HEADER MOTOR PROTEIN 17-AUG-16 5GSY TITLE KINESIN-8 MOTOR, KIF19A, IN THE NUCLEOTIDE-FREE STATE COMPLEXED WITH TITLE 2 GDP-TAXOL MICROTUBULE COMPND MOL_ID: 1; COMPND 2 MOLECULE: KINESIN-LIKE PROTEIN KIF19; COMPND 3 CHAIN: K; COMPND 4 FRAGMENT: UNP RESIDUES 1-353; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: KIF19, KIF19A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI-PICHIA PASTORIS SHUTTLE VECTOR SOURCE 7 PPPARG4; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 1182032; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET21B KEYWDS KINESIN-8, KIF19A, GDP-TAXOL-MICROTUBULE, PLUS-END DIRECTED MOTOR, KEYWDS 2 MICROTUBULE DEPOLYMERIZATION, MOTOR PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR M.MORIKAWA,R.NITTA,H.YAJIMA,H.SHIGEMATSU,M.KIKKAWA,N.HIROKAWA REVDAT 3 27-MAR-24 5GSY 1 REMARK REVDAT 2 19-OCT-16 5GSY 1 JRNL REVDAT 1 28-SEP-16 5GSY 0 JRNL AUTH D.WANG,R.NITTA,M.MORIKAWA,H.YAJIMA,S.INOUE,H.SHIGEMATSU, JRNL AUTH 2 M.KIKKAWA,N.HIROKAWA JRNL TITL MOTILITY AND MICROTUBULE DEPOLYMERIZATION MECHANISMS OF THE JRNL TITL 2 KINESIN-8 MOTOR, KIF19A JRNL REF ELIFE V. 5 2016 JRNL REFN ESSN 2050-084X JRNL PMID 27690357 JRNL DOI 10.7554/ELIFE.18101 REMARK 2 REMARK 2 RESOLUTION. 7.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 7.000 REMARK 3 NUMBER OF PARTICLES : 471380 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: HIGH-RESOLUTION NOISE SUBSTITUTION WAS PERFORMED. REMARK 4 REMARK 4 5GSY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1300001384. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : HELICAL REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : FILAMENT REMARK 245 PARTICLE TYPE : HELICAL REMARK 245 NAME OF SAMPLE : KIF19A MOTOR DOMAIN COMPLEXED REMARK 245 WITH GDP-TAXOL-MT REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.50 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TECNAI ARCTICA REMARK 245 DETECTOR TYPE : FEI FALCON II (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : NULL REMARK 245 MAXIMUM DEFOCUS (NM) : NULL REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.70 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 5000.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 200 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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: K 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET K 1 REMARK 465 LYS K 2 REMARK 465 ASP K 3 REMARK 465 SER K 4 REMARK 465 GLY K 5 REMARK 465 ASP K 6 REMARK 465 SER K 7 REMARK 465 LYS K 8 REMARK 465 ASP K 9 REMARK 465 GLN K 10 REMARK 465 ALA K 212 REMARK 465 ALA K 213 REMARK 465 ASN K 214 REMARK 465 ALA K 343 REMARK 465 LYS K 344 REMARK 465 ASN K 345 REMARK 465 ILE K 346 REMARK 465 ARG K 347 REMARK 465 THR K 348 REMARK 465 ARG K 349 REMARK 465 VAL K 350 REMARK 465 LYS K 351 REMARK 465 GLN K 352 REMARK 465 ASN K 353 REMARK 465 HIS K 354 REMARK 465 HIS K 355 REMARK 465 HIS K 356 REMARK 465 HIS K 357 REMARK 465 HIS K 358 REMARK 465 HIS K 359 REMARK 465 HIS K 360 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLU K 28 CG CD OE1 OE2 REMARK 470 GLU K 49 CG CD OE1 OE2 REMARK 470 ASP K 52 CG OD1 OD2 REMARK 470 LEU K 55 CG