HEADER LIGASE 30-JUL-11 3T7G TITLE ATG8 TRANSFER FROM ATG7 TO ATG3: A DISTINCTIVE E1-E2 ARCHITECTURE AND TITLE 2 MECHANISM IN THE AUTOPHAGY PATHWAY COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-LIKE MODIFIER-ACTIVATING ENZYME ATG7; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: NTD, UNP RESIDUES 1-289; COMPND 5 SYNONYM: ATG12-ACTIVATING ENZYME E1 ATG7, AUTOPHAGY-RELATED PROTEIN COMPND 6 7, CYTOPLASM TO VACUOLE TARGETING PROTEIN 2; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: AUTOPHAGY-RELATED PROTEIN 3; COMPND 10 CHAIN: D, C; COMPND 11 FRAGMENT: FR, UNP RESIDUES 128-144; COMPND 12 SYNONYM: AUTOPHAGY-RELATED E2-LIKE CONJUGATION ENZYME ATG3; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: ATG7, APG7, CVT2, YHR171W; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 11 ORGANISM_COMMON: YEAST; SOURCE 12 ORGANISM_TAXID: 4932 KEYWDS ATG7, ATG3, AUTOPHAGY, E1, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR A.M.TAHERBHOY,S.W.TAIT,S.E.KAISER,A.H.WILLIAMS,A.DENG,A.NOURSE, AUTHOR 2 M.HAMMEL,I.KURINOV,C.O.ROCK,D.R.GREEN,B.A.SCHULMAN REVDAT 2 13-SEP-23 3T7G 1 SEQADV REVDAT 1 23-NOV-11 3T7G 0 JRNL AUTH A.M.TAHERBHOY,S.W.TAIT,S.E.KAISER,A.H.WILLIAMS,A.DENG, JRNL AUTH 2 A.NOURSE,M.HAMMEL,I.KURINOV,C.O.ROCK,D.R.GREEN,B.A.SCHULMAN JRNL TITL ATG8 TRANSFER FROM ATG7 TO ATG3: A DISTINCTIVE E1-E2 JRNL TITL 2 ARCHITECTURE AND MECHANISM IN THE AUTOPHAGY PATHWAY. JRNL REF MOL.CELL V. 44 451 2011 JRNL REFN ISSN 1097-2765 JRNL PMID 22055190 JRNL DOI 10.1016/J.MOLCEL.2011.08.034 REMARK 2 REMARK 2 RESOLUTION. 2.08 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.1_743) 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.08 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 58121 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 2944 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 33.2162 - 5.7294 0.99 2729 131 0.2007 0.2074 REMARK 3 2 5.7294 - 4.5513 1.00 2653 156 0.1626 0.1805 REMARK 3 3 4.5513 - 3.9771 1.00 2657 151 0.1485 0.1622 REMARK 3 4 3.9771 - 3.6139 1.00 2688 139 0.1583 0.1940 REMARK 3 5 3.6139 - 3.3552 1.00 2666 136 0.1713 0.2117 REMARK 3 6 3.3552 - 3.1575 1.00 2651 136 0.1821 0.2017 REMARK 3 7 3.1575 - 2.9995 1.00 2663 137 0.1931 0.2215 REMARK 3 8 2.9995 - 2.8690 1.00 2654 144 0.1829 0.2171 REMARK 3 9 2.8690 - 2.7586 1.00 2650 128 0.1929 0.2303 REMARK 3 10 2.7586 - 2.6634 1.00 2647 149 0.2137 0.2358 REMARK 3 11 2.6634 - 2.5802 1.00 2645 146 0.2000 0.2427 REMARK 3 12 2.5802 - 2.5065 1.00 2638 151 0.1986 0.2380 REMARK 3 13 2.5065 - 2.4405 1.00 2657 141 0.1992 0.2312 REMARK 3 14 2.4405 - 2.3810 1.00 2610 143 0.2014 0.2379 REMARK 3 15 2.3810 - 2.3269 1.00 2675 95 0.1982 0.1977 REMARK 3 16 2.3269 - 2.2774 1.00 2676 153 0.1919 0.2082 REMARK 3 17 2.2774 - 2.2318 1.00 2611 144 0.2054 0.2246 REMARK 3 18 2.2318 - 2.1897 1.00 2662 165 0.2081 0.2694 REMARK 3 19 2.1897 - 2.1506 1.00 2589 145 0.2087 0.2397 REMARK 3 20 2.1506 - 2.1142 1.00 2607 146 0.2110 0.2237 REMARK 3 21 2.1142 - 2.0801 0.80 2149 108 0.2395 0.2711 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.35 REMARK 3 B_SOL : 53.03 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.530 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.610 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) : -4.61670 REMARK 3 B22 (A**2) : -2.55220 REMARK 3 B33 (A**2) : 7.16890 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.13020 REMARK 3 B23 (A**2) : 0.00000 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 : 0.008 4683 REMARK 3 ANGLE : 1.033 6379 REMARK 3 CHIRALITY : 0.071 738 REMARK 3 PLANARITY : 0.005 817 REMARK 3 DIHEDRAL : 12.420 1665 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' REMARK 3 ORIGIN FOR THE GROUP (A): 5.7361 -39.2644 23.2275 REMARK 3 T TENSOR REMARK 3 T11: 0.2229 T22: 0.1729 REMARK 3 T33: 0.1643 T12: -0.0017 REMARK 3 T13: 0.0166 T23: 0.0449 REMARK 3 L TENSOR REMARK 3 L11: 3.4051 L22: 1.8939 REMARK 3 L33: 1.5329 L12: -0.2105 REMARK 3 L13: 0.1973 L23: 0.1673 REMARK 3 S TENSOR REMARK 3 S11: 0.0882 S12: 0.1277 S13: 0.2175 REMARK 3 S21: 0.0178 S22: -0.0093 S23: -0.2303 REMARK 3 S31: 0.0230 S32: -0.1701 S33: -0.0810 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' REMARK 3 ORIGIN FOR THE GROUP (A): 32.1670 -63.2950 15.5551 REMARK 3 T TENSOR REMARK 3 T11: 0.5689 T22: 0.4509 REMARK 3 T33: 0.5348 T12: 0.2166 REMARK 3 T13: 0.2181 T23: 0.1459 REMARK 3 L TENSOR REMARK 3 L11: 3.7009 L22: 5.0548 REMARK 3 L33: 2.5265 L12: -2.4641 REMARK 3 L13: -0.0191 L23: 0.1996 REMARK 3 S TENSOR REMARK 3 S11: 0.6720 S12: 0.9142 S13: 0.5718 REMARK 3 S21: -1.2040 S22: -0.5737 S23: -0.8808 REMARK 3 S31: 0.0284 S32: 0.2931 S33: -0.0628 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'C' REMARK 3 ORIGIN FOR THE GROUP (A): 29.5606 -35.1262 18.7285 REMARK 3 T TENSOR REMARK 3 T11: 0.4288 T22: 0.5748 REMARK 3 T33: 0.8790 T12: -0.0033 REMARK 3 T13: 0.1460 T23: 0.0677 REMARK 3 L TENSOR REMARK 3 L11: 5.0928 L22: 6.2123 REMARK 3 L33: 5.9501 L12: 0.2075 REMARK 3 L13: -1.6495 L23: -1.3390 REMARK 3 S TENSOR REMARK 3 S11: -0.4771 S12: -0.0515 S13: 0.2949 REMARK 3 S21: -0.2361 S22: -0.3950 S23: -0.6652 REMARK 3 S31: 0.1855 S32: 0.8298 S33: 0.8473 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'D' REMARK 3 ORIGIN FOR THE GROUP (A): 39.0236 -59.4836 37.6246 REMARK 3 T TENSOR REMARK 3 T11: 0.6070 T22: 0.4448 REMARK 3 T33: 1.1881 T12: 0.1177 REMARK 3 T13: -0.1817 T23: -0.0830 REMARK 3 L TENSOR REMARK 3 L11: 1.2401 L22: 1.9993 REMARK 3 L33: 0.4778 L12: 3.5535 REMARK 3 L13: 0.7693 L23: 2.2032 REMARK 3 S TENSOR REMARK 3 S11: 0.5520 S12: 0.1230 S13: -1.7962 REMARK 3 S21: 0.6300 S22: -0.0304 S23: -0.8423 REMARK 3 S31: 0.5515 S32: 0.3070 S33: -0.3949 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 3T7G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-AUG-11. REMARK 100 THE DEPOSITION ID IS D_1000067132. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-DEC-09 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58224 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.080 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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) : 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: PHENIX REMARK 200 STARTING MODEL: 3T7F REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.8M AMMONIUM SULFATE, 0.1M BIS-TRIS REMARK 280 PH 5.5, 5MM DTT, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 76.06750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.71450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 76.06750 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 49.71450 REMARK 290 SMTRY3 4 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 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 SER A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 SER A 289 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 SER B 3 REMARK 465 ASN B 71 REMARK 465 ASN B 72 REMARK 465 LYS B 73 REMARK 465 ARG B 74 REMARK 465 ASP B 258 REMARK 465 PRO B 259 REMARK 465 GLN B 260 REMARK 465 SER B 261 REMARK 465 SER B 262 REMARK 465 SER B 263 REMARK 465 SER B 264 REMARK 465 ASN B 265 REMARK 465 PRO B 266 REMARK 465 SER D 128 REMARK 465 ILE D 129 REMARK 465 ASP D 130 REMARK 465 ASP D 131 REMARK 465 ILE D 132 REMARK 465 GLU D 143 REMARK 465 GLU D 144 REMARK 465 SER C 128 REMARK 465 ILE C 129 REMARK 465 ASP C 130 REMARK 465 GLU C 143 REMARK 465 GLU C 144 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 ARG A 5 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 53 CG CD CE NZ REMARK 470 LYS A 69 CG CD CE NZ REMARK 470 ASN A 71 CG OD1 ND2 REMARK 470 ASN A 72 CG OD1 ND2 REMARK 470 GLN A 99 CG CD OE1 NE2 REMARK 470 LYS A 132 CG CD CE NZ REMARK 470 ARG A 135 CG CD NE CZ NH1 NH2 REMARK 470 SER A 160 OG REMARK 470 LYS A 162 CG CD CE NZ REMARK 470 SER A 261 OG REMARK 470 SER A 262 OG REMARK 470 SER A 264 OG REMARK 470 ASN A 265 CG OD1 ND2 REMARK 470 LYS A 280 CG CD CE NZ REMARK 470 ARG B 5 CG CD NE CZ NH1 NH2 REMARK 470 SER B 26 OG REMARK 470 LEU B 33 CG CD1 CD2 REMARK 470 LYS B 53 CG CD CE NZ REMARK 470 ASN B 76 CG OD1 ND2 REMARK 470 GLN B 99 CG CD OE1 NE2 REMARK 470 GLU B 111 CG CD OE1 OE2 REMARK 470 LYS B 115 CG CD CE NZ REMARK 470 LYS B 132 CG CD CE NZ REMARK 470 LYS B 133 CG CD CE NZ REMARK 470 ARG B 147 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 156 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 158 CG CD OE1 OE2 REMARK 470 LEU B 161 CG CD1 CD2 REMARK 470 LYS B 162 CG CD CE NZ REMARK 470 LEU B 164 CG CD1 CD2 REMARK 470 LYS B 167 CG CD CE NZ REMARK 470 LYS B 170 CG CD CE NZ REMARK 470 LYS B 194 CG CD CE NZ REMARK 470 CYS B 195 SG