HEADER SIGNALING PROTEIN, TRANSPORT PROTEIN 18-JUN-09 2KKC TITLE NMR STRUCTURE OF THE P62 PB1 DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SEQUESTOSOME-1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PB1 DOMAIN, OPR DOMAIN, RESIDUES 3-100; COMPND 5 SYNONYM: P62, UBIQUITIN-BINDING PROTEIN P62, PROTEIN KINASE C-ZETA- COMPND 6 INTERACTING PROTEIN, PKC-ZETA-INTERACTING PROTEIN; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PGSPS KEYWDS P62, PB1, AUTOPHAGY, UBIQUITIN-PROTEASOME SYSTEM, NF-KB SIGNALING, KEYWDS 2 ALTERNATIVE SPLICING, APOPTOSIS, CYTOPLASM, DIFFERENTIATION, KEYWDS 3 ENDOSOME, IMMUNE RESPONSE, METAL-BINDING, NUCLEUS, PHOSPHOPROTEIN, KEYWDS 4 ZINC, ZINC-FINGER, SIGNALING PROTEIN, TRANSPORT PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.YOKOCHI,F.INAGAKI REVDAT 3 10-NOV-21 2KKC 1 REMARK SEQADV REVDAT 2 27-OCT-09 2KKC 1 JRNL REVDAT 1 15-SEP-09 2KKC 0 JRNL AUTH T.SAIO,M.YOKOCHI,F.INAGAKI JRNL TITL THE NMR STRUCTURE OF THE P62 PB1 DOMAIN, A KEY PROTEIN IN JRNL TITL 2 AUTOPHAGY AND NF-KAPPAB SIGNALING PATHWAY JRNL REF J.BIOMOL.NMR V. 45 335 2009 JRNL REFN ISSN 0925-2738 JRNL PMID 19728111 JRNL DOI 10.1007/S10858-009-9370-7 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : OLIVIA 1.15.2, CYANA 2.1 REMARK 3 AUTHORS : MASASHI YOKOCHI (OLIVIA), GUNTERT, MUMENTHALER AND REMARK 3 WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KKC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JUN-09. REMARK 100 THE DEPOSITION ID IS D_1000101227. 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 : 50 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM [U-99% 13C; U-99% 15N] P62 REMARK 210 PB1-1, 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 HNCAHA; 3D 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : UNITY INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : OLIVIA 1.15.2 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 SIMULATED ANNEALING 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 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 GLY A -1 REMARK 465 PRO A 0 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 ALA A 17 107.84 -54.70 REMARK 500 1 PRO A 39 -171.82 -69.83 REMARK 500 1 PHE A 53 70.46 -116.62 REMARK 500 1 ALA A 74 105.59 -57.74 REMARK 500 1 SER A 76 30.68 -161.42 REMARK 500 2 ALA A 17 104.21 -55.66 REMARK 500 2 ALA A 35 -75.70 -53.30 REMARK 500 2 PRO A 39 -177.22 -69.82 REMARK 500 2 ALA A 74 104.98 -57.16 REMARK 500 2 SER A 76 34.34 -162.33 REMARK 500 3 ALA A 17 106.35 -51.67 REMARK 500 3 ALA A 33 -40.75 -134.54 REMARK 500 3 PRO A 39 -170.82 -69.75 REMARK 500 3 PHE A 53 72.17 -115.14 REMARK 500 3 ALA A 74 105.27 -55.93 REMARK 500 3 SER A 76 36.38 -160.61 REMARK 500 4 ALA A 35 -70.21 -51.76 REMARK 500 4 ALA A 37 57.94 -100.85 REMARK 500 4 PRO A 39 -170.10 -69.78 REMARK 500 4 PHE A 53 70.24 -118.97 REMARK 500 4 SER A 76 32.29 -165.72 REMARK 500 4 ASP A 90 -169.75 -102.40 REMARK 500 5 ALA A 16 -73.08 -111.04 REMARK 500 5 ALA A 17 117.72 -167.78 REMARK 500 5 PRO A 39 -171.31 -69.79 REMARK 500 5 PHE A 53 70.80 -116.21 REMARK 500 5 ALA A 74 105.55 -56.82 REMARK 500 5 SER A 76 33.57 -152.67 REMARK 500 6 ALA A 17 104.44 -55.27 REMARK 500 6 ALA A 37 45.81 -103.21 REMARK 500 6 PRO A 39 -170.96 -69.77 REMARK 500 6 PHE A 53 70.31 -116.18 REMARK 500 6 SER A 76 45.49 -158.33 REMARK 500 7 ARG A 21 145.15 -176.00 REMARK 500 7 GLU A 34 -47.03 -130.32 REMARK 500 7 ALA A 35 147.59 -178.86 REMARK 500 7 ALA A 37 35.80 -95.52 REMARK 500 7 PRO A 39 -170.60 -69.80 REMARK 500 7 ALA A 74 105.72 -59.82 REMARK 500 7 SER A 76 31.26 -157.96 REMARK 500 8 ALA A 16 -67.17 -104.74 REMARK 500 8 ALA A 17 101.31 -178.28 REMARK 500 8 GLU A 32 -169.81 -115.00 REMARK 500 8 ALA A 33 -48.91 -139.89 REMARK 500 8 ALA A 37 57.66 -105.90 REMARK 500 8 PRO A 39 -176.75 -69.74 REMARK 500 8 PHE A 53 69.87 -117.91 REMARK 500 8 ALA A 74 105.63 -56.70 REMARK 500 8 SER A 76 33.74 -165.14 REMARK 500 9 ALA A 17 103.21 -51.98 REMARK 500 REMARK 500 THIS ENTRY HAS 126 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16361 RELATED DB: BMRB DBREF 2KKC A 3 100 UNP O08623 SQSTM_RAT 3 100 SEQADV 2KKC GLY A -1 UNP O08623 EXPRESSION TAG SEQADV 2KKC PRO A 0 UNP O08623 EXPRESSION TAG SEQADV 2KKC HIS A 1 UNP O08623 EXPRESSION TAG SEQADV 2KKC MET A 2 UNP O08623 EXPRESSION TAG SEQADV 2KKC ALA A 67 UNP O08623 ASP 67 ENGINEERED MUTATION SEQADV 2KKC ARG A 69 UNP O08623 ASP 69 ENGINEERED MUTATION SEQRES 1 A 102 GLY PRO HIS MET SER LEU THR VAL LYS ALA TYR LEU LEU SEQRES 2 A 102 GLY LYS GLU GLU ALA ALA ARG GLU ILE ARG ARG PHE SER SEQRES 3 A 102 PHE CYS PHE SER PRO GLU PRO GLU ALA GLU ALA ALA ALA SEQRES 4 A 102 GLY PRO GLY PRO CYS GLU ARG LEU LEU SER ARG VAL ALA SEQRES 5 A 102 VAL LEU PHE PRO ALA LEU ARG PRO GLY GLY PHE GLN ALA SEQRES 6 A 102 HIS TYR ARG ALA GLU ARG GLY ASP LEU VAL ALA PHE SER SEQRES 7 A 102 SER ASP GLU GLU LEU THR MET ALA MET SER TYR VAL LYS SEQRES 8 A 102 ASP ASP ILE PHE ARG ILE TYR ILE LYS GLU LYS HELIX 1 1 GLY A 40 PHE A 53 1 14 HELIX 2 2 SER A 77 VAL A 88 1 12 SHEET 1 A 5 ALA A 17 CYS A 26 0 SHEET 2 A 5 SER A 3 LEU A 11 -1 N LEU A 4 O PHE A 25 SHEET 3 A 5 ILE A 92 GLU A 99 1 O ILE A 97 N TYR A 9 SHEET 4 A 5 PHE A 61 ARG A 66 -1 N HIS A 64 O TYR A 96 SHEET 5 A 5 LEU A 72 PHE A 75 -1 O PHE A 75 N ALA A 63 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