HEADER HYDROLASE/HYDROLASE INHIBITOR 04-SEP-22 8EDE
TITLE CRYSTAL STRUCTURE OF COVALENT INHIBITOR 2-CHLORO-N'-(N-(4-
TITLE 2 CHLOROPHENYL)-N-METHYLGLYCYL)ACETOHYDRAZIDE BOUND TO UBIQUITIN C-
TITLE 3 TERMINAL HYDROLASE-L1
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: UBIQUITIN CARBOXYL-TERMINAL HYDROLASE ISOZYME L1;
COMPND 3 CHAIN: A, B;
COMPND 4 SYNONYM: UCH-L1,NEURON CYTOPLASMIC PROTEIN 9.5,PGP 9.5,PGP9.5,
COMPND 5 UBIQUITIN THIOESTERASE L1;
COMPND 6 EC: 3.4.19.12;
COMPND 7 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: UCHL1;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562;
SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 STAR DE3;
SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1
KEYWDS UCHL1, DEUBIQUITYLATING ENZYME, INHIBITOR, HYDROLASE, HYDROLASE-
KEYWDS 2 HYDROLASE INHIBITOR COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR R.PATEL,R.IMHOFF,D.FLAHERTY,C.DAS
REVDAT 4 20-NOV-24 8EDE 1 REMARK
REVDAT 3 10-APR-24 8EDE 1 JRNL
REVDAT 2 27-MAR-24 8EDE 1 JRNL
REVDAT 1 20-SEP-23 8EDE 0
JRNL AUTH R.D.IMHOFF,R.PATEL,M.H.SAFDAR,H.B.L.JONES,A.PINTO-FERNANDEZ,
JRNL AUTH 2 I.VENDRELL,H.CHEN,C.S.MULI,A.D.KRABILL,B.M.KESSLER,
JRNL AUTH 3 M.K.WENDT,C.DAS,D.P.FLAHERTY
JRNL TITL COVALENT FRAGMENT SCREENING AND OPTIMIZATION IDENTIFIES THE
JRNL TITL 2 CHLOROACETOHYDRAZIDE SCAFFOLD AS INHIBITORS FOR UBIQUITIN
JRNL TITL 3 C-TERMINAL HYDROLASE L1.
JRNL REF J.MED.CHEM. V. 67 4496 2024
JRNL REFN ISSN 0022-2623
JRNL PMID 38488146
JRNL DOI 10.1021/ACS.JMEDCHEM.3C01661
REMARK 2
REMARK 2 RESOLUTION. 1.80 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : PHENIX 1.12_2829
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) : 1.80
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.25
REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340
REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9
REMARK 3 NUMBER OF REFLECTIONS : 45838
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT.
REMARK 3 R VALUE (WORKING + TEST SET) : 0.195
REMARK 3 R VALUE (WORKING SET) : 0.193
REMARK 3 FREE R VALUE : 0.227
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.170
REMARK 3 FREE R VALUE TEST SET COUNT : 2371
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 45.2520 - 4.6245 1.00 2763 160 0.1787 0.2070
REMARK 3 2 4.6245 - 3.6711 1.00 2615 155 0.1420 0.1626
REMARK 3 3 3.6711 - 3.2072 1.00 2608 140 0.1719 0.2024
REMARK 3 4 3.2072 - 2.9140 1.00 2589 129 0.2035 0.2374
REMARK 3 5 2.9140 - 2.7052 1.00 2570 126 0.2130 0.2644
