HEADER ENDOCYTOSIS,EXOCYTOSIS 06-MAY-14 4PHG TITLE CRYSTAL STRUCTURE OF YPT7 COVALENTLY MODIFIED WITH GTP COMPND MOL_ID: 1; COMPND 2 MOLECULE: GTP-BINDING PROTEIN YPT7; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-182; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: S288C; SOURCE 6 GENE: YPT7, VAM4, YML001W, YM8270.02; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS YPT7, ACRYL-NUCLEOTIDES, AGTP, COVALENT, ENDOCYTOSIS, EXOCYTOSIS EXPDTA X-RAY DIFFRACTION AUTHOR D.KOCH,D.WIEGANDT,S.VIEWEG,F.HOFMANN,Y.WU,A.ITZEN,M.P.MUELLER, AUTHOR 2 R.S.GOODY REVDAT 4 08-JAN-20 4PHG 1 REMARK REVDAT 3 27-SEP-17 4PHG 1 REMARK REVDAT 2 31-AUG-16 4PHG 1 JRNL REVDAT 1 28-MAY-14 4PHG 0 JRNL AUTH D.WIEGANDT,S.VIEWEG,F.HOFMANN,D.KOCH,F.LI,Y.W.WU,A.ITZEN, JRNL AUTH 2 M.P.MULLER,R.S.GOODY JRNL TITL LOCKING GTPASES COVALENTLY IN THEIR FUNCTIONAL STATES. JRNL REF NAT COMMUN V. 6 7773 2015 JRNL REFN ESSN 2041-1723 JRNL PMID 26178622 JRNL DOI 10.1038/NCOMMS8773 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 11694 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.234 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 616 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 840 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.66 REMARK 3 BIN R VALUE (WORKING SET) : 0.2310 REMARK 3 BIN FREE R VALUE SET COUNT : 43 REMARK 3 BIN FREE R VALUE : 0.3380 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1356 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 52 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.12000 REMARK 3 B22 (A**2) : -0.29000 REMARK 3 B33 (A**2) : 1.85000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.57000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.169 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.160 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.115 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.451 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1427 ; 0.019 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 920 ; 0.007 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1940 ; 1.910 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2263 ; 1.212 ; 3.011 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 177 ; 6.444 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 63 ;37.163 ;25.873 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 238 ;13.706 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ;22.671 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 226 ; 0.156 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1574 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 274 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 6 A 181 REMARK 3 RESIDUE RANGE : A 201 A 202 REMARK 3 ORIGIN FOR THE GROUP (A): 11.9271 -5.5569 11.6802 REMARK 3 T TENSOR REMARK 3 T11: 0.0216 T22: 0.0127 REMARK 3 T33: 0.0120 T12: 0.0016 REMARK 3 T13: 0.0000 T23: -0.0034 REMARK 3 L TENSOR REMARK 3 L11: 1.0369 L22: 0.1882 REMARK 3 L33: 0.3511 L12: -0.1002 REMARK 3 L13: 0.0519 L23: -0.0472 REMARK 3 S TENSOR REMARK 3 S11: 0.0003 S12: -0.0517 S13: 0.0124 REMARK 3 S21: -0.0388 S22: 0.0190 S23: -0.0338 REMARK 3 S31: 0.0110 S32: -0.0360 S33: -0.0193 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK 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 THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 4PHG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-MAY-14. REMARK 100 THE DEPOSITION ID IS D_1000200812. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-SEP-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SI(111) MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12310 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 45.010 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 3.330 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07000 REMARK 200 FOR THE DATA SET : 11.1500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.36200 REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% (W/V) PEG3350, 0.2 M LICL, 10MM REMARK 280 YTTRIUM(III)-CHLORID, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z 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 26.58000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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. (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 -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 SER A 3 REMARK 465 ARG A 4 REMARK 465 LYS A 5 REMARK 465 ALA A 182 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 ARG A 70 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 Y YT3 A 204 O HOH A 301 1.95 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 Y YT3 A 203 O HOH A 305 1655 1.77 REMARK 500 Y YT3 A 205 O HOH A 304 1556 1.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 26 CG HIS A 26 CD2 0.057 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 ASN A 112 58.37 39.70 REMARK 500 LYS A 127 31.04 82.70 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 22 OG1 REMARK 620 2 THR A 40 OG1 82.5 REMARK 620 3 2UJ A 202 O2B 88.3 166.5 REMARK 620 4 2UJ A 202 O2G 170.7 89.1 99.2 REMARK 620 5 HOH A 325 O 87.9 85.1 84.6 87.5 REMARK 620 6 HOH A 324 O 85.0 95.2 93.9 99.6 172.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 YT3 A 203 Y REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 31 OD1 REMARK 620 2 ASP A 31 OD2 55.3 REMARK 620 3 HOH A 306 O 84.5 122.0 REMARK 620 4 ASN A 99 OD1 60.5 107.6 25.5 REMARK 620 5 HOH A 317 O 84.4 81.9 138.9 121.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 YT3 A 204 Y REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 69 OE1 REMARK 620 2 GLU A 69 OE2 48.6 REMARK 620 3 GLU A 106 OE1 61.4 108.6 REMARK 620 4 GLU A 106 OE2 82.2 120.4 53.0 REMARK 620 5 HOH A 308 O 72.3 58.7 114.2 77.9 REMARK 620 6 GLU A 49 OE2 40.3 87.4 32.9 44.8 81.8 REMARK 620 7 HOH A 310 O 125.5 78.0 173.1 126.0 70.9 152.7 REMARK 620 8 HOH A 318 O 138.8 125.6 114.5 68.2 73.9 112.0 61.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 YT3 A 205 Y REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 117 OE1 REMARK 620 2 ASP A 44 OD1 11.9 REMARK 620 3 ASP A 44 OD2 12.8 2.0 REMARK 620 4 GLU A 131 OE1 46.3 51.9 50.8 REMARK 620 5 GLU A 131 OE2 44.6 50.1 48.9 1.8 REMARK 620 6 HOH A 320 O 87.5 93.2 92.0 41.5 43.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 2UJ A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue YT3 A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue YT3 A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue YT3 A 205 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4PHF RELATED DB: PDB REMARK 900 RELATED ID: 4PHH RELATED DB: PDB DBREF 4PHG A 1 182 UNP P32939 YPT7_YEAST 1 182 SEQADV 4PHG GLY A -1 UNP P32939 EXPRESSION TAG SEQADV 4PHG HIS A 0 UNP P32939 EXPRESSION TAG SEQADV 4PHG CYS A 35 UNP P32939 GLN 35 ENGINEERED MUTATION SEQADV 4PHG ILE A 38 UNP P32939 LYS 38 ENGINEERED MUTATION SEQADV 4PHG LEU A 68 UNP P32939 GLN 68 ENGINEERED MUTATION SEQRES 1 A 184 GLY HIS MET SER SER ARG LYS LYS ASN ILE LEU LYS VAL SEQRES 2 A 184 ILE ILE LEU GLY ASP SER GLY VAL GLY LYS THR SER LEU SEQRES 3 A 184 MET HIS ARG TYR VAL ASN ASP LYS TYR SER CYS GLN TYR SEQRES 4 A 184 ILE ALA THR ILE GLY ALA ASP PHE LEU THR LYS GLU VAL SEQRES 5 A 184 THR VAL ASP GLY ASP LYS