HEADER UNKNOWN FUNCTION 23-NOV-07 2JXN TITLE SOLUTION STRUCTURE OF S. CEREVISIAE PDCD5-LIKE PROTEIN YMR074CP COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED PROTEIN YMR074C; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: 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 STRAIN: S288C; SOURCE 6 GENE: YMR074C; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET-22B(+) KEYWDS YMR074CP, PDCD5-LIKE PROTEIN, PHOSPHOPROTEIN, UNKNOWN FUNCTION, KEYWDS 2 STRUCTURAL GENOMICS EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.HONG,J.ZHANG,Z.LIU,Y.SHI,J.WU REVDAT 6 20-NOV-24 2JXN 1 REMARK REVDAT 5 20-OCT-21 2JXN 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 2JXN 1 VERSN REVDAT 3 18-MAY-11 2JXN 1 HETNAM FORMUL REMARK REVDAT 2 09-DEC-08 2JXN 1 SPRSDE REVDAT 1 02-DEC-08 2JXN 0 SPRSDE 09-DEC-08 2JXN 2HVU JRNL AUTH J.HONG,J.ZHANG,Z.LIU,J.WU,Y.SHI JRNL TITL SOLUTION STRUCTURE AND DYNAMICS OF S. CEREVISIAE PDCD5-LIKE JRNL TITL 2 PROTEIN YMR074CP DETERMINED BY HETERONUCLEAR NMR JRNL TITL 3 SPECTROSCOPY JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE 2.2, X-PLOR NIH 2.18 REMARK 3 AUTHORS : DELAGLIO, F. ET AL. (NMRPIPE), SCHWIETERS, C.D. ET REMARK 3 AL. (X-PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2JXN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-NOV-07. REMARK 100 THE DEPOSITION ID IS D_1000100419. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 295 REMARK 210 PH : 6.0; 6.0 REMARK 210 IONIC STRENGTH : NULL; NULL REMARK 210 PRESSURE : 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : 0.2 MM [U-100% 15N] N116 A7C, 20 REMARK 210 MM SODIUM PHOSPHATE, 50 MM SODIUM CHLORIDE, 1 MM EDTA, 10 % [U- REMARK 210 100% 2H] D2O, 90 % H2O, 0.2 MM 1-OXYL-2, 2, 5, 5-TETRAMETHYL-3- REMARK 210 PYRROLINE-3-METHYLMETHANETHIOSULFONATE, 1 MM ASCORBATE, 90% H2O/ REMARK 210 10% D2O; 1 MM [U-100% 13C; U-100% 15N] N116, 20 MM SODIUM REMARK 210 PHOSPHATE, 50 MM SODIUM CHLORIDE, 1 MM EDTA, 10 % [U-100% 2H] REMARK 210 D2O, 90 % H2O, 90% H2O/10% D2O; 0.2 MM [U-100% 15N] N116 A7C, 20 REMARK 210 MM SODIUM PHOSPHATE, 50 MM SODIUM CHLORIDE, 1 MM EDTA, 10 % [U- REMARK 210 100% 2H] D2O, 90 % H2O, 0.2 MM 1-OXYL-2, 2, 5, 5-TETRAMETHYL-3- REMARK 210 PYRROLINE-3-METHYLMETHANETHIOSULFONATE, 90% H2O/10% D2O; 1 MM [U- REMARK 210 100% 13C; U-100% 15N] N116, 20 MM SODIUM PHOSPHATE, 50 MM SODIUM REMARK 210 CHLORIDE, 1 MM EDTA, 100 % [U-100% 2H] D2O, 100% D2O; 1 MM [U- REMARK 210 100% 15N] N116, 20 MM SODIUM PHOSPHATE, 50 MM SODIUM CHLORIDE, 1 REMARK 210 MM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O, 90% H2O/10% D2O; 1 MM REMARK 210 [U-100% 15N] N116, 20 MM SODIUM PHOSPHATE, 50 MM SODIUM CHLORIDE, REMARK 210 1 MM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O, 7 OR 8 % REMARK 210 POLYACRYLAMIDE GEL, 90% H2O/10% D2O; 0.2 MM [U-100% 15N] N116 REMARK 210 A11C, 20 MM SODIUM PHOSPHATE, 50 MM SODIUM CHLORIDE, 1 MM EDTA, REMARK 210 10 % [U-100% 2H] D2O, 90 % H2O, 0.2 MM 1-OXYL-2, 