HEADER LIGASE 28-JUN-13 2MA6 TITLE SOLUTION NMR STRUCTURE OF THE RING FINGER DOMAIN FROM THE KIP1 TITLE 2 UBIQUITINATION-PROMOTING E3 COMPLEX PROTEIN 1 (KPC1/RNF123) FROM HOMO TITLE 3 SAPIENS, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) TARGET TITLE 4 HR8700A COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE RNF123; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1247-1304; COMPND 5 SYNONYM: KIP1 UBIQUITINATION-PROMOTING COMPLEX PROTEIN 1, RING FINGER COMPND 6 PROTEIN 123; COMPND 7 EC: 6.3.2.-; COMPND 8 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: FP1477, KPC1, RNF123; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PMGK; SOURCE 9 OTHER_DETAILS: PLASMID KEYWDS STRUCTURAL GENOMICS, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM, NESG, KEYWDS 2 PSI-BIOLOGY, PROTEIN STRUCTURE INITIATIVE, RING FING DOMAIN, ZINC KEYWDS 3 BINDING PROTEIN, LIGASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.A.RAMELOT,Y.YANG,H.JANJUA,E.KOHAN,H.WANG,R.XIAO,T.B.ACTON, AUTHOR 2 J.K.EVERETT,G.T.MONTELIONE,M.A.KENNEDY,NORTHEAST STRUCTURAL GENOMICS AUTHOR 3 CONSORTIUM (NESG) REVDAT 1 31-JUL-13 2MA6 0 JRNL AUTH T.A.RAMELOT,Y.YANG,H.JANJUA,E.KOHAN,H.WANG,R.XIAO,T.B.ACTON, JRNL AUTH 2 J.K.EVERETT,G.T.MONTELIONE,M.A.KENNEDY JRNL TITL SOLUTION NMR STRUCTURE OF THE RING FINGER DOMAIN FROM THE JRNL TITL 2 KIP1 UBIQUITINATION-PROMOTING E3 COMPLEX PROTEIN 1 JRNL TITL 3 (KPC1/RNF123) FROM HOMO SAPIENS, NORTHEAST STRUCTURAL JRNL TITL 4 GENOMICS CONSORTIUM (NESG) TARGET HR8700A JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FMCGUI FMCGUI2.5_LINUX, CNS REMARK 3 AUTHORS : ALEX LEMAK, CHERYL ARROWMITH (FMCGUI), (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: CNS WATER REFINEMENT OF CYANA REMARK 3 STRUCTURES VIA FMCGUI, NULL REMARK 4 REMARK 4 2MA6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JUL-13. REMARK 100 THE RCSB ID CODE IS RCSB103402. 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 : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.0 MM [U-15N] 5% 13C-FRACTIONAL REMARK 210 LABELING HR8700A.005, 0.02 % REMARK 210 NAN3, 10 MM DTT, 5 MM CACL2, 100 REMARK 210 MM NACL, 1 X PROTEINASE REMARK 210 INHIBITORS, 20 MM MES PH 6.5, 10 REMARK 210 % D2O, 50 UM DSS, 90% H2O/10% REMARK 210 D2O; 1.0 MM [U-100% 13C; U-100% REMARK 210 15N] HR8700A.005, 0.02 % NAN3, 10 REMARK 210 MM DTT, 5 MM CACL2, 100 MM NACL, REMARK 210 1 X PROTEINASE INHIBITORS, 20 MM REMARK 210 MES PH 6.5, 100 % D2O, 50 UM DSS, REMARK 210 90% H2O/10% D2O; 0.9 MM [U-100% REMARK 210 15N] 5% 13C-FRACTIONAL LABELING REMARK 210 HR8700A.007, 0.02 % NAN3, 10 MM REMARK 210 DTT, 5 MM CACL2, 100 MM NACL, 1 X REMARK 210 PROTEINASE INHIBITORS, 20 MM MES REMARK 210 PH 6.5, 10 % D2O, 50 UM DSS, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC CT; 