PDB Short entry for 1UFM HEADER SIGNALING PROTEIN 02-JUN-03 1UFM TITLE SOLUTION STRUCTURE OF THE PCI DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: COP9 COMPLEX SUBUNIT 4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PCI DOMAIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 6 EXPRESSION_SYSTEM_PLASMID: P020826-24; SOURCE 7 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS HELIX-TURN-HELIX, STRUCTURAL GENOMICS, RIKEN STRUCTURAL KEYWDS 2 GENOMICS/PROTEOMICS INITIATIVE, RSGI, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.SUZUKI,H.HATANAKA,T.KIGAWA,M.SHIROUZU,Y.HAYASHIZAKI,THE RIKEN AUTHOR 2 GENOME EXPLORATION RESEARCH GROUP PHASE I & II TEAMS,S.YOKOYAMA, AUTHOR 3 RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 4 27-DEC-23 1UFM 1 REMARK SEQADV REVDAT 3 20-JUN-18 1UFM 1 JRNL REMARK REVDAT 2 24-FEB-09 1UFM 1 VERSN REVDAT 1 29-JUN-04 1UFM 0 JRNL AUTH S.SUZUKI,H.HATANAKA,T.KIGAWA,M.SHIROUZU,Y.HAYASHIZAKI, JRNL AUTH 2 THE RIKEN GENOME EXPLORATION RESEARCH GROUP PHASE I & JRNL AUTH 3 II TEAMS,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE PCI DOMAIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1B, CYANA 1.0.7 REMARK 3 AUTHORS : VARIAN (VNMR), GUENTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1UFM COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-JUN-03. REMARK 100 THE DEPOSITION ID IS D_1000005773. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 0.12 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 6.1MM 13C/15N-PCI DOMAIN, 20MM REMARK 210 PHOSPHATE BUFFER NA, 100MM NACL, REMARK 210 1MM D-DTT REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20020425, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.771, OLIVIA 1.9.5, REMARK 210 CYANA 1.0.7 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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: 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 O VAL A 304 H ASN A 308 1.51 REMARK 500 O THR A 320 H LEU A 324 1.57 REMARK 500 O LYS A 337 H GLN A 341 1.57 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 293 84.44 60.37 REMARK 500 1 SER A 297 -53.49 -156.88 REMARK 500 1 LEU A 300 169.06 -45.52 REMARK 500 1 ASP A 301 107.49 -58.76 REMARK 500 1 LEU A 315 -82.19 -101.56 REMARK 500 1 GLU A 365 77.21 60.15 REMARK 500 1 SER A 367 -59.64 -142.12 REMARK 500 2 SER A 290 -58.15 -152.16 REMARK 500 2 SER A 293 165.68 56.59 REMARK 500 2 SER A 297 -57.46 -174.42 REMARK 500 2 LEU A 300 96.50 -57.77 REMARK 500 2 LEU A 315 -87.85 -93.34 REMARK 500 2 GLU A 365 95.15 55.27 REMARK 500 2 SER A 367 84.05 41.84 REMARK 500 2 SER A 371 -58.36 -149.68 REMARK 500 3 SER A 290 81.39 -172.72 REMARK 500 3 SER A 291 -57.99 -144.38 REMARK 500 3 SER A 293 161.76 64.68 REMARK 500 3 SER A 294 