PDB Short entry for 2M9A HEADER METAL BINDING PROTEIN 05-JUN-13 2M9A TITLE SOLUTION NMR STRUCTURE OF E3 UBIQUITIN-PROTEIN LIGASE ZFP91 FROM HOMO TITLE 2 SAPIENS, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) TARGET TITLE 3 HR7784A COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE ZFP91; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 370-456; COMPND 5 SYNONYM: ZINC FINGER PROTEIN 757, ZINC FINGER PROTEIN 91 HOMOLOG, COMPND 6 ZFP-91; 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: FKSG11, ZFP91, ZNF757; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET15_NESG KEYWDS PSI:BIOLOGY, C2H2, HR7784A, PSI-BIOLOGY, NORTHEAST STRUCTURAL KEYWDS 2 GENOMICS CONSORTIUM, NESG, METAL BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.PEDERSON,R.SHASTRY,E.KOHAN,H.JANJUA,R.XIAO,T.B.ACTON,J.K.EVERETT, AUTHOR 2 G.T.MONTELIONE,J.H.PRESTEGARD,NORTHEAST STRUCTURAL GENOMICS AUTHOR 3 CONSORTIUM (NESG) REVDAT 2 14-JUN-23 2M9A 1 REMARK SEQADV LINK REVDAT 1 24-JUL-13 2M9A 0 JRNL AUTH K.PEDERSON,G.T.MONTELIONE,J.H.PRESTEGARD JRNL TITL SOLUTION STRUCTURE OF HR7784A JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 3.0, CNS 1.3 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2M9A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-JUN-13. REMARK 100 THE DEPOSITION ID IS D_1000103370. 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 : 100 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.17 MM [U-100% 13C; U-100% 15N] REMARK 210 HR7784A, 20 MM MES, 100 MM REMARK 210 SODIUM CHLORIDE, 5 MM CALCIUM REMARK 210 CHLORIDE, 10 MM DTT, 0.02 % REMARK 210 SODIUM AZIDE, 50 UM DSS, 95% H2O/ REMARK 210 5% D2O; 0.66 MM [U-100% 15N] REMARK 210 HR7784A, 20 MM MES, 100 MM REMARK 210 SODIUM CHLORIDE, 5 MM CALCIUM REMARK 210 CHLORIDE, 10 MM DTT, 4.2 % C12E5, REMARK 210 0.02 % SODIUM AZIDE, 50 UM DSS, REMARK 210 95% H2O/5% D2O; 0.66 MM [U-100% REMARK 210 13C; U-100% 15N] HR7784A, 20 MM REMARK 210 MES, 100 MM SODIUM CHLORIDE, 5 REMARK 210 MM CALCIUM CHLORIDE, 10 MM DTT, REMARK 210 0.02 % SODIUM AZIDE, 50 UM DSS, REMARK 210 5 % POSITIVELY CHARGED REMARK 210 POLYACRYLAMIDE GEL, 95% H2O/5% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D CBCA(CO)NH; 3D REMARK 210 HNCACB; 3D HNCO; 3D H(CCO)NH; 3D REMARK 210 HCCH-TOCSY; 3D 1H-15N NOESY; 3D REMARK 210 1H-13C NOESY ALIPHATIC; 3D 1H- REMARK 210 13C NOESY AROMATIC; 2D CB(CGCD) REMARK 210 HD; 2D CB(CGCDCE)HE; 2D 1H-15N J- REMARK 210 MODULATION HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, SPARKY 3.113, PSVS 1.4 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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 