PDB Short entry for 1GJZ HEADER UBIQUITIN 06-AUG-01 1GJZ TITLE SOLUTION STRUCTURE OF A DIMERIC N-TERMINAL FRAGMENT OF TITLE 2 HUMAN UBIQUITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 1-51; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: FRAGMENT CONTAINS FIRST 51 RESIDUES OF COMPND 7 HUMAN UBIQUITIN PRECEDED AT THE N-TERMINUS BY GLYCINE AND COMPND 8 SERINE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGEX-4T3 KEYWDS UBIQUITIN, DIMER, PROTEIN DISSECTION EXPDTA SOLUTION NMR NUMMDL 16 AUTHOR D.BOLTON,P.A.EVANS,K.STOTT,R.W.BROADHURST REVDAT 2 24-FEB-09 1GJZ 1 VERSN REVDAT 1 13-DEC-01 1GJZ 0 JRNL AUTH D.BOLTON,P.A.EVANS,K.STOTT,R.W.BROADHURST JRNL TITL STRUCTURE AND PROPERTIES OF A DIMERIC N-TERMINAL JRNL TITL 2 FRAGMENT OF HUMAN UBIQUITIN. JRNL REF J.MOL.BIOL. V. 314 773 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11733996 JRNL DOI 10.1006/JMBI.2001.5181 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 0.9 REMARK 3 AUTHORS : BRUNGER ET AL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN REMARK 3 THE JRNL CITATION ABOVE. REMARK 4 REMARK 4 1GJZ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-AUG-01. REMARK 100 THE PDBE ID CODE IS EBI-8428. 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 : 800MM SODIUM SULPHATE REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : HNCACB, CBCA(CO)NH, REMARK 210 15N-TOCSY-HSQC, 15N-NOESY-HSQC, REMARK 210 HCCH-TOCSY, 13C-NOESY-HSQC, REMARK 210 12C-FILTERED-NOESY-13C-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 REMARK 210 SPECTROMETER MODEL : DRX500 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : AZARA, ANSIG3.3 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 65 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 16 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOW ENERGY, LEAST REMARK 210 RESTRAINT VIOLATION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY ON 13C, 15N-LABELED FRAGMENTS CONTAINING THE REMARK 210 FIRST 51 RESIDUES OF HUMAN UBIQUITIN 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 HG1 THR A 7 - H GLY A 10 1.48 REMARK 500 HG22 THR A 7 - HZ3 LYS A 11 1.57 REMARK 500 HD13 LEU A 15 - HG3 LYS A 33 1.49 REMARK 500 HD11 ILE A 30 - HG2 GLN A 41 1.60 REMARK 500 H ARG A 42 - H ALA B 46 1.38 REMARK 500 HE ARG A 42 - HG3 LYS B 48 1.46 REMARK 500 HD13 LEU A 43 - HD13 LEU B 43 1.39 REMARK 500 H ALA A 46 - H ARG B 42 1.41 REMARK 500 HG3 LYS A 48 - HE ARG B 42 1.51 REMARK 500 HG1 THR B 7 - H GLY B 10 1.52 REMARK 500 HG23 ILE B 36 - HE21 GLN B 40 1.51 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 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 MET A 1 52.89 -167.02 REMARK 500 1 LEU A 50 80.41 -45.09 REMARK 500 1 MET B 1 51.76 -168.29 REMARK 500 1 LEU B 50 79.92 -54.33 REMARK 500 2 SER A 0 -125.50 -67.97 REMARK 500 2 THR A 7 -156.63 -63.81 REMARK 500 2 LEU A 15 114.34 -161.55 REMARK 500 2 PRO A 37 143.14 -39.80 REMARK 500 2 LYS A 48 74.72 -68.52 REMARK 500 2 GLN A 49 96.29 -65.41 REMARK 500 2 LEU A 50 80.21 -44.27 REMARK 500 2 SER B 0 -125.20 -68.07 REMARK 500 2 THR B 7 -156.75 -68.86 REMARK 500 2 LEU B 15 113.22 -160.66 REMARK 