PDB Short entry for 3UOA HEADER HYDROLASE/HYDROLASE INHIBITOR 16-NOV-11 3UOA TITLE CRYSTAL STRUCTURE OF THE MALT1 PARACASPASE (P21 FORM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: MUCOSA-ASSOCIATED LYMPHOID TISSUE LYMPHOMA TRANSLOCATION COMPND 3 PROTEIN 1; COMPND 4 CHAIN: B, C; COMPND 5 FRAGMENT: UNP RESIDUES 339-719; COMPND 6 SYNONYM: MALT LYMPHOMA-ASSOCIATED TRANSLOCATION, PARACASPASE; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: Z-VAL-ARG-PRO-DL-ARG-FLUOROMETHYLKETONE; COMPND 10 CHAIN: L, M; COMPND 11 SYNONYM: MALT1 INHIBITOR, Z-VRPR-FMK; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 GENE: MALT1, MLT; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. KEYWDS PARACASPASE, LYMPHOMA, NF-KB SIGNALLING, CASPASE FOLD, IMMUNOGLOBULIN KEYWDS 2 FOLD, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.D.JEFFREY,J.W.YU,Y.SHI REVDAT 3 20-MAR-24 3UOA 1 SEQADV LINK REVDAT 2 15-FEB-12 3UOA 1 JRNL REVDAT 1 21-DEC-11 3UOA 0 JRNL AUTH J.W.YU,P.D.JEFFREY,J.Y.HA,X.YANG,Y.SHI JRNL TITL CRYSTAL STRUCTURE OF THE MUCOSA-ASSOCIATED LYMPHOID TISSUE JRNL TITL 2 LYMPHOMA TRANSLOCATION 1 (MALT1) PARACASPASE REGION. JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 21004 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 22158899 JRNL DOI 10.1073/PNAS.1111708108 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.6.4_486 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.42 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 3 NUMBER OF REFLECTIONS : 79952 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.960 REMARK 3 FREE R VALUE TEST SET COUNT : 3969 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 36.4225 - 5.3088 0.96 2815 146 0.2609 0.2617 REMARK 3 2 5.3088 - 4.2158 0.99 2860 140 0.1772 0.2034 REMARK 3 3 4.2158 - 3.6834 1.00 2858 159 0.1738 0.1913 REMARK 3 4 3.6834 - 3.3469 1.00 2863 138 0.1979 0.1996 REMARK 3 5 3.3469 - 3.1072 1.00 2866 149 0.2087 0.2251 REMARK 3 6 3.1072 - 2.9241 0.99 2818 149 0.1970 0.2059 REMARK 3 7 2.9241 - 2.7777 0.99 2845 143 0.1945 0.2400 REMARK 3 8 2.7777 - 2.6568 0.99 2835 146 0.1882 0.2449 REMARK 3 9 2.6568 - 2.5545 0.99 2830 152 0.1967 0.2539 REMARK 3 10 2.5545 - 2.4664 0.98 2823 120 0.1917 0.2194 REMARK 3 11 2.4664 - 2.3893 0.98 2772 162 0.1937 0.2582 REMARK 3 12 2.3893 - 2.3210 0.98 2786 150 0.1778 0.2182 REMARK 3 13 2.3210 - 2.2599 0.97 2744 155 0.1785 0.2213 REMARK 3 14 2.2599 - 2.2048 0.97 2762 156 0.1784 0.2168 REMARK 3 15 2.2048 - 2.1547 0.98 2756 137 0.1716 0.2558 REMARK 3 16 2.1547 - 2.1088 0.97 2706 142 0.1765 0.1849 REMARK 3 17 2.1088 - 2.0667 0.97 2803 130 0.1701 0.2196 REMARK 3 18 2.0667 - 2.0277 0.96 2722 136 0.1726 0.1901 REMARK 3 19 