HEADER ENDOCYTOSIS 09-APR-24 9EYT TITLE CRYSTAL STRUCTURE OF YEAST CLATHRIN HEAVY CHAIN N-TERMINAL DOMAIN TITLE 2 BOUND TO EPSIN-1 PEPTIDE (LIDL) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CLATHRIN HEAVY CHAIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: EPSIN-1; COMPND 7 CHAIN: E, G, M; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 3 ORGANISM_TAXID: 559292; SOURCE 4 ATCC: 204508; SOURCE 5 GENE: CHC1, YGL206C; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 11 ORGANISM_COMMON: BREWER'S YEAST; SOURCE 12 ORGANISM_TAXID: 4932 KEYWDS CLATHRIN, ENT1, ADAPTOR PROTEIN, ENDOCYTOSIS EXPDTA X-RAY DIFFRACTION AUTHOR L.A.DEFELIPE,I.BENTO,M.M.GARCIA ALAI REVDAT 2 27-NOV-24 9EYT 1 JRNL REVDAT 1 13-NOV-24 9EYT 0 JRNL AUTH L.A.DEFELIPE,K.VEITH,O.BURASTERO,T.KUPRIIANOVA,I.BENTO, JRNL AUTH 2 M.SKRUZNY,K.KOLBEL,C.UETRECHT,R.THUENAUER,M.M.GARCIA-ALAI JRNL TITL SUBTLETIES IN CLATHRIN HEAVY CHAIN BINDING BOXES PROVIDE JRNL TITL 2 SELECTIVITY AMONG ADAPTOR PROTEINS OF BUDDING YEAST. JRNL REF NAT COMMUN V. 15 9655 2024 JRNL REFN ESSN 2041-1723 JRNL PMID 39511183 JRNL DOI 10.1038/S41467-024-54037-Z REMARK 2 REMARK 2 RESOLUTION. 1.74 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0425 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.74 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 63.73 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 43435 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.230 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.876 REMARK 3 FREE R VALUE TEST SET COUNT : 2118 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.74 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.79 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2979 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2970 REMARK 3 BIN FREE R VALUE SET COUNT : 163 REMARK 3 BIN FREE R VALUE : 0.3050 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2995 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 324 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.91600 REMARK 3 B22 (A**2) : 0.91600 REMARK 3 B33 (A**2) : -1.83200 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.113 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.116 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.089 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.387 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.968 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3062 ; 0.009 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 2918 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4174 ; 1.687 ; 1.785 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6693 ; 0.573 ; 1.734 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 389 ; 7.451 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 13 ; 6.658 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 501 ;11.701 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 503 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3617 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 697 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 484 ; 0.192 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 45 ; 0.224 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1478 ; 0.174 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 246 ; 0.187 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1559 ; 2.337 ; 2.417 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1559 ; 2.336 ; 2.417 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1944 ; 3.437 ; 4.333 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1945 ; 3.437 ; 4.333 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1503 ; 2.826 ; 2.649 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1504 ; 2.825 ; 2.650 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2229 ; 4.281 ; 4.752 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2230 ; 4.280 ; 4.752 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : Ap 1 Ap 369 REMARK 3 ORIGIN FOR THE GROUP (A): 10.5277 27.3246 20.2407 REMARK 3 T TENSOR REMARK 3 T11: 0.1023 T22: 0.0152 REMARK 3 T33: 0.0743 T12: -0.0118 REMARK 3 T13: -0.0262 T23: 0.0296 REMARK 3 L TENSOR REMARK 3 L11: 0.8798 L22: 0.8782 REMARK 3 L33: 2.7049 L12: -0.0233 REMARK 3 L13: -0.0378 L23: 0.2291 REMARK 3 S TENSOR REMARK 3 S11: -0.0714 S12: 0.0573 S13: 0.0099 REMARK 3 S21: -0.0338 S22: 0.0236 S23: 0.0704 REMARK 3 S31: -0.4968 S32: 0.0016 S33: 0.0479 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 0 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 ORIGIN FOR THE GROUP (A): -0.9775 9.8635 17.6416 REMARK 3 T TENSOR REMARK 3 T11: 0.1260 T22: 0.1433 REMARK 3 T33: 0.2037 T12: -0.0164 REMARK 3 T13: -0.0020 T23: -0.0191 REMARK 3 L TENSOR REMARK 3 L11: 3.5671 L22: 1.8315 REMARK 3 L33: 8.3424 L12: 0.1884 REMARK 3 L13: -1.2963 L23: -2.8191 REMARK 3 S TENSOR REMARK 3 S11: -0.0757 S12: -0.1178 S13: -0.1506 REMARK 3 S21: 0.1244 S22: 0.0571 S23: 0.0179 REMARK 3 S31: 0.2257 S32: -0.1727 S33: 0.0186 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 0 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 ORIGIN FOR THE GROUP (A): 17.2731 37.0301 46.1293 REMARK 3 T TENSOR REMARK 3 T11: 0.1958 T22: 0.2450 REMARK 3 T33: 0.2086 T12: -0.0410 REMARK 3 T13: -0.0111 T23: -0.0174 REMARK 3 L TENSOR REMARK 3 L11: 1.6471 L22: 3.7737 REMARK 3 L33: 6.7752 L12: -1.9022 REMARK 3 L13: -1.0769 L23: -1.7536 REMARK 3 S TENSOR REMARK 3 S11: -0.1211 S12: -0.1099 S13: -0.1365 REMARK 3 S21: 0.3235 S22: -0.0092 S23: 0.1734 REMARK 3 S31: -0.0909 S32: 0.1059 S33: 0.1303 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 0 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 ORIGIN FOR THE GROUP (A): 25.6684 20.2042 24.5037 REMARK 3 T TENSOR REMARK 3 T11: 0.1190 T22: 0.1652 REMARK 3 T33: 0.1733 T12: -0.0198 REMARK 3 T13: -0.0012 T23: 0.0081 REMARK 3 L TENSOR REMARK 3 L11: 4.3860 L22: 7.7575 REMARK 3 L33: 1.4200 L12: -0.3230 REMARK 3 L13: -1.5958 L23: 0.9765 REMARK 3 S TENSOR REMARK 3 S11: 0.0424 S12: -0.1130 S13: -0.1657 REMARK 3 S21: 0.2318 S22: -0.0553 S23: -0.2296 REMARK 3 S31: 0.0491 S32: 0.1537 S33: 0.0129 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK BULK SOLVENT REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 9EYT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-APR-24. REMARK 100 THE DEPOSITION ID IS D_1292137815. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-SEP-22 REMARK 200 TEMPERATURE (KELVIN) : 196 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PETRA III, EMBL C/O DESY REMARK 200 BEAMLINE : P13 (MX1) REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9763 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43582 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.740 REMARK 200 RESOLUTION RANGE LOW (A) : 127.