLS,H.LEE,D.LEE,M.JIANG,C.CICCOSANTI,R.XIAO,R.NAIR, AUTHOR 2 J.K.EVERETT,G.V.T.SWAPNA,T.B.ACTON,B.ROST,G.T.MONTELIONE, AUTHOR 3 J.H.PRESTEGARD,T.SZYPERSKI,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM AUTHOR 4 (NESG) REVDAT 2 20-OCT-21 2KD7 1 REMARK SEQADV REVDAT 1 03-FEB-09 2KD7 0 JRNL AUTH A.ELETSKY,J.L.MILLS,H.LEE,D.LEE,M.JIANG,C.CICCOSANTI,R.XIAO, JRNL AUTH 2 R.NAIR,J.K.EVERETT,G.V.T.SWAPNA,T.B.ACTON,B.ROST, JRNL AUTH 3 G.T.MONTELIONE,J.H.PRESTEGARD,T.SZYPERSKI JRNL TITL SOLUTION NMR STRUCTURE OF F5/8 TYPE C-TERMINAL DOMAIN OF A JRNL TITL 2 PUTATIVE CHITOBIASE FROM BACTEROIDES THETAIOTAOMICRON. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMRJ 2.1B, CNS 1.2.1 REMARK 3 AUTHORS : VARIAN (VNMRJ), BRUNGER, ADAMS, CLORE, GROS, REMARK 3 NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE DETERMINATION WAS PERFORMED REMARK 3 ITERATIVELY WITH CYANA V2.1 AND CYANA V3.0 USING NOE-BASED REMARK 3 CONSTRAINTS, PHI AND PSI DIHEDRAL ANGLE CONSTRAINTS FROM TALOS, REMARK 3 HYDROGEN BOND CONSTRAINTS BASED ON PRELIMINARY STRUCTURES AND REMARK 3 MEXICO DATA, AND RDCS FROM TWO ALIGNMENT MEDIA. THE 20 REMARK 3 CONFORMERS OUT OF 100 WITH THE LOWEST TARGET FUNCTION WERE REMARK 3 FURTHER REFINED BY SIMULATED ANNEALING IN EXPLICIT WATER BATH REMARK 3 USING THE PROGRAM CNS WITH PARAM19 FORCE FIELD. REMARK 4 REMARK 4 2KD7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JAN-09. REMARK 100 THE DEPOSITION ID IS D_1000100974. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 4.5 REMARK 210 IONIC STRENGTH : 215 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.1 MM [U-100% 13C; U-100% 15N] REMARK 210 BTR324B-1, 20 MM AMMONIUM REMARK 210 ACETATE-2, 200 MM SODIUM REMARK 210 CHLORIDE-3, 5 MM CALCIUM REMARK 210 CHLORIDE-4, 10 MM DTT-5, 0.02 MM REMARK 210 SODIUM AZIDE-6, 95% H2O/5% D2O; REMARK 210 1.1 MM [U-5% 13C; U-100% 15N] REMARK 210 BTR324B-7, 20 MM AMMONIUM REMARK 210 ACETATE-8, 200 MM SODIUM REMARK 210 CHLORIDE-9, 5 MM CALCIUM REMARK 210 CHLORIDE-10, 10 MM DTT-11, 0.02 REMARK 210 MM SODIUM AZIDE-12, 95% H2O/5% REMARK 210 D2O; 1.1 MM [U-5% 13C; U-100% REMARK 210 15N] BTR324B-13, 20 MM AMMONIUM REMARK 210 ACETATE-14, 200 MM SODIUM REMARK 210 CHLORIDE-15, 5 MM CALCIUM REMARK 210 CHLORIDE-16, 10 MM DTT-17, 0.02 REMARK 210 MM SODIUM AZIDE-18, 7% REMARK 210 POLYACRYLAMIDE GEL-19, 88% H2O/ REMARK 210 12% D2O; 0.76 MM [U-5% 13C; U- REMARK 210 100% 15N] BTR324B-20, 20 MM REMARK 210 AMMONIUM ACETATE-21, 200 MM REMARK 210 SODIUM CHLORIDE-22, 5 MM CALCIUM REMARK 210 CHLORIDE-23, 10 MM DTT-24, 0.02 REMARK 210 MM SODIUM AZIDE-25, 4.2% REMARK 210 POLYETHYLENE GLYCOL-26, 1.5% REMARK 210 HEXANOL-27, 88% H2O/12% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALI; 2D 1H-13C CT-HSQC ALI; 2D REMARK 210 