2.0277 - 1.9915 0.95 2705 126 0.1746 0.2159 REMARK 3 20 1.9915 - 1.9577 0.94 2687 123 0.1804 0.2339 REMARK 3 21 1.9577 - 1.9261 0.93 2633 128 0.1857 0.2253 REMARK 3 22 1.9261 - 1.8965 0.92 2626 142 0.1891 0.2434 REMARK 3 23 1.8965 - 1.8686 0.90 2521 161 0.1960 0.2303 REMARK 3 24 1.8686 - 1.8423 0.90 2529 140 0.2119 0.2637 REMARK 3 25 1.8423 - 1.8174 0.89 2525 147 0.2216 0.2877 REMARK 3 26 1.8174 - 1.7938 0.88 2481 139 0.2277 0.2758 REMARK 3 27 1.7938 - 1.7714 0.86 2426 133 0.2326 0.2962 REMARK 3 28 1.7714 - 1.7500 0.85 2386 120 0.2528 0.3308 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 : 0.45 REMARK 3 B_SOL : 44.20 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.530 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.80310 REMARK 3 B22 (A**2) : 0.28420 REMARK 3 B33 (A**2) : -3.08730 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 5.15660 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 : 0.007 5884 REMARK 3 ANGLE : 1.063 7951 REMARK 3 CHIRALITY : 0.067 918 REMARK 3 PLANARITY : 0.005 1012 REMARK 3 DIHEDRAL : 13.034 2209 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN L OR (CHAIN B AND RESID 338:565) REMARK 3 ORIGIN FOR THE GROUP (A): -10.4917 9.8927 -31.1655 REMARK 3 T TENSOR REMARK 3 T11: 0.1165 T22: 0.0816 REMARK 3 T33: 0.1297 T12: -0.0072 REMARK 3 T13: 0.0328 T23: -0.0031 REMARK 3 L TENSOR REMARK 3 L11: 1.1076 L22: 0.6333 REMARK 3 L33: 2.7253 L12: 0.1490 REMARK 3 L13: -0.4689 L23: 0.2936 REMARK 3 S TENSOR REMARK 3 S11: -0.0756 S12: 0.0963 S13: -0.1619 REMARK 3 S21: -0.0405 S22: -0.0780 S23: -0.0350 REMARK 3 S31: 0.1632 S32: -0.0110 S33: 0.1489 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B AND RESID 580:715 REMARK 3 ORIGIN FOR THE GROUP (A): 2.4714 12.0286 -62.9995 REMARK 3 T TENSOR REMARK 3 T11: 0.1321 T22: 0.1921 REMARK 3 T33: 0.1351 T12: -0.0147 REMARK 3 T13: 0.0254 T23: -0.0103 REMARK 3 L TENSOR REMARK 3 L11: 1.1822 L22: 0.7341 REMARK 3 L33: 2.2853 L12: 0.5282 REMARK 3 L13: -1.3071 L23: -0.8527 REMARK 3 S TENSOR REMARK 3 S11: -0.0782 S12: 0.0160 S13: -0.0302 REMARK 3 S21: 0.0802 S22: 0.0109 S23: 0.0528 REMARK 3 S31: -0.1012 S32: 0.1164 S33: 0.0347 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN M OR (CHAIN C AND RESID 338:565) REMARK 3 ORIGIN FOR THE GROUP (A): -21.5114 10.1260 -5.1747 REMARK 3 T TENSOR REMARK 3 T11: 0.0567 T22: 0.0718 REMARK 3 T33: 0.0811 T12: -0.0033 REMARK 3 T13: -0.0092 T23: -0.0142 REMARK 3 L TENSOR REMARK 3 L11: 0.8412 L22: 0.9381 REMARK 3 L33: 1.6787 L12: -0.1669 REMARK 3 L13: -0.2102 L23: -0.3448 REMARK 3 S TENSOR REMARK 3 S11: -0.0040 S12: -0.0232 S13: -0.0486 REMARK 3 S21: 0.0070 S22: -0.0387 S23: -0.0328 REMARK 3 S31: -0.0158 