HEADER MOLECULAR CHAPERONE 11-AUG-98 1BPR TITLE NMR STRUCTURE OF THE SUBSTRATE BINDING DOMAIN OF DNAK, MINIMIZED TITLE 2 AVERAGE STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNAK; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SUBSTRATE BINDING DOMAIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: XL-1 BLUE; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PQE30 KEYWDS MOLECULAR CHAPERONE, HSP70, PEPTIDE BINDING, PROTEIN FOLDING EXPDTA SOLUTION NMR AUTHOR H.WANG,A.V.KUROCHKIN,Y.PANG,W.HU,G.C.FLYNN,E.R.P.ZUIDERWEG REVDAT 4 16-FEB-22 1BPR 1 REMARK SEQADV REVDAT 3 24-FEB-09 1BPR 1 VERSN REVDAT 2 27-APR-99 1BPR 1 COMPND REMARK TITLE SOURCE REVDAT 2 2 1 JRNL REVDAT 1 02-MAR-99 1BPR 0 JRNL AUTH H.WANG,A.V.KUROCHKIN,Y.PANG,W.HU,G.C.FLYNN,E.R.ZUIDERWEG JRNL TITL NMR SOLUTION STRUCTURE OF THE 21 KDA CHAPERONE PROTEIN DNAK JRNL TITL 2 SUBSTRATE BINDING DOMAIN: A PREVIEW OF CHAPERONE-PROTEIN JRNL TITL 3 INTERACTION. JRNL REF BIOCHEMISTRY V. 37 7929 1998 JRNL REFN ISSN 0006-2960 JRNL PMID 9609686 JRNL DOI 10.1021/BI9800855 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER REMARK 3 AUTHORS : MSI REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 REFERENCE CITED ABOVE REMARK 4 REMARK 4 1BPR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000171988. 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 : 50 MM INORGANIC PHOSPHATE REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : H2O AND D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : HNCA; HN(CA)HA; HN(CO)CA; REMARK 210 HA(CACO)NH; CP H(C)CCH-TOCSY; CP REMARK 210 (H)CCH-TOCSY; CP (H)C(CCACO)NH- REMARK 210 TOCSY; 15N-RESOLVED NOESY-HSQC; REMARK 210 13C RESOLVED NOESY-HMQC; 4D 13C REMARK 210 RESOLVED HMQC-NOESY-HSQC; HNHA-J REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX500; AMX600 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : BIOSYM REMARK 210 METHOD USED : DISTANCE GEOMETRY AND RESTRAINED REMARK 210 MOLECULAR DYNAMICS WITH REMARK 210 SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : TOTAL ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: THIS IS THE MEAN STRUCTURE 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 RES C SSSEQI REMARK 465 ARG A 371 REMARK 465 GLY A 372 REMARK 465 SER A 373 REMARK 465 HIS A 374 REMARK 465 HIS A 375 REMARK 465 HIS A 376 REMARK 465 HIS A 377 REMARK 465 HIS A 378 REMARK 465 HIS A 379 REMARK 465 GLY A 380 REMARK 465 GLY A 554 REMARK 465 ASP A 555 REMARK 465 LYS A 556 REMARK 465 LEU A 557 REMARK 465 PRO A 558 REMARK 465 ALA A 559 REMARK 465 ASP A 560 REMARK 465 ASP A 561 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 GLN A 442 HB3 LYS A 452 1.18 REMARK 500 H GLN A 534 H THR A 535 1.31 REMARK 500 HZ1 LYS A 387 H LEU A 507 1.32 REMARK 500 H LEU A 397 H SER A 398 1.34 REMARK 500 O ASP A 510 CB LYS A 514 2.17 REMARK 500 O GLN A 442 CB LYS A 452 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 HIS A 422 ND1 - CE1 - NE2 ANGL. DEV. = 9.4 DEGREES REMARK 500 HIS A 439 ND1 - CE1 - NE2 ANGL. DEV. = 9.4 DEGREES REMARK 500 HIS A 485 ND1 - CE1 - NE2 ANGL. DEV. = 9.5 DEGREES REMARK 500 GLU A 511 N - CA - C ANGL. DEV. = -18.6 DEGREES REMARK 500 HIS A 541 ND1 - CE1 - NE2 ANGL. DEV. = 9.4 DEGREES REMARK 500 HIS A 544 ND1 - CE1 - NE2 ANGL. DEV. = 9.5 DEGREES 