PDB Short entry for 5TDC HEADER LIGASE 19-SEP-16 5TDC TITLE CRYSTAL STRUCTURE OF THE HUMAN UBR-BOX DOMAIN FROM UBR1 IN COMPLEX TITLE 2 WITH MONOMETHYLATED ARGININE PEPTIDE. COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE UBR1; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: N-RECOGNIN-1,UBIQUITIN-PROTEIN LIGASE E3-ALPHA-1,UBIQUITIN- COMPND 5 PROTEIN LIGASE E3-ALPHA-I; COMPND 6 EC: 6.3.2.-; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: NMM-ILE-PHE-SER PEPTIDE; COMPND 10 CHAIN: B, D; COMPND 11 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: UBR1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_TAXID: 9606 KEYWDS UBR-BOX, N-END RULE, N-DEGRON, MONOMETHYLATED ARGININE, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR G.KOZLOV,J.MUNOZ-ESCOBAR,E.MATTA-CAMACHO,K.GEHRING REVDAT 6 04-OCT-23 5TDC 1 REMARK REVDAT 5 08-JAN-20 5TDC 1 REMARK REVDAT 4 20-SEP-17 5TDC 1 REMARK REVDAT 3 10-MAY-17 5TDC 1 JRNL REVDAT 2 26-APR-17 5TDC 1 JRNL REVDAT 1 22-MAR-17 5TDC 0 JRNL AUTH J.MUNOZ-ESCOBAR,E.MATTA-CAMACHO,C.CHO,G.KOZLOV,K.GEHRING JRNL TITL BOUND WATERS MEDIATE BINDING OF DIVERSE SUBSTRATES TO A JRNL TITL 2 UBIQUITIN LIGASE. JRNL REF STRUCTURE V. 25 719 2017 JRNL REFN ISSN 1878-4186 JRNL PMID 28392261 JRNL DOI 10.1016/J.STR.2017.03.004 REMARK 2 REMARK 2 RESOLUTION. 1.61 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) 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) : 1.61 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.74 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 16360 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 827 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 28.7410 - 2.9199 1.00 2826 124 0.1491 0.1791 REMARK 3 2 2.9199 - 2.3179 1.00 2673 135 0.1487 0.1768 REMARK 3 3 2.3179 - 2.0250 1.00 2629 151 0.1323 0.1520 REMARK 3 4 2.0250 - 1.8399 1.00 2603 140 0.1442 0.2004 REMARK 3 5 1.8399 - 1.7081 0.98 2556 156 0.1568 0.2111 REMARK 3 6 1.7081 - 1.6074 0.86 2246 121 0.1903 0.1970 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 : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.070 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.030 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 : 0.009 1228 REMARK 3 ANGLE : 1.050 1626 REMARK 3 CHIRALITY : 0.062 170 REMARK 3 PLANARITY : 0.008 209 REMARK 3 DIHEDRAL : 12.992 695 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 11 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 98 THROUGH 112 ) REMARK 3 ORIGIN FOR THE GROUP (A): 8.6963 4.5210 20.9508 REMARK 3 T TENSOR REMARK 3 T11: 0.2099 T22: 0.1407 REMARK 3 T33: 0.1331 T12: 0.0034 REMARK 3 T13: -0.0161 T23: 0.0241 REMARK 3 L TENSOR REMARK 3 L11: 0.3080 L22: 0.2061 REMARK 3 L33: 0.0552 L12: 0.0079 REMARK 3 L13: 0.0214 L23: -0.0339 REMARK 3 S TENSOR REMARK 3 S11: 0.0941 S12: 0.0568 S13: -0.0800 REMARK 3 S21: -0.1235 S22: -0.0404 S23: -0.0128 REMARK 3 S31: 0.0073 S32: 0.0686 S33: -0.0001 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 113 THROUGH 130 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.5868 1.9799 28.2981 REMARK 3 T TENSOR REMARK 3 T11: 0.1395 T22: 0.1441 REMARK 3 T33: 0.1693 T12: 0.0045 REMARK 3 T13: -0.0033 T23: 0.0199 REMARK 3 L TENSOR REMARK 3 L11: 0.3315 L22: 0.7346 REMARK 3 L33: 0.4004 L12: 0.3748 REMARK 3 L13: 0.0875 L23: -0.2470 REMARK 3 S TENSOR