HEADER CELL CYCLE 09-JUN-16 5L95 TITLE CRYSTAL STRUCTURE OF HUMAN UBA5 IN COMPLEX WITH UFM1 AND AMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-LIKE MODIFIER-ACTIVATING ENZYME 5; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UBIQUITIN-ACTIVATING ENZYME 5,THIFP1,UFM1-ACTIVATING ENZYME, COMPND 5 UBIQUITIN-ACTIVATING ENZYME E1 DOMAIN-CONTAINING PROTEIN 1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: UBIQUITIN-FOLD MODIFIER 1; COMPND 9 CHAIN: C, D; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UBA5, UBE1DC1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: UFM1, C13ORF20, BM-002; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS UBIQUITIN LIKE PROTEIN E1, UBL, CELL CYCLE EXPDTA X-RAY DIFFRACTION AUTHOR W.OWEIS,P.PADALA,R.WIENER REVDAT 3 10-JAN-24 5L95 1 REMARK REVDAT 2 05-OCT-16 5L95 1 JRNL REVDAT 1 21-SEP-16 5L95 0 JRNL AUTH W.OWEIS,P.PADALA,F.HASSOUNA,E.COHEN-KFIR,D.R.GIBBS,E.A.TODD, JRNL AUTH 2 C.E.BERNDSEN,R.WIENER JRNL TITL TRANS-BINDING MECHANISM OF UBIQUITIN-LIKE PROTEIN ACTIVATION JRNL TITL 2 REVEALED BY A UBA5-UFM1 COMPLEX. JRNL REF CELL REP V. 16 3113 2016 JRNL REFN ESSN 2211-1247 JRNL PMID 27653677 JRNL DOI 10.1016/J.CELREP.2016.08.067 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10_2142: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 77.00 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 65664 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.200 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 3326 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 77.0508 - 6.0566 1.00 2755 148 0.1865 0.2292 REMARK 3 2 6.0566 - 4.8075 1.00 2659 146 0.1932 0.2104 REMARK 3 3 4.8075 - 4.1999 1.00 2652 129 0.1532 0.1854 REMARK 3 4 4.1999 - 3.8159 1.00 2614 145 0.1646 0.1810 REMARK 3 5 3.8159 - 3.5424 1.00 2628 147 0.1711 0.2017 REMARK 3 6 3.5424 - 3.3335 1.00 2577 152 0.1726 0.1958 REMARK 3 7 3.3335 - 3.1666 1.00 2607 140 0.1657 0.1719 REMARK 3 8 3.1666 - 3.0287 1.00 2617 125 0.1767 0.1856 REMARK 3 9 3.0287 - 2.9121 0.99 2587 125 0.1838 0.2130 REMARK 3 10 2.9121 - 2.8116 1.00 2609 148 0.1909 0.2006 REMARK 3 11 2.8116 - 2.7237 1.00 2585 128 0.1880 0.2102 REMARK 3 12 2.7237 - 2.6459 1.00 2586 126 0.1996 0.2012 REMARK 3 13 2.6459 - 2.5762 1.00 2596 153 0.2039 0.2168 REMARK 3 14 2.5762 - 2.5133 1.00 2595 127 0.2189 0.2090 REMARK 3 15 2.5133 - 2.4562 1.00 2547 149 0.2182 0.2569 REMARK 3 16 2.4562 - 2.4039 1.00 2602 123 0.2361 0.2344 REMARK 3 17 2.4039 - 2.3558 1.00 2571 129 0.2431 0.2845 REMARK 3 18 2.3558 - 2.3114 1.00 2596 129 0.2456 0.2568 REMARK 3 19 2.3114 - 2.2701 1.00 2610 110 0.2596 0.2943 REMARK 3 20 2.2701 - 2.2316 0.99 2502 159 0.3126 0.3709 REMARK 3 21 2.2316 - 2.1956 0.99 2575 162 0.2843 0.3178 REMARK 3 22 2.1956 - 2.1618 0.99 2571 122 0.2954 0.3436 