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 26.00 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 9.04 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 127.3 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 18.40 REMARK 200 R MERGE FOR SHELL (I) : 0.03500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M POTASSIUM/SODIUM TARTRATE REMARK 280 20%(W/V) PEG 3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 127.30000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 28.15500 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 28.15500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 190.95000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 28.15500 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 28.15500 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 63.65000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 28.15500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 28.15500 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 190.95000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 28.15500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 28.15500 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 63.65000 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 127.30000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, E, G, M 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 GLY A -3 REMARK 465 ALA A -2 REMARK 465 MET A -1 REMARK 465 ALA A 0 REMARK 465 GLY E 1 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 MET A 1 CG SD CE REMARK 470 SER A 2 OG REMARK 470 LYS A 43 CG CD CE NZ REMARK 470 THR A 46 OG1 CG2 REMARK 470 LYS A 56 CG CD CE NZ REMARK 470 ARG A 125 NE CZ NH1 NH2 REMARK 470 LYS A 275 CE NZ REMARK 470 LYS A 327 CE NZ REMARK 470 TYR E 2 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 TYR M 2 CD1 CD2 CE1 CE2 CZ OH 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 HG1 THR A 205 H ASN A 206 1.31 REMARK 500 OG SER A 69 O HOH A 401 1.72 REMARK 500 O HOH A 545 O HOH A 644 2.06 REMARK 500 O HOH A 665 O HOH A 704 2.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 82 NE - CZ - NH1 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG A 183 CD - NE - CZ ANGL. DEV. = 8.6 DEGREES REMARK 500 ARG A 183 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES 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 PHE A 31 87.11 -155.53 REMARK 500 ASP A 44 -141.30 69.28 REMARK 500 LYS A 56 50.43 -100.05 REMARK 500 SER A 75 -37.70 -135.36 REMARK 500 PHE A 133 41.49 -98.50 REMARK 500 TYR M 2 61.57 -116.24 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 GLY A 85 THR A 86 -149.50 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 40 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 9EYT A 1 369 UNP P22137 CLH_YEAST 1 369 DBREF 9EYT E 1 7 UNP Q12518 ENT1_YEAST 448 454 DBREF 9EYT G 1 7 UNP Q12518 ENT1_YEAST 448 454 DBREF 9EYT M 1 7 UNP Q12518 ENT1_YEAST 448 454 SEQADV 9EYT GLY A -3 UNP P22137 EXPRESSION TAG SEQADV 9EYT ALA A -2 UNP P22137 EXPRESSION TAG SEQADV 9EYT MET A -1 UNP P22137 EXPRESSION TAG SEQADV 9EYT ALA A 0 UNP P22137 EXPRESSION TAG SEQRES 1 A 373 GLY ALA MET ALA MET SER ASP LEU PRO ILE GLU PHE THR SEQRES 2 A 373 GLU LEU VAL ASP LEU MET SER LEU GLY ILE SER PRO GLN SEQRES 3 A 373 PHE LEU ASP PHE ARG SER THR THR PHE GLU SER ASP HIS SEQRES 4 A 373 PHE VAL THR VAL ARG GLU THR LYS ASP GLY THR ASN SER SEQRES 5 A 373 VAL ALA ILE VAL ASP LEU ALA LYS GLY ASN GLU VAL THR SEQRES 6 A 373 ARG LYS ASN MET GLY GLY ASP SER ALA ILE MET HIS PRO SEQRES 7 A 373 SER GLN MET VAL ILE SER VAL ARG ALA ASN GLY THR ILE SEQRES 8 A 373 VAL GLN ILE PHE ASN LEU GLU THR LYS SER LYS LEU LYS SEQRES 9 A 373 SER PHE THR LEU ASP GLU PRO VAL ILE