REMARK 3 6 2.7052 - 2.5457 1.00 2555 134 0.2078 0.2730
REMARK 3 7 2.5457 - 2.4182 1.00 2533 153 0.2009 0.2448
REMARK 3 8 2.4182 - 2.3130 1.00 2552 144 0.2112 0.2684
REMARK 3 9 2.3130 - 2.2239 1.00 2491 146 0.2024 0.2267
REMARK 3 10 2.2239 - 2.1472 1.00 2568 122 0.2080 0.2580
REMARK 3 11 2.1472 - 2.0801 1.00 2524 123 0.2120 0.2465
REMARK 3 12 2.0801 - 2.0206 1.00 2522 145 0.2196 0.2611
REMARK 3 13 2.0206 - 1.9674 1.00 2488 161 0.2424 0.2848
REMARK 3 14 1.9674 - 1.9194 1.00 2544 123 0.2637 0.3208
REMARK 3 15 1.9194 - 1.8758 1.00 2512 142 0.2961 0.3464
REMARK 3 16 1.8758 - 1.8359 1.00 2500 135 0.3162 0.3592
REMARK 3 17 1.8359 - 1.7991 1.00 2533 133 0.3428 0.3812
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) : 0.260
REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.140
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : 30.49
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.16
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 : 0.008 3521
REMARK 3 ANGLE : 0.834 4742
REMARK 3 CHIRALITY : 0.058 516
REMARK 3 PLANARITY : 0.006 628
REMARK 3 DIHEDRAL : 15.537 2133
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : 16
REMARK 3 TLS GROUP : 1
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 26 )
REMARK 3 ORIGIN FOR THE GROUP (A): 37.2374 10.3320 24.1373
REMARK 3 T TENSOR
REMARK 3 T11: 0.5185 T22: 0.2970
REMARK 3 T33: 0.2506 T12: 0.1370
REMARK 3 T13: 0.1296 T23: 0.0712
REMARK 3 L TENSOR
REMARK 3 L11: 3.8796 L22: 4.4226
REMARK 3 L33: 6.4361 L12: 0.8722
REMARK 3 L13: 2.4482 L23: 1.3333
REMARK 3 S TENSOR
REMARK 3 S11: -0.2715 S12: -0.3283 S13: -0.3661
REMARK 3 S21: 1.0055 S22: 0.3170 S23: -0.0382
REMARK 3 S31: 0.7135 S32: -0.0577 S33: 0.0126
REMARK 3 TLS GROUP : 2
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 27 THROUGH 56 )
REMARK 3 ORIGIN FOR THE GROUP (A): 32.5984 3.5194 9.6820
REMARK 3 T TENSOR
REMARK 3 T11: 0.2827 T22: 0.2642
REMARK 3 T33: 0.4132 T12: -0.0486
REMARK 3 T13: 0.0363 T23: -0.0103
REMARK 3 L TENSOR
REMARK 3 L11: 6.4699 L22: 5.7361
REMARK 3 L33: 3.0464 L12: 0.3865
REMARK 3 L13: -0.9414 L23: -0.7168
REMARK 3 S TENSOR
REMARK 3 S11: -0.3375 S12: 0.3339 S13: -0.7861
REMARK 3 S21: 0.1254 S22: 0.2953 S23: 0.8905
REMARK 3 S31: 0.6080 S32: -0.5694 S33: 0.0500
REMARK 3 TLS GROUP : 3
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 57 THROUGH 70 )
REMARK 3 ORIGIN FOR THE GROUP (A): 46.1137 20.1378 -1.8569
REMARK 3 T TENSOR
REMARK 3 T11: 0.3590 T22: 0.5818
REMARK 3 T33: 0.3612 T12: -0.0425
