HEADER RNA BINDING PROTEIN 23-FEB-15 2MZR TITLE NMR STRUCTURE OF THE RRM1 DOMAIN OF HRB1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN HRB1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: FIRST RRM DOMAIN (UNP RESIDUES 144-236); COMPND 5 SYNONYM: PROTEIN TOM34; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: HRB1, N2009, TOM34, YNL004W; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS RRM, RNA BINDING DOMAIN, HRB1, THO/TREX, RNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR S.MARTINEZ-LUMBRERAS,B.SERAPHIN,J.PEREZ-CANADILLAS REVDAT 4 14-JUN-23 2MZR 1 REMARK SEQADV REVDAT 3 27-JAN-16 2MZR 1 JRNL REVDAT 2 09-DEC-15 2MZR 1 JRNL REVDAT 1 02-DEC-15 2MZR 0 JRNL AUTH S.MARTINEZ-LUMBRERAS,V.TAVERNITI,S.ZORRILLA,B.SERAPHIN, JRNL AUTH 2 J.M.PEREZ-CANADILLAS JRNL TITL GBP2 INTERACTS WITH THO/TREX THROUGH A NOVEL TYPE OF RRM JRNL TITL 2 DOMAIN. JRNL REF NUCLEIC ACIDS RES. V. 44 437 2016 JRNL REFN ISSN 0305-1048 JRNL PMID 26602689 JRNL DOI 10.1093/NAR/GKV1303 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM, III, SIMMERLING, WANG, REMARK 3 DUKE, LUO, ... AND KOLLMAN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MZR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-FEB-15. REMARK 100 THE DEPOSITION ID IS D_1000104240. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.2 MM PROTEIN, 25 MM POTASSIUM REMARK 210 PHOSPHATE, 25 MM SODIUM CHLORIDE, REMARK 210 0.1 MM DTT, 90% H2O/10% D2O; REMARK 210 0.2 MM PROTEIN, 25 MM POTASSIUM REMARK 210 PHOSPHATE, 25 MM SODIUM CHLORIDE, REMARK 210 0.1 MM DTT, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-1H TOCSY; 2D 1H-1H NOESY; REMARK 210 3D HNCA; 3D HNCO; 3D HNCACB; 3D REMARK 210 HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA, TOPSPIN, CCPNMR ANALYSIS, REMARK 210 NMRPIPE REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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 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 2 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 4 ARG A 157 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 12 ARG A 215 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 12 ARG A 233 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 14 ARG A 215 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 14 ARG A 215 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 15 ARG A 218 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 16 ARG A 157 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 16 ARG A 218 NE - CZ - NH1 ANGL. DEV. = 5.2 DEGREES REMARK 500 16 ARG A 218 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 17 ARG A 200 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 20 ARG A 189 NE - CZ - NH2 ANGL. DEV. = -3.2 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 SER A 143 168.10 72.72 REMARK 500 1 SER A 160 177.15 68.77 REMARK 500 1 ASN A 161 27.90 -144.22 REMARK 500 1 ASN A 167 22.61 -142.77 REMARK 500 1 ILE A 192 -48.76 -145.98 REMARK 500 1 ASP A 211 -46.20 -130.05 REMARK 500 2 ASN A 167 21.85 -147.70 REMARK 500 2 ARG A 200 -96.23 -128.68 REMARK 