REMARK 3 23 2.1618 - 2.1300 1.00 2541 149 0.3124 0.3279 REMARK 3 24 2.1300 - 2.1000 0.99 2556 155 0.3110 0.3083 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.770 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 5160 REMARK 3 ANGLE : 0.884 7002 REMARK 3 CHIRALITY : 0.053 809 REMARK 3 PLANARITY : 0.006 908 REMARK 3 DIHEDRAL : 13.775 3093 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESSEQ 68:346) REMARK 3 ORIGIN FOR THE GROUP (A): 53.8654 -42.2456 15.8417 REMARK 3 T TENSOR REMARK 3 T11: 0.1534 T22: 0.1340 REMARK 3 T33: 0.1710 T12: -0.0695 REMARK 3 T13: 0.0104 T23: 0.0007 REMARK 3 L TENSOR REMARK 3 L11: 1.5644 L22: 1.5198 REMARK 3 L33: 2.0580 L12: 0.1549 REMARK 3 L13: 0.2820 L23: -0.4911 REMARK 3 S TENSOR REMARK 3 S11: 0.0752 S12: -0.1151 S13: -0.0314 REMARK 3 S21: 0.1523 S22: 0.0092 S23: 0.1360 REMARK 3 S31: -0.2093 S32: -0.0562 S33: 0.0490 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN B AND RESSEQ 68:346) REMARK 3 ORIGIN FOR THE GROUP (A): 28.7106 -58.3952 9.1767 REMARK 3 T TENSOR REMARK 3 T11: 0.2071 T22: 0.2634 REMARK 3 T33: 0.2777 T12: -0.1271 REMARK 3 T13: 0.0314 T23: 0.0297 REMARK 3 L TENSOR REMARK 3 L11: 1.9335 L22: 1.9410 REMARK 3 L33: 1.7619 L12: 0.9304 REMARK 3 L13: -0.2972 L23: 0.2277 REMARK 3 S TENSOR REMARK 3 S11: -0.0459 S12: -0.0136 S13: 0.2839 REMARK 3 S21: 0.1809 S22: 0.0417 S23: 0.4713 REMARK 3 S31: 0.1444 S32: -0.3538 S33: -0.1149 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN C AND RESSEQ 4:83) REMARK 3 ORIGIN FOR THE GROUP (A): 51.7109 -31.3142 -7.6828 REMARK 3 T TENSOR REMARK 3 T11: 0.3730 T22: 0.2809 REMARK 3 T33: 0.2858 T12: -0.1240 REMARK 3 T13: -0.0281 T23: -0.0059 REMARK 3 L TENSOR REMARK 3 L11: 0.3446 L22: 0.6765 REMARK 3 L33: 0.8934 L12: -0.1834 REMARK 3 L13: 0.2031 L23: -0.1866 REMARK 3 S TENSOR REMARK 3 S11: -0.1936 S12: 0.0436 S13: 0.0295 REMARK 3 S21: -0.3237 S22: 0.2713 S23: 0.1790 REMARK 3 S31: -0.2235 S32: -0.2308 S33: 0.0375 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN D AND RESSEQ 4:83) REMARK 3 ORIGIN FOR THE GROUP (A): 43.6643 -74.2674 -4.2265 REMARK 3 T TENSOR REMARK 3 T11: 0.4053 T22: 0.3667 REMARK 3 T33: 0.2773 T12: -0.1143 REMARK 3 T13: 0.0214 T23: -0.0064 REMARK 3 L TENSOR REMARK 3 L11: 0.5474 L22: 0.4895 REMARK 3 L33: 0.6310 L12: 0.0662 REMARK 3 L13: -0.2415 L23: 0.3220 REMARK 3 S TENSOR REMARK 3 S11: -0.1959 S12: 0.0419 S13: -0.2235 REMARK 3 S21: 0.1060 S22: 0.1968 S23: -0.0988 REMARK 3 S31: 0.4276 S32: 0.2226 S33: 0.0193 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 5L95 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1200000357. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-SEP-15 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 : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979490 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65695 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 77.