HEADER TRANSFERASE 13-OCT-17 6EQI TITLE STRUCTURE OF PINK1 BOUND TO UBIQUITIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: NB696; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: SERINE/THREONINE-PROTEIN KINASE PINK1, PUTATIVE; COMPND 12 CHAIN: C; COMPND 13 EC: 2.7.11.1; COMPND 14 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: UBC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: LAMA GLAMA; SOURCE 10 ORGANISM_COMMON: LLAMA; SOURCE 11 ORGANISM_TAXID: 9844; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 14 MOL_ID: 3; SOURCE 15 ORGANISM_SCIENTIFIC: PEDICULUS HUMANUS CORPORIS; SOURCE 16 ORGANISM_COMMON: HUMAN BODY LOUSE; SOURCE 17 ORGANISM_TAXID: 121224; SOURCE 18 GENE: 8239562, PHUM_PHUM577390; SOURCE 19 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 20 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PINK1 UBIQUITIN MITOPHAGY NANOBODY SUBSTRATE RECOGNITION COMPLEX KEYWDS 2 PARKINSON'S DISEASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.F.SCHUBERT,C.GLADKOVA,E.PARDON,J.L.WAGSTAFF,S.M.V.FREUND, AUTHOR 2 J.STEYAERT,S.MASLEN,D.KOMANDER REVDAT 5 17-JAN-24 6EQI 1 REMARK REVDAT 4 31-JAN-18 6EQI 1 REMARK REVDAT 3 20-DEC-17 6EQI 1 JRNL REVDAT 2 06-DEC-17 6EQI 1 JRNL REVDAT 1 08-NOV-17 6EQI 0 JRNL AUTH A.F.SCHUBERT,C.GLADKOVA,E.PARDON,J.L.WAGSTAFF,S.M.V.FREUND, JRNL AUTH 2 J.STEYAERT,S.L.MASLEN,D.KOMANDER JRNL TITL STRUCTURE OF PINK1 IN COMPLEX WITH ITS SUBSTRATE UBIQUITIN. JRNL REF NATURE V. 552 51 2017 JRNL REFN ESSN 1476-4687 JRNL PMID 29160309 JRNL DOI 10.1038/NATURE24645 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.11.1_2575: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.83 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 17961 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.360 REMARK 3 FREE R VALUE TEST SET COUNT : 962 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 49.8373 - 5.9280 0.98 2519 135 0.2037 0.2114 REMARK 3 2 5.9280 - 4.7064 1.00 2447 136 0.2035 0.2206 REMARK 3 3 4.7064 - 4.1118 1.00 2444 137 0.1757 0.2110 REMARK 3 4 4.1118 - 3.7360 1.00 2383 144 0.1993 0.2669 REMARK 3 5 3.7360 - 3.4683 1.00 2408 134 0.2200 0.3000 REMARK 3 6 3.4683 - 3.2638 1.00 2408 137 0.2234 0.2381 REMARK 3 7 3.2638 - 3.1004 1.00 2390 139 0.2540 0.2782 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.300 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.004 4531 REMARK 3 ANGLE : 0.648 6175 REMARK 3 CHIRALITY : 0.043 716 REMARK 3 PLANARITY : 0.004 