REMARK 3 T13: 0.0142 T23: 0.1140
REMARK 3 L TENSOR
REMARK 3 L11: 2.1482 L22: 2.8737
REMARK 3 L33: 5.4103 L12: 1.1260
REMARK 3 L13: 0.9112 L23: -0.3562
REMARK 3 S TENSOR
REMARK 3 S11: 0.4015 S12: 0.7025 S13: 0.0336
REMARK 3 S21: -0.8507 S22: -0.4129 S23: -0.1765
REMARK 3 S31: -0.0523 S32: -0.1247 S33: -0.0635
REMARK 3 TLS GROUP : 4
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 71 THROUGH 136 )
REMARK 3 ORIGIN FOR THE GROUP (A): 34.8864 23.5980 17.1605
REMARK 3 T TENSOR
REMARK 3 T11: 0.3500 T22: 0.2128
REMARK 3 T33: 0.2353 T12: 0.1127
REMARK 3 T13: 0.0159 T23: -0.0238
REMARK 3 L TENSOR
REMARK 3 L11: 3.7990 L22: 2.9772
REMARK 3 L33: 3.3129 L12: -0.6429
REMARK 3 L13: 0.7636 L23: -0.2848
REMARK 3 S TENSOR
REMARK 3 S11: -0.2916 S12: -0.2608 S13: 0.2834
REMARK 3 S21: 0.5791 S22: 0.1702 S23: 0.1769
REMARK 3 S31: -0.4931 S32: -0.2993 S33: 0.0846
REMARK 3 TLS GROUP : 5
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 137 THROUGH 159 )
REMARK 3 ORIGIN FOR THE GROUP (A): 47.6106 11.6907 22.9729
REMARK 3 T TENSOR
REMARK 3 T11: 0.5799 T22: 0.4114
REMARK 3 T33: 0.3083 T12: 0.1703
REMARK 3 T13: 0.0206 T23: 0.0333
REMARK 3 L TENSOR
REMARK 3 L11: 3.6952 L22: -0.0253
REMARK 3 L33: 6.8486 L12: 0.2335
REMARK 3 L13: -5.0148 L23: -0.3349
REMARK 3 S TENSOR
REMARK 3 S11: -0.6672 S12: -0.5993 S13: -0.3588
REMARK 3 S21: 0.5352 S22: 0.4017 S23: -0.3472
REMARK 3 S31: 0.5677 S32: 0.5320 S33: 0.3100
REMARK 3 TLS GROUP : 6
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 160 THROUGH 207 )
REMARK 3 ORIGIN FOR THE GROUP (A): 33.3451 13.0261 3.4312
REMARK 3 T TENSOR
REMARK 3 T11: 0.1638 T22: 0.2212
REMARK 3 T33: 0.2478 T12: 0.0196
REMARK 3 T13: 0.0065 T23: -0.0223
REMARK 3 L TENSOR
REMARK 3 L11: 3.7103 L22: 4.7620
REMARK 3 L33: 3.9188 L12: -1.8851
REMARK 3 L13: 2.1197 L23: -0.5790
REMARK 3 S TENSOR
REMARK 3 S11: 0.1293 S12: 0.3240 S13: -0.3218
REMARK 3 S21: -0.2685 S22: -0.1067 S23: 0.4691
REMARK 3 S31: 0.0836 S32: -0.0904 S33: -0.0049
REMARK 3 TLS GROUP : 7
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 208 THROUGH 221 )
REMARK 3 ORIGIN FOR THE GROUP (A): 39.3112 3.5325 8.4846
REMARK 3 T TENSOR
REMARK 3 T11: 0.2359 T22: 0.1700
REMARK 3 T33: 0.4021 T12: -0.0048
REMARK 3 T13: 0.0544 T23: 0.0498
REMARK 3 L TENSOR
REMARK 3 L11: 6.6345 L22: 6.3317
REMARK 3 L33: 8.6042 L12: -6.1698
REMARK 3 L13: -5.9854 L23: 6.0624
REMARK 3 S TENSOR
REMARK 3 S11: 0.5376 S12: 0.8664 S13: 0.1081
REMARK 3 S21: -0.1905 S22: -0.2608 S23: -0.1369
REMARK 3 S31: -0.3624 S32: -0.5901 S33: -0.2975
