PDB Short entry for 3UO8 HEADER HYDROLASE/HYDROLASE INHIBITOR 16-NOV-11 3UO8 TITLE CRYSTAL STRUCTURE OF THE MALT1 PARACASPASE (P1 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 EC: 3.4.22.-; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: Z-VAL-ARG-PRO-DL-ARG-FLUOROMETHYLKETONE; COMPND 11 CHAIN: L, M; COMPND 12 SYNONYM: MALT1 INHIBITOR, Z-VRPR-FMK; COMPND 13 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: MALT1, MLT; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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 3UO8 1 SEQADV REVDAT 2 15-FEB-12 3UO8 1 JRNL REVDAT 1 21-DEC-11 3UO8 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. 1.90 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.26 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.050 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.3 REMARK 3 NUMBER OF REFLECTIONS : 59902 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.250 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 3036 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 34.2680 - 5.3175 0.92 2567 147 0.2466 0.2950 REMARK 3 2 5.3175 - 4.2232 0.96 2684 149 0.1740 0.2027 REMARK 3 3 4.2232 - 3.6900 0.98 2711 171 0.1835 0.1887 REMARK 3 4 3.6900 - 3.3530 0.98 2743 141 0.2067 0.2604 REMARK 3 5 3.3530 - 3.1128 0.98 2751 161 0.2217 0.2598 REMARK 3 6 3.1128 - 2.9294 0.98 2752 124 0.2197 0.2610 REMARK 3 7 2.9294 - 2.7828 0.97 2701 142 0.2184 0.2795 REMARK 3 8 2.7828 - 2.6617 0.97 2727 118 0.2030 0.2741 REMARK 3 9 2.6617 - 2.5592 0.96 2721 147 0.2123 0.2689 REMARK 3 10 2.5592 - 2.4710 0.96 2677 152 0.2134 0.2648 REMARK 3 11 2.4710 - 2.3937 0.95 2682 142 0.2021 0.2994 REMARK 3 12 2.3937 - 2.3253 0.94 2616 134 0.1923 0.2441 REMARK 3 13 2.3253 - 2.2641 0.93 2579 145 0.1826 0.2181 REMARK 3 14 2.2641 - 2.2089 0.92 2618 138 0.1845 0.2526 REMARK 3 15 2.2089 - 2.1587 0.91 2551 124 0.1974 0.2650 REMARK 3 16 2.1587 - 2.1127 0.91 2533 134 0.2012 0.2421 REMARK 3 17 2.1127 - 2.0705 0.89 2502 138 0.2130 0.2890 REMARK 3 18 2.0705 - 2.0314 0.87 2433 138 0.2242 0.2736 REMARK 3 19 2.0314 - 1.9951 0.87 2429 119 0.2189 0.2417 REMARK 3 20 1.9951 - 1.9613 0.85 2395 137 0.2232 0.2935 REMARK 3 21 1.9613 - 1.9297 0.83 2315 124 0.2415 0.2689 REMARK 3 22 1.9297 - 1.9000 0.78 2179 111 0.2746 0.3972 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 : 0.44 REMARK 3 B_SOL : 50.50 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.170 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.74 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 7.04010 REMARK 3 B22 (A**2) : -4.02010 REMARK 3 B33 (A**2) : -3.02000 REMARK 3 B12 (A**2) : 6.38170 REMARK 3 B13 (A**2) : -2.09650 REMARK 3 B23 (A**2) : 5.87940 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 5883 REMARK 3 ANGLE : 0.991 7950 REMARK 3 CHIRALITY : 0.060 918 REMARK 3 PLANARITY : 0.004 1012 REMARK 3 DIHEDRAL : 13.126 2208 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): -29.4717 4.8808 -16.8053 REMARK 3 T TENSOR REMARK 3 T11: 0.1365 T22: 0.1543 REMARK 3 T33: 0.1932 T12: -0.0062 REMARK 3 T13: 0.0201 T23: -0.0207 REMARK 3 L TENSOR REMARK 3 L11: 0.6440 L22: 1.1553 REMARK 3 L33: 1.6917 L12: -0.4938 REMARK 3 L13: 0.3744 L23: -0.7856 REMARK 3 S TENSOR REMARK 3 S11: -0.0883 S12: 0.0456 S13: 0.1285 REMARK 3 S21: -0.0307 S22: 0.0013 S23: -0.1809 REMARK 3 S31: 0.0672 S32: -0.1175 S33: 0.0840 