790 REMARK 3 DIHEDRAL : 14.854 2704 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): 45.4091 -8.2131 23.1265 REMARK 3 T TENSOR REMARK 3 T11: 1.2415 T22: 0.8044 REMARK 3 T33: 0.9443 T12: -0.1657 REMARK 3 T13: -0.1931 T23: 0.0838 REMARK 3 L TENSOR REMARK 3 L11: 3.7541 L22: 5.0886 REMARK 3 L33: 4.6559 L12: 0.0634 REMARK 3 L13: -0.3589 L23: 0.1292 REMARK 3 S TENSOR REMARK 3 S11: 0.2721 S12: -0.0675 S13: -0.8580 REMARK 3 S21: 0.0316 S22: 0.0060 S23: 0.3204 REMARK 3 S31: 1.6898 S32: -0.4556 S33: -0.1853 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): 39.7992 15.0230 4.3828 REMARK 3 T TENSOR REMARK 3 T11: 0.4833 T22: 0.5115 REMARK 3 T33: 0.4614 T12: 0.0329 REMARK 3 T13: 0.0009 T23: -0.0171 REMARK 3 L TENSOR REMARK 3 L11: 1.7495 L22: 2.9363 REMARK 3 L33: 3.7027 L12: -0.6711 REMARK 3 L13: 0.9849 L23: -1.1546 REMARK 3 S TENSOR REMARK 3 S11: 0.0123 S12: 0.0801 S13: -0.1630 REMARK 3 S21: -0.0737 S22: 0.1638 S23: -0.1325 REMARK 3 S31: 0.1832 S32: -0.0605 S33: -0.1516 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN C REMARK 3 ORIGIN FOR THE GROUP (A): 69.8504 7.3107 21.9446 REMARK 3 T TENSOR REMARK 3 T11: 0.4806 T22: 0.4521 REMARK 3 T33: 0.4620 T12: -0.0299 REMARK 3 T13: -0.0329 T23: -0.0076 REMARK 3 L TENSOR REMARK 3 L11: 2.9498 L22: 1.5259 REMARK 3 L33: 1.7162 L12: -0.2524 REMARK 3 L13: -0.0563 L23: 0.0763 REMARK 3 S TENSOR REMARK 3 S11: 0.0200 S12: 0.2138 S13: -0.0734 REMARK 3 S21: -0.0323 S22: 0.0350 S23: -0.0356 REMARK 3 S31: 0.0598 S32: 0.0246 S33: -0.0593 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6EQI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 13-OCT-17. REMARK 100 THE DEPOSITION ID IS D_1200007069. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-APR-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : PH 6-7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18000 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 49.830 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.14000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.6700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 1.18000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3Q5I REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THE PHPINK1-NB696-UB TVLN COMPLEX WAS REMARK 280 CRYSTALLISED AT 7 MG/ML USING SITTING-DROP VAPOUR DIFFUSION REMARK 280 AGAINST 1.3 M AMMONIUM TARTRATE DIBASIC, 0.1 M BIS-TRIS PROPANE REMARK 280 PH 7.0 FROM A 1:1 PROTEIN TO MOTHER LIQUOR RATIO, IN 100 NL REMARK 280 