154.87 61.31 REMARK 500 3 SER A 297 114.98 -165.60 REMARK 500 3 LEU A 300 77.55 37.44 REMARK 500 3 LEU A 315 -69.42 -137.29 REMARK 500 3 ALA A 366 -62.10 -107.61 REMARK 500 3 SER A 371 88.87 -162.08 REMARK 500 4 SER A 293 101.80 -170.09 REMARK 500 4 SER A 294 -60.51 -105.95 REMARK 500 4 SER A 297 -65.31 -103.63 REMARK 500 4 LEU A 300 156.77 -40.57 REMARK 500 4 ASP A 301 107.39 -59.50 REMARK 500 4 LEU A 315 -63.17 -139.65 REMARK 500 4 SER A 367 -62.57 75.08 REMARK 500 4 SER A 371 89.22 46.43 REMARK 500 5 SER A 290 -58.41 -125.01 REMARK 500 5 SER A 291 -58.32 -169.97 REMARK 500 5 SER A 297 86.51 46.31 REMARK 500 5 LEU A 300 107.01 -42.73 REMARK 500 5 LEU A 315 -79.47 -102.11 REMARK 500 5 GLU A 365 154.15 59.85 REMARK 500 5 ALA A 366 89.78 41.55 REMARK 500 5 SER A 367 110.35 -162.82 REMARK 500 6 SER A 293 80.39 -175.33 REMARK 500 6 SER A 294 114.82 179.18 REMARK 500 6 SER A 297 101.49 -51.35 REMARK 500 6 ASP A 301 107.95 -58.99 REMARK 500 6 LEU A 315 -79.14 -101.57 REMARK 500 6 GLU A 329 17.13 56.64 REMARK 500 6 ALA A 366 151.88 67.52 REMARK 500 6 SER A 367 -63.38 -136.57 REMARK 500 7 SER A 294 85.65 -174.67 REMARK 500 7 SER A 298 98.36 -172.21 REMARK 500 REMARK 500 THIS ENTRY HAS 142 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: MMT007014683.1 RELATED DB: TARGETDB DBREF 1UFM A 296 366 UNP O88544 CSN4_MOUSE 296 366 SEQADV 1UFM GLY A 289 UNP O88544 CLONING ARTIFACT SEQADV 1UFM SER A 290 UNP O88544 CLONING ARTIFACT SEQADV 1UFM SER A 291 UNP O88544 CLONING ARTIFACT SEQADV 1UFM GLY A 292 UNP O88544 CLONING ARTIFACT SEQADV 1UFM SER A 293 UNP O88544 CLONING ARTIFACT SEQADV 1UFM SER A 294 UNP O88544 CLONING ARTIFACT SEQADV 1UFM GLY A 295 UNP O88544 CLONING ARTIFACT SEQADV 1UFM SER A 367 UNP O88544 CLONING ARTIFACT SEQADV 1UFM GLY A 368 UNP O88544 CLONING ARTIFACT SEQADV 1UFM PRO A 369 UNP O88544 CLONING ARTIFACT SEQADV 1UFM SER A 370 UNP O88544 CLONING ARTIFACT SEQADV 1UFM SER A 371 UNP O88544 CLONING ARTIFACT SEQADV 1UFM GLY A 372 UNP O88544 CLONING ARTIFACT SEQRES 1 A 84 GLY SER SER GLY SER SER GLY GLY SER SER ILE LEU ASP SEQRES 2 A 84 ARG ALA VAL ILE GLU HIS ASN LEU LEU SER ALA SER LYS SEQRES 3 A 84 LEU TYR ASN ASN ILE THR PHE GLU GLU LEU GLY ALA LEU SEQRES 4 A 84 LEU GLU ILE PRO ALA ALA LYS ALA GLU LYS ILE ALA SER SEQRES 5 A 84 GLN MET ILE THR GLU GLY ARG MET ASN GLY PHE ILE ASP SEQRES 6 A 84 GLN ILE ASP GLY ILE VAL HIS PHE GLU THR ARG GLU ALA SEQRES 7 A 84 SER GLY PRO SER SER GLY HELIX 1 1 ASP A 301 LEU A 315 1 15 HELIX 2 2 PHE A 321 LEU A 328 1 8 HELIX 3 3 PRO A 331 GLU A 345 1 15 SHEET 1 A 3 ASN A 318 THR A 320 0 SHEET 2 A 3 ILE A 358 PHE A 361 -1 O VAL A 359 N ILE A 319 SHEET 3 A 3 GLY A 350 ASP A 353 -1 N ASP A 353 O ILE A 358 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