CD1 CD2 REMARK 470 ARG K 56 CG CD NE CZ NH1 NH2 REMARK 470 HIS K 58 CG ND1 CD2 CE1 NE2 REMARK 470 ARG K 59 CG CD NE CZ NH1 NH2 REMARK 470 SER K 60 OG REMARK 470 ARG K 61 CG CD NE CZ NH1 NH2 REMARK 470 GLU K 62 CG CD OE1 OE2 REMARK 470 LEU K 66 CG CD1 CD2 REMARK 470 GLU K 90 CG CD OE1 OE2 REMARK 470 HIS K 119 CG ND1 CD2 CE1 NE2 REMARK 470 GLU K 137 CG CD OE1 OE2 REMARK 470 GLU K 170 CG CD OE1 OE2 REMARK 470 ARG K 172 CG CD NE CZ NH1 NH2 REMARK 470 GLU K 173 CG CD OE1 OE2 REMARK 470 GLN K 180 CG CD OE1 NE2 REMARK 470 ILE K 190 CG1 CG2 CD1 REMARK 470 LYS K 193 CG CD CE NZ REMARK 470 GLN K 197 CG CD OE1 NE2 REMARK 470 LYS K 201 CG CD CE NZ REMARK 470 GLN K 208 CG CD OE1 NE2 REMARK 470 GLN K 215 CG CD OE1 NE2 REMARK 470 GLU K 240 CG CD OE1 OE2 REMARK 470 ASN K 293 CG OD1 ND2 REMARK 470 LYS K 294 CG CD CE NZ REMARK 470 LYS K 308 CG CD CE NZ REMARK 470 ASP K 309 CG OD1 OD2 REMARK 470 LEU K 311 CG CD1 CD2 REMARK 470 ASN K 314 CG OD1 ND2 REMARK 470 GLU K 331 CG CD OE1 OE2 REMARK 470 ARG K 342 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 OE2 GLU K 152 CG ARG K 206 2.05 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 GLN K 40 21.61 -151.37 REMARK 500 PRO K 47 -159.01 -83.30 REMARK 500 GLU K 49 113.77 -168.87 REMARK 500 ASP K 50 -171.09 -56.95 REMARK 500 ASP K 52 -134.60 -69.45 REMARK 500 ILE K 54 11.52 58.03 REMARK 500 ARG K 56 64.97 97.84 REMARK 500 ALA K 57 41.68 38.02 REMARK 500 SER K 60 133.06 73.41 REMARK 500 ARG K 61 -98.30 65.41 REMARK 500 ASP K 72 -163.55 -119.11 REMARK 500 THR K 138 12.95 -140.99 REMARK 500 GLU K 156 14.93 56.76 REMARK 500 ARG K 159 -17.90 -144.58 REMARK 500 ASP K 160 -37.58 76.42 REMARK 500 LEU K 161 -0.40 76.58 REMARK 500 LEU K 162 -89.10 -137.48 REMARK 500 ALA K 165 -8.46 179.86 REMARK 500 TYR K 168 67.73 -157.11 REMARK 500 THR K 185 160.69 -45.30 REMARK 500 SER K 218 18.82 -65.80 REMARK 500 GLN K 239 137.66 62.32 REMARK 500 LEU K 251 -167.95 -107.53 REMARK 500 ALA K 252 -131.43 -105.90 REMARK 500 THR K 260 -42.12 74.90 REMARK 500 ASP K 289 -164.72 -115.12 REMARK 500 LYS K 290 140.33 -28.28 REMARK 500 ASN K 293 -49.96 -178.11 REMARK 500 TYR K 295 9.01 176.02 REMARK 500 ILE K 296 117.94 60.14 REMARK 500 ARG K 299 -1.79 -57.35 REMARK 500 SER K 301 -168.33 -169.29 REMARK 500 LEU K 303 -21.70 72.82 REMARK 500 SER K 310 -161.53 -77.85 REMARK 500 LEU K 311 89.64 35.09 REMARK 500 ASN K 314 35.40 -87.82 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 MET K 37 ASP K 38 -148.91 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-9538 RELATED DB: EMDB REMARK 900 KINESIN-8 MOTOR, KIF19A, IN THE NUCLEOTIDE-FREE STATE COMPLEXED REMARK 900 WITH GDP-TAXOL MICROTUBULE DBREF 5GSY K 1 353 UNP Q99PT9 KIF19_MOUSE 1 353 SEQADV 5GSY HIS K 354 UNP Q99PT9 EXPRESSION TAG SEQADV 5GSY HIS K 355 UNP Q99PT9 EXPRESSION TAG SEQADV 5GSY HIS K 356 UNP Q99PT9 EXPRESSION TAG SEQADV 5GSY HIS K 357 UNP Q99PT9 EXPRESSION TAG SEQADV 5GSY HIS K 358 UNP Q99PT9 EXPRESSION TAG SEQADV 5GSY HIS K 359 UNP Q99PT9 EXPRESSION TAG SEQADV 5GSY HIS K 360 UNP Q99PT9 EXPRESSION TAG SEQRES 1 K 360 MET LYS ASP SER GLY ASP SER LYS ASP GLN GLN LEU MET SEQRES 2 K 360 VAL ALA LEU ARG VAL ARG PRO ILE SER VAL ALA