DROPS AT 295.15 K. CRYSTALS WERE OPTIMISED USING STREAK SEEDING REMARK 280 WITH A CAT WHISKER AT 8.9 MG/ML COMPLEX CONCENTRATION IN 1.4 M REMARK 280 AMMONIUM TARTRATE, 0.1 M BIS-TRIS PROPANE PH 6.3 AT 295.15 K., REMARK 280 VAPOR DIFFUSION, SITTING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.81700 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 99.63400 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 99.63400 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 49.81700 REMARK 290 REMARK 290 REMARK: NULL 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 ARG A 74 REMARK 465 GLY A 75 REMARK 465 GLY A 76 REMARK 465 GLY B 72 REMARK 465 SER B 73 REMARK 465 HIS B 127 REMARK 465 HIS B 128 REMARK 465 HIS B 129 REMARK 465 HIS B 130 REMARK 465 GLU B 131 REMARK 465 PRO B 132 REMARK 465 GLU B 133 REMARK 465 ALA B 134 REMARK 465 SER C 143 REMARK 465 GLU C 144 REMARK 465 SER C 145 REMARK 465 GLU C 146 REMARK 465 VAL C 181 REMARK 465 GLN C 182 REMARK 465 SER C 183 REMARK 465 ASN C 184 REMARK 465 LYS C 185 REMARK 465 LEU C 186 REMARK 465 LEU C 227 REMARK 465 PHE C 228 REMARK 465 LEU C 514 REMARK 465 CYS C 515 REMARK 465 GLU C 516 REMARK 465 ARG C 517 REMARK 465 ASP C 518 REMARK 465 ILE C 519 REMARK 465 THR C 520 REMARK 465 ALA C 521 REMARK 465 ARG C 522 REMARK 465 ASN C 523 REMARK 465 LYS C 524 REMARK 465 THR C 525 REMARK 465 ASN C 526 REMARK 465 THR C 527 REMARK 465 MET C 528 REMARK 465 SER C 529 REMARK 465 GLU C 530 REMARK 465 SER C 531 REMARK 465 VAL C 532 REMARK 465 SER C 533 REMARK 465 LYS C 534 REMARK 465 ALA C 535 REMARK 465 GLN C 536 REMARK 465 TYR C 537 REMARK 465 LYS C 538 REMARK 465 ASN C 575 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 LYS A 6 CG CD CE NZ REMARK 470 LEU A 8 CG CD1 CD2 REMARK 470 LYS A 11 CG CD CE NZ REMARK 470 GLU A 24 CG CD OE1 OE2 REMARK 470 GLN A 31 CG CD OE1 NE2 REMARK 470 ASP A 32 CG OD1 OD2 REMARK 470 LYS A 33 CG CD CE NZ REMARK 470 GLN A 40 CG CD OE1 NE2 REMARK 470 GLN A 62 CG CD OE1 NE2 REMARK 470 LYS A 63 CG CD CE NZ REMARK 470 GLU A 64 CG CD OE1 OE2 REMARK 470 LEU A 73 CG CD1 CD2 REMARK 470 GLN B 3 CG CD OE1 NE2 REMARK 470 SER B 25 OG REMARK 470 GLU B 44 CG CD OE1 OE2 REMARK 470 SER B 49 OG REMARK 470 SER B 56 OG REMARK 470 SER B 70 OG REMARK 470 THR B 74 OG1 CG2 REMARK 470 LYS B 75 CG CD CE NZ REMARK 470 GLU B 88 CG CD OE1 OE2 REMARK 470 SER B 98 OG REMARK 470 SER B 109 OG REMARK 470 GLN B 116 CG CD OE1 NE2 REMARK 470 SER B 124 OG REMARK 470 HIS B 126 CG ND1 CD2 