HEADER MOTOR PROTEIN 22-JUL-19 6KJN TITLE THE MICROTUBULE-BINDING DOMAINS OF YEAST CYTOPLASMIC DYNEIN IN THE TITLE 2 HIGH AFFINITY STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DYNEIN HEAVY CHAIN, CYTOPLASMIC; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DYNEIN HEAVY CHAIN,CYTOSOLIC,DYHC; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / SOURCE 3 S288C); SOURCE 4 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 5 ORGANISM_TAXID: 559292; SOURCE 6 STRAIN: ATCC 204508 / S288C; SOURCE 7 GENE: DYN1, DHC1, YKR054C; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 10 EXPRESSION_SYSTEM_CELL: BL21(DE3); SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PET-15B KEYWDS MICROTUBULE, DYNEIN, DISULFIDE BOND, HIGH AFFINITY, MOTOR PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR N.NISHIDA,Y.KOMORI,O.TAKARADA,A.WATANABE,S.TAMURA,S.KUBO,I.SHIMADA, AUTHOR 2 M.KIKKAWA REVDAT 2 14-JUN-23 6KJN 1 REMARK REVDAT 1 18-MAR-20 6KJN 0 JRNL AUTH N.NISHIDA,Y.KOMORI,O.TAKARADA,A.WATANABE,S.TAMURA,S.KUBO, JRNL AUTH 2 I.SHIMADA,M.KIKKAWA JRNL TITL STRUCTURAL BASIS FOR TWO-WAY COMMUNICATION BETWEEN DYNEIN JRNL TITL 2 AND MICROTUBULES. JRNL REF NAT COMMUN V. 11 1038 2020 JRNL REFN ESSN 2041-1723 JRNL PMID 32098965 JRNL DOI 10.1038/S41467-020-14842-8 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6KJN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-JUL-19. REMARK 100 THE DEPOSITION ID IS D_1300013129. 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 : 200 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.75 MM [U-99% 13C; U-99% 15N] REMARK 210 CYTOPLASMIC DYNEIN, 90% H2O/10% REMARK 210 D2O; 0.75 MM [U-99% 13C; U-99% REMARK 210 15N] CYTOPLASMIC DYNEIN, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D HNCACB; 3D CBCA(CO) REMARK 210 NH; 3D HBHA(CO)NH; 3D HCCH-COSY; REMARK 210 3D HCCH-TOCSY; 3D 1H-15N NOESY; REMARK 210 3D 1H-13C NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, TALOS REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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: 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 GLN A3099 -39.72 87.89 REMARK 500 1 ASP A3100 91.78 -46.05 REMARK 500 1 CYS A3101 26.59 47.56 REMARK 500 1 PRO A3103 4.29 -67.42 REMARK 500 1 ASN A3114 -71.32 -72.38 REMARK 500 1 ILE A3115 136.26 -35.07 REMARK 500 1 GLN A3147 -117.88 -71.07 REMARK 500 1 ASP A3171 95.99 -46.09 REMARK 500 1 LEU A3174 170.76 -51.41 REMARK 500 1 HIS A3175 112.37 -168.91 REMARK 500 1 MET A3176 77.15 177.52 REMARK 500 1 LYS A3177 75.68 48.86 REMARK 500 1 PRO A3178 100.27 -56.11 REMARK 500 1 PHE A3188 67.83 -152.20 REMARK 500 1 LEU A3189 -63.39 -98.38 REMARK 500 1 ASN A3193 -15.01 -49.18 REMARK 500 1 ALA A3202 -70.68 -43.97 REMARK 500 1 LYS A3204 100.18 -49.27 REMARK 500 1 ALA A3205 -40.82 145.79 REMARK 