HEADER LIPID TRANSPORT/OXIDOREDUCTASE 06-JAN-15 4XHR TITLE STRUCTURE OF A PHOSPHOLIPID TRAFFICKING COMPLEX, NATIVE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN UPS1, MITOCHONDRIAL; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UNPROCESSED MGM1 PROTEIN 1; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: MITOCHONDRIAL DISTRIBUTION AND MORPHOLOGY PROTEIN 35; COMPND 8 CHAIN: N, M; COMPND 9 ENGINEERED: 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: UPS1, YLR193C; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / SOURCE 12 S288C); SOURCE 13 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 14 ORGANISM_TAXID: 559292; SOURCE 15 STRAIN: ATCC 204508 / S288C; SOURCE 16 GENE: MDM35, YKL053C-A; SOURCE 17 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PHOSPHOLIPID, LIPID TRANSPORT-OXIDOREDUCTASE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR F.YU,F.HE,C.WANG,P.ZHANG REVDAT 3 13-NOV-24 4XHR 1 REMARK REVDAT 2 05-AUG-15 4XHR 1 JRNL REVDAT 1 01-JUL-15 4XHR 0 JRNL AUTH F.YU,F.HE,H.YAO,C.WANG,J.WANG,J.LI,X.QI,H.XUE,J.DING,P.ZHANG JRNL TITL STRUCTURAL BASIS OF INTRAMITOCHONDRIAL PHOSPHATIDIC ACID JRNL TITL 2 TRANSPORT MEDIATED BY UPS1-MDM35 COMPLEX JRNL REF EMBO REP. V. 16 813 2015 JRNL REFN ESSN 1469-3178 JRNL PMID 26071601 JRNL DOI 10.15252/EMBR.201540137 REMARK 2 REMARK 2 RESOLUTION. 2.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 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) : 2.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.08 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 16623 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) : 0.238 REMARK 3 R VALUE (WORKING SET) : 0.236 REMARK 3 FREE R VALUE : 0.277 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 886 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) : 2.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.62 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1250 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.38 REMARK 3 BIN R VALUE (WORKING SET) : 0.3140 REMARK 3 BIN FREE R VALUE SET COUNT : 52 REMARK 3 BIN FREE R VALUE : 0.3740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3869 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 38 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 78.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.72000 REMARK 3 B22 (A**2) : 6.37000 REMARK 3 B33 (A**2) : -0.87000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.49000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.232 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.353 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.260 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 25.837 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.924 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.891 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3961 ; 0.150 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3726 ; 0.000 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5350 ; 1.861 ; 1.943 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8601 ; 3.508 ; 3.002 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 476 ; 7.999 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 176 ;36.936 ;23.864 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 708 ;18.486 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;18.679 