CE1 NE2 REMARK 470 ASN C 147 CG OD1 ND2 REMARK 470 VAL C 148 CG1 CG2 REMARK 470 GLU C 149 CG CD OE1 OE2 REMARK 470 GLN C 150 CG CD OE1 NE2 REMARK 470 ASP C 157 CG OD1 OD2 REMARK 470 SER C 175 OG REMARK 470 ASN C 180 CG OD1 ND2 REMARK 470 HIS C 188 CG ND1 CD2 CE1 NE2 REMARK 470 GLN C 189 CG CD OE1 NE2 REMARK 470 GLU C 201 CG CD OE1 OE2 REMARK 470 LYS C 209 CG CD CE NZ REMARK 470 ASN C 226 CG OD1 ND2 REMARK 470 ASN C 229 CG OD1 ND2 REMARK 470 ILE C 230 CG1 CG2 CD1 REMARK 470 GLU C 231 CG CD OE1 OE2 REMARK 470 ILE C 233 CG1 CG2 CD1 REMARK 470 ASP C 235 CG OD1 OD2 REMARK 470 LYS C 264 CG CD CE NZ REMARK 470 GLU C 278 CG CD OE1 OE2 REMARK 470 LYS C 304 CG CD CE NZ REMARK 470 SER C 331 OG REMARK 470 SER C 345 OG REMARK 470 GLU C 346 CG CD OE1 OE2 REMARK 470 ASP C 348 CG OD1 OD2 REMARK 470 LYS C 365 CG CD CE NZ REMARK 470 ASP C 377 CG OD1 OD2 REMARK 470 ARG C 384 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 395 CG CD CE NZ REMARK 470 LYS C 405 CG CD CE NZ REMARK 470 LYS C 429 CG CD CE NZ REMARK 470 THR C 430 OG1 CG2 REMARK 470 LYS C 432 CG CD CE NZ REMARK 470 SER C 435 OG REMARK 470 LYS C 439 CG CD CE NZ REMARK 470 GLU C 445 CG CD OE1 OE2 REMARK 470 ASP C 448 CG OD1 OD2 REMARK 470 SER C 459 OG REMARK 470 ASN C 467 CG OD1 ND2 REMARK 470 LYS C 468 CG CD CE NZ REMARK 470 SER C 487 OG REMARK 470 LEU C 490 CG CD1 CD2 REMARK 470 LYS C 491 CG CD CE NZ REMARK 470 GLU C 492 CG CD OE1 OE2 REMARK 470 ASN C 493 CG OD1 ND2 REMARK 470 TYR C 494 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 THR C 495 OG1 CG2 REMARK 470 LEU C 496 CG CD1 CD2 REMARK 470 SER C 499 OG REMARK 470 GLU C 501 CG CD OE1 OE2 REMARK 470 SER C 510 OG REMARK 470 SER C 511 OG REMARK 470 LYS C 512 CG CD CE NZ REMARK 470 ARG C 540 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 541 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 554 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 562 CG CD NE CZ NH1 NH2 REMARK 470 LYS C 566 CG CD CE NZ REMARK 470 GLN C 569 CG CD OE1 NE2 REMARK 470 GLU C 570 CG CD OE1 OE2 REMARK 470 ILE C 573 CG1 CG2 CD1 REMARK 470 TYR C 574 CG CD1 CD2 CE1 CE2 CZ OH 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 LYS A 63 -174.54 -67.34 REMARK 500 SER A 65 118.86 -161.87 REMARK 500 PHE B 32 -73.50 -123.29 REMARK 500 ASP C 199 24.74 -141.60 REMARK 500 SEP C 202 63.32 -67.94 REMARK 500 PHE C 223 -178.60 -176.04 REMARK 500 PHE C 236 -81.80 -40.72 REMARK 500 TYR C 267 52.99 -145.64 REMARK 500 ARG C 333 7.20 53.73 REMARK 500 ASP C 334 36.81 -142.94 REMARK 500 ASN C 339 32.02 -86.92 REMARK 500 TYR C 350 68.71 -119.84 REMARK 500 GLU C 492 66.54 -66.