S32: -0.0278 S33: 0.0393 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN C AND RESID 577:718 REMARK 3 ORIGIN FOR THE GROUP (A): -34.7702 12.6152 25.1584 REMARK 3 T TENSOR REMARK 3 T11: 0.1829 T22: 0.4388 REMARK 3 T33: 0.1210 T12: 0.0406 REMARK 3 T13: 0.0014 T23: -0.0235 REMARK 3 L TENSOR REMARK 3 L11: 1.5958 L22: 0.7427 REMARK 3 L33: 1.1562 L12: -0.6938 REMARK 3 L13: 0.0610 L23: 0.1501 REMARK 3 S TENSOR REMARK 3 S11: -0.2590 S12: -0.5657 S13: -0.0470 REMARK 3 S21: 0.1830 S22: 0.1017 S23: 0.0672 REMARK 3 S31: 0.0153 S32: -0.2611 S33: 0.1073 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 4 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN C AND RESID 431:434 REMARK 3 SELECTION : CHAIN B AND RESID 431:434 REMARK 3 ATOM PAIRS NUMBER : 63 REMARK 3 RMSD : 0.241 REMARK 3 NCS GROUP : 2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN C AND RESID 473:478 REMARK 3 SELECTION : CHAIN B AND RESID 473:478 REMARK 3 ATOM PAIRS NUMBER : 97 REMARK 3 RMSD : 0.095 REMARK 3 NCS GROUP : 3 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN C AND RESID 581:584 REMARK 3 SELECTION : CHAIN B AND RESID 581:584 REMARK 3 ATOM PAIRS NUMBER : 43 REMARK 3 RMSD : 0.453 REMARK 3 NCS GROUP : 4 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: CHAIN C AND RESID 639:646 REMARK 3 SELECTION : CHAIN B AND RESID 639:646 REMARK 3 ATOM PAIRS NUMBER : 115 REMARK 3 RMSD : 0.265 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3UOA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-DEC-11. REMARK 100 THE DEPOSITION ID IS D_1000069003. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97891 REMARK 200 MONOCHROMATOR : SILICON REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 83571 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.48300 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.43 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.34 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M MES (PH 6.0), 0.2M CALCIUM REMARK 280 ACETATE, 2% BENZAMIDINE, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 37.86750 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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: 4980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, L, M REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 REMARK 400 THE "N-[(BENZYLOXY)CARBONYL]-L-VALYL-N~5~-[AMINO(IMINIO)METHYL]-L- REMARK 400 ORNITHYL-N-[(3R)-6-{[AMINO(IMINIO)METHYL]AMINO}-1-FLUORO-2-OXOHEXAN- REMARK 400 3-YL]-L-PROLINAMIDE IS OLIGOPEPTIDE, A MEMBER OF INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: "N-[(BENZYLOXY)CARBONYL]-L-VALYL-N~5~-[AMINO(IMINIO)METHYL]- REMARK 400 