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 8.700 REMARK 200 R MERGE (I) : 0.15500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 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: PHASER REMARK 200 STARTING MODEL: 5IAA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 68.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH7.5, 10% PEG 6000 AND 5% REMARK 280 2-METHYL-2,4-PENTANEDIOL (MPD), VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.49467 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 33.24733 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 33.24733 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 66.49467 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 TOTAL BURIED SURFACE AREA: 11060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27100 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -60.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, 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 ALA A 111 REMARK 465 ASN A 112 REMARK 465 MET A 113 REMARK 465 ASN A 114 REMARK 465 ARG A 115 REMARK 465 LEU A 116 REMARK 465 LEU A 244 REMARK 465 LYS A 245 REMARK 465 ARG A 246 REMARK 465 GLU A 247 REMARK 465 GLY A 248 REMARK 465 VAL A 249 REMARK 465 CYS A 250 REMARK 465 ALA A 251 REMARK 465 ALA A 252 REMARK 465 LYS A 324 REMARK 465 GLN A 325 REMARK 465 GLU A 326 REMARK 465 VAL A 327 REMARK 465 ILE A 328 REMARK 465 GLN A 329 REMARK 465 GLU A 330 REMARK 465 GLU A 331 REMARK 465 GLU A 332 REMARK 465 LYS B 107 REMARK 465 VAL B 108 REMARK 465 GLU B 109 REMARK 465 LEU B 110 REMARK 465 ALA B 111 REMARK 465 ASN B 112 REMARK 465 MET B 113 REMARK 465 ASN B 114 REMARK 465 ARG B 115 REMARK 465 LEU B 116 REMARK 465 PHE B 117 REMARK 465 PHE B 118 REMARK 465 GLN B 119 REMARK 465 PRO B 120 REMARK 465 HIS B 121 REMARK 465 GLN B 122 REMARK 465 ALA B 123 REMARK 465 THR B 243 REMARK 465 LEU B 244 REMARK 465 LYS B 245 REMARK 465 ARG B 246 REMARK 465 GLU B 247 REMARK 465 GLY B 248 REMARK 465 VAL B 249 REMARK 465 CYS B 250 REMARK 465 ALA B 251 REMARK 465 ALA B 252 REMARK 465 PRO B 323 REMARK 465 LYS B 324 REMARK 465 GLN B 325 REMARK 465 GLU B 326 REMARK 465 VAL B 327 REMARK 465 ILE B 328 REMARK 465 GLN B 329 REMARK 465 GLU B 330 REMARK 465 GLU B 331 REMARK 465 GLU B 332 REMARK 465 GLU B 333 REMARK 465 ILE B 334 REMARK 465 ILE B 335 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 OE1 GLU A 209 O HOH A 501 2.08 REMARK 500 NE2 HIS B 336 OE1 GLU C 39 2.19 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 GLU B 340 CD GLU B 340 OE1 -0.126 REMARK 500 GLU B 340 CD GLU B 340 OE2 -0.100 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 GLU A 69 1.42 -68.60 REMARK 500 