1H-13C CT-HSQC ARO; 1D 1H-15N REMARK 210 HSQC T1; 1D 1H-15N HSQC T2; 3D REMARK 210 HNCO; 3D CBCA(CO)NH; 3D HNCACB; REMARK 210 3D HBHA(CO)NH; 3D HN(CA)CO; 3D REMARK 210 (H)CCH-COSY ALI; 3D (H)CCH-TOCSY REMARK 210 ALI; 3D (H)CCH-COSY ARO; 3D (H) REMARK 210 CCH-TOCSY ARO; 2D 1H-15N LR-HSQC; REMARK 210 2D 1H-15N MEXICO; 3D 1H-15N/ REMARK 210 13CALI/13CARO NOESY; 3D 1H- REMARK 210 13CALI NOESY; 2D 1H-13C CT-HSQC REMARK 210 METHYL LV; 2D 1H-13C TROSY; 2D REMARK 210 1H-15N TROSY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 750 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 2.1, PROSA 6.0.2, CARA REMARK 210 1.8.4.2, AUTOASSIGN 2.3.0, TALOS REMARK 210 2007.068.09.07, CYANA 3.0, PSVS REMARK 210 1.3 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: 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 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 TRP A 46 -32.99 -134.71 REMARK 500 1 ARG A 75 -66.00 -96.09 REMARK 500 1 ARG A 77 98.22 -60.46 REMARK 500 1 ASN A 81 80.63 54.17 REMARK 500 1 PRO A 82 40.48 -77.27 REMARK 500 1 ASN A 94 -20.83 77.24 REMARK 500 1 HIS A 157 16.22 -140.62 REMARK 500 2 LYS A 62 -13.90 73.05 REMARK 500 2 ASN A 94 -1.91 71.92 REMARK 500 2 GLU A 153 -163.51 -78.30 REMARK 500 3 PRO A 82 40.91 -82.51 REMARK 500 3 THR A 136 31.49 -81.30 REMARK 500 4 THR A 3 27.89 46.32 REMARK 500 4 ASP A 130 71.49 -108.57 REMARK 500 4 ASP A 131 -39.23 -149.42 REMARK 500 5 SER A 21 -43.63 -136.52 REMARK 500 5 LYS A 62 -11.93 73.30 REMARK 500 5 ASN A 81 84.86 -164.63 REMARK 500 5 ASN A 107 92.86 -67.45 REMARK 500 5 PRO A 129 -178.62 -69.61 REMARK 500 5 HIS A 156 116.44 73.66 REMARK 500 6 THR A 3 -13.81 72.87 REMARK 500 6 ARG A 77 107.68 -59.82 REMARK 500 6 ASN A 81 84.42 46.13 REMARK 500 6 PRO A 82 25.71 -75.82 REMARK 500 6 ASN A 94 -9.61 78.19 REMARK 500 6 HIS A 154 43.06 -107.46 REMARK 500 7 SER A 21 -49.42 -134.21 REMARK 500 7 PRO A 74 -168.92 -70.91 REMARK 500 8 ASN A 81 78.12 45.02 REMARK 500 8 VAL A 95 -71.06 -136.26 REMARK 500 9 PRO A 82 31.05 -77.89 REMARK 500 9 VAL A 95 -62.14 -122.28 REMARK 500 10 LYS A 62 -6.99 71.74 REMARK 500 10 ARG A 77 -87.01 51.29 REMARK 500 10 ASN A 81 75.30 48.17 REMARK 500 10 ASN A 94 -9.64 75.53 REMARK 500 10 ARG A 141 -71.74 -66.95 REMARK 500 10 HIS A 157 93.74 -69.89 REMARK 500 10 HIS A 158 86.49 -158.94 REMARK 500 11 PRO A 74 -172.42 -69.27 REMARK 500 11 PRO A 82 30.52 -85.89 REMARK 500 11 ASN A 94 -7.96 76.27 REMARK 500 11 ASN A 107 96.63 -69.67 REMARK 500 11 HIS A 157 97.99 -65.63 REMARK 500 12 VAL A 95 -74.24 -130.54 REMARK 500 12 ARG A 141 -71.78 -64.76 REMARK 500 13 ARG A 77 -83.97 -105.21 REMARK 500 13 ASN A 81 73.86 43.59 REMARK 500 13 ARG A 141 -71.28 -63.85 REMARK 500 REMARK 500 THIS ENTRY HAS 82 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: BTR324B RELATED DB: TARGETDB DBREF 2KD7 A 2 151 UNP Q8A9F0 Q8A9F0_BACTN 291 440 SEQADV 2KD7 MET A 1 UNP Q8A9F0 EXPRESSION TAG SEQADV 2KD7 THR A 4 UNP Q8A9F0 LYS 293 ENGINEERED MUTATION SEQADV 2KD7 LEU A 152 UNP Q8A9F0 EXPRESSION TAG SEQADV 2KD7 GLU A 153 UNP Q8A9F0 EXPRESSION TAG SEQADV 2KD7 HIS A 154 UNP Q8A9F0 EXPRESSION TAG SEQADV 2KD7 HIS A 155 UNP Q8A9F0 EXPRESSION TAG SEQADV 2KD7 HIS A 156 UNP Q8A9F0 EXPRESSION TAG SEQADV 2KD7 HIS A 157 UNP Q8A9F0 EXPRESSION TAG SEQADV 2KD7 HIS A 158 UNP Q8A9F0 EXPRESSION TAG SEQADV 2KD7 HIS A 159 UNP Q8A9F0 EXPRESSION TAG SEQRES 1 A 159 MET GLY THR THR ILE SER LYS SER GLY TRP GLU VAL LEU SEQRES 2 A 159 SER PHE THR THR GLN GLU ALA SER GLY GLU GLY ALA GLY SEQRES 3 A 159 ASN GLY LEU ALA LYS CYS LEU ILE ASP GLY ASP THR GLU SEQRES 4 A 159 THR PHE TRP HIS ALA LYS TRP GLN GLY GLY SER ASP PRO SEQRES 5 A 159 LEU PRO TYR ASP ILE VAL ILE ASP MET LYS GLN ASN ILE SEQRES 6 A 159 GLN ILE ALA GLN VAL GLU LEU LEU PRO ARG GLY ARG GLY SEQRES 7 A 159 SER ASN ASN PRO ILE LYS VAL VAL GLU PHE ALA ALA SER SEQRES 8 A 159 GLU ASP ASN VAL ASN TRP THR PRO ILE GLY ARG PHE GLY SEQRES 9 A 159 PHE THR ASN GLN ASP ALA ALA LEU GLU TYR TYR VAL LYS SEQRES 10 A 159 SER ILE LYS ALA ARG TYR ILE ARG LEU THR ILE PRO ASP SEQRES 11 A 159 ASP GLY GLY ASN SER THR VAL ALA ALA ILE ARG GLU LEU SEQRES 12 A 159 ASP VAL LYS GLY THR ILE ILE ASN LEU GLU HIS HIS HIS SEQRES 13 A 159 HIS HIS HIS HELIX 1 1 SER A 6 TRP A 10 5 5 HELIX 2 2 LYS A 31 ASP A 35 5 5 HELIX 3 3 HIS A 154 HIS A 158 5 5 SHEET 1 A 4 GLU A 11 PHE A 15 0 SHEET 2 A 4 TYR A 55 PRO A 74 -1 O VAL A 58 N SER A 14 SHEET 3 A 4 ALA A 139 ILE A 150 -1 O ASP A 144 N GLU A 71 SHEET 4 A 4 TRP A 42 HIS A 43 -1 N TRP A 42 O ILE A 140 SHEET 1 B 5 GLU A 11 PHE A 15 0 SHEET 2 B 5 TYR A 55 PRO A 74 -1 O VAL A 58 N SER A 14 SHEET 3 B 5 LEU A 112 ILE A 128 -1 O TYR A 114 N VAL A 70 SHEET 4 B 5 VAL A 85 SER A 91 -1 N ALA A 89 O ARG A 125 SHEET 5 B 5 TRP A 97 GLY A 104 -1 O PHE A 103 N VAL A 86 CISPEP 1 LEU A 53 PRO A 54 1 1.36 CISPEP 2 LEU A 53 PRO A 54 2 -1.91 CISPEP 3 LEU A 53 PRO A 54 3 2.21 CISPEP 4 LEU A 53 PRO A 54 4 0.51 CISPEP 5 LEU A 53 PRO A 54 5 -0.19 CISPEP 6 LEU A 53 PRO A 54 6 2.57 CISPEP 7 LEU A 53 PRO A 54 7 0.78 CISPEP 8 LEU A 53 PRO A 54 8 0.84 CISPEP 9 LEU A 53 PRO A 54 9 2.18 CISPEP 10 LEU A 53 PRO A 54 10 1.36 CISPEP 11 LEU A 53 PRO A 54 11 0.22 CISPEP 12 LEU A 53 PRO A 54 12 0.69 CISPEP 13 LEU A 53 PRO A 54 13 1.10 CISPEP 14 LEU A 53 PRO A 54 14 1.48 CISPEP 15 LEU A 53 PRO A 54 15 1.84 CISPEP 16 LEU A 53 PRO A 54 16 2.47 CISPEP 17 LEU A 53 PRO A 54 17 -1.96 CISPEP 18 LEU A 53 PRO A 54 18 0.79 CISPEP 19 LEU A 53 PRO A 54 19 1.85 CISPEP 20 LEU A 53 PRO A 54 20 1.69 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