L-ORNITHYL-N-[(3R)-6-{[AMINO(IMINIO)METHYL]AMINO}-1-FLUORO- REMARK 400 2-OXOHEXAN-3-YL]-L-PROLINAMIDE REMARK 400 CHAIN: L, M REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: NULL 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 B 566 REMARK 465 THR B 567 REMARK 465 GLU B 568 REMARK 465 TYR B 569 REMARK 465 SER B 570 REMARK 465 ALA B 571 REMARK 465 GLU B 572 REMARK 465 SER B 573 REMARK 465 LEU B 574 REMARK 465 VAL B 575 REMARK 465 ARG B 576 REMARK 465 ASN B 577 REMARK 465 LEU B 578 REMARK 465 GLN B 579 REMARK 465 ASP B 716 REMARK 465 MET B 717 REMARK 465 HIS B 718 REMARK 465 ARG B 719 REMARK 465 LEU B 720 REMARK 465 GLU B 721 REMARK 465 HIS B 722 REMARK 465 HIS B 723 REMARK 465 HIS B 724 REMARK 465 HIS B 725 REMARK 465 HIS B 726 REMARK 465 HIS B 727 REMARK 465 GLY C 566 REMARK 465 THR C 567 REMARK 465 GLU C 568 REMARK 465 TYR C 569 REMARK 465 SER C 570 REMARK 465 ALA C 571 REMARK 465 GLU C 572 REMARK 465 SER C 573 REMARK 465 LEU C 574 REMARK 465 VAL C 575 REMARK 465 ARG C 576 REMARK 465 LYS C 661 REMARK 465 ASP C 662 REMARK 465 LEU C 663 REMARK 465 PRO C 664 REMARK 465 LYS C 665 REMARK 465 GLU C 696 REMARK 465 ASP C 697 REMARK 465 ARG C 719 REMARK 465 LEU C 720 REMARK 465 GLU C 721 REMARK 465 HIS C 722 REMARK 465 HIS C 723 REMARK 465 HIS C 724 REMARK 465 HIS C 725 REMARK 465 HIS C 726 REMARK 465 HIS C 727 REMARK 465 PHQ L 0 REMARK 465 CF0 L 5 REMARK 465 PHQ M 0 REMARK 465 CF0 M 5 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 B 565 CG CD OE1 NE2 REMARK 470 TRP B 580 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 580 CZ3 CH2 REMARK 470 LYS B 582 CG CD CE NZ REMARK 470 ASP B 640 CG OD1 OD2 REMARK 470 GLU B 680 CG CD OE1 OE2 REMARK 470 ASP B 697 CG OD1 OD2 REMARK 470 LYS B 714 CG CD CE NZ REMARK 470 GLN C 565 CG CD OE1 NE2 REMARK 470 ASN C 577 CG OD1 ND2 REMARK 470 ASP C 640 CG OD1 OD2 REMARK 470 GLU C 680 CG CD OE1 OE2 REMARK 470 LEU C 695 CG CD1 CD2 REMARK 470 THR C 698 OG1 CG2 REMARK 470 VAL C 699 CG1 CG2 REMARK 470 ASP C 716 CG OD1 OD2 REMARK 470 MET C 717 SD CE REMARK 470 HIS C 718 CG ND1 CD2 CE1 NE2 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 MET B 351 -51.48 -133.64 REMARK 500 LYS B 360 -40.29 -130.09 REMARK 500 ASP B 385 65.66 61.32 REMARK 500 ASP B 462 73.94 -103.60 REMARK 500 ILE B 474 62.13 -119.69 REMARK 500 ASN B 485 29.70 -155.88 REMARK 500 HIS B 503 83.51 44.28 REMARK 500 SER B 504 69.46 -156.56 REMARK 500 ALA B 581 -59.79 -166.91 REMARK 500 GLU B 680 -158.43 -107.98 REMARK 500 LEU B 711 -135.31 54.84 REMARK 500 MET C 351 -47.94 -134.89 REMARK 500 ASP C 385 66.67 60.68 REMARK 500 ASP C 462 73.24 -107.71 REMARK 500 ASN C 485 34.75 -155.94 REMARK 500 GLU C 680 -167.32 -120.96 REMARK 