GLU LEU SEQRES 3 K 360 GLU GLU GLY ALA THR LEU ILE ALA HIS LYS MET ASP GLU SEQRES 4 K 360 GLN MET VAL VAL LEU MET ASP PRO MET GLU ASP PRO ASP SEQRES 5 K 360 ASP ILE LEU ARG ALA HIS ARG SER ARG GLU LYS SER TYR SEQRES 6 K 360 LEU PHE ASP VAL ALA PHE ASP PHE THR ALA THR GLN GLU SEQRES 7 K 360 MET VAL TYR GLN ALA THR THR LYS SER LEU ILE GLU GLY SEQRES 8 K 360 VAL ILE SER GLY TYR ASN ALA THR VAL PHE ALA TYR GLY SEQRES 9 K 360 PRO THR GLY CYS GLY LYS THR TYR THR MET LEU GLY THR SEQRES 10 K 360 ASP HIS GLU PRO GLY ILE TYR VAL ARG THR LEU ASN ASP SEQRES 11 K 360 LEU PHE ARG ALA ILE GLU GLU THR SER ASN ASP MET GLU SEQRES 12 K 360 TYR GLU VAL SER MET SER TYR LEU GLU ILE TYR ASN GLU SEQRES 13 K 360 MET ILE ARG ASP LEU LEU ASN PRO ALA LEU GLY TYR LEU SEQRES 14 K 360 GLU LEU ARG GLU ASP SER LYS GLY VAL ILE GLN VAL ALA SEQRES 15 K 360 GLY ILE THR GLU VAL SER THR ILE ASN ALA LYS GLU ILE SEQRES 16 K 360 MET GLN LEU LEU MET LYS GLY ASN ARG GLN ARG THR GLN SEQRES 17 K 360 GLU PRO THR ALA ALA ASN GLN THR SER SER ARG SER HIS SEQRES 18 K 360 ALA VAL LEU GLN VAL ALA VAL ARG GLN ARG SER ARG VAL SEQRES 19 K 360 LYS ASN ILE LEU GLN GLU VAL ARG GLN GLY ARG LEU PHE SEQRES 20 K 360 MET ILE ASP LEU ALA GLY SER GLU ARG ALA SER GLN THR SEQRES 21 K 360 GLN ASN ARG GLY GLN ARG MET LYS GLU GLY ALA HIS ILE SEQRES 22 K 360 ASN ARG SER LEU LEU ALA LEU GLY ASN CYS ILE ASN ALA SEQRES 23 K 360 LEU SER ASP LYS GLY SER ASN LYS TYR ILE ASN TYR ARG SEQRES 24 K 360 ASP SER LYS LEU THR ARG LEU LEU LYS ASP SER LEU GLY SEQRES 25 K 360 GLY ASN SER ARG THR VAL MET ILE ALA HIS ILE SER PRO SEQRES 26 K 360 ALA SER THR ALA PHE GLU GLU SER ARG ASN THR LEU THR SEQRES 27 K 360 TYR ALA GLY ARG ALA LYS ASN ILE ARG THR ARG VAL LYS SEQRES 28 K 360 GLN ASN HIS HIS HIS HIS HIS HIS HIS HELIX 1 AA1 SER K 22 GLY K 29 1 8 HELIX 2 AA2 THR K 76 THR K 85 1 10 HELIX 3 AA3 SER K 87 SER K 94 1 8 HELIX 4 AA4 GLY K 109 LEU K 115 1 7 HELIX 5 AA5 GLY K 122 GLU K 137 1 16 HELIX 6 AA6 ASN K 191 ARG K 204 1 14 HELIX 7 AA7 ARG K 263 ASP K 289 1 27 HELIX 8 AA8 ASN K 297 SER K 301 5 5 HELIX 9 AA9 LEU K 303 LYS K 308 1 6 HELIX 10 AB1 ALA K 326 THR K 328 5 3 HELIX 11 AB2 ALA K 329 GLY K 341 1 13 SHEET 1 AA1 8 VAL K 69 PHE K 71 0 SHEET 2 AA1 8 LEU K 12 VAL K 18 1 N VAL K 18 O PHE K 71 SHEET 3 AA1 8 ARG K 316 ILE K 323 1 O ALA K 321 N ARG K 17 SHEET 4 AA1 8 ALA K 98 TYR K 103 1 N THR K 99 O VAL K 318 SHEET 5 AA1 8 ARG K 242 ASP K 250 1 O ILE K 249 N VAL K 100 SHEET 6 AA1 8 SER K 220 SER K 232 -1 N LEU K 224 O MET K 248 SHEET 7 AA1 8 MET K 142 TYR K 154 -1 N SER K 147 O ALA K 227 SHEET 8 AA1 8 MET K 157 ILE K 158 -1 O MET K 157 N TYR K 154 SHEET 1 AA2 3 ALA K 34 LYS K 36 0 SHEET 2 AA2 3 MET K 41 MET K 45 -1 O VAL K 43 N HIS K 35 SHEET 3 AA2 3 GLU K 62 LEU K 66 -1 O TYR K 65 N VAL K 42 SHEET 1 AA3 2 LEU K 171 GLU K 173 0 SHEET 2 AA3 2 ILE K 179 VAL K 181 -1 O GLN K 180 N ARG K 172 CISPEP 1 ASP K 50 PRO K 51 0 -0.73 CISPEP 2 ASP K 52 ASP K 53 0 -0.93 CISPEP 3 ARG K 56 ALA K 57 0 -25.53 CISPEP 4 SER K 60 ARG K 61 0 12.74 CISPEP 5 LYS K 290 GLY K 291 0 -0.03 CISPEP 6 SER K 292 ASN K 293 0 -0.02 CISPEP 7 ASN K 293 LYS K 294 0 0.03 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