2, 5, 5- REMARK 210 TETRAMETHYL-3-PYRROLINE-3-METHYLMETHANETHIOSULFONATE, 90% H2O/10% REMARK 210 D2O; 0.2 MM [U-100% 15N] N116 A11C, 20 MM SODIUM PHOSPHATE, 50 REMARK 210 MM SODIUM CHLORIDE, 1 MM EDTA, 10 % [U-100% 2H] D2O, 90 % H2O, REMARK 210 0.2 MM 1-OXYL-2, 2, 5, 5-TETRAMETHYL-3-PYRROLINE-3- REMARK 210 METHYLMETHANETHIOSULFONATE, 1 MM ASCORBATE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-15N IPAP REMARK 210 HSQC; 3D CBCA(CO)NH; 3D CBCANH; REMARK 210 3D HNCA; 3D HN(CO)CA; 3D HNCO; REMARK 210 3D HN(CA)CO; 3D C(CO)NH-TOCSY; REMARK 210 3D HBHA(CBCACO)NH; 3D H(CCO)NH- REMARK 210 TOCSY; 3D 15N-EDITED-NOESY-HSQC; REMARK 210 3D HCCH-COSY; 3D HCCH-TOCSY; 3D REMARK 210 13C-EDITED-NOESY-HSQC; H-D REMARK 210 EXCHANGE; NMR RELAXATION REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3.110, TALOS, X-PLOR NIH REMARK 210 2.18, PROCHECK, MOLMOL REMARK 210 METHOD USED : DISTANCE GEOMETRY, MOLECULAR REMARK 210 DYNAMICS, TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 400 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : BACK CALCULATED DATA AGREE WITH REMARK 210 EXPERIMENTAL NOESY SPECTRUM 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 ALA A 117 REMARK 465 ALA A 118 REMARK 465 ALA A 119 REMARK 465 LEU A 120 REMARK 465 GLU A 121 REMARK 465 HIS A 122 REMARK 465 HIS A 123 REMARK 465 HIS A 124 REMARK 465 HIS A 125 REMARK 465 HIS A 126 REMARK 465 HIS A 127 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 HD21 ASN A 83 H ASN A 84 1.24 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 LYS A 17 100.66 55.51 REMARK 500 1 ASN A 19 -90.98 -179.41 REMARK 500 1 SER A 20 22.99 49.13 REMARK 500 1 THR A 23 97.95 71.59 REMARK 500 1 ASN A 24 -164.92 41.54 REMARK 500 1 ASP A 26 -33.33 -161.99 REMARK 500 1 SER A 29 177.98 81.82 REMARK 500 1 ASN A 38 -163.11 69.89 REMARK 500 1 SER A 39 -136.90 -87.87 REMARK 500 1 ALA A 40 70.41 170.76 REMARK 500 1 PRO A 41 -91.86 -80.06 REMARK 500 1 VAL A 42 -159.67 35.95 REMARK 500 1 GLU A 51 153.36 -47.99 REMARK 500 1 THR A 82 -82.34 -80.45 REMARK 500 1 ASN A 83 -25.24 168.92 REMARK 500 1 THR A 86 16.43 -177.10 REMARK 500 1 GLN A 105 -139.02 52.85 REMARK 500 1 ASN A 106 -64.69 -156.11 REMARK 500 1 SER A 107 -47.72 -168.67 REMARK 500 1 GLN A 108 -146.93 -150.99 REMARK 500 1 ASN A 109 -81.39 -105.96 REMARK 500 1 LYS A 112 42.82 33.97 REMARK 500 1 PHE A 115 96.67 -60.19 REMARK 500 2 ASP A 2 61.14 -156.94 REMARK 500 2 LEU A 16 -69.79 64.66 REMARK 500 2 LYS A 17 -47.20 -161.41 REMARK 500 2 ASN A 18 -79.18 -170.05 REMARK 500 2 ASN A 19 152.86 -47.99 REMARK 500 2 SER A 20 -41.37 -172.33 REMARK 500 2 ARG A 27 -46.85 -161.94 REMARK 500 2 ASN A 28 -73.63 -148.24 REMARK 500 2 SER A 29 177.07 81.79 REMARK 500 2 ALA A 31 -120.95 -149.85 REMARK 500 2 GLU A 37 75.35 34.38 REMARK 500 2 ASN A 38 81.41 41.27 REMARK 500 2 ALA A 40 67.81 171.01 REMARK 500 2 PRO A 41 20.47 -79.42 REMARK 500 2 GLU A 51 152.29 -46.35 REMARK 500 2 ASN A 83 -16.98 171.03 REMARK 500 2 