500 LEU C 711 -125.00 50.95 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 MG C 801 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 388 OE2 REMARK 620 2 GLU C 388 OE1 52.0 REMARK 620 3 GLU C 437 O 84.6 92.4 REMARK 620 4 HOH C 997 O 124.2 75.5 79.2 REMARK 620 5 HOH C1007 O 157.1 150.8 93.7 77.6 REMARK 620 6 HOH C1070 O 84.5 136.6 80.9 142.8 72.6 REMARK 620 7 HOH C1091 O 82.2 103.6 146.0 133.5 86.7 66.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 802 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 522 OD1 REMARK 620 2 ASP C 522 OD2 48.7 REMARK 620 3 HOH C1020 O 83.8 77.8 REMARK 620 4 HOH C1040 O 75.7 120.9 78.0 REMARK 620 5 HOH C1075 O 68.4 85.8 152.0 91.6 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN L OF Z-VAL-ARG-PRO-DL-ARG REMARK 800 -FLUOROMETHYLKETONE REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN M OF Z-VAL-ARG-PRO-DL-ARG REMARK 800 -FLUOROMETHYLKETONE REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3UO8 RELATED DB: PDB REMARK 900 P1 CRYSTAL FORM DBREF 3UOA B 339 719 UNP Q9UDY8 MALT1_HUMAN 339 719 DBREF 3UOA C 339 719 UNP Q9UDY8 MALT1_HUMAN 339 719 DBREF 3UOA L 0 5 PDB 3UOA 3UOA 0 5 DBREF 3UOA M 0 5 PDB 3UOA 3UOA 0 5 SEQADV 3UOA MET B 338 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA LEU B 720 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA GLU B 721 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS B 722 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS B 723 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS B 724 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS B 725 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS B 726 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS B 727 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA MET C 338 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA LEU C 720 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA GLU C 721 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS C 722 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS C 723 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS C 724 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS C 725 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS C 726 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UOA HIS C 727 UNP Q9UDY8 EXPRESSION TAG SEQRES 1 B 390 MET LEU ALA LYS ASP LYS VAL ALA LEU LEU ILE GLY ASN SEQRES 2 B 390 MET ASN TYR ARG GLU HIS PRO LYS LEU LYS ALA PRO LEU SEQRES 3 B 390 VAL ASP VAL TYR GLU LEU THR ASN LEU LEU ARG GLN LEU SEQRES 4 B 390 ASP PHE LYS VAL VAL SER LEU LEU ASP LEU THR GLU TYR SEQRES 5 B 390 GLU MET ARG ASN ALA VAL ASP GLU PHE LEU LEU LEU LEU SEQRES 6 B 390 