PDB Short entry for 2HJ8 HEADER SIGNALING PROTEIN 30-JUN-06 2HJ8 TITLE SOLUTION NMR STRUCTURE OF THE C-TERMINAL DOMAIN OF THE INTERFERON TITLE 2 ALPHA-INDUCIBLE ISG15 PROTEIN FROM HOMO SAPIENS. NORTHEAST STRUCTURAL TITLE 3 GENOMICS TARGET HR2873B COMPND MOL_ID: 1; COMPND 2 MOLECULE: INTERFERON-INDUCED 17 KDA PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ISG15 C-TERMINAL DOMAIN (8.9 KDA), UBIQUITIN-LIKE 2; COMPND 5 SYNONYM: HUCRP, INTERFERON-INDUCED 15 KDA PROTEIN; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ISG15, G1P2, UCRP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)MGK; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PET21; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: HR2873B-21.1 KEYWDS HR2873B, HUMAN ISG15, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, NESG, PSI-1, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.M.ARAMINI,C.K.HO,C.YIN,K.CUNNINGHAM,H.JANJUA,L.-C.MA,R.XIAO, AUTHOR 2 T.B.ACTON,G.T.MONTELIONE,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM AUTHOR 3 (NESG) REVDAT 3 09-MAR-22 2HJ8 1 REMARK SEQADV REVDAT 2 24-FEB-09 2HJ8 1 VERSN REVDAT 1 01-AUG-06 2HJ8 0 JRNL AUTH J.M.ARAMINI,C.K.HO,C.YIN,K.CUNNINGHAM,H.JANJUA,M.-C.LI, JRNL AUTH 2 R.XIAO,T.B.ACTON,G.T.MONTELIONE JRNL TITL SOLUTION NMR STRUCTURE OF THE C-TERMINAL DOMAIN OF THE JRNL TITL 2 INTERFERON ALPHA-INDUCIBLE ISG15 PROTEIN FROM HOMO SAPIENS. JRNL TITL 3 NORTHEAST STRUCTURAL GENOMICS TARGET HR2873B. JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5PL6, AUTOSTRUCTURE 2.1.1, XPLOR-NIH REMARK 3 2.11.2, CNS 1.1 REMARK 3 AUTHORS : BRUKER (XWINNMR), HUANG & MONTELIONE REMARK 3 (AUTOSTRUCTURE), CLORE ET AL (XPLOR-NIH), BRUNGER,ADAMS,CLORE, REMARK 3 DELANO,GROS,GROSSE-KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU,READ, REMARK 3 RICE,SIMONSON,WARREN (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE STRUCTURES ARE BASED ON A TOTAL OF 976 CONFORMATIONALLY- REMARK 3 RESTRICTING NOE-DERIVED DISTANCE CONSTRAINTS, 80 DIHEDRAL ANGLE REMARK 3 CONSTRAINTS, AND 40 HYDROGEN BOND CONSTRAINTS (14.6 REMARK 3 CONSTRAINTS PER RESIDUE, 4.8 LONG RANGE CONSTRAINTS PER RESIDUE, REMARK 3 COMPUTED FOR RESIDUES 86 TO 160 BY PSVS 1.3). STRUCTURE REMARK 3 DETERMINATION WAS PERFORMED ITERATIVELY USING AUTOSTRUCTURE (XPLOR- REMARK 3 NIH). AFTER A FINAL XPLOR REMARK 3 CALCULATION USING THE CONSTRAINTS DERIVED FROM REMARK 3 AUTOSTRUCTURE, THE 20 LOWEST ENERGY STRUCTURES OUT OF 100 WERE REMARK 3 FURTHER REFINED BY RESTRAINED MOLECULAR DYANMICS/ENERGY REMARK 3 MINIMIZATION IN EXPLICIT WATER (CNS). THE N-TERMINAL MET AND REMARK 3 UNSTRUCTURED C-TERMINUS OF THE PROTEIN (LRGG + LEHHHHHH TAG) WERE REMARK 3 INCLUDED IN ALL STRUCTURE CALCULATIONS BUT HAVE BEEN OMITTED FROM REMARK 3 THIS DEPOSITION. REMARK 4 REMARK 4 2HJ8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-JUL-06. REMARK 100 THE DEPOSITION ID IS D_1000038404. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 50 MM AMMONIUM CITRATE, 5 MM REMARK 210 CACL2 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.81 MM U-13C,15N HR2873B, 50 MM REMARK 210 AMMONIUM CITRATE, 5 MM CACL2, 1X REMARK 210 PROTEASE INHIBITOR, 0.02% NAN3, REMARK 210 PH 6.5, 5% D2O / 95% H2O; 0.9 MM REMARK 210 5%-13C,U-15N HR2873B, 50 MM REMARK 210 AMMONIUM CITRATE, 5 MM CACL2, 1X REMARK 210 PROTEASE INHIBITOR, 0.02% NAN3, REMARK 210 PH 6.5, 5% D2O / 95% H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; HNHA; HIGH REMARK 210 RESOLUTION 2D CH-HSQC (FOR REMARK 210 STEREOSPECIFIC ASSIGNMENT OF VAL/ REMARK 210 LEU METHYLS); 2D 15N,1H REMARK 210 HETERONUCLEAR NOE; 3D TR REMARK 210 BACKBONE EXPTS; 3D HCCH-COSY, 3D REMARK 210 HCCH-TOCSYS REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR 6.1C, AUTOASSIGN 2.2.1, REMARK 210 SPARKY 3.110, NMRPIPE 2.3, REMARK 210 PDBSTAT 4.1, PSVS 1.3 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH LOWEST REMARK 210 CONFORMATIONAL ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE RESONANCE NMR REMARK 210 SPECTROSCOPY. AUTOMATED BACKBONE ASSIGNMENTS WERE MADE USING REMARK 210 AUTOASSIGN, AND THE SIDE CHAIN ASSIGNMENTS WERE COMPLETED REMARK 210 MANUALLY. AUTOMATIC NOESY ASSIGNMENTS AS WELL AS DISTANCE AND REMARK 210 HYDROGEN BOND CONSTRAINTS WERE DETERMINED USING AUTOSTRUCTURE. REMARK 210 DIHEDRAL REMARK 210 ANGLE CONSTRAINTS WERE DETERMINED USING HYPER. REMARK 210 COMPLETENESS OF NMR ASSIGNMENTS (EXCLUDING N-TERMINAL MET AND C- REMARK 210 TERMINAL HHHHHH): REMARK 210 BACKBONE, 99.8%, SIDE CHAIN, 95.3%, AROMATICS, 100%, REMARK 210 STEREOSPECIFIC METHYL, 95.2%. FINAL STRUCTURE QUALITY FACTORS (FOR REMARK 210 RESIDUES 86 TO 160, PSVS 1.3), WHERE ORDERED RESIDUES REMARK 210 [S(PHI) + S(PSI) > 1.8] COMPRISE 89-94,100-108,111-124,126-132,135- REMARK 210 136,139-158: (A) RMSD (ORDERED RESIDUES): BB, 0.6, HEAVY ATOM, REMARK 210 1.1. (B) RAMACHANDRAN STATISTICS FOR ORDERED RESIDUES: REMARK 210 MOST FAVORED, 86.7%, ADDITIONALLY ALLOWED, 12.7%, GENEROUSLY REMARK 210 ALLOWED, 0.6%, DISALLOWED, 0.0%. (C) PROCHECK SCORES FOR ORDERED REMARK 210 RESIDUES (RAW/Z-): PHI-PSI, -0.60/-2.05, ALL, -0.44/-2.60. (D) REMARK 210 MOLPROBITY CLASH SCORE (RAW/Z-): 28.41/-3.35. (E) RPF SCORES FOR REMARK 210 GOODNESS OF FIT TO NOESY DATA (ALL RESIDUES): RECALL, 0.978, REMARK 210 PRECISION, 0.910, F-MEASURE, 0.943, DP-SCORE, 0.811. 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 85 REMARK 465 LEU A 161 REMARK 465 ARG A 162 REMARK 465 GLY A 163 REMARK 465 GLY A 164 REMARK 465 LEU A 165 REMARK 465 GLU A 166 REMARK 465 HIS A 167 REMARK 465 HIS A 168 REMARK 465 HIS A 169 REMARK 465 HIS A 170 REMARK 465 HIS A 171 REMARK 465 HIS A 172 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 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 GLU A 87 75.62 -118.55 REMARK 500 1 ASN A 96 -76.39 42.27 REMARK 500 1 LEU A 121 -67.53 -93.46 REMARK 500 1 VAL A 124 91.21 -48.26 REMARK 500 1 GLN A 125 104.45 53.51 REMARK 500 1 ASP A 126 11.05 -69.29 REMARK 500 1 PHE A 133 -82.89 -106.04 REMARK 500 1 GLU A 134 25.73 -77.97 REMARK 500 1 LEU A 138 176.29 62.10 REMARK 500 2 LEU A 121 -64.98 -95.04 REMARK 500 2 VAL A 124 81.98 -51.78 REMARK 500 2 GLN A 125 118.03 60.80 REMARK 500 2 GLU A 134 -43.93 69.78 REMARK 500 2 PRO A 151 81.38 -66.13 REMARK 500 2 LEU A 152 -26.56 