PDB Short entry for 2LEN HEADER HYDROLASE 19-JUN-11 2LEN TITLE SOLUTION STRUCTURE OF UCHL1 S18Y VARIANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE ISOZYME L1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UCH-L1, NEURON CYTOPLASMIC PROTEIN 9.5, PGP 9.5, PGP9.5, COMPND 5 UBIQUITIN THIOESTERASE L1; COMPND 6 EC: 3.4.19.12; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UCHL1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET22B KEYWDS HYDROLASE EXPDTA SOLUTION NMR NUMMDL 20 MDLTYP MINIMIZED AVERAGE AUTHOR H.TSE REVDAT 2 14-JUN-23 2LEN 1 REMARK SEQADV REVDAT 1 20-JUN-12 2LEN 0 JRNL AUTH H.TSE,K.SZE,H.HU JRNL TITL BACKBONE AND SIDE-CHAIN (1)H, (15)N AND (13)C RESONANCE JRNL TITL 2 ASSIGNMENTS OF S18Y MUTANT OF UBIQUITIN CARBOXY-TERMINAL JRNL TITL 3 HYDROLASE L1 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR, AMBER REMARK 3 AUTHORS : BRUKER BIOSPIN (XWINNMR), CASE, DARDEN, CHEATHAM, REMARK 3 III, SIMMERLING, WANG, DUKE, LUO, ... AND KOLLM REMARK 3 (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LEN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-JUN-11. REMARK 100 THE DEPOSITION ID IS D_1000102300. 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 : 100 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.7-0.8MM [U-99% 13C; U-99% 15N] REMARK 210 UCHL1 S18Y VARIANT-1, 20MM REMARK 210 SODIUM PHOSPHATE-2, 100MM SODIUM REMARK 210 CHLORIDE-3, 3MM DTT-4, 90% H2O-5, REMARK 210 10% D2O-6, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D CBCA(CO)NH; 3D HNCO; 3D HNCA; REMARK 210 3D HNCACB; 3D HBHA(CO)NH; 3D REMARK 210 HN(CO)CA; 3D HCCH-TOCSY; 3D REMARK 210 HN(CA)CO; 3D HCCH-COSY; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D 1H-15N TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR, SPARKY, CYANA, TALOS REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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 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 12 ARG A 63 NE - CZ - NH1 ANGL. DEV. = 3.2 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 LYS A 71 48.37 39.77 REMARK 500 1 MET A 82 -163.23 -128.46 REMARK 500 1 LYS A 83 -50.67 -123.34 REMARK 500 1 SER A 89 87.82 -69.96 REMARK 500 1 ASP A 110 98.96 -57.28 REMARK 500 1 SER A 112 90.56 -68.68 REMARK 500 1 ASN A 159 -70.45 -128.49 REMARK 500 1 ASP A 169 16.21 56.39 REMARK 500 1 GLU A 211 13.59 -67.61 REMARK 500 2 ILE A 8 102.49 -57.37 REMARK 500 2 GLU A 137 -65.95 -123.49 REMARK 500 2 ASP A 169 17.28 55.77 REMARK 500 2 GLU A 211 15.96 -67.49 REMARK 500 2 HIS A 228 50.54 -145.13 REMARK 500 3 PRO A 5 99.18 -68.49 REMARK 500 3 ASN A 88 28.96 -74.29 REMARK 500 3 SER A 89 85.52 -65.12 REMARK 500 3 SER A 112 93.40 -62.01 REMARK 500 3 GLU A 137 -63.86 -131.42 REMARK 500 3 ASP A 169 15.92 56.53 REMARK 500 3 LEU A 175 64.79 -107.69 REMARK 500 3 PRO A 180 49.82 -78.71 REMARK 500 3 ALA A 222 -96.23 -84.32 REMARK 500 4 CYS A 90 95.20 -59.94 REMARK 500 4 SER A 112 85.95 -66.61 REMARK 500 4 GLU A 137 -62.49 -91.10 REMARK 500 4 ASP A 169 18.76 54.13 REMARK 500 4 PRO A 180 26.89 -76.46 REMARK 500 5 SER A 89 97.82 -53.13 REMARK 500 5 SER A 112 103.83 -59.35 REMARK 500 5 GLU A 137 -60.26 -103.98 REMARK 500 5 LEU A 175 70.01 -115.42 REMARK 500 5 GLU A 211 78.53 58.96 REMARK 500 5 HIS A 226 95.93 -64.85 REMARK 500 6 ASN A 88 27.18 -73.18 REMARK 500 6 SER A 89 90.43 -61.81 REMARK 