ASP LYS GLY VAL TYR GLY LEU LEU TYR TYR ALA GLY HIS SEQRES 7 B 390 GLY TYR GLU ASN PHE GLY ASN SER PHE MET VAL PRO VAL SEQRES 8 B 390 ASP ALA PRO ASN PRO TYR ARG SER GLU ASN CYS LEU CYS SEQRES 9 B 390 VAL GLN ASN ILE LEU LYS LEU MET GLN GLU LYS GLU THR SEQRES 10 B 390 GLY LEU ASN VAL PHE LEU LEU ASP MET CYS ARG LYS ARG SEQRES 11 B 390 ASN ASP TYR ASP ASP THR ILE PRO ILE LEU ASP ALA LEU SEQRES 12 B 390 LYS VAL THR ALA ASN ILE VAL PHE GLY TYR ALA THR CYS SEQRES 13 B 390 GLN GLY ALA GLU ALA PHE GLU ILE GLN HIS SER GLY LEU SEQRES 14 B 390 ALA ASN GLY ILE PHE MET LYS PHE LEU LYS ASP ARG LEU SEQRES 15 B 390 LEU GLU ASP LYS LYS ILE THR VAL LEU LEU ASP GLU VAL SEQRES 16 B 390 ALA GLU ASP MET GLY LYS CYS HIS LEU THR LYS GLY LYS SEQRES 17 B 390 GLN ALA LEU GLU ILE ARG SER SER LEU SER GLU LYS ARG SEQRES 18 B 390 ALA LEU THR ASP PRO ILE GLN GLY THR GLU TYR SER ALA SEQRES 19 B 390 GLU SER LEU VAL ARG ASN LEU GLN TRP ALA LYS ALA HIS SEQRES 20 B 390 GLU LEU PRO GLU SER MET CYS LEU LYS PHE ASP CYS GLY SEQRES 21 B 390 VAL GLN ILE GLN LEU GLY PHE ALA ALA GLU PHE SER ASN SEQRES 22 B 390 VAL MET ILE ILE TYR THR SER ILE VAL TYR LYS PRO PRO SEQRES 23 B 390 GLU ILE ILE MET CYS ASP ALA TYR VAL THR ASP PHE PRO SEQRES 24 B 390 LEU ASP LEU ASP ILE ASP PRO LYS ASP ALA ASN LYS GLY SEQRES 25 B 390 THR PRO GLU GLU THR GLY SER TYR LEU VAL SER LYS ASP SEQRES 26 B 390 LEU PRO LYS HIS CYS LEU TYR THR ARG LEU SER SER LEU SEQRES 27 B 390 GLN LYS LEU LYS GLU HIS LEU VAL PHE THR VAL CYS LEU SEQRES 28 B 390 SER TYR GLN TYR SER GLY LEU GLU ASP THR VAL GLU ASP SEQRES 29 B 390 LYS GLN GLU VAL ASN VAL GLY LYS PRO LEU ILE ALA LYS SEQRES 30 B 390 LEU ASP MET HIS ARG LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 C 390 MET LEU ALA LYS ASP LYS VAL ALA LEU LEU ILE GLY ASN SEQRES 2 C 390 MET ASN TYR ARG GLU HIS PRO LYS LEU LYS ALA PRO LEU SEQRES 3 C 390 VAL ASP VAL TYR GLU LEU THR ASN LEU LEU ARG GLN LEU SEQRES 4 C 390 ASP PHE LYS VAL VAL SER LEU LEU ASP LEU THR GLU TYR SEQRES 5 C 390 GLU MET ARG ASN ALA VAL ASP GLU PHE LEU LEU LEU LEU SEQRES 6 C 390 ASP LYS GLY VAL TYR GLY LEU LEU TYR TYR ALA GLY HIS SEQRES 7 C 390 GLY TYR GLU ASN PHE GLY ASN SER PHE MET VAL PRO VAL SEQRES 8 C 390 ASP ALA PRO ASN PRO TYR ARG SER GLU ASN CYS LEU CYS SEQRES 9 C 390 VAL GLN ASN ILE LEU LYS LEU MET GLN GLU LYS GLU THR SEQRES 10 C 390 GLY LEU ASN VAL PHE LEU LEU ASP MET CYS ARG LYS ARG SEQRES 11 C 390 ASN ASP TYR ASP ASP THR ILE PRO ILE LEU ASP ALA LEU SEQRES 12 C 390 LYS VAL THR ALA ASN ILE VAL PHE GLY TYR ALA THR CYS SEQRES 13 C 390 GLN GLY ALA GLU ALA PHE GLU ILE GLN HIS SER GLY LEU SEQRES 14 C 390 ALA ASN GLY ILE PHE MET LYS PHE LEU LYS ASP ARG LEU SEQRES 15 C 390 LEU