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 602 DBREF 6EQI A 1 76 UNP P0CG48 UBC_HUMAN 1 76 DBREF 6EQI B 1 134 PDB 6EQI 6EQI 1 134 DBREF 6EQI C 143 575 UNP E0W1I1 E0W1I1_PEDHC 143 575 SEQADV 6EQI VAL A 66 UNP P0CG48 THR 66 ENGINEERED MUTATION SEQADV 6EQI ASN A 67 UNP P0CG48 LEU 67 ENGINEERED MUTATION SEQRES 1 A 76 MET GLN ILE PHE VAL LYS THR LEU THR GLY LYS THR ILE SEQRES 2 A 76 THR LEU GLU VAL GLU PRO SER ASP THR ILE GLU ASN VAL SEQRES 3 A 76 LYS ALA LYS ILE GLN ASP LYS GLU GLY ILE PRO PRO ASP SEQRES 4 A 76 GLN GLN ARG LEU ILE PHE ALA GLY LYS GLN LEU GLU ASP SEQRES 5 A 76 GLY ARG THR LEU SER ASP TYR ASN ILE GLN LYS GLU SER SEQRES 6 A 76 VAL ASN HIS LEU VAL LEU ARG LEU ARG GLY GLY SEQRES 1 B 134 GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 B 134 ALA GLY GLY SER LEU LYS LEU SER CYS THR THR SER GLY SEQRES 3 B 134 ARG PRO PHE SER THR PHE ASP LEU ALA TRP PHE ARG GLN SEQRES 4 B 134 ALA PRO GLY LYS GLU ARG GLU PHE VAL SER GLY LEU ARG SEQRES 5 B 134 ARG GLY GLY SER THR PHE TYR ALA ASP SER VAL SER GLY SEQRES 6 B 134 ARG PHE THR ILE SER GLY GLY SER THR LYS ASN THR LEU SEQRES 7 B 134 TYR LEU GLN MET ASN SER LEU LYS PRO GLU ASP THR ALA SEQRES 8 B 134 ILE TYR TYR CYS ALA ARG SER ILE THR GLY TYR GLY LEU SEQRES 9 B 134 VAL ASP SER ALA SER HIS TYR THR ILE TRP GLY GLN GLY SEQRES 10 B 134 THR GLN VAL THR VAL SER SER HIS HIS HIS HIS HIS HIS SEQRES 11 B 134 GLU PRO GLU ALA SEQRES 1 C 433 SER GLU SER GLU ASN VAL GLU GLN LEU GLN ALA ALA ASN SEQRES 2 C 433 LEU ASP GLU LEU ASP LEU GLY GLU PRO ILE ALA LYS GLY SEQRES 3 C 433 CYS ASN ALA VAL VAL TYR SER ALA LYS LEU LYS ASN VAL SEQRES 4 C 433 GLN SER ASN LYS LEU ALA HIS GLN LEU ALA VAL LYS MET SEQRES 5 C 433 MET PHE ASN TYR ASP VAL GLU SEP ASN SEP THR ALA ILE SEQRES 6 C 433 LEU LYS ALA MET TYR ARG GLU THR VAL PRO ALA MET SER SEQRES 7 C 433 TYR PHE PHE ASN GLN ASN LEU PHE ASN ILE GLU ASN ILE SEQRES 8 C 433 SER ASP PHE LYS ILE ARG LEU PRO PRO HIS PRO ASN ILE SEQRES 9 C 433 VAL ARG MET TYR SER VAL PHE ALA ASP ARG ILE PRO ASP SEQRES 10 C 433 LEU GLN CYS ASN LYS GLN LEU TYR PRO GLU ALA LEU PRO SEQRES 11 C 433 PRO ARG ILE ASN PRO GLU GLY SER GLY ARG ASN MET SER SEQRES 12 C 433 LEU PHE LEU VAL MET LYS ARG TYR ASP CYS THR LEU LYS SEQRES 13 C 433 GLU TYR LEU ARG ASP LYS TPO PRO ASN MET ARG SER SER SEQRES 14 C 433 ILE LEU LEU LEU SER GLN LEU LEU GLU ALA