HEADER GENE REGULATION 25-OCT-05 2ES6 TITLE STRUCTURE OF THE SAM DOMAIN OF VTS1P COMPND MOL_ID: 1; COMPND 2 MOLECULE: VTS1P; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)+RIL; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS SAM DOMAIN, PROTEIN STRUCTURE, GENE REGULATION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR F.H.T.ALLAIN REVDAT 4 09-MAR-22 2ES6 1 REMARK SEQADV REVDAT 3 24-FEB-09 2ES6 1 VERSN REVDAT 2 30-OCT-07 2ES6 1 JRNL REVDAT 1 24-JAN-06 2ES6 0 JRNL AUTH F.C.OBERSTRASS,A.LEE,R.STEFL,M.JANIS,G.CHANFREAU,F.H.ALLAIN JRNL TITL SHAPE-SPECIFIC RECOGNITION IN THE STRUCTURE OF THE VTS1P SAM JRNL TITL 2 DOMAIN WITH RNA. JRNL REF NAT.STRUCT.MOL.BIOL. V. 13 160 2006 JRNL REFN ISSN 1545-9993 JRNL PMID 16429156 JRNL DOI 10.1038/NSMB1038 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, AMBER 7.0 REMARK 3 AUTHORS : BRUKER (XWINNMR), CASE, DA (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2ES6 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-NOV-05. REMARK 100 THE DEPOSITION ID IS D_1000035026. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 50MM NACL, 50MM PHOSPHATE-BUFFER REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : 0.8MM PROTEIN REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, AMBER 7.0 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 30 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 423 REMARK 465 GLY A 424 REMARK 465 SER A 425 REMARK 465 SER A 426 REMARK 465 HIS A 427 REMARK 465 HIS A 428 REMARK 465 HIS A 429 REMARK 465 HIS A 430 REMARK 465 HIS A 431 REMARK 465 HIS A 432 REMARK 465 SER A 433 REMARK 465 SER A 434 REMARK 465 GLY A 435 REMARK 465 LEU A 436 REMARK 465 VAL A 437 REMARK 465 PRO A 438 REMARK 465 ARG A 439 REMARK 465 GLY A 440 REMARK 465 SER A 441 REMARK 465 HIS A 442 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 1 ARG A 499 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 3 TYR A 468 CB - CG - CD1 ANGL. DEV. = -3.6 DEGREES REMARK 500 3 ARG A 499 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 4 TYR A 482 CB - CG - CD2 ANGL. DEV. = -3.6 DEGREES REMARK 500 4 ARG A 499 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 5 TYR A 468 CB - CG - CD1 ANGL. DEV. = -3.7 DEGREES REMARK 500 6 ARG A 515 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 7 TYR A 468 CB - CG - CD1 ANGL. DEV. = -3.8 DEGREES REMARK 500 7 ARG A 499 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 7 ARG A 500 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 11 ARG A 499 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 12 TYR A 468 CB - CG - CD1 ANGL. DEV. = -3.7 DEGREES REMARK 500 13 TYR A 468 CB - CG - CD1 ANGL. DEV. = -3.6 DEGREES REMARK 500 13 ARG A 499 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 14 ARG A 515 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 15 GLU A 489 N - CA - CB ANGL. DEV. = -10.8 DEGREES REMARK 500 17 ARG A 499 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 17 ARG A 515 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 18 ARG A 499 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 19 ARG A 515 CD - NE - CZ ANGL. DEV. = 8.5 DEGREES REMARK 500 19 ARG A 515 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 20 LEU A 480 CA - CB - CG ANGL. DEV. = 14.1 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 1 SER A 446 4.77 115.38 REMARK 500 1 LEU A 465 -70.77 -88.75 REMARK 500 1 HIS A 466 27.60 45.97 REMARK 500 1 LEU A 483 -175.02 -68.31 REMARK 500 1 ASP A 485 -75.16 -44.59 REMARK 500 1 ALA A 495 118.53 -173.38 REMARK 500 1 GLU A 514 -4.91 -59.09 REMARK 500 1 ASP A 519 8.84 -66.67 REMARK 500 1 ARG A 520 -24.71 69.39 REMARK 500 2 LYS A 445 15.14 49.66 REMARK 500 2 SER A 446 -60.14 -150.48 REMARK 500 2 LEU A 465 -69.82 -93.72 REMARK 500 2 HIS A 466 27.82 45.64 REMARK 500 2 LEU A 483 -173.36 -69.17 REMARK 500 2 ASP A 485 -71.40 -45.31 REMARK 500 2 LEU A 494 12.57 49.16 REMARK 500 2 TYR A 512 -25.82 -146.79 REMARK 500 2 ASP A 516 50.60 101.88 REMARK 500 3 LEU A 465 -67.16 -92.95 REMARK 500 3 LEU A 483 -172.77 -68.16 REMARK 500 3 ASP A 485 -78.22 -45.35 REMARK 500 3 LEU A 494 28.40 49.79 REMARK 500 3 TYR A 512 -30.75 -145.31 REMARK 500 3 ASP A 516 57.81 109.85 REMARK 500 3 ARG A 520 -1.01 58.89 REMARK 500 4 PRO A 444 6.04 -58.87 REMARK 500 4 THR A 448 17.94 -142.64 REMARK 500 4 LEU A 483 -177.09 -67.77 REMARK 500 4 ALA A 498 -51.25 -127.64 REMARK 500 4 TYR A 512 -28.98 -146.14 REMARK 500 4 ASP A 516 62.92 106.72 REMARK 500 4 ARG A 520 -27.45 68.26 REMARK 500 5 SER A 446 -37.05 -153.17 REMARK 500 5 ILE A 456 -55.39 97.65 REMARK 500 5 LEU A 465 -67.48 -90.12 REMARK 500 5 LEU A 483 -173.17 -68.34 REMARK 500 5 LEU A 494 12.03 46.96 REMARK 500 5 TYR A 512 -26.03 -145.86 REMARK 500 5 ASP A 516 59.98 102.08 REMARK 500 5 ARG A 520 -28.47 67.33 REMARK 500 6 THR A 448 34.57 -145.23 REMARK 500 6 ILE A 456 -56.48 98.04 REMARK 500 6 ASP A 485 -75.25 -34.38 REMARK 500 6 LEU A 494 27.81 49.69 REMARK 500 6 TYR A 512 -26.00 -149.74 REMARK 500 6 GLU A 514 1.69 -69.35 REMARK 500 6 ASP A 516 52.09 88.80 REMARK 500 7 LYS A 445 65.50 37.85 REMARK 500 7 SER A 446 -60.28 -156.01 REMARK 500 7 LEU A 447 -3.75 -57.67 REMARK 500 REMARK 500 THIS ENTRY HAS 175 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 1 TYR A 468 0.07 SIDE CHAIN REMARK 500 4 HIS A 466 0.09 SIDE CHAIN REMARK 500 4 ARG A 515 0.10 SIDE CHAIN REMARK 500 7 ARG A 515 0.10 SIDE CHAIN REMARK 500 8 HIS A 466 0.08 SIDE CHAIN REMARK 500 8 ARG A 515 0.10 SIDE CHAIN REMARK 500 9 ARG A 515 0.10 SIDE CHAIN REMARK 500 10 ARG A 515 0.10 SIDE CHAIN REMARK 500 12 HIS A 466 0.09 SIDE CHAIN REMARK 500 12 ARG A 515 0.11 SIDE CHAIN REMARK 500 12 TYR A 523 0.07 SIDE CHAIN REMARK 500 13 ARG A 499 0.09 SIDE CHAIN REMARK 500 16 ARG A 515 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 2ES6 A 444 523 GB 6324935 NP_015004 444 523 SEQADV 2ES6 MET A 423 GB 6324935 EXPRESSION TAG SEQADV 2ES6 GLY A 424 GB 6324935 EXPRESSION TAG SEQADV 2ES6 SER A 425 GB 6324935 EXPRESSION TAG SEQADV 2ES6 SER A 426 GB 6324935 EXPRESSION TAG SEQADV 2ES6 HIS A 427 GB 6324935 EXPRESSION TAG SEQADV 2ES6 HIS A 428 GB 6324935 EXPRESSION TAG SEQADV 2ES6 HIS A 429 GB 6324935 EXPRESSION TAG SEQADV 2ES6 HIS A 430 GB 6324935 EXPRESSION TAG SEQADV 2ES6 HIS A 431 GB 6324935 EXPRESSION TAG SEQADV 2ES6 HIS A 432 GB 6324935 EXPRESSION TAG SEQADV 2ES6 SER A 433 GB 6324935 EXPRESSION TAG SEQADV 2ES6 SER A 434 GB 6324935 EXPRESSION TAG SEQADV 2ES6 GLY A 435 GB 6324935 EXPRESSION TAG SEQADV 2ES6 LEU A 436 GB 6324935 EXPRESSION TAG SEQADV 2ES6 VAL A 437 GB 6324935 EXPRESSION TAG SEQADV 2ES6 PRO A 438 GB 6324935 EXPRESSION TAG SEQADV 2ES6 ARG A 439 GB 6324935 EXPRESSION TAG SEQADV 2ES6 GLY A 440 GB 6324935 EXPRESSION TAG SEQADV 2ES6 SER A 441 GB 6324935 EXPRESSION TAG SEQADV 2ES6 HIS A 442 GB 6324935 EXPRESSION TAG SEQADV 2ES6 MET A 443 GB 6324935 EXPRESSION TAG SEQRES 1 A 101 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 101 LEU VAL PRO ARG GLY SER HIS MET PRO LYS SER LEU THR SEQRES 3 A 101 ASP PRO LYS LEU LEU LYS ASN ILE PRO MET TRP LEU LYS SEQRES 4 A 101 SER LEU ARG LEU HIS LYS TYR SER ASP ALA LEU SER GLY SEQRES 5 A 101 THR PRO TRP ILE GLU LEU ILE TYR LEU ASP ASP GLU THR SEQRES 6 A 101 LEU GLU LYS LYS GLY VAL LEU ALA LEU GLY ALA ARG ARG SEQRES 7 A 101 LYS LEU LEU LYS ALA PHE GLY ILE VAL ILE ASP TYR LYS SEQRES 8 A 101 GLU ARG ASP LEU ILE ASP ARG SER ALA TYR HELIX 1 1 ASP A 449 LYS A 454 1 6 HELIX 2 2 ASN A 455 SER A 462 1 8 HELIX 3 3 TYR A 468 SER A 473 1 6 HELIX 4 4 PRO A 476 ILE A 481 1 6 HELIX 5 5 ASP A 484 GLY A 492 1 9 HELIX 6 6 ALA A 495 GLU A 514 1 20 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