REMARK 3 TLS GROUP : 8
REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 19 )
REMARK 3 ORIGIN FOR THE GROUP (A): 16.4377 49.1364 39.2488
REMARK 3 T TENSOR
REMARK 3 T11: 0.3322 T22: 0.5404
REMARK 3 T33: 0.2291 T12: 0.1721
REMARK 3 T13: -0.0514 T23: -0.0991
REMARK 3 L TENSOR
REMARK 3 L11: 5.4318 L22: 4.2521
REMARK 3 L33: 6.4318 L12: 1.0097
REMARK 3 L13: -0.8041 L23: -3.0757
REMARK 3 S TENSOR
REMARK 3 S11: -0.3100 S12: -0.6767 S13: 0.2079
REMARK 3 S21: 0.3199 S22: 0.1726 S23: 0.2282
REMARK 3 S31: -0.3151 S32: -0.3156 S33: 0.1515
REMARK 3 TLS GROUP : 9
REMARK 3 SELECTION: CHAIN 'B' AND (RESID 20 THROUGH 56 )
REMARK 3 ORIGIN FOR THE GROUP (A): 23.9664 56.7191 28.1191
REMARK 3 T TENSOR
REMARK 3 T11: 0.3637 T22: 0.3131
REMARK 3 T33: 0.3689 T12: 0.0174
REMARK 3 T13: -0.0873 T23: -0.0758
REMARK 3 L TENSOR
REMARK 3 L11: 6.7963 L22: 4.6692
REMARK 3 L33: 5.9024 L12: 0.4189
REMARK 3 L13: -0.0041 L23: -1.5238
REMARK 3 S TENSOR
REMARK 3 S11: -0.5928 S12: -0.2423 S13: 1.1364
REMARK 3 S21: 0.4240 S22: 0.1749 S23: -0.3933
REMARK 3 S31: -0.8755 S32: 0.7784 S33: 0.3869
REMARK 3 TLS GROUP : 10
REMARK 3 SELECTION: CHAIN 'B' AND (RESID 57 THROUGH 70 )
REMARK 3 ORIGIN FOR THE GROUP (A): 14.1440 39.6484 13.0958
REMARK 3 T TENSOR
REMARK 3 T11: 0.8483 T22: 0.8584
REMARK 3 T33: 0.6232 T12: -0.2131
REMARK 3 T13: 0.1064 T23: -0.2630
REMARK 3 L TENSOR
REMARK 3 L11: 4.2102 L22: 9.9637
REMARK 3 L33: 4.8618 L12: -6.3183
REMARK 3 L13: -1.9413 L23: 1.6684
REMARK 3 S TENSOR
REMARK 3 S11: 0.3127 S12: 1.2869 S13: -0.5782
REMARK 3 S21: -0.9457 S22: -0.8257 S23: 0.4078
REMARK 3 S31: 0.5697 S32: -0.2704 S33: 0.3888
REMARK 3 TLS GROUP : 11
REMARK 3 SELECTION: CHAIN 'B' AND (RESID 71 THROUGH 89 )
REMARK 3 ORIGIN FOR THE GROUP (A): 24.4073 37.6370 24.2547
REMARK 3 T TENSOR
REMARK 3 T11: 0.4752 T22: 0.4030
REMARK 3 T33: 0.3439 T12: 0.2153
REMARK 3 T13: 0.0458 T23: 0.0401
REMARK 3 L TENSOR
REMARK 3 L11: 4.8681 L22: 1.8412
REMARK 3 L33: 8.8226 L12: -0.1434
REMARK 3 L13: -6.0611 L23: -0.5836
REMARK 3 S TENSOR
REMARK 3 S11: -0.7958 S12: 0.3327 S13: -0.7017
REMARK 3 S21: -0.0059 S22: 0.2784 S23: 0.0468
REMARK 3 S31: 0.8151 S32: -0.1106 S33: 0.6694
REMARK 3 TLS GROUP : 12
REMARK 3 SELECTION: CHAIN 'B' AND (RESID 90 THROUGH 136 )
REMARK 3 ORIGIN FOR THE GROUP (A): 27.3682 38.8404 35.2528
REMARK 3 T TENSOR
REMARK 3 T11: 0.5558 T22: 0.7280
REMARK 3 T33: 0.3231 T12: 0.4389
REMARK 3 T13: 0.0590 T23: 0.1488
REMARK 3 L TENSOR
REMARK 3 L11: 2.1532 L22: 2.7100