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B AND RESID 580:715 REMARK 3 ORIGIN FOR THE GROUP (A): -42.6452 28.3451 -38.4258 REMARK 3 T TENSOR REMARK 3 T11: 0.3817 T22: 0.2325 REMARK 3 T33: 0.2235 T12: 0.0319 REMARK 3 T13: -0.0418 T23: 0.0430 REMARK 3 L TENSOR REMARK 3 L11: 1.1639 L22: 2.4398 REMARK 3 L33: 1.1532 L12: -0.5538 REMARK 3 L13: 0.9645 L23: -1.3827 REMARK 3 S TENSOR REMARK 3 S11: -0.3904 S12: -0.1973 S13: 0.0893 REMARK 3 S21: -0.2786 S22: 0.1711 S23: -0.1962 REMARK 3 S31: -0.1980 S32: -0.1534 S33: 0.1915 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN M OR (CHAIN C AND RESID 338:565) REMARK 3 ORIGIN FOR THE GROUP (A): -20.2302 -13.6830 2.3274 REMARK 3 T TENSOR REMARK 3 T11: 0.1773 T22: 0.1660 REMARK 3 T33: 0.1735 T12: -0.0147 REMARK 3 T13: 0.0122 T23: -0.0210 REMARK 3 L TENSOR REMARK 3 L11: 1.2429 L22: 1.1848 REMARK 3 L33: 1.2113 L12: -0.8492 REMARK 3 L13: 0.5813 L23: -1.0825 REMARK 3 S TENSOR REMARK 3 S11: -0.0532 S12: -0.0281 S13: 0.0797 REMARK 3 S21: 0.0352 S22: -0.0180 S23: -0.1448 REMARK 3 S31: 0.0983 S32: -0.0312 S33: 0.0666 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN C AND RESID 577:718 REMARK 3 ORIGIN FOR THE GROUP (A): -10.7341 -35.2270 25.7806 REMARK 3 T TENSOR REMARK 3 T11: 0.2681 T22: 0.2953 REMARK 3 T33: 0.1973 T12: 0.0062 REMARK 3 T13: -0.0130 T23: 0.0565 REMARK 3 L TENSOR REMARK 3 L11: 1.8962 L22: 1.2524 REMARK 3 L33: 1.0909 L12: 0.2518 REMARK 3 L13: 0.3864 L23: -0.9496 REMARK 3 S TENSOR REMARK 3 S11: 0.0405 S12: -0.4117 S13: -0.2007 REMARK 3 S21: -0.2625 S22: -0.2008 S23: -0.1341 REMARK 3 S31: 0.1316 S32: -0.1764 S33: 0.1256 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 3UO8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-NOV-11. REMARK 100 THE DEPOSITION ID IS D_1000069001. 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 : 63071 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 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 (%) : 97.3 REMARK 200 DATA REDUNDANCY : 2.700 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.49200 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 (%): 47.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 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 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: 1050 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, L 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: 1070 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 CG 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 -50.41 -135.97 REMARK 500 LYS B 360 -43.13 -131.62 REMARK 500 ASP B 385 70.42 54.90 REMARK 500 THR B 454 150.33 -47.37 REMARK 500 ASP B 462 74.28 -101.46 REMARK 500 ASP B 472 45.16 -106.61 REMARK 500 ASN B 485 30.00 -156.11 REMARK 500 GLN B 502 139.20 -36.38 REMARK 500 SER B 504 29.60 -141.57 REMARK 500 LYS B 545 -36.64 -134.15 REMARK 500 ALA B 581 -99.29 59.81 REMARK 500 LEU B 678 106.91 -57.74 REMARK 500 GLU B 680 -144.50 -105.59 REMARK 500 LEU B 711 -139.23 41.62 REMARK 500 MET C 351 -41.47 -133.60 REMARK 500 ASP C 385 67.37 65.69 REMARK 500 ASP C 462 73.04 -102.87 REMARK 500 ASN C 485 30.49 -155.41 REMARK 500 HIS C 503 64.31 38.23 REMARK 500 LEU C 506 32.12 -98.76 REMARK 500 LYS C 545 -35.18 -132.10 REMARK 500 SER C 674 35.17 70.38 REMARK 500 LYS C 702 153.48 178.88 REMARK 500 LEU C 711 -123.25 45.36 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 