VAL A 81 55.22 -116.21 REMARK 500 GLU A 241 80.14 -57.07 REMARK 500 LEU A 322 -179.11 -68.22 REMARK 500 GLU A 337 84.36 -54.95 REMARK 500 ASP A 338 159.51 87.51 REMARK 500 ASN A 339 82.68 -172.02 REMARK 500 VAL B 81 52.26 -115.37 REMARK 500 GLU B 241 2.94 -58.69 REMARK 500 ASN B 339 89.36 -167.09 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 322 PRO A 323 -145.42 REMARK 500 ALA B 321 LEU B 322 141.06 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 ZN A 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 226 SG REMARK 620 2 CYS A 229 SG 113.7 REMARK 620 3 CYS A 303 SG 104.7 115.8 REMARK 620 4 CYS A 308 SG 104.7 103.0 114.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 226 SG REMARK 620 2 CYS B 229 SG 114.1 REMARK 620 3 CYS B 303 SG 107.4 110.3 REMARK 620 4 CYS B 308 SG 105.1 103.2 116.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AMP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 401 DBREF 5L95 A 68 346 UNP Q9GZZ9 UBA5_HUMAN 68 346 DBREF 5L95 B 68 346 UNP Q9GZZ9 UBA5_HUMAN 68 346 DBREF 5L95 C 4 83 UNP P61960 UFM1_HUMAN 4 83 DBREF 5L95 D 4 83 UNP P61960 UFM1_HUMAN 4 83 SEQRES 1 A 279 TYR GLU LYS ILE ARG THR PHE ALA VAL ALA ILE VAL GLY SEQRES 2 A 279 VAL GLY GLY VAL GLY SER VAL THR ALA GLU MET LEU THR SEQRES 3 A 279 ARG CYS GLY ILE GLY LYS LEU LEU LEU PHE ASP TYR ASP SEQRES 4 A 279 LYS VAL GLU LEU ALA ASN MET ASN ARG LEU PHE PHE GLN SEQRES 5 A 279 PRO HIS GLN ALA GLY LEU SER LYS VAL GLN ALA ALA GLU SEQRES 6 A 279 HIS THR LEU ARG ASN ILE ASN PRO ASP VAL LEU PHE GLU SEQRES 7 A 279 VAL HIS ASN TYR ASN ILE THR THR VAL GLU ASN PHE GLN SEQRES 8 A 279 HIS PHE MET ASP ARG ILE SER ASN GLY GLY LEU GLU GLU SEQRES 9 A 279 GLY LYS PRO VAL ASP LEU VAL LEU SER CYS VAL ASP ASN SEQRES 10 A 279 PHE GLU ALA ARG MET THR ILE ASN THR ALA CYS ASN GLU SEQRES 11 A 279 LEU GLY GLN THR TRP MET GLU SER GLY VAL SER GLU ASN SEQRES 12 A 279 ALA VAL SER GLY HIS ILE GLN LEU ILE ILE PRO GLY GLU SEQRES 13 A 279 SER ALA CYS PHE ALA CYS ALA PRO PRO LEU VAL VAL ALA SEQRES 14 A 279 ALA ASN ILE ASP GLU LYS THR LEU LYS ARG GLU GLY VAL SEQRES 15 A 279 CYS ALA ALA SER LEU PRO THR THR MET GLY VAL VAL ALA SEQRES 16 A 279 GLY ILE LEU VAL GLN ASN VAL LEU LYS PHE LEU LEU ASN SEQRES 17 A 279 PHE GLY THR VAL SER PHE TYR LEU GLY TYR ASN ALA MET SEQRES 18 A 279 GLN ASP PHE PHE PRO THR MET SER MET LYS PRO ASN PRO SEQRES 19 A 279 GLN CYS ASP ASP ARG ASN CYS ARG LYS GLN GLN GLU GLU SEQRES 20 A 279 TYR LYS LYS LYS VAL ALA ALA LEU PRO LYS GLN GLU VAL SEQRES 21 A 279 ILE GLN GLU GLU GLU GLU ILE ILE HIS GLU ASP ASN GLU SEQRES 22 A 279 TRP GLY ILE GLU LEU VAL SEQRES 1 B 279 TYR GLU LYS ILE ARG THR PHE ALA VAL ALA ILE VAL GLY SEQRES 2 B 279 VAL GLY GLY VAL GLY SER VAL THR ALA GLU MET LEU THR SEQRES 3 B 279 ARG CYS GLY ILE GLY LYS LEU LEU LEU PHE