HEADER TRANSFERASE 17-FEB-10 2KUF TITLE NMR STRUCTURE OF THE PASTA DOMAIN 3 AND 4 OF MYCOBACTERIUM TITLE 2 TUBERCULOSIS OF PKNB COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE PKNB; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PASTA DOMAINS 3 AND 4, RESIDUES 491-626; COMPND 5 SYNONYM: PKNB; COMPND 6 EC: 2.7.11.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 GENE: RV0014C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET21-TEV KEYWDS KINASE, EXTERNAL DOMAIN, SIGNALING, STPK, RESUSCITATION, KEYWDS 2 SERINE/THREONINE-PROTEIN KINASE, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 30 AUTHOR P.BARTHE,G.MUKAMOLOVA,C.ROUMESTAND,M.COHEN-GONSAUD REVDAT 4 14-JUN-23 2KUF 1 REMARK REVDAT 3 26-FEB-20 2KUF 1 REMARK SEQADV REVDAT 2 26-MAY-10 2KUF 1 JRNL REVDAT 1 14-APR-10 2KUF 0 JRNL AUTH P.BARTHE,G.V.MUKAMOLOVA,C.ROUMESTAND,M.COHEN-GONSAUD JRNL TITL THE STRUCTURE OF PKNB EXTRACELLULAR PASTA DOMAIN FROM JRNL TITL 2 MYCOBACTERIUM TUBERCULOSIS SUGGESTS A LIGAND-DEPENDENT JRNL TITL 3 KINASE ACTIVATION JRNL REF STRUCTURE V. 18 606 2010 JRNL REFN ISSN 0969-2126 JRNL PMID 20462494 JRNL DOI 10.1016/J.STR.2010.02.013 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE REMARK 3 -KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU,READ,RICE, REMARK 3 SIMONSON,WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: LIKE RECOORD DATABASE REMARK 4 REMARK 4 2KUF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000101585. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283 REMARK 210 PH : 4.6 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.6MM [U-100% 15N] PKNB_PASTA34; REMARK 210 20MM SODIUM ACETATE; 95% H2O/5% REMARK 210 D2O; 0.6MM [U-100% 13C; U-100% REMARK 210 15N] PKNB_PASTA34; 20MM SODIUM REMARK 210 ACETATE; 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-15N REMARK 210 TOCSY; 3D HNCA; 3D HN(COCA)CB; REMARK 210 3D HNCACB; 3D HNCO; 3D HNCACO REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : RESTRAINED MOLECULAR DYNAMICS IN REMARK 210 A HYDRATED ENVIRONMENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 30 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 30 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 1-30 REMARK 465 RES C SSSEQI REMARK 465 GLY A 488 REMARK 465 HIS A 489 REMARK 465 MET A 490 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 VAL A 500 61.11 -109.62 REMARK 500 1 GLN A 503 -169.73 -107.81 REMARK 500 1 LEU A 566 20.30 -159.82 REMARK 500 1 ALA A 595 -62.07 -159.64 REMARK 500 1 HIS A 600 99.51 74.06 REMARK 500 2 PRO A 528 2.07 -64.56 REMARK 500 2 ALA A 595 -30.62 -158.20 REMARK 500 2 ASN A 615 170.80 -49.85 REMARK 500 3 ALA A 531 108.97 -56.51 REMARK 500 3 ASN A 559 -3.84 77.85 REMARK 500 3 LEU A 566 14.32 -152.45 REMARK 500 3 ALA A 595 -48.34 -133.54 REMARK 500 3 HIS A 600 81.73 69.82 REMARK 500 3 ASN A 615 168.36 -48.38 REMARK 500 4 ALA A 501 98.12 -67.06 REMARK 500 4 ASN A 559 -27.29 77.09 REMARK 500 4 ALA A 595 -45.68 -133.98 REMARK 500 4 HIS A 600 80.70 70.29 REMARK 500 4 ASN A 615 163.03 -48.23 REMARK 500 5 ASN A 559 -19.52 77.98 REMARK 500 5 ALA A 595 -52.39 -124.22 REMARK 500 5 HIS A 600 111.25 69.07 REMARK 500 5 ASN A 615 170.86 -56.37 