GLU ASP LYS LYS ILE THR VAL LEU LEU ASP GLU VAL SEQRES 16 C 390 ALA GLU ASP MET GLY LYS CYS HIS LEU THR LYS GLY LYS SEQRES 17 C 390 GLN ALA LEU GLU ILE ARG SER SER LEU SER GLU LYS ARG SEQRES 18 C 390 ALA LEU THR ASP PRO ILE GLN GLY THR GLU TYR SER ALA SEQRES 19 C 390 GLU SER LEU VAL ARG ASN LEU GLN TRP ALA LYS ALA HIS SEQRES 20 C 390 GLU LEU PRO GLU SER MET CYS LEU LYS PHE ASP CYS GLY SEQRES 21 C 390 VAL GLN ILE GLN LEU GLY PHE ALA ALA GLU PHE SER ASN SEQRES 22 C 390 VAL MET ILE ILE TYR THR SER ILE VAL TYR LYS PRO PRO SEQRES 23 C 390 GLU ILE ILE MET CYS ASP ALA TYR VAL THR ASP PHE PRO SEQRES 24 C 390 LEU ASP LEU ASP ILE ASP PRO LYS ASP ALA ASN LYS GLY SEQRES 25 C 390 THR PRO GLU GLU THR GLY SER TYR LEU VAL SER LYS ASP SEQRES 26 C 390 LEU PRO LYS HIS CYS LEU TYR THR ARG LEU SER SER LEU SEQRES 27 C 390 GLN LYS LEU LYS GLU HIS LEU VAL PHE THR VAL CYS LEU SEQRES 28 C 390 SER TYR GLN TYR SER GLY LEU GLU ASP THR VAL GLU ASP SEQRES 29 C 390 LYS GLN GLU VAL ASN VAL GLY LYS PRO LEU ILE ALA LYS SEQRES 30 C 390 LEU ASP MET HIS ARG LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 L 6 PHQ VAL ARG PRO ARG CF0 SEQRES 1 M 6 PHQ VAL ARG PRO ARG CF0 HET MG C 801 1 HET MG C 802 1 HETNAM MG MAGNESIUM ION FORMUL 5 MG 2(MG 2+) FORMUL 7 HOH *357(H2 O) HELIX 1 1 ALA B 361 LEU B 376 1 16 HELIX 2 2 THR B 387 LEU B 401 1 15 HELIX 3 3 ARG B 435 CYS B 439 5 5 HELIX 4 4 VAL B 442 LYS B 452 1 11 HELIX 5 5 GLY B 509 LYS B 516 1 8 HELIX 6 6 LYS B 524 GLY B 537 1 14 HELIX 7 7 PRO B 636 ASP B 640 5 5 HELIX 8 8 ASP B 642 ALA B 646 5 5 HELIX 9 9 THR B 650 GLY B 655 5 6 HELIX 10 10 VAL B 659 LEU B 663 5 5 HELIX 11 11 SER B 674 LEU B 678 5 5 HELIX 12 12 PRO B 710 LEU B 715 5 6 HELIX 13 13 ALA C 361 LEU C 376 1 16 HELIX 14 14 THR C 387 LEU C 402 1 16 HELIX 15 15 ARG C 435 CYS C 439 5 5 HELIX 16 16 VAL C 442 LYS C 452 1 11 HELIX 17 17 GLY C 509 LYS C 516 1 8 HELIX 18 18 LYS C 524 GLY C 537 1 14 HELIX 19 19 LYS C 538 LYS C 543 5 6 HELIX 20 20 LEU C 578 ALA C 583 1 6 HELIX 21 21 PRO C 636 ASP C 640 5 5 HELIX 22 22 PRO C 651 GLY C 655 5 5 HELIX 23 23 SER C 674 LEU C 678 5 5 HELIX 24 24 PRO C 710 ASP C 716 5 7 SHEET 1 A12 LYS B 379 LEU B 384 0 SHEET 2 A12 LYS B 343 GLY B 349 1 N LEU B 347 O VAL B 381 SHEET 3 A12 TYR B 407 ALA B 413 1 O TYR B 407 N VAL B 344 SHEET 4 A12 LEU B 456 ASP B 462 1 O LEU B 460 N LEU B 410 SHEET 5 A12 ILE B 486 TYR B 490 1 O GLY B 489 N PHE B 459 SHEET 6 A12 GLU B 549 SER B 552 -1 O ARG B 551 N PHE B 488 SHEET 7 A12 GLU C 549 SER C 552 -1 O SER C 552 N ILE B 550 SHEET 8 A12 ILE C 486 TYR C 490 -1 N PHE C 488 O ARG C 551 SHEET 9 A12 LEU C 456 ASP C 462 1 N PHE C 459 O GLY C 489 SHEET 10 A12 TYR C 407 ALA C 413 1 N TYR C 