VAL ALA HIS SEQRES 15 C 433 MET ASN ILE HIS ASN ILE SER HIS ARG ASP LEU LYS SER SEQRES 16 C 433 ASP ASN ILE LEU VAL ASP LEU SER GLU GLY ASP ALA TYR SEQRES 17 C 433 PRO THR ILE VAL ILE THR ASP PHE GLY CYS CYS LEU CYS SEQRES 18 C 433 ASP LYS GLN ASN GLY LEU VAL ILE PRO TYR ARG SER GLU SEQRES 19 C 433 ASP GLN ASP LYS GLY GLY ASN ARG ALA LEU MET ALA PRO SEQRES 20 C 433 GLU ILE ALA ASN ALA LYS PRO GLY THR PHE SER TRP LEU SEQRES 21 C 433 ASN TYR LYS LYS SER ASP LEU TRP ALA VAL GLY ALA ILE SEQRES 22 C 433 ALA TYR GLU ILE PHE ASN ILE ASP ASN PRO PHE TYR ASP SEQRES 23 C 433 LYS THR MET LYS LEU LEU SER LYS SER TYR LYS GLU GLU SEQRES 24 C 433 ASP LEU PRO GLU LEU PRO ASP THR ILE PRO PHE ILE ILE SEQRES 25 C 433 ARG ASN LEU VAL SER ASN MET LEU SER ARG SER THR ASN SEQRES 26 C 433 LYS ARG LEU ASP CYS ASP VAL ALA ALA THR VAL ALA GLN SEQRES 27 C 433 LEU TYR LEU TRP ALA PRO SER SER TRP LEU LYS GLU ASN SEQRES 28 C 433 TYR THR LEU PRO ASN SER ASN GLU ILE ILE GLN TRP LEU SEQRES 29 C 433 LEU CYS LEU SER SER LYS VAL LEU CYS GLU ARG ASP ILE SEQRES 30 C 433 THR ALA ARG ASN LYS THR ASN THR MET SER GLU SER VAL SEQRES 31 C 433 SER LYS ALA GLN TYR LYS GLY ARG ARG SER LEU PRO GLU SEQRES 32 C 433 TYR GLU LEU ILE ALA SER PHE LEU ARG ARG VAL ARG LEU SEQRES 33 C 433 HIS LEU VAL ARG LYS GLY LEU LYS TRP ILE GLN GLU LEU SEQRES 34 C 433 HIS ILE TYR ASN MODRES 6EQI SEP C 202 SER MODIFIED RESIDUE MODRES 6EQI SEP C 204 SER MODIFIED RESIDUE MODRES 6EQI TPO C 305 THR MODIFIED RESIDUE HET SEP C 202 10 HET SEP C 204 10 HET TPO C 305 11 HET GOL B 201 6 HET GOL C 601 6 HET GOL C 602 6 HETNAM SEP PHOSPHOSERINE HETNAM TPO PHOSPHOTHREONINE HETNAM GOL GLYCEROL HETSYN SEP PHOSPHONOSERINE HETSYN TPO PHOSPHONOTHREONINE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 SEP 2(C3 H8 N O6 P) FORMUL 3 TPO C4 H10 N O6 P FORMUL 4 GOL 3(C3 H8 O3) FORMUL 7 HOH *9(H2 O) HELIX 1 AA1 THR A 22 GLY A 35 1 14 HELIX 2 AA2 LEU A 56 ASN A 60 5 5 HELIX 3 AA3 LYS B 86 THR B 90 5 5 HELIX 4 AA4 SER B 107 SER B 109 5 3 HELIX 5 AA5 ASN C 155 LEU C 159 5 5 HELIX 6 AA6 ASN C 203 MET C 211 1 9 HELIX 7 AA7 ILE C 230 PHE C 236 1 7 HELIX 8 AA8 CYS C 262 TYR C 267 1 6 HELIX 9 AA9 PRO C 268 LEU C 271 5 4 HELIX 10 AB1 LEU C 297 LYS C 304 1 8 HELIX 11 AB2 ASN C 307 HIS C 328 1 22 HELIX 12 AB3 LYS C 336 ASP C 338 5 3 HELIX 13 AB4 ALA C 388 ASN C 393 1 6 HELIX 14 AB5 LYS C 406 PHE C 420 1 15 HELIX 15 AB6 PRO C 451 LEU C 462 1 12 HELIX 16 AB7 ASP C 471 ALA C 485 1 15 HELIX 17 AB8 PRO C 486 LYS C 491 1 6 