VAL ALA THR MET GLN VAL TRP SEQRES 6 A 184 ASP THR ALA GLY LEU GLU ARG PHE GLN SER LEU GLY VAL SEQRES 7 A 184 ALA PHE TYR ARG GLY ALA ASP CYS CYS VAL LEU VAL TYR SEQRES 8 A 184 ASP VAL THR ASN ALA SER SER PHE GLU ASN ILE LYS SER SEQRES 9 A 184 TRP ARG ASP GLU PHE LEU VAL HIS ALA ASN VAL ASN SER SEQRES 10 A 184 PRO GLU THR PHE PRO PHE VAL ILE LEU GLY ASN LYS ILE SEQRES 11 A 184 ASP ALA GLU GLU SER LYS LYS ILE VAL SER GLU LYS SER SEQRES 12 A 184 ALA GLN GLU LEU ALA LYS SER LEU GLY ASP ILE PRO LEU SEQRES 13 A 184 PHE LEU THR SER ALA LYS ASN ALA ILE ASN VAL ASP THR SEQRES 14 A 184 ALA PHE GLU GLU ILE ALA ARG SER ALA LEU GLN GLN ASN SEQRES 15 A 184 GLN ALA HET MG A 201 1 HET 2UJ A 202 40 HET YT3 A 203 1 HET YT3 A 204 1 HET YT3 A 205 1 HETNAM MG MAGNESIUM ION HETNAM 2UJ N-[3-(PROPANOYLAMINO)PROPYL]GUANOSINE 5'-(TETRAHYDROGEN HETNAM 2 2UJ TRIPHOSPHATE) HETNAM YT3 YTTRIUM (III) ION FORMUL 2 MG MG 2+ FORMUL 3 2UJ C16 H27 N6 O15 P3 FORMUL 4 YT3 3(Y 3+) FORMUL 7 HOH *52(H2 O) HELIX 1 AA1 GLY A 20 ASP A 31 1 12 HELIX 2 AA2 LEU A 68 GLN A 72 5 5 HELIX 3 AA3 LEU A 74 TYR A 79 5 6 HELIX 4 AA4 ASN A 93 ASN A 99 1 7 HELIX 5 AA5 ASN A 99 ALA A 111 1 13 HELIX 6 AA6 SER A 138 LEU A 149 1 12 HELIX 7 AA7 ASN A 164 GLN A 181 1 18 SHEET 1 AA1 6 ALA A 43 VAL A 52 0 SHEET 2 AA1 6 LYS A 56 THR A 65 -1 O VAL A 62 N LEU A 46 SHEET 3 AA1 6 ASN A 7 GLY A 15 1 N LEU A 9 O GLN A 61 SHEET 4 AA1 6 CYS A 84 ASP A 90 1 O VAL A 86 N ILE A 12 SHEET 5 AA1 6 PHE A 121 ASN A 126 1 O VAL A 122 N LEU A 87 SHEET 6 AA1 6 LEU A 154 THR A 157 1 O PHE A 155 N ILE A 123 LINK OG1 THR A 22 MG MG A 201 1555 1555 2.15 LINK OD1 ASP A 31 Y YT3 A 203 1555 1555 2.16 LINK OD2 ASP A 31 Y YT3 A 203 1555 1555 2.46 LINK SG CYS A 35 CAA 2UJ A 202 1555 1555 1.65 LINK OG1 THR A 40 MG MG A 201 1555 1555 1.94 LINK OE1 GLU A 69 Y YT3 A 204 1555 1555 2.78 LINK OE2 GLU A 69 Y YT3 A 204 1555 1555 2.50 LINK OE1 GLU A 106 Y YT3 A 204 1555 1555 2.44 LINK OE2 GLU A 106 Y YT3 A 204 1555 1555 2.51 LINK OE1 GLU A 117 Y YT3 A 205 1555 1555 2.32 LINK MG MG A 201 O2B 2UJ A 202 1555 1555 2.08 LINK MG MG A 201 O2G 2UJ A 202 1555 1555 2.00 LINK MG MG A 201 O HOH A 325 1555 1555 2.09 LINK MG MG A 201 O HOH A 324 1555 1555 2.14 LINK Y YT3 A 203 O HOH A 306 1555 1555 2.39 LINK Y YT3 A 204 O HOH A 308 1555 1555 2.80 LINK OD1 ASP A 44 Y YT3 A 205 1555 2646 2.52 LINK OD2 ASP A 44 Y YT3 A 205 1555 2646 2.54 LINK OE2 GLU A 49 Y YT3 A 204 1555 1655 2.47 LINK OD1 ASN A 99 Y YT3 A 203 1555 1455 2.24 LINK OE1 GLU A 131 Y YT3 A 205 1555 1554 2.55 LINK OE2 GLU A 131 Y YT3 A 205 1555 1554 2.38 LINK Y YT3 A 203 O HOH A 317 1555 1655 2.48 LINK Y YT3 A 204 O HOH A 310 1555 1455 2.35 LINK Y YT3 A 204 O HOH A 318 1555 1455 2.70 LINK Y YT3 A 205 O HOH A 320 1555 2656 2.46 SITE 1 AC1 5 THR A 22 THR A 40 2UJ A 202 HOH A 324 SITE 2 AC1 5 HOH A 325 SITE 1 AC2 25 SER A 17 GLY A 18 VAL A 19 GLY A 20 SITE 2 AC2 25 LYS A 21 THR A 22 SER A 23 TYR A 33 SITE 3 AC2 25 SER A 34 CYS A 35 GLN A 36 TYR A 37 SITE 4 AC2 25 THR A 40 GLY A 67 ASN A 126 LYS A 127 SITE 5 AC2 25 ASP A 129 SER A 158 ALA A 159 LYS A 160 SITE 6 AC2 25 MG A 201 HOH A 324 HOH A 325 HOH A 333 SITE 7 AC2 25 HOH A 341 SITE 1 AC3 5 ASP A 31 ASN A 99 HOH A 305 HOH A 306 SITE 2 AC3 5 HOH A 317 SITE 1 AC4 7 GLU A 49 GLU A 69 GLU A 106 HOH A 301 SITE 2 AC4 7 HOH A 308 HOH A 310 HOH A 318 SITE 1 AC5 3 GLU A 117 GLU A 131 HOH A 304 CRYST1 32.970 53.160 46.910 90.00 106.35 90.00 P 1 21 1 2 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 0.030331 0.000000 0.008900 0.00000 SCALE2 0.000000 0.018811 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022216 0.00000 MASTER 413 0 5 7 6 0 14 6 0 0 0 15 END