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 587 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4378 ; 0.009 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 916 ; 0.005 ; 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 : 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 : A 1 A 170 REMARK 3 ORIGIN FOR THE GROUP (A): 60.4324 -10.7800 39.2214 REMARK 3 T TENSOR REMARK 3 T11: 0.1489 T22: 0.0526 REMARK 3 T33: 0.1265 T12: -0.0032 REMARK 3 T13: -0.0743 T23: -0.0344 REMARK 3 L TENSOR REMARK 3 L11: 1.2448 L22: 0.5532 REMARK 3 L33: 1.8954 L12: 0.3320 REMARK 3 L13: 0.2434 L23: 0.3569 REMARK 3 S TENSOR REMARK 3 S11: 0.0280 S12: -0.1997 S13: 0.0061 REMARK 3 S21: -0.0433 S22: -0.0169 S23: 0.0460 REMARK 3 S31: -0.0764 S32: 0.0890 S33: -0.0111 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : N 6 N 76 REMARK 3 ORIGIN FOR THE GROUP (A): 60.1617 -14.0792 20.7976 REMARK 3 T TENSOR REMARK 3 T11: 0.2133 T22: 0.0800 REMARK 3 T33: 0.1437 T12: -0.0026 REMARK 3 T13: -0.0784 T23: -0.0687 REMARK 3 L TENSOR REMARK 3 L11: 1.6505 L22: 0.9304 REMARK 3 L33: 2.5006 L12: 0.1899 REMARK 3 L13: -0.5597 L23: 0.5182 REMARK 3 S TENSOR REMARK 3 S11: 0.0058 S12: 0.3230 S13: -0.3360 REMARK 3 S21: -0.0783 S22: 0.0843 S23: 0.0344 REMARK 3 S31: -0.0404 S32: 0.0466 S33: -0.0901 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 170 REMARK 3 ORIGIN FOR THE GROUP (A): 60.6055 -42.9797 16.6653 REMARK 3 T TENSOR REMARK 3 T11: 0.1335 T22: 0.0161 REMARK 3 T33: 0.1120 T12: 0.0177 REMARK 3 T13: -0.0959 T23: -0.0005 REMARK 3 L TENSOR REMARK 3 L11: 1.8536 L22: 0.5327 REMARK 3 L33: 1.8234 L12: 0.0244 REMARK 3 L13: 0.0473 L23: 0.5611 REMARK 3 S TENSOR REMARK 3 S11: -0.0187 S12: -0.0128 S13: -0.0267 REMARK 3 S21: 0.0155 S22: -0.0173 S23: -0.0166 REMARK 3 S31: -0.0856 S32: 0.0677 S33: 0.0360 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : M 5 M 76 REMARK 3 ORIGIN FOR THE GROUP (A): 60.4373 -40.9843 -1.8287 REMARK 3 T TENSOR REMARK 3 T11: 0.1933 T22: 0.2393 REMARK 3 T33: 0.0477 T12: 0.0396 REMARK 3 T13: -0.0658 T23: -0.0306 REMARK 3 L TENSOR REMARK 3 L11: 4.5708 L22: 1.5161 REMARK 3 L33: 2.1093 L12: 0.7887 REMARK 3 L13: 0.0844 L23: -0.2780 REMARK 3 S TENSOR REMARK 3 S11: -0.0413 S12: 0.5935 S13: 0.1207 REMARK 3 S21: 0.0163 S22: 0.0833 S23: 0.1612 REMARK 3 S31: -0.1874 S32: 0.1155 S33: -0.0420 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 4XHR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000205677. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-JUL-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.7 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17640 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.550 REMARK 200 RESOLUTION RANGE LOW (A) : 32.080 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.9600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.11600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 11.96 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2%(V/V) TACSIMATE PH 6.0, 0.1M BIS REMARK 280 -TRIS PH 6.5, 20%(W/V) PEG3350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277.15K 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 37.43400 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, N 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2700 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -18.