REMARK 3 S11: 0.0147 S12: 0.0732 S13: 0.0494 REMARK 3 S21: 0.1140 S22: -0.0135 S23: -0.0526 REMARK 3 S31: -0.0838 S32: 0.0479 S33: -0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 131 THROUGH 162 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.8042 0.7056 27.6283 REMARK 3 T TENSOR REMARK 3 T11: 0.1595 T22: 0.1164 REMARK 3 T33: 0.1298 T12: 0.0119 REMARK 3 T13: -0.0059 T23: 0.0116 REMARK 3 L TENSOR REMARK 3 L11: 0.4019 L22: 0.6906 REMARK 3 L33: 0.3977 L12: -0.0289 REMARK 3 L13: 0.2593 L23: -0.0768 REMARK 3 S TENSOR REMARK 3 S11: -0.0050 S12: -0.0160 S13: -0.1057 REMARK 3 S21: 0.0896 S22: 0.0457 S23: -0.0365 REMARK 3 S31: -0.1985 S32: 0.0018 S33: 0.0029 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 163 THROUGH 167 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.6993 -5.1585 29.9779 REMARK 3 T TENSOR REMARK 3 T11: 0.1702 T22: 0.1805 REMARK 3 T33: 0.1923 T12: -0.0308 REMARK 3 T13: 0.0018 T23: 0.0283 REMARK 3 L TENSOR REMARK 3 L11: 0.0421 L22: 0.0169 REMARK 3 L33: 0.0635 L12: 0.0117 REMARK 3 L13: 0.0022 L23: 0.0306 REMARK 3 S TENSOR REMARK 3 S11: 0.0816 S12: -0.2902 S13: -0.2070 REMARK 3 S21: 0.1389 S22: -0.0225 S23: -0.1448 REMARK 3 S31: 0.4939 S32: -0.3414 S33: -0.0003 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 98 THROUGH 107 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.8934 5.3243 9.9013 REMARK 3 T TENSOR REMARK 3 T11: 0.1641 T22: 0.2160 REMARK 3 T33: 0.1421 T12: 0.0336 REMARK 3 T13: 0.0301 T23: 0.0105 REMARK 3 L TENSOR REMARK 3 L11: 0.3283 L22: 0.9922 REMARK 3 L33: 0.2533 L12: -0.1880 REMARK 3 L13: -0.0953 L23: 0.4999 REMARK 3 S TENSOR REMARK 3 S11: -0.1101 S12: 0.2032 S13: 0.3157 REMARK 3 S21: -0.0746 S22: 0.2446 S23: -0.2106 REMARK 3 S31: -0.2215 S32: -0.2264 S33: 0.0463 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 108 THROUGH 135 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.9779 0.6640 22.1046 REMARK 3 T TENSOR REMARK 3 T11: 0.1234 T22: 0.1332 REMARK 3 T33: 0.1361 T12: -0.0071 REMARK 3 T13: 0.0003 T23: -0.0048 REMARK 3 L TENSOR REMARK 3 L11: 0.1729 L22: 0.1465 REMARK 3 L33: 0.6367 L12: 0.1324 REMARK 3 L13: 0.1009 L23: -0.0874 REMARK 3 S TENSOR REMARK 3 S11: 0.0065 S12: 0.0256 S13: 0.0206 REMARK 3 S21: -0.0952 S22: 0.0191 S23: -0.0458 REMARK 3 S31: -0.0861 S32: 0.0168 S33: 0.0001 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 136 THROUGH 142 ) REMARK 3 ORIGIN FOR THE GROUP (A): -3.0794 -1.7951 22.8945 REMARK 3 T TENSOR REMARK 3 T11: 0.1382 T22: 0.2155 REMARK 3 T33: 0.1310 T12: 0.0245 REMARK 3 T13: 0.0081 T23: 0.0054 REMARK 3 L TENSOR REMARK 3 L11: 0.0362 L22: 0.1214 REMARK 3 L33: 0.0637 L12: -0.0026 REMARK 3 L13: -0.0480 L23: -0.0264 REMARK 3 S TENSOR REMARK 3 S11: -0.0054 S12: 0.1481 S13: -0.1981 REMARK 3 S21: -0.0709 S22: 0.0579 S23: -0.0667 REMARK 3 S31: 0.2222 S32: 0.0165 S33: -0.0000 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 143 THROUGH 162 ) REMARK 3 ORIGIN FOR THE GROUP (A): -14.6547 -1.4205 17.1489 REMARK 3 T TENSOR REMARK 3 T11: 0.1083 T22: 0.1656 REMARK 3 T33: 0.1283 T12: 0.0154 REMARK 3 T13: -0.0043 T23: -0.0154 REMARK 3 L TENSOR REMARK 3 L11: 0.2591 L22: 0.3694 REMARK 3 L33: 0.2493 L12: -0.1525 REMARK 3 L13: 0.1287 L23: 0.0383 REMARK 3 S TENSOR REMARK 3 S11: 0.0263 S12: 0.0767 S13: -0.1107 REMARK 3 S21: -0.1442 S22: -0.0166 S23: 0.0097 REMARK 3 S31: -0.1466 