ASP TYR ASP SEQRES 4 B 279 LYS VAL GLU LEU ALA ASN MET ASN ARG LEU PHE PHE GLN SEQRES 5 B 279 PRO HIS GLN ALA GLY LEU SER LYS VAL GLN ALA ALA GLU SEQRES 6 B 279 HIS THR LEU ARG ASN ILE ASN PRO ASP VAL LEU PHE GLU SEQRES 7 B 279 VAL HIS ASN TYR ASN ILE THR THR VAL GLU ASN PHE GLN SEQRES 8 B 279 HIS PHE MET ASP ARG ILE SER ASN GLY GLY LEU GLU GLU SEQRES 9 B 279 GLY LYS PRO VAL ASP LEU VAL LEU SER CYS VAL ASP ASN SEQRES 10 B 279 PHE GLU ALA ARG MET THR ILE ASN THR ALA CYS ASN GLU SEQRES 11 B 279 LEU GLY GLN THR TRP MET GLU SER GLY VAL SER GLU ASN SEQRES 12 B 279 ALA VAL SER GLY HIS ILE GLN LEU ILE ILE PRO GLY GLU SEQRES 13 B 279 SER ALA CYS PHE ALA CYS ALA PRO PRO LEU VAL VAL ALA SEQRES 14 B 279 ALA ASN ILE ASP GLU LYS THR LEU LYS ARG GLU GLY VAL SEQRES 15 B 279 CYS ALA ALA SER LEU PRO THR THR MET GLY VAL VAL ALA SEQRES 16 B 279 GLY ILE LEU VAL GLN ASN VAL LEU LYS PHE LEU LEU ASN SEQRES 17 B 279 PHE GLY THR VAL SER PHE TYR LEU GLY TYR ASN ALA MET SEQRES 18 B 279 GLN ASP PHE PHE PRO THR MET SER MET LYS PRO ASN PRO SEQRES 19 B 279 GLN CYS ASP ASP ARG ASN CYS ARG LYS GLN GLN GLU GLU SEQRES 20 B 279 TYR LYS LYS LYS VAL ALA ALA LEU PRO LYS GLN GLU VAL SEQRES 21 B 279 ILE GLN GLU GLU GLU GLU ILE ILE HIS GLU ASP ASN GLU SEQRES 22 B 279 TRP GLY ILE GLU LEU VAL SEQRES 1 C 80 VAL SER PHE LYS ILE THR LEU THR SER ASP PRO ARG LEU SEQRES 2 C 80 PRO TYR LYS VAL LEU SER VAL PRO GLU SER THR PRO PHE SEQRES 3 C 80 THR ALA VAL LEU LYS PHE ALA ALA GLU GLU PHE LYS VAL SEQRES 4 C 80 PRO ALA ALA THR SER ALA ILE ILE THR ASN ASP GLY ILE SEQRES 5 C 80 GLY ILE ASN PRO ALA GLN THR ALA GLY ASN VAL PHE LEU SEQRES 6 C 80 LYS HIS GLY SER GLU LEU ARG ILE ILE PRO ARG ASP ARG SEQRES 7 C 80 VAL GLY SEQRES 1 D 80 VAL SER PHE LYS ILE THR LEU THR SER ASP PRO ARG LEU SEQRES 2 D 80 PRO TYR LYS VAL LEU SER VAL PRO GLU SER THR PRO PHE SEQRES 3 D 80 THR ALA VAL LEU LYS PHE ALA ALA GLU GLU PHE LYS VAL SEQRES 4 D 80 PRO ALA ALA THR SER ALA ILE ILE THR ASN ASP GLY ILE SEQRES 5 D 80 GLY ILE ASN PRO ALA GLN THR ALA GLY ASN VAL PHE LEU SEQRES 6 D 80 LYS HIS GLY SER GLU LEU ARG ILE ILE PRO ARG ASP ARG SEQRES 7 D 80 VAL GLY HET AMP A 401 23 HET ZN A 402 1 HET ZN B 401 1 HETNAM AMP ADENOSINE MONOPHOSPHATE HETNAM ZN ZINC ION FORMUL 5 AMP C10 H14 N5 O7 P FORMUL 6 ZN 2(ZN 2+) FORMUL 8 HOH *193(H2 O) HELIX 1 AA1 TYR A 68 THR A 73 5 6 HELIX 2 AA2 GLY A 82 GLY A 96 1 15 HELIX 3 AA3 GLN A 119 ALA A 123 5 5 HELIX 4 AA4 SER A 126 ASN A 139 1 14 HELIX 5 AA5 THR A 153 GLY A 167 1 15 HELIX 6 AA6 ASN A 184 GLY A 199 1 16 HELIX 7 AA7 PRO A 232 ALA A 237 1 6 HELIX 8 AA8 LEU A 254 ASN A 275 1 22 HELIX 9 AA9 ASP A 305 ALA A 321 1 17 HELIX 10 AB1 TYR B 68 THR B 73 5 6 HELIX 11 AB2 GLY B 82 GLY B 96 1 15 HELIX 12 AB3 SER B 126 ASN B 139 1 14 HELIX 13 AB4 THR B 153 GLY B 167 1 15 HELIX 14 