REMARK 470 ARG B 198 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 199 CG CD CE NZ REMARK 470 ASP B 232 CG OD1 OD2 REMARK 470 LEU B 233 CG CD1 CD2 REMARK 470 ILE B 234 CG1 CG2 CD1 REMARK 470 LYS B 237 CG CD CE NZ REMARK 470 GLU B 245 CG CD OE1 OE2 REMARK 470 ASN B 251 CG OD1 ND2 REMARK 470 GLU D 134 CG CD OE1 OE2 REMARK 470 LYS D 142 CG CD CE NZ REMARK 470 ASP C 131 CG OD1 OD2 REMARK 470 ASP C 133 CG OD1 OD2 REMARK 470 GLU C 134 CG CD OE1 OE2 REMARK 470 GLN C 137 CG CD OE1 NE2 REMARK 470 LYS C 142 CG CD CE NZ 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 O HOH A 414 O HOH A 415 1.85 REMARK 500 O HOH A 392 O HOH A 426 1.88 REMARK 500 O HOH A 432 O HOH A 439 1.93 REMARK 500 O GLY A 163 O HOH A 430 1.96 REMARK 500 O HOH A 396 O HOH A 424 2.00 REMARK 500 OG SER B 289 O HOH B 305 2.02 REMARK 500 O HOH B 295 O HOH B 302 2.09 REMARK 500 OD1 ASP A 187 O HOH A 391 2.09 REMARK 500 O HOH A 364 O HOH A 421 2.11 REMARK 500 O HOH A 423 O HOH A 429 2.12 REMARK 500 O HOH A 416 O HOH A 421 2.14 REMARK 500 O HOH A 384 O HOH A 418 2.14 REMARK 500 O HOH A 387 O HOH B 311 2.16 REMARK 500 O ILE A 51 O HOH A 377 2.17 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 O HOH A 362 O HOH B 304 4556 1.95 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 ASP D 133 CB - CG - OD1 ANGL. DEV. = -6.3 DEGREES REMARK 500 ASP D 133 CB - CG - OD2 ANGL. DEV. = 6.0 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 LYS A 69 52.49 -96.01 REMARK 500 ASN A 71 52.51 -91.71 REMARK 500 ASN A 76 -9.41 75.05 REMARK 500 ASN A 213 14.52 59.68 REMARK 500 ASN A 244 -154.74 -102.65 REMARK 500 ASN B 76 -10.66 82.15 REMARK 500 GLU B 245 59.38 -94.52 REMARK 500 ASN B 276 -159.77 -91.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3T7E RELATED DB: PDB REMARK 900 RELATED ID: 3T7F RELATED DB: PDB REMARK 900 RELATED ID: 3T7H RELATED DB: PDB DBREF 3T7G A 1 289 UNP P38862 ATG7_YEAST 1 289 DBREF 3T7G B 1 289 UNP P38862 ATG7_YEAST 1 289 DBREF 3T7G D 128 144 UNP P40344 ATG3_YEAST 128 144 DBREF 3T7G C 128 144 UNP P40344 ATG3_YEAST 128 144 SEQADV 3T7G GLY A -1 UNP P38862 EXPRESSION TAG SEQADV 3T7G SER A 0 UNP P38862 EXPRESSION TAG SEQADV 3T7G GLY B -1 UNP P38862 EXPRESSION TAG SEQADV 3T7G SER B 0 UNP P38862 EXPRESSION TAG SEQRES 1 A 291 GLY SER MET SER SER GLU ARG VAL LEU SER TYR ALA PRO SEQRES 2 A 291 ALA PHE LYS SER PHE LEU ASP THR SER PHE PHE GLN GLU SEQRES 3 A 291 LEU SER ARG LEU LYS LEU ASP VAL LEU LYS LEU ASP SER SEQRES 4 A 291 THR CYS GLN PRO LEU THR VAL ASN LEU ASP LEU HIS ASN SEQRES 5 A 291 ILE PRO LYS SER ALA ASP GLN VAL PRO LEU PHE LEU THR SEQRES 6 A 291 ASN ARG SER PHE GLU LYS HIS ASN ASN LYS ARG THR ASN SEQRES 7 A 291 GLU VAL PRO LEU GLN GLY SER ILE PHE ASN PHE ASN VAL SEQRES 8 A 291 LEU ASP GLU PHE LYS ASN LEU ASP LYS GLN LEU PHE LEU SEQRES 9 A 291 HIS GLN ARG ALA LEU GLU CYS TRP GLU ASP GLY ILE LYS SEQRES 10 A 291 ASP