500 2 LEU B 50 79.05 -54.54 REMARK 500 3 SER A 0 -47.35 -168.71 REMARK 500 3 MET A 1 121.56 -172.67 REMARK 500 3 THR A 7 -157.35 -70.41 REMARK 500 3 PRO A 37 155.72 -49.88 REMARK 500 3 LYS A 48 75.91 -67.31 REMARK 500 3 LEU A 50 84.00 -44.71 REMARK 500 3 SER B 0 -48.52 -171.41 REMARK 500 3 MET B 1 120.04 -174.28 REMARK 500 3 THR B 7 -157.00 -74.53 REMARK 500 3 LEU B 15 118.62 -162.80 REMARK 500 3 LYS B 48 75.94 -67.27 REMARK 500 3 LEU B 50 79.73 -52.22 REMARK 500 4 SER A 0 -128.36 56.03 REMARK 500 4 MET A 1 117.13 -165.54 REMARK 500 4 THR A 7 -157.20 -73.13 REMARK 500 4 LYS A 48 74.93 -67.19 REMARK 500 4 GLN A 49 97.93 -66.73 REMARK 500 4 LEU A 50 80.74 -44.88 REMARK 500 4 SER B 0 -127.82 56.88 REMARK 500 4 MET B 1 115.74 -166.64 REMARK 500 4 THR B 7 -157.39 -73.29 REMARK 500 4 LEU B 50 79.52 -56.90 REMARK 500 5 SER A 0 -120.09 -65.85 REMARK 500 5 THR A 7 -156.75 -69.16 REMARK 500 5 PRO A 37 150.09 -45.84 REMARK 500 5 LYS A 48 82.29 -159.74 REMARK 500 5 GLN A 49 98.07 -65.82 REMARK 500 5 LEU A 50 81.08 -44.14 REMARK 500 5 SER B 0 -121.15 -65.69 REMARK 500 5 THR B 7 -156.75 -72.72 REMARK 500 5 LYS B 48 111.40 -160.24 REMARK 500 5 LEU B 50 79.40 -59.62 REMARK 500 6 SER A 0 -125.90 -67.46 REMARK 500 6 THR A 7 -159.55 -67.70 REMARK 500 6 LEU A 15 115.10 -162.32 REMARK 500 6 LYS A 48 73.80 -161.49 REMARK 500 6 LEU A 50 80.12 -45.38 REMARK 500 6 SER B 0 -125.26 -67.75 REMARK 500 6 MET B 1 115.30 -163.54 REMARK 500 6 THR B 7 -160.09 -69.96 REMARK 500 6 LEU B 15 112.97 -162.94 REMARK 500 6 LYS B 48 73.97 -160.27 REMARK 500 6 LEU B 50 80.43 -50.47 REMARK 500 7 MET A 1 57.05 -163.83 REMARK 500 7 THR A 7 -156.54 -68.49 REMARK 500 7 LEU A 15 114.05 -163.94 REMARK 500 7 LYS A 48 75.28 -69.50 REMARK 500 7 LEU A 50 80.40 -44.99 REMARK 500 7 MET B 1 57.60 -156.37 REMARK 500 7 THR B 7 -156.94 -69.53 REMARK 500 7 LEU B 15 113.75 -161.35 REMARK 500 7 LYS B 48 75.89 -69.60 REMARK 500 7 LEU B 50 80.36 -49.62 REMARK 500 8 SER A 0 -135.68 -68.77 REMARK 500 8 THR A 7 -158.20 -67.21 REMARK 500 8 GLN A 49 90.57 -67.48 REMARK 500 8 LEU A 50 79.93 -45.93 REMARK 500 8 SER B 0 -133.66 -68.47 REMARK 500 8 THR B 7 -157.77 -68.44 REMARK 500 8 LEU B 50 79.98 -59.61 REMARK 500 9 MET A 1 49.02 -163.42 REMARK 500 9 THR A 7 -157.56 -70.48 REMARK 500 9 LEU A 50 80.03 -47.33 REMARK 500 9 MET B 1 51.13 -155.87 REMARK 500 9 THR B 7 -157.64 -71.05 REMARK 500 9 LEU B 50 80.01 -52.74 REMARK 500 10 MET A 1 106.95 178.54 REMARK 500 10 THR A 7 -157.62 -72.48 REMARK 500 10 LYS A 48 74.59 -69.20 REMARK 500 10 LEU A 50 80.45 -45.05 REMARK 500 10 MET B 1 106.61 179.67 REMARK 500 10 THR B 7 -157.30 -77.54 REMARK 500 10 LEU B 15 115.04 -162.53 REMARK 500 10 PRO B 37 146.30 -38.89 REMARK 500 10 LYS B 48 74.89 -69.19 REMARK 500 10 LEU B 50 80.21 -52.85 REMARK 500 11 MET A 1 115.73 -175.54 REMARK 500 11 THR A 7 -157.00 -71.43 REMARK 500 11 LEU A 15 114.05 -160.58 REMARK 500 11 LEU A 50 80.28 -44.90 REMARK 500 11 MET B 1 108.45 179.56 REMARK 500 11 THR B 7 -157.02 -68.61 REMARK 500 11 LEU B 15 112.84 -162.72 REMARK 500 11 LEU B 50 80.30 -51.45 REMARK 500 12 GLN A 49 99.80 -66.34 REMARK 500 12 LEU A 50 80.55 -44.91 REMARK 500 12 LEU B 50 80.26 -53.12 REMARK 500 13 SER A 0 -126.96 -164.25 REMARK 500 13 MET A 1 117.38 -160.19 REMARK 500 13 THR A 7 -159.95 -66.53 REMARK 500 13 GLN A 49 99.46 -65.40 REMARK 500 13 LEU A 50 80.48 -44.79 REMARK 500 13 SER B 0 -124.42 -164.40 REMARK 500 13 MET B 1 117.16 -163.32 REMARK 500 13 THR B 7 -157.39 -70.57 REMARK 500 13 LEU B 15 114.62 -164.20 REMARK 500 13 LEU B 50 80.07 -52.76 REMARK 500 14 SER A 0 -50.01 -171.46 REMARK 500 14 THR A 7 -157.12 -77.37 REMARK 500 14 LEU A 50 80.45 -44.96 REMARK 500 14 SER B 0 -46.65 -173.00 REMARK 500 14 THR B 7 -157.17 -76.54 REMARK 500 14 LEU B 15 115.64 -163.36 REMARK 500 14 LEU B 50 79.80 -56.32 REMARK 500 15 MET A 1 112.58 177.61 REMARK 500 15 THR A 7 -157.31 -68.38 REMARK 500 15 PRO A 37 158.76 -46.63 REMARK 500 15 LEU A 50 80.28 -44.83 REMARK 500 15 MET B 1 110.42 177.69 REMARK 500 15 THR B 7 -157.49 -70.62 REMARK 500 15 PRO B 37 157.98 -47.17 REMARK 500 15 LEU B 50 80.46 -52.50 REMARK 500 16 SER A 0 -140.19 56.05 REMARK 500 16 MET A 1 48.81 -82.23 REMARK 500 16 THR A 7 -156.88 -68.29 REMARK 500 16 LYS A 48 74.67 -159.91 REMARK 500 16 LEU A 50 80.49 -48.81 REMARK 500 16 SER B 0 -140.61 56.05 REMARK 500 16 MET B 1 48.84 -82.14 REMARK 500 16 THR B 7 -156.81 -67.80 REMARK 500 16 LYS B 48 74.82 -159.81 REMARK 500 16 LEU B 50 79.72 -55.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1AAR RELATED DB: PDB REMARK 900 DI-UBIQUITIN REMARK 900 RELATED ID: 1CMX RELATED DB: PDB REMARK 900 STRUCTURAL BASIS FOR THE SPECIFICITY OF REMARK 900 UBIQUITIN C- TERMINAL HYDROLASES REMARK 900 RELATED ID: 1G6J RELATED DB: PDB REMARK 900 STRUCTURE OF RECOMBINANT HUMAN UBIQUITIN IN REMARK 900 AOT REVERSEMICELLES REMARK 900 RELATED ID: 1TBE RELATED DB: PDB REMARK 900 TETRAUBIQUITIN REMARK 900 RELATED ID: 1UBI RELATED DB: PDB REMARK 900 UBIQUITIN REMARK 900 RELATED ID: 1UBQ RELATED DB: PDB REMARK 900 UBIQUITIN DBREF 1GJZ A -1 0 PDB 1GJZ 1GJZ -1 0 DBREF 1GJZ A 1 51 UNP P02248 UBIQ_HUMAN 1 51 DBREF 1GJZ B -1 0 PDB 1GJZ 1GJZ -1 0 DBREF 1GJZ B 1 51 UNP P02248 UBIQ_HUMAN 1 51 SEQRES 1 A 53 GLY SER MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS SEQRES 2 A 53 THR ILE THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU SEQRES 3 A 53 ASN VAL LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO SEQRES 4 A 53 PRO ASP GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU SEQRES 5 A 53 GLU SEQRES 1 B 53 GLY SER MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS SEQRES 2 B 53 THR ILE THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU SEQRES 3 B 53 ASN VAL LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO SEQRES 4 B 53 PRO ASP GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU SEQRES 5 B 53 GLU HELIX 1 1 THR A 22 GLU A 34 1 13 HELIX 2 2 THR B 22 GLU B 34 1 13 SHEET 1 AA 3 THR A 12 GLU A 16 0 SHEET 2 AA 3 GLN A 2 LYS A 6 -1 O ILE A 3 N LEU A 15 SHEET 3 AA 3 ILE B 44 ALA B 46 1 O PHE B 45 N LYS A 6 SHEET 1 AB 3 ILE A 44 ALA A 46 0 SHEET 2 AB 3 GLN B 2 LYS B 6 1 O PHE B 4 N PHE A 45 SHEET 3 AB 3 THR B 12 GLU B 16 -1 O ILE B 13 N VAL B 5 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