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 GLU A 383 98.90 36.42 REMARK 500 LEU A 390 -52.59 -136.80 REMARK 500 LEU A 397 -9.22 -163.24 REMARK 500 SER A 398 125.69 82.48 REMARK 500 MET A 404 93.42 -43.97 REMARK 500 ASN A 415 -9.67 93.87 REMARK 500 ASP A 431 91.99 56.80 REMARK 500 SER A 434 -24.25 -159.32 REMARK 500 ALA A 435 114.68 -167.29 REMARK 500 ILE A 438 53.88 -106.91 REMARK 500 GLU A 444 -86.60 -103.48 REMARK 500 ARG A 445 -103.85 -158.38 REMARK 500 ASP A 450 40.94 -99.40 REMARK 500 ASN A 451 50.28 -101.05 REMARK 500 GLN A 456 77.19 -175.41 REMARK 500 ILE A 462 56.29 -119.57 REMARK 500 ASN A 463 162.44 64.33 REMARK 500 ALA A 465 82.30 -152.90 REMARK 500 ARG A 467 106.48 58.30 REMARK 500 MET A 469 -61.19 -138.94 REMARK 500 LYS A 491 40.56 -102.35 REMARK 500 SER A 493 13.77 -155.40 REMARK 500 ALA A 503 33.82 -164.14 REMARK 500 SER A 505 -143.43 -81.04 REMARK 500 ARG A 517 -72.81 -71.28 REMARK 500 GLN A 534 9.29 119.44 REMARK 500 THR A 535 113.05 54.74 REMARK 500 ARG A 536 -104.63 -160.36 REMARK 500 ASN A 537 -178.15 140.18 REMARK 500 GLN A 538 -95.70 69.69 REMARK 500 HIS A 541 -64.33 78.48 REMARK 500 LEU A 543 102.56 -169.09 REMARK 500 SER A 545 108.91 -160.09 REMARK 500 GLN A 549 74.98 -162.14 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 THR A 395 PRO A 396 -139.68 REMARK 500 REMARK 500 REMARK: NULL DBREF 1BPR A 380 561 UNP P0A6Y8 DNAK_ECOLI 379 560 SEQADV 1BPR SER A 381 UNP P0A6Y8 VAL 380 CONFLICT SEQADV 1BPR ILE A 382 UNP P0A6Y8 LEU 381 CONFLICT SEQADV 1BPR GLU A 383 UNP P0A6Y8 THR 382 CONFLICT SEQADV 1BPR ARG A 385 UNP P0A6Y8 ASP 384 CONFLICT SEQRES 1 A 191 ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER ILE GLU SEQRES 2 A 191 GLY ARG VAL LYS ASP VAL LEU LEU LEU ASP VAL THR PRO SEQRES 3 A 191 LEU SER LEU GLY ILE GLU THR MET GLY GLY VAL MET THR SEQRES 4 A 191 THR LEU ILE ALA LYS ASN THR THR ILE PRO THR LYS HIS SEQRES 5 A 191 SER GLN VAL PHE SER THR ALA GLU ASP ASN GLN SER ALA SEQRES 6 A 191 VAL THR ILE HIS VAL LEU GLN GLY GLU ARG LYS ARG ALA SEQRES 7 A 191 ALA ASP ASN LYS SER LEU GLY GLN PHE ASN LEU ASP GLY SEQRES 8 A 191 ILE ASN PRO ALA PRO ARG GLY MET PRO GLN ILE GLU VAL SEQRES 9 A 191 THR PHE ASP ILE ASP ALA ASP GLY ILE LEU HIS VAL SER SEQRES 10 A 191 ALA LYS ASP LYS ASN SER GLY LYS GLU GLN LYS ILE THR SEQRES 11 A 191 ILE LYS ALA SER SER GLY LEU ASN GLU ASP GLU ILE GLN SEQRES 12 A 191 LYS MET VAL ARG ASP ALA GLU ALA ASN ALA GLU ALA ASP SEQRES 13 A 191 ARG LYS PHE GLU GLU LEU VAL GLN THR ARG ASN GLN GLY SEQRES 14 A 191 ASP HIS LEU LEU HIS SER THR ARG LYS GLN VAL GLU GLU SEQRES 15 A 191 ALA GLY ASP LYS LEU PRO ALA ASP ASP HELIX 1 1 GLU A 509 VAL A 533 1 25 SHEET 1 A 4 VAL A 407 THR A 409 0 SHEET 2 A 4 LEU A 399 THR A 403 -1 N THR A 403 O VAL A 407 SHEET 3 A 4 VAL A 440 GLN A 442 -1 N LEU A 441 O GLY A 400 SHEET 4 A 4 LYS A 452 LEU A 454 -1 N LEU A 454 O VAL A 440 SHEET 1 B 4 THR A 420 PHE A 426 0 SHEET 2 B 4 ILE A 472 ILE A 478 -1 N ILE A 478 O THR A 420 SHEET 3 B 4 LEU A 484 ASP A 490 -1 N LYS A 489 O GLU A 473 SHEET 4 B 4 LYS A 495 ILE A 501 -1 N ILE A 501 O LEU A 484 SHEET 1 C 2 ALA A 435 ILE A 438 0 SHEET 2 C 2 PHE A 457 ASP A 460 -1 N LEU A 459 O VAL A 436 CISPEP 1 ILE A 418 PRO A 419 0 18.79 CISPEP 2 MET A 469 PRO A 470 0 -5.18 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