2D 1H-13C HSQC REMARK 210 AROMATIC NOCT; 3D 1H-15N NOESY; REMARK 210 3D 1H-15N NOESY NUS; 3D 1H-13C REMARK 210 NOESY ALIPHATIC; 3D 1H-13C NOESY REMARK 210 ALIPHATIC NUS; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D C(CO)NH; 3D H(CCO) REMARK 210 NH; 3D HCCH-COSY; 2D 1H-15N HSQC REMARK 210 HIS; 1D T1 NSQC ARRAY; 1D T2 REMARK 210 NHSQC ARRAY; 3D CBCA(CO)NH; 3D REMARK 210 HNCACB; 3D HBHA(CO)NH; 3D HNCO; REMARK 210 2D 1H-15N HSQC NH2 ONLY; 4D HCCH REMARK 210 NOESY; 3D CCH-TOCSY; 3D HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 850 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE II; INOVA; AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS 1.3, CYANA 3.0, REMARK 210 AUTOSTRUCTURE 2.1, NMRPIPE REMARK 210 NMRPIPE-2008, TOPSPIN 2.4, VNMRJ REMARK 210 VNMRJ_1.1_D, PINE, SPARKY 3.113, REMARK 210 TALOS+ VERSION 1.2009.0721.18, REMARK 210 PSVS 1.4 REMARK 210 METHOD USED : SIMULATED ANNEALING, NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST 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 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 GLU A 8 -156.58 -137.60 REMARK 500 1 ASP A 9 43.34 -81.50 REMARK 500 1 TYR A 15 -47.02 68.03 REMARK 500 1 SER A 20 -4.01 -150.17 REMARK 500 1 SER A 30 -169.70 -161.19 REMARK 500 1 ASN A 41 -74.19 -116.09 REMARK 500 1 ASN A 42 -168.09 -125.28 REMARK 500 1 CYS A 45 36.15 -94.19 REMARK 500 1 PHE A 46 -82.39 54.16 REMARK 500 1 CYS A 48 -7.13 -143.14 REMARK 500 2 SER A 6 53.42 -91.97 REMARK 500 2 GLU A 8 -178.08 61.33 REMARK 500 2 CYS A 14 -51.38 -124.75 REMARK 500 2 TYR A 15 -8.83 71.69 REMARK 500 2 SER A 20 15.27 -142.65 REMARK 500 2 CYS A 26 -39.84 -142.95 REMARK 500 2 SER A 30 -176.19 -174.40 REMARK 500 2 ASN A 41 -73.58 -116.90 REMARK 500 2 ASN A 42 -167.26 -125.39 REMARK 500 2 PHE A 46 -85.69 63.40 REMARK 500 3 GLU A 7 177.86 69.46 REMARK 500 3 TYR A 15 -37.96 74.66 REMARK 500 3 PRO A 18 -169.80 -77.49 REMARK 500 3 SER A 20 -10.96 -141.56 REMARK 500 3 CYS A 26 -70.41 -67.08 REMARK 500 3 ASN A 41 -75.84 -115.98 REMARK 500 3 PHE A 46 -90.84 47.71 REMARK 500 4 MET A 3 81.57 -161.37 REMARK 500 4 PRO A 4 85.18 -64.85 REMARK 500 4 ASP A 9 75.39 -66.42 REMARK 500 4 TYR A 15 -36.23 75.30 REMARK 500 4 PRO A 18 -165.08 -73.98 REMARK 500 4 ASN A 41 -68.25 -133.92 REMARK 500 4 CYS A 45 50.23 -93.19 REMARK 500 4 PHE A 46 -84.03 52.44 REMARK 500 5 TYR A 15 -35.87 81.90 REMARK 500 5 PRO A 18 -165.02 -79.26 REMARK 500 5 ASN A 41 -73.50 -106.28 REMARK 500 5 ASN A 42 -168.60 -103.06 REMARK 500 5 LYS A 43 22.33 -150.55 REMARK 500 5 CYS A 45 39.24 -91.73 REMARK 500 5 PHE A 46 -84.98 57.05 REMARK 500 6 PRO A 4 92.83 -53.87 REMARK 500 6 THR A 5 -42.31 -138.29 REMARK 500 6 GLU A 8 22.03 -72.99 REMARK 500 6 CYS A 11 108.08 -58.66 REMARK 500 6 CYS A 14 -55.09 -131.03 REMARK 500 6 PRO A 18 47.26 -84.15 REMARK 500 6 ILE A 19 143.63 68.21 REMARK 500 6 SER A 20 19.90 -155.11 REMARK 500 REMARK 500 THIS ENTRY HAS 178 RAMACHANDRAN OUTLIERS. 