ILE ASN LYS CYS VAL SER PHE VAL ILE ILE SER PHE SEQRES 11 A 291 ALA ASP LEU LYS LYS TYR ARG PHE TYR TYR TRP LEU GLY SEQRES 12 A 291 VAL PRO CYS PHE GLN ARG PRO SER SER THR VAL LEU HIS SEQRES 13 A 291 VAL ARG PRO GLU PRO SER LEU LYS GLY LEU PHE SER LYS SEQRES 14 A 291 CYS GLN LYS TRP PHE ASP VAL ASN TYR SER LYS TRP VAL SEQRES 15 A 291 CYS ILE LEU ASP ALA ASP ASP GLU ILE VAL ASN TYR ASP SEQRES 16 A 291 LYS CYS ILE ILE ARG LYS THR LYS VAL LEU ALA ILE ARG SEQRES 17 A 291 ASP THR SER THR MET GLU ASN VAL PRO SER ALA LEU THR SEQRES 18 A 291 LYS ASN PHE LEU SER VAL LEU GLN TYR ASP VAL PRO ASP SEQRES 19 A 291 LEU ILE ASP PHE LYS LEU LEU ILE ILE ARG GLN ASN GLU SEQRES 20 A 291 GLY SER PHE ALA LEU ASN ALA THR PHE ALA SER ILE ASP SEQRES 21 A 291 PRO GLN SER SER SER SER ASN PRO ASP MET LYS VAL SER SEQRES 22 A 291 GLY TRP GLU ARG ASN VAL GLN GLY LYS LEU ALA PRO ARG SEQRES 23 A 291 VAL VAL ASP LEU SER SEQRES 1 B 291 GLY SER MET SER SER GLU ARG VAL LEU SER TYR ALA PRO SEQRES 2 B 291 ALA PHE LYS SER PHE LEU ASP THR SER PHE PHE GLN GLU SEQRES 3 B 291 LEU SER ARG LEU LYS LEU ASP VAL LEU LYS LEU ASP SER SEQRES 4 B 291 THR CYS GLN PRO LEU THR VAL ASN LEU ASP LEU HIS ASN SEQRES 5 B 291 ILE PRO LYS SER ALA ASP GLN VAL PRO LEU PHE LEU THR SEQRES 6 B 291 ASN ARG SER PHE GLU LYS HIS ASN ASN LYS ARG THR ASN SEQRES 7 B 291 GLU VAL PRO LEU GLN GLY SER ILE PHE ASN PHE ASN VAL SEQRES 8 B 291 LEU ASP GLU PHE LYS ASN LEU ASP LYS GLN LEU PHE LEU SEQRES 9 B 291 HIS GLN ARG ALA LEU GLU CYS TRP GLU ASP GLY ILE LYS SEQRES 10 B 291 ASP ILE ASN LYS CYS VAL SER PHE VAL ILE ILE SER PHE SEQRES 11 B 291 ALA ASP LEU LYS LYS TYR ARG PHE TYR TYR TRP LEU GLY SEQRES 12 B 291 VAL PRO CYS PHE GLN ARG PRO SER SER THR VAL LEU HIS SEQRES 13 B 291 VAL ARG PRO GLU PRO SER LEU LYS GLY LEU PHE SER LYS SEQRES 14 B 291 CYS GLN LYS TRP PHE ASP VAL ASN TYR SER LYS TRP VAL SEQRES 15 B 291 CYS ILE LEU ASP ALA ASP ASP GLU ILE VAL ASN TYR ASP SEQRES 16 B 291 LYS CYS ILE ILE ARG LYS THR LYS VAL LEU ALA ILE ARG SEQRES 17 B 291 ASP THR SER THR MET GLU ASN VAL PRO SER ALA LEU THR SEQRES 18 B 291 LYS ASN PHE LEU SER VAL LEU GLN TYR ASP VAL PRO ASP SEQRES 19 B 291 LEU ILE ASP PHE LYS LEU LEU ILE ILE ARG GLN ASN GLU SEQRES 20 B 291 GLY SER PHE ALA LEU ASN ALA THR PHE ALA SER ILE ASP SEQRES 21 B 291 PRO GLN SER SER SER SER ASN PRO ASP MET LYS VAL SER SEQRES 22 B 291 GLY TRP GLU ARG ASN VAL GLN GLY LYS LEU ALA PRO ARG SEQRES 23 B 291 VAL VAL ASP LEU SER SEQRES 1 D 17 SER ILE ASP ASP ILE ASP GLU LEU ILE GLN ASP MET GLU SEQRES 2 D 17 ILE LYS GLU GLU SEQRES 1 C 17 SER ILE ASP ASP ILE ASP GLU LEU ILE GLN ASP MET GLU SEQRES 2 C 17 ILE LYS GLU GLU FORMUL 5 HOH *190(H2 O) HELIX 1 1 ASP A 18 VAL A 32 1 15 HELIX 2 2 THR A 63 GLU A 68 5 6 HELIX 3 3 VAL A 89 LEU A 96 1 8 HELIX 4 4 ASP A 97 ASP A 116 1 20 HELIX 5 5 ILE A 117 CYS A 120 5 4 HELIX 6 6 PRO A 159 GLY A 163 5 5 HELIX 7 7 LEU