S32: -0.0693 S33: -0.0008 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 163 THROUGH 168 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.9807 8.9787 21.9318 REMARK 3 T TENSOR REMARK 3 T11: 0.1716 T22: 0.1988 REMARK 3 T33: 0.1963 T12: 0.0324 REMARK 3 T13: 0.0110 T23: -0.0004 REMARK 3 L TENSOR REMARK 3 L11: 0.1287 L22: 0.1258 REMARK 3 L33: 0.2817 L12: 0.0554 REMARK 3 L13: 0.1288 L23: 0.1807 REMARK 3 S TENSOR REMARK 3 S11: 0.3456 S12: 0.3637 S13: 0.6655 REMARK 3 S21: 0.0183 S22: -0.2263 S23: 0.0980 REMARK 3 S31: 0.0482 S32: -0.3555 S33: 0.0060 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 2 THROUGH 3 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.0060 2.4277 15.7125 REMARK 3 T TENSOR REMARK 3 T11: 0.1679 T22: 0.2410 REMARK 3 T33: 0.1446 T12: 0.0584 REMARK 3 T13: 0.0004 T23: -0.0070 REMARK 3 L TENSOR REMARK 3 L11: 1.1203 L22: 0.4433 REMARK 3 L33: 2.0000 L12: -0.5682 REMARK 3 L13: -2.9603 L23: 2.3019 REMARK 3 S TENSOR REMARK 3 S11: 0.0944 S12: 0.3343 S13: -0.1029 REMARK 3 S21: -0.0826 S22: -0.1484 S23: -0.0920 REMARK 3 S31: 0.0205 S32: 0.1430 S33: 0.0071 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 2 THROUGH 4 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.3365 -6.8574 8.2440 REMARK 3 T TENSOR REMARK 3 T11: 0.3035 T22: 0.2519 REMARK 3 T33: 0.2182 T12: 0.0211 REMARK 3 T13: 0.0207 T23: -0.0562 REMARK 3 L TENSOR REMARK 3 L11: 0.0481 L22: 0.0726 REMARK 3 L33: 0.1746 L12: 0.0326 REMARK 3 L13: 0.0134 L23: 0.1007 REMARK 3 S TENSOR REMARK 3 S11: -0.0374 S12: 0.1340 S13: -0.4075 REMARK 3 S21: -0.5032 S22: -0.2168 S23: 0.1079 REMARK 3 S31: 0.0751 S32: -0.0265 S33: 0.0014 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 5TDC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-SEP-16. REMARK 100 THE DEPOSITION ID IS D_1000223534. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-OCT-10 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 : CHESS REMARK 200 BEAMLINE : A1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9769 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16360 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.607 REMARK 200 RESOLUTION RANGE LOW (A) : 28.736 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 2.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.2600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.61 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.63 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: 3NY1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 28.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.73 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.2 M (NH4)2SO4, 0.2 K/NA TARTRATE, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 23.63700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 26.81700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 24.51800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 26.81700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.63700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 24.51800 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 940 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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: 1040 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 4730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -41.