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 1 ZN A 102 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 28 ND1 REMARK 620 2 CYS A 26 SG 107.3 REMARK 620 3 CYS A 48 SG 110.3 111.7 REMARK 620 4 CYS A 45 SG 108.6 109.6 109.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 1 ZN A 101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 34 SG REMARK 620 2 CYS A 31 SG 108.3 REMARK 620 3 CYS A 11 SG 108.3 110.7 REMARK 620 4 CYS A 14 SG 108.2 110.3 110.9 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 102 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19329 RELATED DB: BMRB REMARK 900 RELATED ID: NESG-HR8700A RELATED DB: TARGETTRACK DBREF 2MA6 A 4 61 UNP Q5XPI4 RN123_HUMAN 1247 1304 SEQADV 2MA6 SER A 1 UNP Q5XPI4 EXPRESSION TAG SEQADV 2MA6 HIS A 2 UNP Q5XPI4 EXPRESSION TAG SEQADV 2MA6 MET A 3 UNP Q5XPI4 EXPRESSION TAG SEQRES 1 A 61 SER HIS MET PRO THR SER GLU GLU ASP LEU CYS PRO ILE SEQRES 2 A 61 CYS TYR ALA HIS PRO ILE SER ALA VAL PHE GLN PRO CYS SEQRES 3 A 61 GLY HIS LYS SER CYS LYS ALA CYS ILE ASN GLN HIS LEU SEQRES 4 A 61 MET ASN ASN LYS ASP CYS PHE PHE CYS LYS THR THR ILE SEQRES 5 A 61 VAL SER VAL GLU ASP TRP GLU LYS GLY HET ZN A 101 1 HET ZN A 102 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 CYS A 31 LEU A 39 1 9 SHEET 1 A 3 HIS A 28 SER A 30 0 SHEET 2 A 3 ALA A 21 GLN A 24 -1 N PHE A 23 O HIS A 28 SHEET 3 A 3 SER A 54 ASP A 57 -1 O GLU A 56 N VAL A 22 LINK ND1 HIS A 28 ZN ZN A 102 1555 1555 2.07 LINK SG CYS A 34 ZN ZN A 101 1555 1555 2.31 LINK SG CYS A 26 ZN ZN A 102 1555 1555 2.32 LINK SG CYS A 31 ZN ZN A 101 1555 1555 2.34 LINK SG CYS A 48 ZN ZN A 102 1555 1555 2.35 LINK SG CYS A 45 ZN ZN A 102 1555 1555 2.35 LINK SG CYS A 11 ZN ZN A 101 1555 1555 2.35 LINK SG CYS A 14 ZN ZN A 101 1555 1555 2.35 CISPEP 1 GLN A 24 PRO A 25 1 -2.89 CISPEP 2 GLN A 24 PRO A 25 2 -1.76 CISPEP 3 GLN A 24 PRO A 25 3 4.47 CISPEP 4 GLN A 24 PRO A 25 4 4.24 CISPEP 5 GLN A 24 PRO A 25 5 -1.30 CISPEP 6 GLN A 24 PRO A 25 6 -3.09 CISPEP 7 GLN A 24 PRO A 25 7 -2.38 CISPEP 8 GLN A 24 PRO A 25 8 3.15 CISPEP 9 GLN A 24 PRO A 25 9 -1.94 CISPEP 10 GLN A 24 PRO A 25 10 1.85 CISPEP 11 GLN A 24 PRO A 25 11 -3.30 CISPEP 12 GLN A 24 PRO A 25 12 -3.62 CISPEP 13 GLN A 24 PRO A 25 13 7.61 CISPEP 14 GLN A 24 PRO A 25 14 1.74 CISPEP 15 GLN A 24 PRO A 25 15 0.41 CISPEP 16 GLN A 24 PRO A 25 16 -0.27 CISPEP 17 GLN A 24 PRO A 25 17 3.34 CISPEP 18 GLN A 24 PRO A 25 18 2.21 CISPEP 19 GLN A 24 PRO A 25 19 3.44 CISPEP 20 GLN A 24 PRO A 25 20 -9.43 SITE 1 AC1 4 CYS A 11 CYS A 14 CYS A 31 CYS A 34 SITE 1 AC2 4 CYS A 26 HIS A 28 CYS A 45 CYS A 48 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