A 164 ASN A 175 1 12 HELIX 8 8 ASP A 193 LYS A 201 1 9 HELIX 9 9 LEU A 218 VAL A 230 1 13 HELIX 10 10 THR B 19 LYS B 29 5 11 HELIX 11 11 THR B 63 GLU B 68 5 6 HELIX 12 12 VAL B 89 LEU B 96 1 8 HELIX 13 13 ASP B 97 ILE B 114 1 18 HELIX 14 14 ASP B 116 CYS B 120 5 5 HELIX 15 15 PRO B 159 GLY B 163 5 5 HELIX 16 16 LEU B 164 ASN B 175 1 12 HELIX 17 17 ASP B 193 LYS B 201 1 9 HELIX 18 18 LEU B 218 VAL B 230 1 13 HELIX 19 19 GLU D 134 MET D 139 1 6 HELIX 20 20 ASP C 131 GLU C 140 1 10 SHEET 1 A 7 ARG A 5 VAL A 6 0 SHEET 2 A 7 THR A 151 PRO A 157 -1 O VAL A 155 N ARG A 5 SHEET 3 A 7 PHE A 248 SER A 256 -1 O ASN A 251 N ARG A 156 SHEET 4 A 7 ASP A 235 ILE A 241 -1 N ILE A 240 O PHE A 248 SHEET 5 A 7 VAL A 202 ARG A 206 1 N LEU A 203 O LEU A 239 SHEET 6 A 7 VAL A 180 LEU A 183 -1 N CYS A 181 O ALA A 204 SHEET 7 A 7 ILE A 189 ASN A 191 -1 O VAL A 190 N ILE A 182 SHEET 1 B 2 PHE A 13 LEU A 17 0 SHEET 2 B 2 VAL A 58 LEU A 62 1 O LEU A 60 N LYS A 14 SHEET 1 C 5 SER A 37 LEU A 46 0 SHEET 2 C 5 VAL A 78 PHE A 87 -1 O VAL A 78 N LEU A 46 SHEET 3 C 5 PHE A 123 ASP A 130 1 O ILE A 125 N PHE A 85 SHEET 4 C 5 ARG A 135 GLN A 146 -1 O GLY A 141 N VAL A 124 SHEET 5 C 5 LYS A 269 TRP A 273 -1 O SER A 271 N CYS A 144 SHEET 1 D 5 SER A 37 LEU A 46 0 SHEET 2 D 5 VAL A 78 PHE A 87 -1 O VAL A 78 N LEU A 46 SHEET 3 D 5 PHE A 123 ASP A 130 1 O ILE A 125 N PHE A 85 SHEET 4 D 5 ARG A 135 GLN A 146 -1 O GLY A 141 N VAL A 124 SHEET 5 D 5 ARG A 284 ASP A 287 -1 O VAL A 286 N PHE A 136 SHEET 1 E 7 ARG B 5 VAL B 6 0 SHEET 2 E 7 VAL B 152 PRO B 157 -1 O VAL B 155 N ARG B 5 SHEET 3 E 7 PHE B 248 ALA B 255 -1 O ASN B 251 N ARG B 156 SHEET 4 E 7 ASP B 235 ILE B 241 -1 N LEU B 238 O LEU B 250 SHEET 5 E 7 VAL B 202 ARG B 206 1 N LEU B 203 O LEU B 239 SHEET 6 E 7 VAL B 180 LEU B 183 -1 N CYS B 181 O ALA B 204 SHEET 7 E 7 ILE B 189 ASN B 191 -1 O VAL B 190 N ILE B 182 SHEET 1 F 2 PHE B 13 LEU B 17 0 SHEET 2 F 2 VAL B 58 LEU B 62 1 O LEU B 60 N LYS B 14 SHEET 1 G 5 SER B 37 LEU B 46 0 SHEET 2 G 5 VAL B 78 PHE B 87 -1 O VAL B 78 N LEU B 46 SHEET 3 G 5 PHE B 123 ASP B 130 1 O ILE B 125 N PHE B 85 SHEET 4 G 5 ARG B 135 GLN B 146 -1 O GLY B 141 N VAL B 124 SHEET 5 G 5 LYS B 269 TRP B 273 -1 O SER B 271 N CYS B 144 SHEET 1 H 5 SER B 37 LEU B 46 0 SHEET 2 H 5 VAL B 78 PHE B 87 -1 O VAL B 78 N LEU B 46 SHEET 3 H 5 PHE B 123 ASP B 130 1 O ILE B 125 N PHE B 85 SHEET 4 H 5 ARG B 135 GLN B 146 -1 O GLY B 141 N VAL B 124 SHEET 5 H 5 ARG B 284 ASP B 287 -1 O ARG B 284 N TYR B 138 CISPEP 1 ARG A 147 PRO A 148 0 -0.70 CISPEP 2 ARG A 147 PRO A 148 0 -1.07 CISPEP 3 ARG B 147 PRO B 148 0 0.55 CISPEP 4 ASP D 133 GLU D 134 0 -1.24 CRYST1 152.135 99.429 71.502 90.00 113.13 90.00 C 1 2 1 8 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 0.006573 0.000000 0.002808 0.00000 SCALE2 0.000000 0.010057 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015208 0.00000