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 MET A -13 REMARK 465 GLY A -12 REMARK 465 SER A -11 REMARK 465 SER A -10 REMARK 465 HIS A -9 REMARK 465 HIS A -8 REMARK 465 HIS A -7 REMARK 465 HIS A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 SER A -3 REMARK 465 GLN A -2 REMARK 465 ASP A -1 REMARK 465 PRO A 0 REMARK 465 ARG A 171 REMARK 465 ASN A 172 REMARK 465 PRO A 173 REMARK 465 GLN A 174 REMARK 465 PHE A 175 REMARK 465 MET N 1 REMARK 465 GLY N 2 REMARK 465 ASN N 3 REMARK 465 ILE N 4 REMARK 465 MET N 5 REMARK 465 ASN N 77 REMARK 465 GLY N 78 REMARK 465 GLY N 79 REMARK 465 LYS N 80 REMARK 465 LEU N 81 REMARK 465 LYS N 82 REMARK 465 GLU N 83 REMARK 465 VAL N 84 REMARK 465 ASP N 85 REMARK 465 LYS N 86 REMARK 465 MET B -13 REMARK 465 GLY B -12 REMARK 465 SER B -11 REMARK 465 SER B -10 REMARK 465 HIS B -9 REMARK 465 HIS B -8 REMARK 465 HIS B -7 REMARK 465 HIS B -6 REMARK 465 HIS B -5 REMARK 465 HIS B -4 REMARK 465 SER B -3 REMARK 465 GLN B -2 REMARK 465 ASP B -1 REMARK 465 PRO B 0 REMARK 465 ARG B 171 REMARK 465 ASN B 172 REMARK 465 PRO B 173 REMARK 465 GLN B 174 REMARK 465 PHE B 175 REMARK 465 MET M 1 REMARK 465 GLY M 2 REMARK 465 ASN M 3 REMARK 465 ILE M 4 REMARK 465 VAL M 38 REMARK 465 ASN M 77 REMARK 465 GLY M 78 REMARK 465 GLY M 79 REMARK 465 LYS M 80 REMARK 465 LEU M 81 REMARK 465 LYS M 82 REMARK 465 GLU M 83 REMARK 465 VAL M 84 REMARK 465 ASP M 85 REMARK 465 LYS M 86 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 N 76 CG CD OE1 OE2 REMARK 470 GLU M 76 CG CD OE1 OE2 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 SG CYS M 23 SG CYS M 42 1.66 REMARK 500 O ILE B 103 OG SER B 131 1.70 REMARK 500 OG SER B 41 O HOH B 212 1.80 REMARK 500 NH1 ARG A 146 O HOH A 201 1.82 REMARK 500 N ASN B 28 O HOH B 208 1.83 REMARK 500 O LYS A 67 O LEU A 70 1.85 REMARK 500 OG1 THR A 53 O HOH A 209 1.87 REMARK 500 NZ LYS B 6 O HOH B 207 1.88 REMARK 500 OG SER N 37 O HOH N 107 1.91 REMARK 500 OE1 GLU M 30 NZ LYS M 34 1.92 REMARK 500 NH1 ARG B 51 O HOH B 203 1.95 REMARK 500 CZ ARG B 126 O HOH B 207 1.96 REMARK 500 N MET B 1 O HOH B 204 1.97 REMARK 500 O LYS B 67 O HOH B 213 1.98 REMARK 500 C SER B 41 O HOH B 212 1.99 REMARK 500 CB ASN B 28 O HOH B 208 2.01 REMARK 500 C PRO B 27 O HOH B 208 2.02 REMARK 500 O SER A 156 O HOH A 206 2.03 REMARK 500 CE LYS B 6 O HOH B 207 2.05 REMARK 500 OD1 ASN A 49 O HOH A 212 2.07 REMARK 500 C SER A 156 O HOH A 206 2.07 REMARK 500 O LEU A 70 O HOH A 208 2.08 REMARK 500 N GLY A 72 O HOH A 208 2.08 REMARK 500 C LEU A 70 O HOH A 208 2.09 REMARK 500 NZ LYS A 148 O HOH A 204 2.09 REMARK 500 N CYS M 52 O HOH M 103 2.10 REMARK 500 NE ARG B 126 O HOH B 207 2.10 REMARK 500 OE2 GLU N 41 O HOH N 106 2.10 REMARK 500 CE LYS N 31 O HOH N 106 2.12 REMARK 500 OD1 ASP A 143 NH2 ARG A 146 2.12 REMARK 500 CD ARG B 51 O HOH B 203 2.13 REMARK 500 O HOH N 105 O HOH N 108 2.13 REMARK 500 NH2 ARG A 146 O HOH A 201 2.15 REMARK 500 ND2 ASN B 28 O HOH B 208 2.17 REMARK 500 OD1 ASP A 143 O HOH A 201 2.18 REMARK 500 ND2 ASN B 24 O HOH B 209 2.19 REMARK 500 O GLN N 45 O HOH N 102 2.19 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 CG2 ILE A 137 SD MET B 135 2956 1.09 REMARK 500 CG2 ILE A 137 CG MET B 135 2956 1.66 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 THR A 74 CB - CA - C ANGL. DEV. = 17.9 DEGREES REMARK 500 GLU A 75 N - CA - CB ANGL. DEV. = -10.9 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 ARG A 71 25.32 83.05 REMARK 500 THR A 74 -64.82 -108.22 REMARK 500 MET A 135 -55.63 70.52 REMARK 500 CYS N 42 50.48 -102.74 REMARK 500 PHE N 75 34.00 -96.08 REMARK 500 PRO B 12 44.55 -75.19 REMARK 500 ASP B 45 -166.63 -77.30 REMARK 500 ILE B 137 74.12 47.90 REMARK 500 LYS M 31 -36.73 -133.58 REMARK 500 PHE M 75 40.73 -97.70 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 LEU A 70 ARG A 71 45.48 REMARK 500 ASP M 15 LEU M 16 141.