AB5 ASN B 184 GLY B 199 1 16 HELIX 15 AB6 PRO B 232 ALA B 237 1 6 HELIX 16 AB7 LEU B 254 ASN B 275 1 22 HELIX 17 AB8 ASP B 305 ALA B 321 1 17 HELIX 18 AB9 PRO C 28 LYS C 41 1 14 HELIX 19 AC1 THR C 62 GLY C 71 1 10 HELIX 20 AC2 PRO D 28 LYS D 41 1 14 HELIX 21 AC3 THR D 62 GLY D 71 1 10 SHEET 1 AA1 7 LEU A 143 HIS A 147 0 SHEET 2 AA1 7 LYS A 99 PHE A 103 1 N LEU A 100 O LEU A 143 SHEET 3 AA1 7 ALA A 75 VAL A 79 1 N ILE A 78 O LEU A 101 SHEET 4 AA1 7 LEU A 177 SER A 180 1 O LEU A 179 N VAL A 79 SHEET 5 AA1 7 TRP A 202 VAL A 207 1 O MET A 203 N SER A 180 SHEET 6 AA1 7 SER A 213 ILE A 219 -1 O ILE A 219 N TRP A 202 SHEET 7 AA1 7 TYR A 282 ASN A 286 -1 O TYR A 285 N GLY A 214 SHEET 1 AA2 6 GLU A 344 LEU A 345 0 SHEET 2 AA2 6 TYR D 18 SER D 22 -1 O SER D 22 N GLU A 344 SHEET 3 AA2 6 SER D 5 LEU D 10 -1 N ILE D 8 O LYS D 19 SHEET 4 AA2 6 GLU D 73 PRO D 78 1 O ILE D 76 N THR D 9 SHEET 5 AA2 6 SER D 47 THR D 51 -1 N ILE D 50 O ARG D 75 SHEET 6 AA2 6 GLY D 56 ILE D 57 -1 O ILE D 57 N ILE D 49 SHEET 1 AA3 8 LEU B 143 ASN B 148 0 SHEET 2 AA3 8 LYS B 99 ASP B 104 1 N LEU B 100 O LEU B 143 SHEET 3 AA3 8 ALA B 75 VAL B 79 1 N ILE B 78 O LEU B 101 SHEET 4 AA3 8 LEU B 177 SER B 180 1 O LEU B 179 N VAL B 79 SHEET 5 AA3 8 TRP B 202 VAL B 207 1 O MET B 203 N SER B 180 SHEET 6 AA3 8 SER B 213 ILE B 219 -1 O ILE B 219 N TRP B 202 SHEET 7 AA3 8 TYR B 282 ASN B 286 -1 O TYR B 285 N GLY B 214 SHEET 8 AA3 8 THR B 294 MET B 295 -1 O MET B 295 N TYR B 282 SHEET 1 AA4 6 GLU B 344 VAL B 346 0 SHEET 2 AA4 6 TYR C 18 SER C 22 -1 O SER C 22 N GLU B 344 SHEET 3 AA4 6 SER C 5 LEU C 10 -1 N ILE C 8 O LYS C 19 SHEET 4 AA4 6 GLU C 73 PRO C 78 1 O ILE C 76 N THR C 9 SHEET 5 AA4 6 SER C 47 THR C 51 -1 N ILE C 50 O ARG C 75 SHEET 6 AA4 6 GLY C 56 ILE C 57 -1 O ILE C 57 N ILE C 49 LINK SG CYS A 226 ZN ZN A 402 1555 1555 2.26 LINK SG CYS A 229 ZN ZN A 402 1555 1555 2.26 LINK SG CYS A 303 ZN ZN A 402 1555 1555 2.27 LINK SG CYS A 308 ZN ZN A 402 1555 1555 2.33 LINK SG CYS B 226 ZN ZN B 401 1555 1555 2.35 LINK SG CYS B 229 ZN ZN B 401 1555 1555 2.32 LINK SG CYS B 303 ZN ZN B 401 1555 1555 2.31 LINK SG CYS B 308 ZN ZN B 401 1555 1555 2.37 SITE 1 AC1 21 GLY A 80 GLY A 82 GLY A 83 ASP A 104 SITE 2 AC1 21 TYR A 105 ASP A 106 LYS A 127 TYR A 149 SITE 3 AC1 21 ASN A 150 ILE A 151 THR A 152 CYS A 181 SITE 4 AC1 21 VAL A 182 ASP A 183 ASN A 184 ALA A 187 SITE 5 AC1 21 HOH A 529 HOH A 534 HOH A 566 VAL C 82 SITE 6 AC1 21 GLY C 83 SITE 1 AC2 4 CYS A 226 CYS A 229 CYS A 303 CYS A 308 SITE 1 AC3 4 CYS B 226 CYS B 229 CYS B 303 CYS B 308 CRYST1 139.875 139.875 99.742 90.00 90.00 120.00 P 32 2 1 12 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 0.007149 0.004128 0.000000 0.00000 SCALE2 0.000000 0.008255 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010026 0.00000