1-20 REMARK 465 RES C SSSEQI REMARK 465 MET A 1 REMARK 465 GLY A 2 REMARK 465 HIS A 3 REMARK 465 HIS A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 SER A 9 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 MET A 11 -55.16 -138.67 REMARK 500 1 CYS A 16 52.81 -90.13 REMARK 500 1 GLU A 17 -53.12 56.76 REMARK 500 1 TYR A 18 -45.23 -134.44 REMARK 500 1 ALA A 22 130.06 -172.55 REMARK 500 1 ARG A 33 6.82 -68.76 REMARK 500 1 MET A 34 -15.67 -45.91 REMARK 500 1 LYS A 40 99.80 67.17 REMARK 500 1 PRO A 41 -147.76 -69.87 REMARK 500 1 GLU A 45 29.31 -79.52 REMARK 500 1 CYS A 47 -134.29 -175.97 REMARK 500 1 PHE A 49 113.37 176.90 REMARK 500 1 ASP A 67 71.68 57.76 REMARK 500 1 TYR A 70 -96.98 -125.54 REMARK 500 1 GLN A 71 -82.67 -118.23 REMARK 500 1 LYS A 80 122.34 75.11 REMARK 500 2 GLU A 17 -53.75 172.15 REMARK 500 2 TYR A 18 -45.69 -140.59 REMARK 500 2 ARG A 21 -81.16 -68.65 REMARK 500 2 MET A 34 -15.19 -43.97 REMARK 500 2 GLU A 39 -30.23 -169.74 REMARK 500 2 LYS A 40 97.92 66.53 REMARK 500 2 GLU A 45 40.63 -88.25 REMARK 500 2 CYS A 47 -124.33 -175.57 REMARK 500 2 PHE A 49 115.95 177.57 REMARK 500 2 ASP A 67 -36.01 75.99 REMARK 500 2 LYS A 80 116.81 72.54 REMARK 500 3 MET A 11 -54.03 -128.19 REMARK 500 3 GLU A 17 -20.53 97.59 REMARK 500 3 TYR A 18 -51.50 -135.90 REMARK 500 3 ARG A 21 -168.23 -77.13 REMARK 500 3 ARG A 33 2.37 -65.29 REMARK 500 3 MET A 34 -19.48 -44.81 REMARK 500 3 LYS A 40 98.30 66.42 REMARK 500 3 CYS A 47 -107.15 -119.65 REMARK 500 3 PHE A 49 111.26 168.45 REMARK 500 3 ASP A 67 17.71 57.57 REMARK 500 3 TYR A 70 -86.53 -79.30 REMARK 500 3 GLN A 71 -95.33 -112.33 REMARK 500 3 LYS A 80 116.69 74.13 REMARK 500 4 MET A 11 -41.12 -165.44 REMARK 500 4 ASP A 13 103.51 -172.95 REMARK 500 4 TYR A 18 -50.48 -136.16 REMARK 500 4 ARG A 21 -77.95 -70.30 REMARK 500 4 MET A 34 -12.91 -47.44 REMARK 500 4 GLU A 39 76.87 -103.80 REMARK 500 4 GLU A 45 42.26 -87.11 REMARK 500 4 CYS A 47 -136.79 173.71 REMARK 500 4 PHE A 49 112.02 179.70 REMARK 500 4 GLN A 71 -81.68 -79.57 REMARK 500 REMARK 500 THIS ENTRY HAS 247 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 HIS A 36 THR A 37 9 -149.74 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 15 HIS A 64 0.10 SIDE CHAIN 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 ZN A 101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 16 SG REMARK 620 2 CYS A 19 SG 111.0 REMARK 620 3 HIS A 32 NE2 106.6 108.0 REMARK 620 4 HIS A 36 NE2 108.6 107.2 115.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 102 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 44 SG REMARK 620 2 CYS A 47 SG 109.9 REMARK 620 3 HIS A 60 NE2 105.4 109.5 REMARK 620 4 HIS A 64 NE2 110.5 112.2 109.