REMARK 3 L33: 2.9023 L12: -0.6836
REMARK 3 L13: -0.4699 L23: -1.1496
REMARK 3 S TENSOR
REMARK 3 S11: -0.6627 S12: -0.9228 S13: -0.4488
REMARK 3 S21: 0.4379 S22: 0.1730 S23: -0.1774
REMARK 3 S31: 1.0934 S32: 1.2088 S33: 0.2198
REMARK 3 TLS GROUP : 13
REMARK 3 SELECTION: CHAIN 'B' AND (RESID 137 THROUGH 159 )
REMARK 3 ORIGIN FOR THE GROUP (A): 10.8014 45.8849 38.3937
REMARK 3 T TENSOR
REMARK 3 T11: 0.3828 T22: 0.7081
REMARK 3 T33: 0.3190 T12: 0.1795
REMARK 3 T13: 0.0383 T23: -0.0774
REMARK 3 L TENSOR
REMARK 3 L11: 3.2504 L22: 0.0171
REMARK 3 L33: 4.2074 L12: 0.3624
REMARK 3 L13: 3.6992 L23: 0.3993
REMARK 3 S TENSOR
REMARK 3 S11: -0.3887 S12: -1.4503 S13: 0.3406
REMARK 3 S21: 0.3414 S22: 0.4376 S23: 0.2363
REMARK 3 S31: -0.0277 S32: -0.4843 S33: 0.1557
REMARK 3 TLS GROUP : 14
REMARK 3 SELECTION: CHAIN 'B' AND (RESID 160 THROUGH 189 )
REMARK 3 ORIGIN FOR THE GROUP (A): 25.3260 45.1409 20.3051
REMARK 3 T TENSOR
REMARK 3 T11: 0.2632 T22: 0.2902
REMARK 3 T33: 0.2150 T12: 0.0615
REMARK 3 T13: -0.0154 T23: 0.0386
REMARK 3 L TENSOR
REMARK 3 L11: 3.8459 L22: 4.7702
REMARK 3 L33: 7.6122 L12: -1.9846
REMARK 3 L13: -5.1137 L23: 0.9128
REMARK 3 S TENSOR
REMARK 3 S11: -0.1359 S12: 0.1857 S13: -0.0401
REMARK 3 S21: -0.1423 S22: 0.0213 S23: -0.3324
REMARK 3 S31: 0.4325 S32: 0.5184 S33: 0.1082
REMARK 3 TLS GROUP : 15
REMARK 3 SELECTION: CHAIN 'B' AND (RESID 190 THROUGH 207 )
REMARK 3 ORIGIN FOR THE GROUP (A): 24.6533 55.2470 16.2013
REMARK 3 T TENSOR
REMARK 3 T11: 0.4848 T22: 0.5686
REMARK 3 T33: 0.4115 T12: -0.0274
REMARK 3 T13: 0.0416 T23: 0.1235
REMARK 3 L TENSOR
REMARK 3 L11: 5.0780 L22: 7.5610
REMARK 3 L33: 3.8482 L12: -1.2052
REMARK 3 L13: 4.3903 L23: -1.4804
REMARK 3 S TENSOR
REMARK 3 S11: -0.1983 S12: 1.5050 S13: 0.9241
REMARK 3 S21: -0.9497 S22: -0.0031 S23: -0.5501
REMARK 3 S31: 0.4788 S32: 0.9185 S33: 0.2954
REMARK 3 TLS GROUP : 16
REMARK 3 SELECTION: CHAIN 'B' AND (RESID 208 THROUGH 221 )
REMARK 3 ORIGIN FOR THE GROUP (A): 16.4716 56.4542 24.3218
REMARK 3 T TENSOR
REMARK 3 T11: 0.2273 T22: 0.1218
REMARK 3 T33: 0.3180 T12: 0.0509
REMARK 3 T13: 0.0170 T23: -0.0151
REMARK 3 L TENSOR
REMARK 3 L11: 7.3354 L22: 7.4920
REMARK 3 L33: 4.1764 L12: -2.3416
REMARK 3 L13: -0.7703 L23: -2.9465
REMARK 3 S TENSOR
REMARK 3 S11: 0.0147 S12: 0.0980 S13: 0.8744
REMARK 3 S21: 0.1148 S22: -0.0129 S23: 0.3867
REMARK 3 S31: 0.0232 S32: -0.0153 S33: -0.0286
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 8EDE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-SEP-22.