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 GLY A 93 REMARK 465 PRO A 94 REMARK 465 LEU A 95 REMARK 465 GLY A 96 REMARK 465 SER A 97 REMARK 465 PRO A 168 REMARK 465 GLY C 93 REMARK 465 PRO C 94 REMARK 465 LEU C 95 REMARK 465 GLY C 96 REMARK 465 SER C 97 REMARK 465 SER B 4 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 SER D 4 OG 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 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 99 SG REMARK 620 2 CYS A 124 SG 121.5 REMARK 620 3 CYS A 127 SG 106.8 94.8 REMARK 620 4 CYS A 149 SG 106.9 113.8 112.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 203 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 112 SG REMARK 620 2 CYS A 115 SG 116.8 REMARK 620 3 HIS A 133 ND1 111.2 105.5 REMARK 620 4 HIS A 136 ND1 113.6 102.8 106.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 127 SG REMARK 620 2 CYS A 151 SG 114.0 REMARK 620 3 CYS A 163 SG 108.9 112.5 REMARK 620 4 HIS A 166 ND1 102.5 110.2 108.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 99 SG REMARK 620 2 CYS C 124 SG 113.1 REMARK 620 3 CYS C 127 SG 106.3 95.3 REMARK 620 4 CYS C 149 SG 112.9 114.2 113.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 203 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 112 SG REMARK 620 2 CYS C 115 SG 114.5 REMARK 620 3 HIS C 133 ND1 109.4 106.4 REMARK 620 4 HIS C 136 ND1 111.9 105.4 108.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 202 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 127 SG REMARK 620 2 CYS C 151 SG 111.6 REMARK 620 3 CYS C 163 SG 113.0 114.5 REMARK 620 4 HIS C 166 ND1 107.9 114.6 94.1 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 ZN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide NMM B 1 and ILE B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide NMM D 1 and ILE D 2 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5TDA RELATED DB: PDB REMARK 900 RELATED ID: 5TDB RELATED DB: PDB REMARK 900 RELATED ID: 5TDD RELATED DB: PDB DBREF 5TDC A 98 168 UNP Q8IWV7 UBR1_HUMAN 98 168 DBREF 5TDC C 98 168 UNP Q8IWV7 UBR1_HUMAN 98 168 DBREF 5TDC B 1 4 PDB 5TDC 5TDC 1 4 DBREF 5TDC D 1 4 PDB 5TDC 5TDC 1 4 SEQADV 5TDC GLY A 93 UNP Q8IWV7 EXPRESSION TAG SEQADV 5TDC PRO A 94 UNP Q8IWV7 EXPRESSION TAG SEQADV 5TDC LEU A 95 UNP Q8IWV7 EXPRESSION TAG SEQADV 5TDC GLY A 96 UNP Q8IWV7 EXPRESSION TAG SEQADV 5TDC SER A 97 UNP Q8IWV7 EXPRESSION TAG SEQADV 5TDC GLY C 93 UNP Q8IWV7 EXPRESSION TAG SEQADV 5TDC PRO C 94 UNP Q8IWV7 EXPRESSION TAG SEQADV 5TDC LEU C 95 UNP Q8IWV7 EXPRESSION TAG SEQADV 5TDC GLY C 96 UNP Q8IWV7 EXPRESSION TAG SEQADV 5TDC SER C 97 UNP Q8IWV7 EXPRESSION TAG SEQRES 1 A 76 GLY PRO LEU GLY SER LEU CYS GLY ARG VAL PHE LYS SER SEQRES 2 A 76 GLY GLU THR THR TYR SER CYS ARG ASP CYS ALA ILE ASP SEQRES 3 A 76 PRO THR CYS VAL LEU CYS MET ASP CYS PHE GLN ASP SER SEQRES 4 A 76 VAL HIS LYS ASN HIS ARG TYR LYS MET HIS THR SER THR SEQRES 5 A 76 GLY GLY GLY PHE CYS ASP CYS GLY ASP THR GLU ALA TRP SEQRES 6 A 76 LYS THR GLY PRO PHE CYS VAL ASN HIS GLU PRO SEQRES 1 C 76 GLY PRO LEU GLY SER LEU CYS GLY ARG VAL PHE LYS SER SEQRES 2 C 76 GLY GLU THR THR TYR SER CYS ARG ASP CYS ALA ILE ASP SEQRES 3 C 76 PRO THR CYS VAL LEU CYS MET ASP CYS PHE GLN ASP SER SEQRES 4 C 76 VAL HIS LYS ASN HIS ARG TYR LYS MET HIS THR SER THR SEQRES 5 C 76 GLY GLY GLY PHE CYS ASP