HELIX 18 AB9 ASN C 498 VAL C 513 1 16 HELIX 19 AC1 SER C 542 VAL C 556 1 15 HELIX 20 AC2 ARG C 557 ILE C 573 1 17 SHEET 1 AA1 5 ILE A 13 GLU A 16 0 SHEET 2 AA1 5 GLN A 2 LYS A 6 -1 N VAL A 5 O ILE A 13 SHEET 3 AA1 5 HIS A 68 ARG A 72 1 O LEU A 69 N PHE A 4 SHEET 4 AA1 5 ARG A 42 PHE A 45 -1 N ILE A 44 O VAL A 70 SHEET 5 AA1 5 LYS A 48 GLN A 49 -1 O LYS A 48 N PHE A 45 SHEET 1 AA2 4 GLN B 3 SER B 7 0 SHEET 2 AA2 4 SER B 17 SER B 25 -1 O SER B 25 N GLN B 3 SHEET 3 AA2 4 LEU B 78 ASN B 83 -1 O MET B 82 N LEU B 18 SHEET 4 AA2 4 PHE B 67 SER B 70 -1 N THR B 68 O GLN B 81 SHEET 1 AA3 6 LEU B 11 GLN B 13 0 SHEET 2 AA3 6 THR B 118 SER B 123 1 O THR B 121 N VAL B 12 SHEET 3 AA3 6 ALA B 91 SER B 98 -1 N ALA B 91 O VAL B 120 SHEET 4 AA3 6 LEU B 34 GLN B 39 -1 N PHE B 37 O TYR B 94 SHEET 5 AA3 6 GLU B 46 LEU B 51 -1 O GLU B 46 N ARG B 38 SHEET 6 AA3 6 THR B 57 TYR B 59 -1 O PHE B 58 N GLY B 50 SHEET 1 AA4 4 LEU B 11 GLN B 13 0 SHEET 2 AA4 4 THR B 118 SER B 123 1 O THR B 121 N VAL B 12 SHEET 3 AA4 4 ALA B 91 SER B 98 -1 N ALA B 91 O VAL B 120 SHEET 4 AA4 4 TYR B 111 TRP B 114 -1 O ILE B 113 N ARG B 97 SHEET 1 AA5 6 PRO C 164 LYS C 167 0 SHEET 2 AA5 6 ALA C 171 ALA C 176 -1 O VAL C 173 N ILE C 165 SHEET 3 AA5 6 LEU C 190 MET C 195 -1 O VAL C 192 N TYR C 174 SHEET 4 AA5 6 MET C 284 LYS C 291 -1 O MET C 290 N ALA C 191 SHEET 5 AA5 6 MET C 249 ARG C 256 -1 N SER C 251 O VAL C 289 SHEET 6 AA5 6 TYR C 221 PHE C 222 1 N PHE C 222 O VAL C 252 SHEET 1 AA6 3 CYS C 295 THR C 296 0 SHEET 2 AA6 3 ILE C 340 ASP C 343 -1 O VAL C 342 N CYS C 295 SHEET 3 AA6 3 THR C 352 ILE C 355 -1 O THR C 352 N ASP C 343 SHEET 1 AA7 2 VAL C 370 PRO C 372 0 SHEET 2 AA7 2 TRP C 401 ASN C 403 -1 O LEU C 402 N ILE C 371 SSBOND 1 CYS B 22 CYS B 95 1555 1555 2.04 LINK C GLU C 201 N SEP C 202 1555 1555 1.33 LINK C SEP C 202 N ASN C 203 1555 1555 1.33 LINK C ASN C 203 N SEP C 204 1555 1555 1.33 LINK C SEP C 204 N THR C 205 1555 1555 1.33 LINK C LYS C 304 N TPO C 305 1555 1555 1.33 LINK C TPO C 305 N PRO C 306 1555 1555 1.34 SITE 1 AC1 5 GLN B 1 PRO B 28 PHE B 29 ILE B 113 SITE 2 AC1 5 GLU C 163 SITE 1 AC2 3 PHE C 236 LYS C 237 ARG C 239 SITE 1 AC3 7 ARG B 53 LYS C 298 LYS C 336 SER C 337 SITE 2 AC3 7 ASP C 338 GLU C 418 TYR C 427 CRYST1 105.711 105.711 149.451 90.00 90.00 120.00 P 31 2 1 6 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 0.009460 0.005462 0.000000 0.00000 SCALE2 0.000000 0.010923 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006691 0.00000