REMARK 100 THE DEPOSITION ID IS D_1000266945.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 20-MAY-22
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 : SSRL
REMARK 200 BEAMLINE : BL12-2
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.98
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : PIXEL
REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO 721.3, HKL-3000 721.3
REMARK 200 DATA SCALING SOFTWARE : SCALEPACK 721.3
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45890
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.799
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 (%) : 100.0
REMARK 200 DATA REDUNDANCY : 12.70
REMARK 200 R MERGE (I) : 0.14700
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.8000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86
REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0
REMARK 200 DATA REDUNDANCY IN SHELL : 12.90
REMARK 200 R MERGE FOR SHELL (I) : 2.22900
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: MOLREP 1.12_2829
REMARK 200 STARTING MODEL: 2ETL
REMARK 200
REMARK 200 REMARK: WELL DEFINED CUBIC CRYSTAL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 48.38
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRI-SODIUM CITRATE 2.4M AMMONIUM
REMARK 280 SULFATE, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294.15K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 4 21 2
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 -Y+1/2,X+1/2,Z
REMARK 290 4555 Y+1/2,-X+1/2,Z
REMARK 290 5555 -X+1/2,Y+1/2,-Z
REMARK 290 6555 X+1/2,-Y+1/2,-Z
REMARK 290 7555 Y,X,-Z
REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 55.00150
REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 55.00150
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 55.00150
REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 55.00150
REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 55.00150
REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 55.00150
REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 55.00150
REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 55.00150
REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY3 8 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: MONOMERIC
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A
REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000
REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000
REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000
REMARK 350
REMARK 350 BIOMOLECULE: 2
REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC
REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 375
REMARK 375 SPECIAL POSITION
REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS
REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL
REMARK 375 POSITIONS.
REMARK 375
REMARK 375 ATOM RES CSSEQI
REMARK 375 HOH A 502 LIES ON A SPECIAL POSITION.
REMARK 375 HOH A 513 LIES ON A SPECIAL POSITION.
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 1
REMARK 465 GLN A 151
REMARK 465 ALA A 222
REMARK 465 ALA A 223
REMARK 465 GLN B 151
REMARK 465 VAL B 154
REMARK 465 ALA B 222
REMARK 465 ALA B 223
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 GLN A 66 CG CD OE1 NE2
REMARK 470 GLU A 74 CG CD OE1 OE2
REMARK 470 GLN A 209 CG CD OE1 NE2
REMARK 470 MET B 1 CG SD CE
REMARK 470 GLU B 7 CG CD OE1 OE2
REMARK 470 GLU B 35 CG CD OE1 OE2
REMARK 470 GLU B 37 CG CD OE1 OE2
REMARK 470 PHE B 62 CG CD1 CD2 CE1 CE2 CZ
REMARK 470 GLU B 208 CG CD OE1 OE2
REMARK 470 GLN B 209 CG CD OE1 NE2
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 514 O HOH A 520 7555 2.19
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 B 206 0.88 -65.75
REMARK 500
REMARK 500 REMARK: NULL
DBREF 8EDE A 1 223 UNP P09936 UCHL1_HUMAN 1 223
DBREF 8EDE B 1 223 UNP P09936 UCHL1_HUMAN 1 223
SEQRES 1 A 223 MET GLN LEU LYS PRO MET GLU ILE ASN PRO GLU MET LEU
SEQRES 2 A 223 ASN LYS VAL LEU SER ARG LEU GLY VAL ALA GLY GLN TRP
SEQRES 3 A 223 ARG PHE VAL ASP VAL LEU GLY LEU GLU GLU GLU SER LEU
SEQRES 4 A 223 GLY SER VAL PRO ALA PRO ALA CYS ALA LEU LEU LEU LEU
SEQRES 5 A 223 PHE PRO LEU THR ALA GLN HIS GLU ASN PHE ARG LYS LYS
SEQRES 6 A 223 GLN ILE GLU GLU LEU LYS GLY GLN GLU VAL SER PRO LYS
SEQRES 7 A 223 VAL TYR PHE MET LYS GLN THR ILE GLY ASN SER CYS GLY
SEQRES 8 A 223 THR ILE GLY LEU ILE HIS ALA VAL ALA ASN ASN GLN ASP
SEQRES 9 A 223 LYS LEU GLY PHE GLU ASP GLY SER VAL LEU LYS GLN PHE
SEQRES 10 A 223 LEU SER GLU THR GLU LYS MET SER PRO GLU ASP ARG ALA
SEQRES 11 A 223 LYS CYS PHE GLU LYS ASN GLU ALA ILE GLN ALA ALA HIS
SEQRES 12 A 223 ASP ALA VAL ALA GLN GLU GLY GLN CYS ARG VAL ASP ASP
SEQRES 13 A 223 LYS VAL ASN PHE HIS PHE ILE LEU PHE ASN ASN VAL ASP
SEQRES 14 A 223 GLY HIS LEU TYR GLU LEU ASP GLY ARG MET PRO PHE PRO
SEQRES 15 A 223 VAL ASN HIS GLY ALA SER SER GLU ASP THR LEU LEU LYS
SEQRES 16 A 223 ASP ALA ALA LYS VAL CYS ARG GLU PHE THR GLU ARG GLU
SEQRES 17 A 223 GLN GLY GLU VAL ARG PHE SER ALA VAL ALA LEU CYS LYS
SEQRES 18 A 223 ALA ALA
SEQRES 1 B 223 MET GLN LEU LYS PRO MET GLU ILE ASN PRO GLU MET LEU
SEQRES 2 B 223 ASN LYS VAL LEU SER ARG LEU GLY VAL ALA GLY GLN TRP
SEQRES 3 B 223 ARG PHE VAL ASP VAL LEU GLY LEU GLU GLU GLU SER LEU
SEQRES 4 B 223 GLY SER VAL PRO ALA PRO ALA CYS ALA LEU LEU LEU LEU
SEQRES 5 B 223 PHE PRO LEU THR ALA GLN HIS GLU ASN PHE ARG LYS LYS
SEQRES 6 B 223 GLN ILE GLU GLU LEU LYS GLY GLN GLU VAL SER PRO LYS
SEQRES 7 B 223 VAL TYR PHE MET LYS GLN THR ILE GLY ASN SER CYS GLY
SEQRES 8 B 223 THR ILE GLY LEU ILE HIS ALA VAL ALA ASN ASN GLN ASP