500 6 LEU A 106 96.40 -65.90 REMARK 500 6 GLU A 137 -56.98 -128.05 REMARK 500 6 ASP A 169 13.13 59.16 REMARK 500 6 ASN A 184 99.35 -67.46 REMARK 500 7 LEU A 106 90.35 -68.70 REMARK 500 7 SER A 112 96.59 -67.58 REMARK 500 7 MET A 124 -109.04 -93.08 REMARK 500 7 GLU A 137 -55.78 -131.75 REMARK 500 7 ARG A 213 70.83 38.52 REMARK 500 7 ALA A 223 108.84 -60.00 REMARK 500 8 ASP A 110 96.96 -65.02 REMARK 500 8 GLU A 137 -70.78 -112.41 REMARK 500 8 ASP A 169 18.91 55.38 REMARK 500 8 VAL A 212 -169.94 -128.65 REMARK 500 REMARK 500 THIS ENTRY HAS 129 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 19 ARG A 129 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3IFW RELATED DB: PDB REMARK 900 RELATED ID: 3KVF RELATED DB: PDB REMARK 900 RELATED ID: 3KW5 RELATED DB: PDB REMARK 900 RELATED ID: 3IRT RELATED DB: PDB REMARK 900 RELATED ID: 2ETL RELATED DB: PDB REMARK 900 RELATED ID: 17260 RELATED DB: BMRB DBREF 2LEN A 1 223 UNP P09936 UCHL1_HUMAN 1 223 SEQADV 2LEN TYR A 18 UNP P09936 SER 18 ENGINEERED MUTATION SEQADV 2LEN LEU A 224 UNP P09936 EXPRESSION TAG SEQADV 2LEN GLU A 225 UNP P09936 EXPRESSION TAG SEQADV 2LEN HIS A 226 UNP P09936 EXPRESSION TAG SEQADV 2LEN HIS A 227 UNP P09936 EXPRESSION TAG SEQADV 2LEN HIS A 228 UNP P09936 EXPRESSION TAG SEQADV 2LEN HIS A 229 UNP P09936 EXPRESSION TAG SEQADV 2LEN HIS A 230 UNP P09936 EXPRESSION TAG SEQADV 2LEN HIS A 231 UNP P09936 EXPRESSION TAG SEQRES 1 A 231 MET GLN LEU LYS PRO MET GLU ILE ASN PRO GLU MET LEU SEQRES 2 A 231 ASN LYS VAL LEU TYR ARG LEU GLY VAL ALA GLY GLN TRP SEQRES 3 A 231 ARG PHE VAL ASP VAL LEU GLY LEU GLU GLU GLU SER LEU SEQRES 4 A 231 GLY SER VAL PRO ALA PRO ALA CYS ALA LEU LEU LEU LEU SEQRES 5 A 231 PHE PRO LEU THR ALA GLN HIS GLU ASN PHE ARG LYS LYS SEQRES 6 A 231 GLN ILE GLU GLU LEU LYS GLY GLN GLU VAL SER PRO LYS SEQRES 7 A 231 VAL TYR PHE MET LYS GLN THR ILE GLY ASN SER CYS GLY SEQRES 8 A 231 THR ILE GLY LEU ILE HIS ALA VAL ALA ASN ASN GLN ASP SEQRES 9 A 231 LYS LEU GLY PHE GLU ASP GLY SER VAL LEU LYS GLN PHE SEQRES 10 A 231 LEU SER GLU THR GLU LYS MET SER PRO GLU ASP ARG ALA SEQRES 11 A 231 LYS CYS PHE GLU LYS ASN GLU ALA ILE GLN ALA ALA HIS SEQRES 12 A 231 ASP ALA VAL ALA GLN GLU GLY GLN CYS ARG VAL ASP ASP SEQRES 13 A 231 LYS VAL ASN PHE HIS PHE ILE LEU PHE ASN ASN VAL ASP SEQRES 14 A 231 GLY HIS LEU TYR GLU LEU ASP GLY ARG MET PRO PHE PRO SEQRES 15 A 231 VAL ASN HIS GLY ALA SER SER GLU ASP THR LEU LEU LYS SEQRES 16 A 231 ASP ALA ALA LYS VAL CYS ARG GLU PHE THR GLU ARG GLU SEQRES 17 A 231 GLN GLY GLU VAL ARG PHE SER ALA VAL ALA LEU CYS LYS SEQRES 18 A 231 ALA ALA LEU GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 ASN A 9 LEU A 20 1 12 HELIX 2 2 GLU A 35 GLY A 40 1 6 HELIX 3 3 THR A 56 LEU A 70 1 15 HELIX 4 4 GLY A 91 ASN A 102 1 12 HELIX 5 5 SER A 112 GLU A 122 1 11 HELIX 6 6 SER A 125 GLU A 134 1 10 HELIX 7 7 GLU A 137 GLY A 150 1 14 HELIX 8 8 SER A 189 ASP A 191 5 3 HELIX 9 9 THR A 192 GLU A 208 1 17 HELIX 10 10 GLY A 210 PHE A 214 5 5 SHEET 1 A 6 TRP A 26 VAL A 29 0 SHEET 2 A 6 SER A 215 LYS A 221 -1 O ALA A 218 N VAL A 29 SHEET 3 A 6 CYS A 47 PHE A 53 -1 N LEU A 50 O VAL A 217 SHEET 4 A 6 HIS A 161 VAL A 168 -1 O PHE A 165 N LEU A 49 SHEET 5 A 6 HIS A 171 ASP A 176 -1 O TYR A 173 N ASN A 166 SHEET 6 A 6 VAL A 183 ASN A 184 -1 O VAL A 183 N GLU A 174 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