167.75 REMARK 500 3 PRO A 88 95.47 -64.95 REMARK 500 3 THR A 110 159.11 64.19 REMARK 500 3 VAL A 124 85.49 -49.46 REMARK 500 3 GLN A 125 106.81 56.29 REMARK 500 3 PHE A 133 -89.67 -94.16 REMARK 500 3 PRO A 151 6.38 -68.15 REMARK 500 3 LEU A 159 -167.68 -102.88 REMARK 500 4 ASN A 96 -77.32 67.98 REMARK 500 4 LYS A 97 -23.07 168.68 REMARK 500 4 LEU A 121 -64.90 -94.74 REMARK 500 4 VAL A 124 92.10 -41.82 REMARK 500 4 GLN A 125 106.23 52.97 REMARK 500 4 ASP A 126 1.90 -69.11 REMARK 500 4 PHE A 133 -72.00 -109.02 REMARK 500 4 GLU A 134 32.61 -92.29 REMARK 500 4 PRO A 151 20.58 -68.52 REMARK 500 4 LEU A 152 19.73 -146.93 REMARK 500 5 GLU A 87 81.18 64.75 REMARK 500 5 ASN A 96 -80.83 17.52 REMARK 500 5 LEU A 121 -64.39 -94.85 REMARK 500 5 VAL A 124 93.02 -43.23 REMARK 500 5 GLN A 125 109.11 57.37 REMARK 500 5 PHE A 133 -74.51 -102.71 REMARK 500 5 PRO A 151 2.57 -67.87 REMARK 500 6 GLU A 87 73.84 53.67 REMARK 500 6 LEU A 121 -69.15 -96.74 REMARK 500 6 VAL A 124 93.39 -31.08 REMARK 500 6 GLN A 125 111.78 53.31 REMARK 500 6 PHE A 133 -60.43 -137.11 REMARK 500 6 GLU A 134 35.62 -81.79 REMARK 500 6 PRO A 151 79.69 -66.02 REMARK 500 6 LEU A 152 -25.06 172.87 REMARK 500 7 GLU A 87 66.50 33.94 REMARK 500 7 LEU A 121 -77.02 -91.61 REMARK 500 7 VAL A 124 82.26 60.07 REMARK 500 REMARK 500 THIS ENTRY HAS 140 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HR2873B RELATED DB: TARGETDB REMARK 900 RELATED ID: 1Z2M RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ISG15, THE INTERFERON-INDUCED UBIQUITIN CROSS REMARK 900 REACTIVE PROTEIN REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE AUTHOR STATES THAT THE SEQUENCE NUMBERING IS +7 REMARK 999 RELATIVE TO THE NUMBERING IN THE NATIVE PROTEIN, TO REMARK 999 BE CONSISTENT WITH ONGOING WORK ON THE FULL LENGTH REMARK 999 HUMAN ISG15 PROTEIN IN THEIR LABORATORY. DBREF 2HJ8 A 86 164 UNP P05161 UCRP_HUMAN 78 156 SEQADV 2HJ8 MET A 85 UNP P05161 CLONING ARTIFACT SEQADV 2HJ8 LEU A 165 UNP P05161 CLONING ARTIFACT SEQADV 2HJ8 GLU A 166 UNP P05161 CLONING ARTIFACT SEQADV 2HJ8 HIS A 167 UNP P05161 EXPRESSION TAG SEQADV 2HJ8 HIS A 168 UNP P05161 EXPRESSION TAG SEQADV 2HJ8 HIS A 169 UNP P05161 EXPRESSION TAG SEQADV 2HJ8 HIS A 170 UNP P05161 EXPRESSION TAG SEQADV 2HJ8 HIS A 171 UNP P05161 EXPRESSION TAG SEQADV 2HJ8 HIS A 172 UNP P05161 EXPRESSION TAG SEQRES 1 A 88 MET ASP GLU PRO LEU SER ILE LEU VAL ARG ASN ASN LYS SEQRES 2 A 88 GLY ARG SER SER THR TYR GLU VAL ARG LEU THR GLN THR SEQRES 3 A 88 VAL ALA HIS LEU LYS GLN GLN VAL SER GLY LEU GLU GLY SEQRES 4 A 88 VAL GLN ASP ASP LEU PHE TRP LEU THR PHE GLU GLY LYS SEQRES 5 A 88 PRO LEU GLU ASP GLN LEU PRO LEU GLY GLU TYR GLY LEU SEQRES 6 A 88 LYS PRO LEU SER THR VAL PHE MET ASN LEU ARG LEU ARG SEQRES 7 A 88 GLY GLY LEU GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 THR A 110 GLU A 122 1 13 HELIX 2 2 PRO A 143 LEU A 149 1 7 SHEET 1 A 4 SER A 100 ARG A 106 0 SHEET 2 A 4 PRO A 88 ASN A 95 -1 N VAL A 93 O SER A 101 SHEET 3 A 4 THR A 154 LEU A 159 1 O MET A 157 N ARG A 94 SHEET 4 A 4 PHE A 129 THR A 132 -1 N TRP A 130 O ASN A 158 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