REMARK 500 6 ASN A 559 -9.26 78.55 REMARK 500 6 LEU A 566 24.62 -152.79 REMARK 500 6 HIS A 600 158.11 67.67 REMARK 500 6 ASN A 615 162.87 -49.58 REMARK 500 7 PRO A 528 10.26 -69.13 REMARK 500 7 ASN A 559 -22.74 74.43 REMARK 500 7 LEU A 566 18.26 -141.27 REMARK 500 7 ALA A 595 -57.09 -148.36 REMARK 500 7 HIS A 600 125.19 81.56 REMARK 500 8 PRO A 528 9.27 -58.43 REMARK 500 8 ALA A 595 -54.47 -123.56 REMARK 500 8 HIS A 600 121.23 74.50 REMARK 500 9 VAL A 500 58.78 -119.73 REMARK 500 9 ASN A 559 -27.02 75.15 REMARK 500 9 ALA A 595 -57.90 -150.97 REMARK 500 9 HIS A 600 72.96 55.05 REMARK 500 10 ALA A 531 99.19 -63.64 REMARK 500 10 ALA A 595 -59.76 -137.30 REMARK 500 10 HIS A 600 86.64 68.34 REMARK 500 10 ASN A 615 170.15 -50.08 REMARK 500 11 ASN A 559 -14.62 71.93 REMARK 500 11 ALA A 595 -43.47 -134.45 REMARK 500 11 HIS A 600 97.23 75.01 REMARK 500 12 ASN A 559 -5.55 70.22 REMARK 500 12 ALA A 595 -56.99 -138.30 REMARK 500 12 HIS A 600 84.33 79.20 REMARK 500 12 ASN A 615 175.31 -55.74 REMARK 500 REMARK 500 THIS ENTRY HAS 123 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 12 ARG A 616 0.07 SIDE CHAIN REMARK 500 21 ARG A 616 0.09 SIDE CHAIN REMARK 500 22 ARG A 529 0.08 SIDE CHAIN REMARK 500 23 ARG A 529 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2KUD RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE PASTA DOMAIN 1 AND 2 REMARK 900 RELATED ID: 2KUE RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE PASTA DOMAIN 2 AND 3 REMARK 900 RELATED ID: 2KUI RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF THE PASTA DOMAIN REMARK 900 RELATED ID: 16734 RELATED DB: BMRB DBREF 2KUF A 491 626 UNP P0A5S4 PKNB_MYCTU 491 626 SEQADV 2KUF GLY A 488 UNP P0A5S4 EXPRESSION TAG SEQADV 2KUF HIS A 489 UNP P0A5S4 EXPRESSION TAG SEQADV 2KUF MET A 490 UNP P0A5S4 EXPRESSION TAG SEQRES 1 A 139 GLY HIS MET GLY PRO ALA THR LYS ASP ILE PRO ASP VAL SEQRES 2 A 139 ALA GLY GLN THR VAL ASP VAL ALA GLN LYS ASN LEU ASN SEQRES 3 A 139 VAL TYR GLY PHE THR LYS PHE SER GLN ALA SER VAL ASP SEQRES 4 A 139 SER PRO ARG PRO ALA GLY GLU VAL THR GLY THR ASN PRO SEQRES 5 A 139 PRO ALA GLY THR THR VAL PRO VAL ASP SER VAL ILE GLU SEQRES 6 A 139 LEU GLN VAL SER LYS GLY ASN GLN PHE VAL MET PRO ASP SEQRES 7 A 139 LEU SER GLY MET PHE TRP VAL ASP ALA GLU PRO ARG LEU SEQRES 8 A 139 ARG ALA LEU GLY TRP THR GLY MET LEU ASP LYS GLY ALA SEQRES 9 A 139 ASP VAL ASP ALA GLY GLY SER GLN HIS ASN ARG VAL VAL SEQRES 10 A 139 TYR GLN ASN PRO PRO ALA GLY THR GLY VAL ASN ARG ASP SEQRES 11 A 139 GLY ILE ILE THR LEU ARG PHE GLY GLN HELIX 1 1 THR A 504 PHE A 517 1 14 HELIX 2 2 PHE A 570 GLY A 582 1 13 HELIX 3 3 GLY A 596 HIS A 600 5 5 SHEET 1 A 2 THR A 494 ILE A 497 0 SHEET 2 A 2 THR A 543 PRO A 546 -1 O VAL A 545 N LYS A 495 SHEET 1 B 3 LYS A 519 ASP A 526 0 SHEET 2 B 3 VAL A 550 LYS A 557 1 O LYS A 557 N VAL A 525 SHEET 3 B 3 GLU A 533 THR A 537 -1 N GLU A 533 O SER A 556 SHEET 1 C 2 GLN A 560 VAL A 562 0 SHEET 2 C 2 GLY A 613 ASN A 615 -1 O VAL A 614 N PHE A 561 SHEET 1 D 3 LEU A 587 VAL A 593 0 SHEET 2 D 3 ILE A 620 GLY A 625 1 O LEU A 622 N GLY A 590 SHEET 3 D 3 VAL A 603 GLN A 606 -1 N TYR A 605 O ARG A 623 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