PHE TRP ARG TRP SEQRES 10 A 373 LEU SER GLU THR THR LEU GLY PHE VAL THR ALA ARG SER SEQRES 11 A 373 ILE LEU THR SER ASN VAL PHE ASP GLY ASN VAL ASN ALA SEQRES 12 A 373 LYS PRO GLN LEU LEU THR LEU ARG HIS ALA ASN LEU ASN SEQRES 13 A 373 ASN THR GLN ILE ILE ASN PHE VAL ALA ASN LYS ASN LEU SEQRES 14 A 373 ASP TRP PHE ALA VAL VAL GLY ILE LEU GLN GLU ASN GLY SEQRES 15 A 373 ARG ILE ALA GLY ARG ILE GLN LEU PHE SER LYS GLN ARG SEQRES 16 A 373 ASN ILE SER GLN ALA ILE ASP GLY HIS VAL ALA ILE PHE SEQRES 17 A 373 THR ASN ILE LEU LEU GLU GLY ASN GLY SER THR PRO VAL SEQRES 18 A 373 GLN VAL PHE VAL THR GLY ASN ARG ASN ALA THR THR GLY SEQRES 19 A 373 ALA GLY GLU LEU ARG ILE ILE GLU ILE ASP HIS ASP ALA SEQRES 20 A 373 SER LEU PRO SER GLN TYR GLN LYS GLU THR THR ASP ILE SEQRES 21 A 373 PHE PHE PRO PRO ASP ALA THR ASN ASP PHE PRO ILE ALA SEQRES 22 A 373 VAL GLN VAL SER GLU LYS TYR GLY ILE ILE TYR LEU LEU SEQRES 23 A 373 THR LYS TYR GLY PHE ILE HIS LEU TYR GLU LEU GLU THR SEQRES 24 A 373 GLY THR ASN LEU PHE VAL ASN ARG ILE THR ALA GLU SER SEQRES 25 A 373 VAL PHE THR ALA ALA PRO TYR ASN HIS GLU ASN GLY ILE SEQRES 26 A 373 ALA CYS ILE ASN LYS LYS GLY GLN VAL LEU ALA VAL GLU SEQRES 27 A 373 ILE SER THR SER GLN ILE VAL PRO TYR ILE LEU ASN LYS SEQRES 28 A 373 LEU SER ASN VAL ALA LEU ALA LEU ILE VAL ALA THR ARG SEQRES 29 A 373 GLY GLY LEU PRO GLY ALA ASP ASP LEU SEQRES 1 E 7 GLY TYR THR LEU ILE ASP LEU SEQRES 1 G 7 GLY TYR THR LEU ILE ASP LEU SEQRES 1 M 7 GLY TYR THR LEU ILE ASP LEU FORMUL 5 HOH *324(H2 O) HELIX 1 AA1 MET A 15 GLY A 18 5 4 HELIX 2 AA2 SER A 20 LEU A 24 5 5 HELIX 3 AA3 PHE A 133 GLY A 135 5 3 HELIX 4 AA4 HIS A 148 ASN A 152 5 5 HELIX 5 AA5 GLN A 339 LYS A 347 1 9 HELIX 6 AA6 ASN A 350 GLY A 362 1 13 SHEET 1 AA1 4 ILE A 6 ASP A 13 0 SHEET 2 AA1 4 GLN A 329 ILE A 335 -1 O GLU A 334 N GLU A 7 SHEET 3 AA1 4 GLY A 320 ASN A 325 -1 N ILE A 321 O VAL A 333 SHEET 4 AA1 4 VAL A 309 TYR A 315 -1 N ALA A 313 O ALA A 322 SHEET 1 AA2 4 THR A 29 SER A 33 0 SHEET 2 AA2 4 PHE A 36 GLU A 41 -1 O THR A 38 N THR A 30 SHEET 3 AA2 4 SER A 48 ASP A 53 -1 O VAL A 52 N VAL A 37 SHEET 4 AA2 4 GLU A 59 ASN A 64 -1 O THR A 61 N ILE A 51 SHEET 1 AA3 4 SER A 69 MET A 72 0 SHEET 2 AA3 4 VAL A 78 ALA A 83 -1 O SER A 80 N ILE A 71 SHEET 3 AA3 4 ILE A 87 ASN A 92 -1 O PHE A 91 N ILE A 79 SHEET 4 AA3 4 SER A 97 THR A 103 -1 O PHE A 102 N VAL A 88 SHEET 1 AA4 4 VAL A 108 TRP A 113 0 SHEET 2 AA4 4 THR A 118 THR A 123 -1 O VAL A 122 N ILE A 109 SHEET 3 AA4 4 SER A 126 ASN A 131 -1 O LEU A 128 N PHE A 121 SHEET 4 AA4 4 GLN A 142 LEU A 146 -1 O LEU A 144 N ILE A 127 SHEET 1 AA5 4 GLN A 155 ALA A 161 0 SHEET 2 AA5 4 TRP A 167 GLU A 176 -1 O ILE A 173 N GLN A 155 SHEET 3 AA5 4 ARG A 179 SER A 188 -1 O ALA A 181 N LEU A 174 SHEET 4 AA5 4 ILE A 193 ASP A 198 -1 O GLN A 195 N LEU A 186 SHEET 1 AA6 4 VAL A 201 ILE A 207 0 SHEET 2 AA6 4 VAL A 217 ARG A 225 -1 O VAL A 221 N ILE A 203 SHEET 3 AA6 4 GLY A 232 ILE A 239 -1 O ILE A 237 N PHE A 220 SHEET 4 AA6 4 GLU A 252 ILE A 256 -1 O THR A 254 N LEU A 234 SHEET 1 AA7 4 PRO A 267 SER A 273 0 SHEET 2 AA7 4 ILE A 278 THR A 283 -1 O TYR A 280 N GLN A 271 SHEET 3 AA7 4 PHE A 287 GLU A 292 -1 O TYR A 291 N ILE A 279 SHEET 4 AA7 4 ASN A 298 ARG A 303 -1 O LEU A 299 N LEU A 290 CRYST1 56.310 56.310 254.600 90.00 90.00 90.00 P 43 21 2 24 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 0.017759 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017759 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003928 0.00000