PDB Short entry for 2MB9 HEADER SIGNALING PROTEIN 26-JUL-13 2MB9 TITLE HUMAN BCL10 CARD COMPND MOL_ID: 1; COMPND 2 MOLECULE: B-CELL LYMPHOMA/LEUKEMIA 10; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CARD DOMAIN RESIDUES 1-115; COMPND 5 SYNONYM: B-CELL CLL/LYMPHOMA 10, BCL-10, CARD-CONTAINING MOLECULE COMPND 6 ENHANCING NF-KAPPA-B, CARD-LIKE APOPTOTIC PROTEIN, HCLAP, CED-3/ICH-1 COMPND 7 PRODOMAIN HOMOLOGOUS E10-LIKE REGULATOR, CIPER, CELLULAR HOMOLOG OF COMPND 8 VCARMEN, CCARMEN, CELLULAR-E10, C-E10, MAMMALIAN CARD-CONTAINING COMPND 9 ADAPTER MOLECULE E10, ME10; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: BCL10, CIPER, CLAP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET28A KEYWDS DEATH DOMAIN, APOPTOSIS, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR C.ZHENG,C.BRACKEN,H.WU REVDAT 2 14-JUN-23 2MB9 1 SEQADV REVDAT 1 16-OCT-13 2MB9 0 JRNL AUTH Q.QIAO,C.YANG,C.ZHENG,L.FONTAN,L.DAVID,X.YU,C.BRACKEN, JRNL AUTH 2 M.ROSEN,A.MELNICK,E.H.EGELMAN,H.WU JRNL TITL STRUCTURAL ARCHITECTURE OF THE CARMA1/BCL10/MALT1 JRNL TITL 2 SIGNALOSOME: NUCLEATION-INDUCED FILAMENTOUS ASSEMBLY. JRNL REF MOL.CELL V. 51 766 2013 JRNL REFN ISSN 1097-2765 JRNL PMID 24074955 JRNL DOI 10.1016/J.MOLCEL.2013.08.032 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CCPNMR, CNS REMARK 3 AUTHORS : CCPN (CCPNMR), BRUNGER, ADAMS, CLORE, GROS, NILGES REMARK 3 AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MB9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-AUG-13. REMARK 100 THE DEPOSITION ID IS D_1000103435. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.05 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.3-0.4 MM [U-13C; U-15N] BCL10, REMARK 210 93% H2O/7% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1000 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 GLU A 2 REMARK 465 PRO A 3 REMARK 465 THR A 4 REMARK 465 ALA A 5 REMARK 465 PRO A 6 REMARK 465 SER A 7 REMARK 465 LEU A 8 REMARK 465 THR A 9 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HZ3 LYS A 98 OD2 ASP A 101 1.54 REMARK 500 OE1 GLU A 35 HH21 ARG A 36 1.54 REMARK 500 O CYS A 57 H THR A 59 1.55 REMARK 500 OD1 ASP A 12 HZ3 LYS A 110 1.57 REMARK 500 OE2 GLU A 15 HZ1 LYS A 110 1.57 REMARK 500 OE1 GLU A 54 HG CYS A 57 1.57 REMARK 500 HZ1 LYS A 77 OD2 ASP A 80 1.59 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 1 ALA A 34 CB - CA - C ANGL. DEV. = -12.2 DEGREES REMARK 500 1 ALA A 34 N - CA - CB ANGL. DEV. = -13.6 DEGREES REMARK 500 2 THR A 14 C - N - CA ANGL. DEV. = -15.1 DEGREES REMARK 500 2 THR A 14 CA - CB - OG1 ANGL. DEV. = 13.5 DEGREES REMARK 500 2 THR A 14 CA - CB - CG2 ANGL. DEV. = -22.3 DEGREES REMARK 500 2 THR A 14 CA - C - O ANGL. DEV. = -15.6 DEGREES REMARK 500 2 THR A 14 CA - C - N ANGL. DEV. = 19.1 DEGREES REMARK 500 3 TYR A 71 CB - CG - CD2 ANGL. DEV. = -4.0 DEGREES REMARK 500 3 TYR A 71 CB - CG - CD1 ANGL. DEV. = 4.6 DEGREES REMARK 500 5 PRO A 76 C - N - CA ANGL. DEV. = 10.4 DEGREES REMARK 500 10 PRO A 76 C - N - CA ANGL. DEV. = 9.6 DEGREES 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 1 LYS A 17 -31.06 -38.67 REMARK 500 1 ILE A 33 -142.97 -52.00 REMARK 500 1 ALA A 34 1.01 -18.02 REMARK 500 1 ARG A 36 -70.96 -63.35 REMARK 500 1 HIS A 37 -88.55 -104.92 REMARK 500 1 ASP A 39 -71.87 -35.01 REMARK 500 1 LEU A 47 -158.16 -124.87 REMARK 500 1 ARG A 58 14.26 -18.74 REMARK 500 1 THR A 59 -179.52 -46.20 REMARK 500 1 SER A 60 128.32 -15.25 REMARK 500 1 SER A 61 -37.52 -30.43 REMARK 500 1 ARG A 64 -71.01 -46.02 REMARK 500 1 PRO A 76 -47.89 -28.94 REMARK 500 1 GLU A 89 -74.47 -34.22 REMARK 500 1 LYS A 90 -64.48 -94.09 REMARK 500 1 GLN A 92 -169.74 -169.73 REMARK 500 2 THR A 59 109.60 -42.80 REMARK 500 2 SER A 60 -168.24 -160.83 REMARK 500 2 PRO A 76 -32.78 -35.60 REMARK 500 2 GLU A 89 -14.19 -29.76 REMARK 500 3 THR A 14 -25.60 -39.21 REMARK 500 3 VAL A 26 -67.57 -90.61 REMARK 500 3 LEU A 47 -163.47 -100.02 REMARK 500 3 CYS A 57 -68.75 -90.18 REMARK 500 3 ARG A 58 -72.58 -90.69 REMARK 500 3 SER A 61 -74.82 -93.99 REMARK 500 3 ALA A 65 -70.01 -92.61 REMARK 500 3 PRO A 76 -40.46 -28.87 REMARK 500 3 LYS A 90 -31.38 -32.55 REMARK 500 3 ASN A 93 -5.41 -47.13 REMARK 500 3 LEU A 106 -8.51 -58.32 REMARK 500 4 ARG A 49 -84.89 -89.35 REMARK 500 4 GLU A 50 -71.04 -101.46 REMARK 500 4 SER A 61 -70.77 -34.23 REMARK 500 4 LYS A 90 -19.41 -29.72 REMARK 500 5 THR A 59 134.14 -36.74 REMARK 500 5 SER A 61 -72.28 -55.23 REMARK 500 5 ASN A 75 88.06 -151.23 REMARK 500 5 PRO A 76 -6.47 -24.38 REMARK 500 5 ARG A 87 -76.78 -36.19 REMARK 500 5 ARG A 88 -74.71 -98.67 REMARK 500 5 GLU A 89 -75.74 -95.47 REMARK 500 6 LYS A 17 -17.29 -41.84 REMARK 500 6 HIS A 37 -16.41 -44.37 REMARK 500 6 ILE A 46 -72.70 -57.58 REMARK 500 6 ARG A 49 -82.07 -89.55 REMARK 500 6 GLU A 50 -67.96 -101.85 REMARK 500 6 ILE A 55 -36.60 -33.01 REMARK 500 6 SER A 61 -70.14 -29.56 REMARK 500 6 GLU A 89 -76.16 -36.76 REMARK 500 REMARK 500 THIS ENTRY HAS 109 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ARG A 36 HIS A 37 1 147.02 REMARK 500 HIS A 37 PHE A 38 1 147.52 REMARK 500 ILE A 33 ALA A 34 10 -147.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 4 ARG A 107 0.08 SIDE CHAIN REMARK 500 5 ARG A 64 0.10 SIDE CHAIN REMARK 500 6 ARG A 49 0.08 SIDE CHAIN REMARK 500 7 ARG A 42 0.07 SIDE CHAIN REMARK 500 8 ARG A 25 0.08 SIDE CHAIN REMARK 500 8 ARG A 36 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19392 RELATED DB: BMRB DBREF 2MB9 A 1 115 UNP O95999 BCL10_HUMAN 1 115 SEQADV 2MB9 GLY A -2 UNP O95999 EXPRESSION TAG SEQADV 2MB9 SER A -1 UNP O95999 EXPRESSION TAG SEQADV 2MB9 HIS A 0 UNP O95999 EXPRESSION TAG SEQADV 2MB9 ARG A 53 UNP O95999 GLU 53 ENGINEERED MUTATION SEQRES 1 A 118 GLY SER HIS MET GLU PRO THR ALA PRO SER LEU THR GLU SEQRES 2 A 118 GLU ASP LEU THR GLU VAL LYS LYS ASP ALA LEU GLU ASN SEQRES 3 A 118 LEU ARG VAL TYR LEU CYS GLU LYS ILE ILE ALA GLU ARG SEQRES 4 A 118 HIS PHE ASP HIS LEU ARG ALA LYS LYS ILE LEU SER ARG SEQRES 5 A 118 GLU ASP THR ARG GLU ILE SER CYS ARG THR SER SER ARG SEQRES 6 A 118 LYS ARG ALA GLY LYS LEU LEU ASP TYR LEU GLN GLU ASN SEQRES 7 A 118 PRO LYS GLY LEU ASP THR LEU VAL GLU SER ILE ARG ARG SEQRES 8 A 118 GLU LYS THR GLN ASN PHE LEU ILE GLN LYS ILE THR ASP SEQRES 9 A 118 GLU VAL LEU LYS LEU ARG ASN ILE LYS LEU GLU HIS LEU SEQRES 10 A 118 LYS HELIX 1 1 GLU A 10 GLU A 15 1 6 HELIX 2 2 VAL A 16 CYS A 29 1 14 HELIX 3 3 PHE A 38 ALA A 43 1 6 HELIX 4 4 SER A 48 GLU A 54 1 7 HELIX 5 5 SER A 60 GLN A 73 1 14 HELIX 6 6 LEU A 79 ARG A 87 1 9 HELIX 7 7 ASN A 93 LEU A 106 1 14 HELIX 8 8 LEU A 106 LEU A 114 1 9 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000