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 103 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 74 SG REMARK 620 2 CYS A 77 SG 110.6 REMARK 620 3 HIS A 90 NE2 106.8 108.2 REMARK 620 4 HIS A 95 NE2 107.9 110.7 112.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 102 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19288 RELATED DB: BMRB REMARK 900 RELATED ID: NESG-HR7784A RELATED DB: TARGETTRACK DBREF 2M9A A 12 98 UNP Q96JP5 ZFP91_HUMAN 370 456 SEQADV 2M9A MET A 1 UNP Q96JP5 EXPRESSION TAG SEQADV 2M9A GLY A 2 UNP Q96JP5 EXPRESSION TAG SEQADV 2M9A HIS A 3 UNP Q96JP5 EXPRESSION TAG SEQADV 2M9A HIS A 4 UNP Q96JP5 EXPRESSION TAG SEQADV 2M9A HIS A 5 UNP Q96JP5 EXPRESSION TAG SEQADV 2M9A HIS A 6 UNP Q96JP5 EXPRESSION TAG SEQADV 2M9A HIS A 7 UNP Q96JP5 EXPRESSION TAG SEQADV 2M9A HIS A 8 UNP Q96JP5 EXPRESSION TAG SEQADV 2M9A SER A 9 UNP Q96JP5 EXPRESSION TAG SEQADV 2M9A HIS A 10 UNP Q96JP5 EXPRESSION TAG SEQADV 2M9A MET A 11 UNP Q96JP5 EXPRESSION TAG SEQRES 1 A 98 MET GLY HIS HIS HIS HIS HIS HIS SER HIS MET ARG ASP SEQRES 2 A 98 TYR ILE CYS GLU TYR CYS ALA ARG ALA PHE LYS SER SER SEQRES 3 A 98 HIS ASN LEU ALA VAL HIS ARG MET ILE HIS THR GLY GLU SEQRES 4 A 98 LYS PRO LEU GLN CYS GLU ILE CYS GLY PHE THR CYS ARG SEQRES 5 A 98 GLN LYS ALA SER LEU ASN TRP HIS MET LYS LYS HIS ASP SEQRES 6 A 98 ALA ASP SER PHE TYR GLN PHE SER CYS ASN ILE CYS GLY SEQRES 7 A 98 LYS LYS PHE GLU LYS LYS ASP SER VAL VAL ALA HIS LYS SEQRES 8 A 98 ALA LYS SER HIS PRO GLU VAL HET ZN A 101 1 HET ZN A 103 1 HET ZN A 102 1 HETNAM ZN ZINC ION FORMUL 2 ZN 3(ZN 2+) HELIX 1 1 SER A 25 ARG A 33 1 9 HELIX 2 2 MET A 34 HIS A 36 5 3 HELIX 3 3 GLN A 53 ALA A 66 1 14 HELIX 4 4 LYS A 83 HIS A 95 1 13 SHEET 1 A 2 LEU A 42 GLN A 43 0 SHEET 2 A 2 THR A 50 CYS A 51 -1 O CYS A 51 N LEU A 42 LINK SG CYS A 16 ZN ZN A 101 1555 1555 2.33 LINK SG CYS A 19 ZN ZN A 101 1555 1555 2.33 LINK NE2 HIS A 32 ZN ZN A 101 1555 1555 2.10 LINK NE2 HIS A 36 ZN ZN A 101 1555 1555 2.10 LINK SG CYS A 44 ZN ZN A 102 1555 1555 2.34 LINK SG CYS A 47 ZN ZN A 102 1555 1555 2.33 LINK NE2 HIS A 60 ZN ZN A 102 1555 1555 2.05 LINK NE2 HIS A 64 ZN ZN A 102 1555 1555 2.07 LINK SG CYS A 74 ZN ZN A 103 1555 1555 2.33 LINK SG CYS A 77 ZN ZN A 103 1555 1555 2.33 LINK NE2 HIS A 90 ZN ZN A 103 1555 1555 2.05 LINK NE2 HIS A 95 ZN ZN A 103 1555 1555 2.08 SITE 1 AC1 4 CYS A 16 CYS A 19 HIS A 32 HIS A 36 SITE 1 AC2 4 CYS A 74 CYS A 77 HIS A 90 HIS A 95 SITE 1 AC3 4 CYS A 44 CYS A 47 HIS A 60 HIS A 64 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