500 2 ASN A 209 -146.42 -137.68 REMARK 500 2 SER A 210 -57.88 -136.39 REMARK 500 2 ALA A 223 107.17 -59.13 REMARK 500 2 ASP A 227 0.48 86.01 REMARK 500 3 ARG A 145 -33.21 -163.69 REMARK 500 3 GLU A 153 -1.73 80.22 REMARK 500 3 LYS A 154 17.70 -66.12 REMARK 500 3 VAL A 155 141.47 -170.50 REMARK 500 3 ASN A 156 -37.37 -161.72 REMARK 500 3 ASN A 161 -35.16 177.47 REMARK 500 3 LEU A 168 -175.97 -59.57 REMARK 500 3 ARG A 189 119.70 -164.60 REMARK 500 3 HIS A 199 -77.59 -160.47 REMARK 500 3 ARG A 200 11.40 -153.54 REMARK 500 3 SER A 210 -76.75 -122.62 REMARK 500 3 ASP A 227 0.14 106.91 REMARK 500 4 GLU A 146 133.98 78.28 REMARK 500 4 GLU A 153 -123.13 61.85 REMARK 500 4 ASN A 167 38.43 -157.25 REMARK 500 4 ARG A 189 146.49 -176.18 REMARK 500 4 ARG A 200 -61.73 -163.38 REMARK 500 4 ASP A 235 -84.47 62.86 REMARK 500 5 SER A 143 -53.81 -164.49 REMARK 500 5 ALA A 144 14.28 58.07 REMARK 500 5 ILE A 192 -52.01 -143.87 REMARK 500 5 SER A 210 -66.01 -127.08 REMARK 500 6 TYR A 159 -55.70 -153.37 REMARK 500 6 LEU A 168 -77.96 -144.01 REMARK 500 6 THR A 169 140.21 -172.25 REMARK 500 6 ILE A 192 -53.50 -145.57 REMARK 500 6 HIS A 199 158.99 69.02 REMARK 500 6 ASP A 227 -0.41 77.71 REMARK 500 7 ARG A 157 16.86 -146.77 REMARK 500 7 ASN A 161 -3.47 -146.72 REMARK 500 7 LEU A 168 -120.22 32.70 REMARK 500 7 HIS A 199 -62.26 -166.37 REMARK 500 7 ARG A 200 -69.32 -144.52 REMARK 500 7 ALA A 223 106.22 -58.37 REMARK 500 7 ASP A 235 -26.66 68.37 REMARK 500 8 ARG A 145 -151.40 62.71 REMARK 500 8 LEU A 168 -144.55 178.26 REMARK 500 8 SER A 210 -68.30 -124.82 REMARK 500 REMARK 500 THIS ENTRY HAS 151 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 ASN A 161 SER A 162 14 143.67 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 16 ARG A 215 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25497 RELATED DB: BMRB REMARK 900 RELATED ID: 2MZQ RELATED DB: PDB REMARK 900 RELATED ID: 2MZS RELATED DB: PDB REMARK 900 RELATED ID: 2MZT RELATED DB: PDB DBREF 2MZR A 144 236 UNP P38922 HRB1_YEAST 144 236 SEQADV 2MZR GLY A 142 UNP P38922 EXPRESSION TAG SEQADV 2MZR SER A 143 UNP P38922 EXPRESSION TAG SEQRES 1 A 95 GLY SER ALA ARG GLU LEU ASP SER THR TYR GLU GLU LYS SEQRES 2 A 95 VAL ASN ARG ASN TYR SER ASN SER ILE PHE VAL GLY ASN SEQRES 3 A 95 LEU THR TYR ASP SER THR PRO GLU ASP LEU THR GLU PHE SEQRES 4 A 95 PHE SER GLN ILE GLY LYS VAL VAL ARG ALA ASP ILE ILE SEQRES 5 A 95 THR SER ARG GLY HIS HIS ARG GLY MET GLY THR VAL GLU SEQRES 6 A 95 PHE THR ASN SER ASP ASP VAL ASP ARG ALA ILE ARG GLN SEQRES 7 A 95 TYR ASP GLY ALA PHE PHE MET ASP ARG LYS ILE PHE VAL SEQRES 8 A 95 ARG GLN ASP ASN HELIX 1 1 THR A 173 SER A 182 1 10 HELIX 2 2 GLN A 183 GLY A 185 5 3 HELIX 3 3 ASP A 211 ARG A 218 1 8 SHEET 1 A 4 VAL A 187 ASP A 191 0 SHEET 2 A 4 GLY A 203 PHE A 207 -1 O GLU A 206 N ARG A 189 SHEET 3 A 4 SER A 162 VAL A 165 -1 N VAL A 165 O GLY A 203 SHEET 4 A 4 VAL A 232 GLN A 234 -1 O ARG A 233 N PHE A 164 SHEET 1 B 2 PHE A 224 PHE A 225 0 SHEET 2 B 2 ARG A 228 LYS A 229 -1 O ARG A 228 N PHE A 225 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 MODEL 1