500 1 ILE A3217 -62.36 -102.13 REMARK 500 1 PRO A3228 165.96 -48.23 REMARK 500 2 MET A3095 -156.05 50.75 REMARK 500 2 ASP A3100 -92.55 -84.12 REMARK 500 2 GLN A3147 -115.26 -92.88 REMARK 500 2 LYS A3177 131.29 63.90 REMARK 500 2 GLU A3185 -76.99 -178.71 REMARK 500 2 PHE A3188 -26.99 -172.95 REMARK 500 2 ASN A3193 -33.85 107.73 REMARK 500 2 SER A3203 135.47 -179.30 REMARK 500 2 SER A3220 26.22 -71.03 REMARK 500 2 ASN A3225 -155.25 -68.59 REMARK 500 2 VAL A3226 32.97 -85.21 REMARK 500 3 HIS A3094 -75.66 68.23 REMARK 500 3 ASP A3100 108.62 -16.10 REMARK 500 3 LYS A3116 176.44 161.60 REMARK 500 3 LYS A3117 -86.94 60.89 REMARK 500 3 GLN A3147 -117.14 -89.02 REMARK 500 3 TYR A3170 152.33 -46.74 REMARK 500 3 LYS A3177 114.81 63.55 REMARK 500 3 PHE A3188 69.86 -173.46 REMARK 500 3 ASN A3193 -36.32 110.50 REMARK 500 3 SER A3203 136.67 -171.48 REMARK 500 3 SER A3220 -4.01 -59.01 REMARK 500 3 ASN A3225 -15.07 -178.73 REMARK 500 3 VAL A3226 -77.64 67.49 REMARK 500 4 LYS A3096 87.32 67.11 REMARK 500 4 GLN A3147 -123.49 -84.63 REMARK 500 4 TYR A3170 89.17 -58.86 REMARK 500 4 PRO A3178 77.49 -62.22 REMARK 500 4 GLU A3185 -76.30 169.42 REMARK 500 REMARK 500 THIS ENTRY HAS 175 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 11490 RELATED DB: BMRB DBREF 6KJN A 3095 3232 UNP P36022 DYHC_YEAST 3095 3232 SEQADV 6KJN GLY A 3092 UNP P36022 EXPRESSION TAG SEQADV 6KJN SER A 3093 UNP P36022 EXPRESSION TAG SEQADV 6KJN HIS A 3094 UNP P36022 EXPRESSION TAG SEQADV 6KJN CYS A 3101 UNP P36022 ILE 3101 ENGINEERED MUTATION SEQADV 6KJN CYS A 3222 UNP P36022 VAL 3222 ENGINEERED MUTATION SEQRES 1 A 141 GLY SER HIS MET LYS SER ILE GLN ASP CYS GLU PRO THR SEQRES 2 A 141 ILE LEU GLU ALA GLN ARG GLY VAL LYS ASN ILE LYS LYS SEQRES 3 A 141 GLN GLN LEU THR GLU ILE ARG SER MET VAL ASN PRO PRO SEQRES 4 A 141 SER GLY VAL LYS ILE VAL MET GLU ALA VAL CYS ALA ILE SEQRES 5 A 141 LEU GLY TYR GLN PHE SER ASN TRP ARG ASP ILE GLN GLN SEQRES 6 A 141 PHE ILE ARG LYS ASP ASP PHE ILE HIS ASN ILE VAL HIS SEQRES 7 A 141 TYR ASP THR THR LEU HIS MET LYS PRO GLN ILE ARG LYS SEQRES 8 A 141 TYR MET GLU GLU GLU PHE LEU SER ASP PRO ASN PHE THR SEQRES 9 A 141 TYR GLU THR ILE ASN ARG ALA SER LYS ALA CYS GLY PRO SEQRES 10 A 141 LEU TYR GLN TRP VAL ASN ALA GLN ILE ASN PHE SER LYS SEQRES 11 A 141 CYS LEU GLU ASN VAL ASP PRO LEU ARG GLN GLU HELIX 1 AA1 PRO A 3103 ALA A 3108 1 6 HELIX 2 AA2 ALA A 3108 ILE A 3115 1 8 HELIX 3 AA3 LYS A 3116 MET A 3126 1 11 HELIX 4 AA4 PRO A 3130 GLY A 3145 1 16 HELIX 5 AA5 ASN A 3150 ARG A 3159 1 10 HELIX 6 AA6 ASP A 3162 TYR A 3170 1 9 HELIX 7 AA7 GLN A 3179 LEU A 3189 1 11 HELIX 8 AA8 THR A 3195 SER A 3203 1 9 HELIX 9 AA9 ALA A 3205 PHE A 3219 1 15 HELIX 10 AB1 SER A 3220 CYS A 3222 5 3 SSBOND 1 CYS A 3101 CYS A 3222 1555 1555 2.02 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