VAL A 85 96.72 -34.53 REMARK 500 2 THR A 86 -0.33 -169.73 REMARK 500 2 ILE A 89 150.22 -43.39 REMARK 500 2 GLN A 105 158.31 60.96 REMARK 500 2 ASN A 106 94.42 -42.62 REMARK 500 2 SER A 107 -18.94 -170.31 REMARK 500 2 LYS A 112 32.79 34.23 REMARK 500 2 ILE A 113 -30.67 -136.11 REMARK 500 3 ASN A 19 132.19 67.84 REMARK 500 3 THR A 23 132.10 69.05 REMARK 500 3 ASP A 26 2.83 -162.00 REMARK 500 REMARK 500 THIS ENTRY HAS 467 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTN A 128 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MTN A 129 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EIJ RELATED DB: PDB REMARK 900 NMR ENSEMBLE OF METHANOBACTERIUM THERMOAUTOTROPHICUM PROTEIN 1615 REMARK 900 RELATED ID: 2CRU RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF PROGRAMMED CELL DEATH 5 REMARK 900 RELATED ID: 2FH0 RELATED DB: PDB REMARK 900 NMR ENSEMBLE OF THE YEAST SACCHAROMYCES CEREVISIAE PROTEIN YMR074CP REMARK 900 CORE REGION DBREF 2JXN A 1 116 UNP Q04773 YMW4_YEAST 1 116 SEQADV 2JXN CYS A 7 UNP Q04773 ALA 7 ENGINEERED MUTATION SEQADV 2JXN CYS A 11 UNP Q04773 ALA 11 ENGINEERED MUTATION SEQADV 2JXN ALA A 117 UNP Q04773 EXPRESSION TAG SEQADV 2JXN ALA A 118 UNP Q04773 EXPRESSION TAG SEQADV 2JXN ALA A 119 UNP Q04773 EXPRESSION TAG SEQADV 2JXN LEU A 120 UNP Q04773 EXPRESSION TAG SEQADV 2JXN GLU A 121 UNP Q04773 EXPRESSION TAG SEQADV 2JXN HIS A 122 UNP Q04773 EXPRESSION TAG SEQADV 2JXN HIS A 123 UNP Q04773 EXPRESSION TAG SEQADV 2JXN HIS A 124 UNP Q04773 EXPRESSION TAG SEQADV 2JXN HIS A 125 UNP Q04773 EXPRESSION TAG SEQADV 2JXN HIS A 126 UNP Q04773 EXPRESSION TAG SEQADV 2JXN HIS A 127 UNP Q04773 EXPRESSION TAG SEQRES 1 A 127 MET ASP PRO GLU LEU GLN CYS ILE ARG GLU CYS ARG LEU SEQRES 2 A 127 ALA GLN LEU LYS ASN ASN SER GLY GLY THR ASN GLY ASP SEQRES 3 A 127 ARG ASN SER GLY ALA ASN ASN GLY GLY GLY GLU ASN SER SEQRES 4 A 127 ALA PRO VAL GLY ALA ALA ILE ALA ASN PHE LEU GLU PRO SEQRES 5 A 127 GLN ALA LEU GLU ARG LEU SER ARG VAL ALA LEU VAL ARG SEQRES 6 A 127 ARG ASP ARG ALA GLN ALA VAL GLU THR TYR LEU LYS LYS SEQRES 7 A 127 LEU ILE ALA THR ASN ASN VAL THR HIS LYS ILE THR GLU SEQRES 8 A 127 ALA GLU ILE VAL SER ILE LEU ASN GLY ILE ALA LYS GLN SEQRES 9 A 127 GLN ASN SER GLN ASN ASN SER LYS ILE ILE PHE GLU ALA SEQRES 10 A 127 ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS HET MTN A 128 27 HET MTN A 129 27 HETNAM MTN S-[(1-OXYL-2,2,5,5-TETRAMETHYL-2,5-DIHYDRO-1H-PYRROL-3- HETNAM 2 MTN YL)METHYL] METHANESULFONOTHIOATE HETSYN MTN MTSL FORMUL 2 MTN 2(C10 H18 N O3 S2) HELIX 1 1 ASP A 2 LEU A 16 1 15 HELIX 2 2 GLY A 43 ASN A 48 1 6 HELIX 3 3 GLU A 51 ASN A 83 1 33 HELIX 4 4 THR A 90 GLN A 105 1 16 LINK SG CYS A 7 S1 MTN A 128 1555 1555 2.02 LINK SG CYS A 11 S1 MTN A 129 1555 1555 2.02 SITE 1 AC1 7 PRO A 3 GLU A 4 CYS A 7 ILE A 8 SITE 2 AC1 7 CYS A 11 ARG A 66 GLN A 70 SITE 1 AC2 5 CYS A 7 GLU A 10 CYS A 11 ARG A 66 SITE 2 AC2 5 MTN A 128 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