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: AC2 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: 3UOA RELATED DB: PDB REMARK 900 P21 CRYSTAL FORM DBREF 3UO8 B 339 719 UNP Q9UDY8 MALT1_HUMAN 339 719 DBREF 3UO8 C 339 719 UNP Q9UDY8 MALT1_HUMAN 339 719 DBREF 3UO8 L 0 5 PDB 3UO8 3UO8 0 5 DBREF 3UO8 M 0 5 PDB 3UO8 3UO8 0 5 SEQADV 3UO8 MET B 338 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 LEU B 720 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 GLU B 721 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 HIS B 722 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 HIS B 723 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 HIS B 724 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 HIS B 725 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 HIS B 726 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 HIS B 727 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 MET C 338 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 LEU C 720 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 GLU C 721 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 HIS C 722 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 HIS C 723 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 HIS C 724 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 HIS C 725 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 HIS C 726 UNP Q9UDY8 EXPRESSION TAG SEQADV 3UO8 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 FORMUL 5 HOH *222(H2 O) HELIX 1 1 ALA B 361 LEU B 376 1 16 HELIX 2 2 THR B 387 LEU B 402 1 16 HELIX 3 3 ARG B 435 CYS B 439 5 5 HELIX 4 4 VAL B 442 GLU B 451 1 10 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 TRP B 580 HIS B 584 5 5 HELIX 8 8 PRO B 636 ASP B 640 5 5 HELIX 9 9 ASP B 642 ALA B 646 5 5 HELIX 10 10 THR B 650 GLY B 655 5 6 HELIX 11 11 VAL B 659 LEU B 663 5 5 HELIX 12 12 SER B 674 LEU B 678 5 5 HELIX 13 13 PRO B 710 LEU B 715 5 6 HELIX 14 14 ALA C 361 LEU C 376 1 16 HELIX 15 15 THR C 387 LEU C 401 1 15 HELIX 16 16 ARG C 435 CYS C 439 5 5 HELIX 17 17 VAL C 442 GLU C 451 1 10 HELIX 18 18 GLY C 509 LYS C 516 1 8 HELIX 19 19 LYS C 524 GLY C 537 1 14 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 ASP B 462 N TYR B 412 SHEET 5 A12 ILE B 486 TYR B 490 1 O VAL B 487 N ASN B 457 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 TYR C 490 O GLU C 549 SHEET 9 A12 LEU C 456 ASP C 462 1 N ASN C 457 O VAL C 487 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 VAL B 611 N GLU B 607 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 ASP B 701 N LEU B 688 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 CISPEP 1 ASN B 432 PRO B 433 0 -0.98 CISPEP 2 ASN C 432 PRO C 433 0 7.20 SITE 1 AC1 14 LEU B 359 ALA B 361 PRO B 362 ASP B 365 SITE 2 AC1 14 GLY B 414 HIS B 415 GLY B 416 ASP B 462 SITE 3 AC1 14 CYS B 464 GLU B 497 ALA B 498 PHE B 499 SITE 4 AC1 14 GLU B 500 GLN B 502 SITE 1 AC2 16 LYS C 360 ALA C 361 PRO C 362 ASP C 365 SITE 2 AC2 16 ALA C 413 GLY C 414 HIS C 415 GLY C 416 SITE 3 AC2 16 ASP C 462 CYS C 464 GLU C 497 ALA C 498 SITE 4 AC2 16 PHE C 499 GLU C 500 ILE C 501 GLN C 502 CRYST1 61.235 61.158 71.126 108.59 97.23 117.23 P 1 2 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 0.016331 0.008405 0.006256 0.00000 SCALE2 0.000000 0.018390 0.008677 0.00000 SCALE3 0.000000 0.000000 0.015670 0.00000