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4XIZ RELATED DB: PDB DBREF 4XHR A 1 175 UNP Q05776 UPS1_YEAST 1 175 DBREF 4XHR N 1 86 UNP O60200 MDM35_YEAST 1 86 DBREF 4XHR B 1 175 UNP Q05776 UPS1_YEAST 1 175 DBREF 4XHR M 1 86 UNP O60200 MDM35_YEAST 1 86 SEQADV 4XHR MET A -13 UNP Q05776 INITIATING METHIONINE SEQADV 4XHR GLY A -12 UNP Q05776 EXPRESSION TAG SEQADV 4XHR SER A -11 UNP Q05776 EXPRESSION TAG SEQADV 4XHR SER A -10 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS A -9 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS A -8 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS A -7 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS A -6 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS A -5 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS A -4 UNP Q05776 EXPRESSION TAG SEQADV 4XHR SER A -3 UNP Q05776 EXPRESSION TAG SEQADV 4XHR GLN A -2 UNP Q05776 EXPRESSION TAG SEQADV 4XHR ASP A -1 UNP Q05776 EXPRESSION TAG SEQADV 4XHR PRO A 0 UNP Q05776 EXPRESSION TAG SEQADV 4XHR MET B -13 UNP Q05776 INITIATING METHIONINE SEQADV 4XHR GLY B -12 UNP Q05776 EXPRESSION TAG SEQADV 4XHR SER B -11 UNP Q05776 EXPRESSION TAG SEQADV 4XHR SER B -10 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS B -9 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS B -8 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS B -7 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS B -6 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS B -5 UNP Q05776 EXPRESSION TAG SEQADV 4XHR HIS B -4 UNP Q05776 EXPRESSION TAG SEQADV 4XHR SER B -3 UNP Q05776 EXPRESSION TAG SEQADV 4XHR GLN B -2 UNP Q05776 EXPRESSION TAG SEQADV 4XHR ASP B -1 UNP Q05776 EXPRESSION TAG SEQADV 4XHR PRO B 0 UNP Q05776 EXPRESSION TAG SEQRES 1 A 189 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER GLN ASP SEQRES 2 A 189 PRO MET VAL LEU LEU HIS LYS SER THR HIS ILE PHE PRO SEQRES 3 A 189 THR ASP PHE ALA SER VAL SER ARG ALA PHE PHE ASN ARG SEQRES 4 A 189 TYR PRO ASN PRO TYR SER PRO HIS VAL LEU SER ILE ASP SEQRES 5 A 189 THR ILE SER ARG ASN VAL ASP GLN GLU GLY ASN LEU ARG SEQRES 6 A 189 THR THR ARG LEU LEU LYS LYS SER GLY LYS LEU PRO THR SEQRES 7 A 189 TRP VAL LYS PRO PHE LEU ARG GLY ILE THR GLU THR TRP SEQRES 8 A 189 ILE ILE GLU VAL SER VAL VAL ASN PRO ALA ASN SER THR SEQRES 9 A 189 MET LYS THR TYR THR ARG ASN LEU ASP HIS THR GLY ILE SEQRES 10 A 189 MET LYS VAL GLU GLU TYR THR THR TYR GLN PHE ASP SER SEQRES 11 A 189 ALA THR SER SER THR ILE ALA ASP SER ARG VAL LYS PHE SEQRES 12 A 189 SER SER GLY PHE ASN MET GLY ILE LYS SER LYS VAL GLU SEQRES 13 A 189 ASP TRP SER ARG THR LYS PHE ASP GLU ASN VAL LYS LYS SEQRES 14 A 189 SER ARG MET GLY MET ALA PHE VAL ILE GLN LYS LEU GLU SEQRES 15 A 189 GLU ALA ARG ASN PRO GLN PHE SEQRES 1 N 86 MET GLY ASN ILE MET SER ALA SER PHE ALA PRO GLU CYS SEQRES 2 N 86 THR ASP LEU LYS THR LYS TYR ASP SER CYS PHE ASN GLU SEQRES 3 N 86 TRP TYR SER GLU LYS PHE LEU LYS GLY LYS SER VAL GLU SEQRES 4 N 86 ASN GLU CYS SER LYS GLN TRP TYR ALA TYR THR THR CYS SEQRES 5 N 86 VAL ASN ALA