CYS GLY ASP THR GLU ALA TRP SEQRES 6 C 76 LYS THR GLY PRO PHE CYS VAL ASN HIS GLU PRO SEQRES 1 B 4 NMM ILE PHE SER SEQRES 1 D 4 NMM ILE PHE SER HET NMM B 1 26 HET NMM D 1 26 HET ZN A 201 1 HET ZN A 202 1 HET ZN A 203 1 HET SO4 A 204 5 HET ZN C 201 1 HET ZN C 202 1 HET ZN C 203 1 HET SO4 C 204 5 HETNAM NMM (2S)-2-AMINO-5-[(N-METHYLCARBAMIMIDOYL)AMINO]PENTANOIC HETNAM 2 NMM ACID HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION HETSYN NMM L-NMMA FORMUL 3 NMM 2(C7 H16 N4 O2) FORMUL 5 ZN 6(ZN 2+) FORMUL 8 SO4 2(O4 S 2-) FORMUL 13 HOH *71(H2 O) HELIX 1 AA1 MET A 125 ASP A 130 1 6 HELIX 2 AA2 SER A 131 HIS A 136 5 6 HELIX 3 AA3 CYS C 124 ASP C 130 1 7 HELIX 4 AA4 SER C 131 HIS C 136 5 6 SHEET 1 AA1 3 LEU A 123 CYS A 124 0 SHEET 2 AA1 3 THR A 108 CYS A 112 -1 N TYR A 110 O LEU A 123 SHEET 3 AA1 3 TYR A 138 THR A 142 -1 O HIS A 141 N THR A 109 SHEET 1 AA2 2 THR C 108 CYS C 112 0 SHEET 2 AA2 2 TYR C 138 THR C 142 -1 O LYS C 139 N SER C 111 LINK C NMM B 1 N ILE B 2 1555 1555 1.34 LINK C NMM D 1 N ILE D 2 1555 1555 1.32 LINK SG CYS A 99 ZN ZN A 201 1555 1555 2.32 LINK SG CYS A 112 ZN ZN A 203 1555 1555 2.25 LINK SG CYS A 115 ZN ZN A 203 1555 1555 2.30 LINK SG CYS A 124 ZN ZN A 201 1555 1555 2.31 LINK SG CYS A 127 ZN ZN A 201 1555 1555 2.48 LINK SG CYS A 127 ZN ZN A 202 1555 1555 2.31 LINK ND1 HIS A 133 ZN ZN A 203 1555 1555 2.05 LINK ND1 HIS A 136 ZN ZN A 203 1555 1555 2.01 LINK SG CYS A 149 ZN ZN A 201 1555 1555 2.32 LINK SG CYS A 151 ZN ZN A 202 1555 1555 2.27 LINK SG CYS A 163 ZN ZN A 202 1555 1555 2.33 LINK ND1 HIS A 166 ZN ZN A 202 1555 1555 2.06 LINK SG CYS C 99 ZN ZN C 201 1555 1555 2.29 LINK SG CYS C 112 ZN ZN C 203 1555 1555 2.28 LINK SG CYS C 115 ZN ZN C 203 1555 1555 2.29 LINK SG CYS C 124 ZN ZN C 201 1555 1555 2.36 LINK SG CYS C 127 ZN ZN C 201 1555 1555 2.36 LINK SG CYS C 127 ZN ZN C 202 1555 1555 2.39 LINK ND1 HIS C 133 ZN ZN C 203 1555 1555 2.06 LINK ND1 HIS C 136 ZN ZN C 203 1555 1555 2.04 LINK SG CYS C 149 ZN ZN C 201 1555 1555 2.32 LINK SG CYS C 151 ZN ZN C 202 1555 1555 2.29 LINK SG CYS C 163 ZN ZN C 202 1555 1555 2.29 LINK ND1 HIS C 166 ZN ZN C 202 1555 1555 2.04 SITE 1 AC1 4 CYS A 99 CYS A 124 CYS A 127 CYS A 149 SITE 1 AC2 4 CYS A 127 CYS A 151 CYS A 163 HIS A 166 SITE 1 AC3 4 CYS A 112 CYS A 115 HIS A 133 HIS A 136 SITE 1 AC4 12 PHE A 103 HIS A 141 SER A 143 THR A 144 SITE 2 AC4 12 GLY A 145 GLY A 146 GLY A 147 HOH A 309 SITE 3 AC4 12 HOH A 310 HOH A 312 ILE B 2 PHE B 3 SITE 1 AC5 4 CYS C 99 CYS C 124 CYS C 127 CYS C 149 SITE 1 AC6 4 CYS C 127 CYS C 151 CYS C 163 HIS C 166 SITE 1 AC7 4 CYS C 112 CYS C 115 HIS C 133 HIS C 136 SITE 1 AC8 12 PHE C 103 HIS C 141 SER C 143 THR C 144 SITE 2 AC8 12 GLY C 145 GLY C 146 GLY C 147 HOH C 302 SITE 3 AC8 12 HOH C 305 HOH C 312 ILE D 2 PHE D 3 SITE 1 AC9 13 THR A 120 CYS A 121 HIS A 141 GLY A 147 SITE 2 AC9 13 PHE A 148 ASP A 150 ASP A 153 GLU A 155 SITE 3 AC9 13 SO4 A 204 HOH A 301 PHE B 3 HOH B 101 SITE 4 AC9 13 HOH B 102 SITE 1 AD1 10 THR C 120 HIS C 141 GLY C 147 PHE C 148 SITE 2 AD1 10 ASP C 150 ASP C 153 SO4 C 204 HOH C 301 SITE 3 AD1 10 PHE D 3 HOH D 102 CRYST1 47.274 49.036 53.634 90.00 90.00 90.00 P 21 21 21 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 0.021153 0.000000 0.000000 0.00000 SCALE2 0.000000 0.020393 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018645 0.00000