SEQRES 9 B 223 LYS LEU GLY PHE GLU ASP GLY SER VAL LEU LYS GLN PHE
SEQRES 10 B 223 LEU SER GLU THR GLU LYS MET SER PRO GLU ASP ARG ALA
SEQRES 11 B 223 LYS CYS PHE GLU LYS ASN GLU ALA ILE GLN ALA ALA HIS
SEQRES 12 B 223 ASP ALA VAL ALA GLN GLU GLY GLN CYS ARG VAL ASP ASP
SEQRES 13 B 223 LYS VAL ASN PHE HIS PHE ILE LEU PHE ASN ASN VAL ASP
SEQRES 14 B 223 GLY HIS LEU TYR GLU LEU ASP GLY ARG MET PRO PHE PRO
SEQRES 15 B 223 VAL ASN HIS GLY ALA SER SER GLU ASP THR LEU LEU LYS
SEQRES 16 B 223 ASP ALA ALA LYS VAL CYS ARG GLU PHE THR GLU ARG GLU
SEQRES 17 B 223 GLN GLY GLU VAL ARG PHE SER ALA VAL ALA LEU CYS LYS
SEQRES 18 B 223 ALA ALA
HET WEU A 301 30
HET SO4 A 302 5
HET SO4 A 303 5
HET WEU B 301 30
HET SO4 B 302 5
HET SO4 B 303 5
HETNAM WEU 2-[(4-CHLOROPHENYL)-METHYL-AMINO]-~{N}'-ETHANOYL-
HETNAM 2 WEU ETHANEHYDRAZIDE
HETNAM SO4 SULFATE ION
FORMUL 3 WEU 2(C11 H14 CL N3 O2)
FORMUL 4 SO4 4(O4 S 2-)
FORMUL 9 HOH *208(H2 O)
HELIX 1 AA1 ASN A 9 LEU A 20 1 12
HELIX 2 AA2 GLU A 35 VAL A 42 5 8
HELIX 3 AA3 THR A 56 LYS A 71 1 16
HELIX 4 AA4 SER A 89 ASN A 101 1 13
HELIX 5 AA5 SER A 112 THR A 121 1 10
HELIX 6 AA6 SER A 125 ASN A 136 1 12
HELIX 7 AA7 ASN A 136 GLN A 148 1 13
HELIX 8 AA8 SER A 189 ASP A 191 5 3
HELIX 9 AA9 THR A 192 GLU A 208 1 17
HELIX 10 AB1 ASN B 9 LEU B 20 1 12
HELIX 11 AB2 THR B 56 GLU B 69 1 14
HELIX 12 AB3 SER B 89 ASN B 101 1 13
HELIX 13 AB4 SER B 112 THR B 121 1 10
HELIX 14 AB5 SER B 125 ASN B 136 1 12
HELIX 15 AB6 ASN B 136 GLN B 148 1 13
HELIX 16 AB7 SER B 189 ASP B 191 5 3
HELIX 17 AB8 THR B 192 GLU B 208 1 17
SHEET 1 AA1 2 VAL A 22 ALA A 23 0
SHEET 2 AA1 2 GLY A 107 PHE A 108 -1 O GLY A 107 N ALA A 23
SHEET 1 AA2 6 ARG A 27 VAL A 31 0
SHEET 2 AA2 6 SER A 215 CYS A 220 -1 O CYS A 220 N ARG A 27
SHEET 3 AA2 6 ALA A 46 PRO A 54 -1 N LEU A 52 O SER A 215
SHEET 4 AA2 6 PHE A 160 VAL A 168 -1 O ILE A 163 N LEU A 51
SHEET 5 AA2 6 HIS A 171 LEU A 175 -1 O TYR A 173 N ASN A 166
SHEET 6 AA2 6 VAL A 183 ALA A 187 -1 O HIS A 185 N LEU A 172
SHEET 1 AA3 2 VAL B 22 ALA B 23 0
SHEET 2 AA3 2 GLY B 107 PHE B 108 -1 O GLY B 107 N ALA B 23
SHEET 1 AA4 6 ARG B 27 ASP B 30 0
SHEET 2 AA4 6 SER B 215 CYS B 220 -1 O CYS B 220 N ARG B 27
SHEET 3 AA4 6 ALA B 46 PRO B 54 -1 N LEU B 52 O SER B 215
SHEET 4 AA4 6 PHE B 160 VAL B 168 -1 O PHE B 165 N LEU B 49
SHEET 5 AA4 6 HIS B 171 LEU B 175 -1 O LEU B 175 N LEU B 164
SHEET 6 AA4 6 VAL B 183 ALA B 187 -1 O HIS B 185 N LEU B 172
LINK SG CYS A 90 C13 WEU A 301 1555 1555 1.87
LINK SG CYS B 90 C13 WEU B 301 1555 1555 1.93
CISPEP 1 ALA A 44 PRO A 45 0 -3.48
CISPEP 2 ALA B 44 PRO B 45 0 -2.75
CRYST1 110.003 110.003 79.609 90.00 90.00 90.00 P 4 21 2 16
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 0.009091 0.000000 0.000000 0.00000
SCALE2 0.000000 0.009091 0.000000 0.00000
SCALE3 0.000000 0.000000 0.012561 0.00000