ALA LEU VAL LYS GLN GLY ILE LYS PRO ALA SEQRES 6 N 86 LEU ASP GLU ALA ARG GLU GLU ALA PRO PHE GLU ASN GLY SEQRES 7 N 86 GLY LYS LEU LYS GLU VAL ASP LYS SEQRES 1 B 189 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER GLN ASP SEQRES 2 B 189 PRO MET VAL LEU LEU HIS LYS SER THR HIS ILE PHE PRO SEQRES 3 B 189 THR ASP PHE ALA SER VAL SER ARG ALA PHE PHE ASN ARG SEQRES 4 B 189 TYR PRO ASN PRO TYR SER PRO HIS VAL LEU SER ILE ASP SEQRES 5 B 189 THR ILE SER ARG ASN VAL ASP GLN GLU GLY ASN LEU ARG SEQRES 6 B 189 THR THR ARG LEU LEU LYS LYS SER GLY LYS LEU PRO THR SEQRES 7 B 189 TRP VAL LYS PRO PHE LEU ARG GLY ILE THR GLU THR TRP SEQRES 8 B 189 ILE ILE GLU VAL SER VAL VAL ASN PRO ALA ASN SER THR SEQRES 9 B 189 MET LYS THR TYR THR ARG ASN LEU ASP HIS THR GLY ILE SEQRES 10 B 189 MET LYS VAL GLU GLU TYR THR THR TYR GLN PHE ASP SER SEQRES 11 B 189 ALA THR SER SER THR ILE ALA ASP SER ARG VAL LYS PHE SEQRES 12 B 189 SER SER GLY PHE ASN MET GLY ILE LYS SER LYS VAL GLU SEQRES 13 B 189 ASP TRP SER ARG THR LYS PHE ASP GLU ASN VAL LYS LYS SEQRES 14 B 189 SER ARG MET GLY MET ALA PHE VAL ILE GLN LYS LEU GLU SEQRES 15 B 189 GLU ALA ARG ASN PRO GLN PHE SEQRES 1 M 86 MET GLY ASN ILE MET SER ALA SER PHE ALA PRO GLU CYS SEQRES 2 M 86 THR ASP LEU LYS THR LYS TYR ASP SER CYS PHE ASN GLU SEQRES 3 M 86 TRP TYR SER GLU LYS PHE LEU LYS GLY LYS SER VAL GLU SEQRES 4 M 86 ASN GLU CYS SER LYS GLN TRP TYR ALA TYR THR THR CYS SEQRES 5 M 86 VAL ASN ALA ALA LEU VAL LYS GLN GLY ILE LYS PRO ALA SEQRES 6 M 86 LEU ASP GLU ALA ARG GLU GLU ALA PRO PHE GLU ASN GLY SEQRES 7 M 86 GLY LYS LEU LYS GLU VAL ASP LYS FORMUL 5 HOH *38(H2 O) HELIX 1 AA1 ASP A 14 ASN A 24 1 11 HELIX 2 AA2 PRO A 63 LYS A 67 5 5 HELIX 3 AA3 ILE A 137 GLU A 169 1 33 HELIX 4 AA4 ALA N 10 GLU N 12 5 3 HELIX 5 AA5 CYS N 13 LYS N 31 1 19 HELIX 6 AA6 CYS N 42 LYS N 59 1 18 HELIX 7 AA7 ILE N 62 ARG N 70 1 9 HELIX 8 AA8 ASP B 14 ASN B 24 1 11 HELIX 9 AA9 PRO B 63 LYS B 67 5 5 HELIX 10 AB1 ILE B 137 LEU B 167 1 31 HELIX 11 AB2 ALA M 10 GLU M 12 5 3 HELIX 12 AB3 CYS M 13 LYS M 31 1 19 HELIX 13 AB4 CYS M 42 LYS M 59 1 18 HELIX 14 AB5 ILE M 62 ARG M 70 1 9 SHEET 1 AA1 7 VAL A 2 PHE A 11 0 SHEET 2 AA1 7 SER A 120 SER A 130 -1 O THR A 121 N PHE A 11 SHEET 3 AA1 7 LYS A 105 ASP A 115 -1 N ASP A 115 O SER A 120 SHEET 4 AA1 7 THR A 90 ASN A 97 -1 N THR A 93 O THR A 110 SHEET 5 AA1 7 THR A 76 ASN A 85 -1 N ASN A 85 O THR A 90 SHEET 6 AA1 7 LEU A 50 LYS A 58 -1 N LEU A 56 O ILE A 78 SHEET 7 AA1 7 VAL A 34 VAL A 44 -1 N ASP A 38 O LEU A 55 SHEET 1 AA2 7 VAL B 2 PHE B 11 0 SHEET 2 AA2 7 SER B 120 SER B 130 -1 O THR B 121 N PHE B 11 SHEET 3 AA2 7 LYS B 105 ASP B 115 -1 N GLU B 107 O LYS B 128 SHEET 4 AA2 7 THR B 90 ASN B 97 -1 N THR B 93 O THR B 110 SHEET 5 AA2 7 GLU B 75 ASN B 85 -1 N ASN B 85 O THR B 90 SHEET 6 AA2 7 LEU B 50 SER B 59 -1 N ARG B 54 O GLU B 80 SHEET 7 AA2 7 VAL B 34 VAL B 44 -1 N ASP B 38 O LEU B 55 SSBOND 1 CYS N 13 CYS N 52 1555 1555 2.04 SSBOND 2 CYS N 23 CYS N 42 1555 1555 2.73 SSBOND 3 CYS M 13 CYS M 52 1555 1555 2.04 CISPEP 1 TYR A 26 PRO A 27 0 -2.25 CISPEP 2 TYR B 26 PRO B 27 0 1.80 CISPEP 3 ASN B 134 MET B 135 0 -11.08 CISPEP 4 MET B 135 GLY B 136 0 3.29 CRYST1 42.968 74.868 87.568 90.00 95.32 90.00 P 1 21 1 4 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 0.023273 0.000000 0.002166 0.00000 SCALE2 0.000000 0.013357 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011469 0.00000