412 O ASP C 462 SHEET 11 A12 LYS C 343 GLY C 349 1 N VAL C 344 O TYR C 407 SHEET 12 A12 LYS C 379 LEU C 384 1 O LYS C 379 N LYS C 343 SHEET 1 B 3 GLY B 416 ASN B 419 0 SHEET 2 B 3 ASN B 422 MET B 425 -1 O PHE B 424 N TYR B 417 SHEET 3 B 3 LEU B 440 CYS B 441 -1 O LEU B 440 N MET B 425 SHEET 1 C 2 PHE B 499 GLU B 500 0 SHEET 2 C 2 ARG L 2 PRO L 3 -1 O ARG L 2 N GLU B 500 SHEET 1 D 4 MET B 590 LYS B 593 0 SHEET 2 D 4 GLN B 599 PHE B 608 -1 O LEU B 602 N MET B 590 SHEET 3 D 4 VAL B 611 TYR B 620 -1 O SER B 617 N GLN B 601 SHEET 4 D 4 LEU B 668 LEU B 672 -1 O LEU B 672 N MET B 612 SHEET 1 E 3 ILE B 625 THR B 633 0 SHEET 2 E 3 VAL B 683 TYR B 692 -1 O CYS B 687 N TYR B 631 SHEET 3 E 3 VAL B 699 ASN B 706 -1 O VAL B 699 N TYR B 690 SHEET 1 F 3 GLY C 416 ASN C 419 0 SHEET 2 F 3 ASN C 422 MET C 425 -1 O PHE C 424 N TYR C 417 SHEET 3 F 3 LEU C 440 CYS C 441 -1 O LEU C 440 N MET C 425 SHEET 1 G 2 PHE C 499 GLU C 500 0 SHEET 2 G 2 ARG M 2 PRO M 3 -1 O ARG M 2 N GLU C 500 SHEET 1 H 4 MET C 590 LYS C 593 0 SHEET 2 H 4 GLN C 599 PHE C 608 -1 O LEU C 602 N MET C 590 SHEET 3 H 4 VAL C 611 TYR C 620 -1 O ILE C 613 N ALA C 605 SHEET 4 H 4 LEU C 668 LEU C 672 -1 O LEU C 672 N MET C 612 SHEET 1 I 3 ILE C 625 THR C 633 0 SHEET 2 I 3 VAL C 683 TYR C 692 -1 O CYS C 687 N TYR C 631 SHEET 3 I 3 VAL C 699 ASN C 706 -1 O VAL C 705 N PHE C 684 LINK OE2 GLU C 388 MG MG C 801 1555 1555 2.30 LINK OE1 GLU C 388 MG MG C 801 1555 1555 2.65 LINK O GLU C 437 MG MG C 801 1555 1555 2.31 LINK OD1 ASP C 522 MG MG C 802 1555 1555 2.59 LINK OD2 ASP C 522 MG MG C 802 1555 1555 2.70 LINK MG MG C 801 O HOH C 997 1555 1555 2.52 LINK MG MG C 801 O HOH C1007 1555 1555 2.45 LINK MG MG C 801 O HOH C1070 1555 1555 2.59 LINK MG MG C 801 O HOH C1091 1555 1555 2.72 LINK MG MG C 802 O HOH C1020 1555 1555 2.59 LINK MG MG C 802 O HOH C1040 1555 1555 2.36 LINK MG MG C 802 O HOH C1075 1555 1555 2.65 CISPEP 1 ASN B 432 PRO B 433 0 -0.71 CISPEP 2 ASN C 432 PRO C 433 0 0.14 SITE 1 AC1 2 GLU C 388 GLU C 437 SITE 1 AC2 1 ASP C 522 SITE 1 AC3 16 LEU B 359 ALA B 361 PRO B 362 ASP B 365 SITE 2 AC3 16 ALA B 413 GLY B 414 HIS B 415 GLY B 416 SITE 3 AC3 16 ASP B 462 CYS B 464 GLU B 497 ALA B 498 SITE 4 AC3 16 PHE B 499 GLU B 500 ILE B 501 GLN B 502 SITE 1 AC4 15 LYS C 358 LEU C 359 ALA C 361 PRO C 362 SITE 2 AC4 15 ASP C 365 GLY C 414 HIS C 415 GLY C 416 SITE 3 AC4 15 ASP C 462 CYS C 464 GLU C 497 ALA C 498 SITE 4 AC4 15 PHE C 499 GLU C 500 GLN C 502 CRYST1 63.475 75.735 87.831 90.00 88.98 90.00 P 1 21 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.015754 0.000000 -0.000282 0.00000 SCALE2 0.000000 0.013204 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011387 0.00000