HEADER CYTOKINE 02-APR-23 8ONG TITLE STRUCTURE OF THE ENDOTHELIAL MONOCYTE ACTIVATING POLYPEPTIDE II (EMAP TITLE 2 II) IN SOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOACYL TRNA SYNTHASE COMPLEX-INTERACTING MULTIFUNCTIONAL COMPND 3 PROTEIN 1; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: MULTISYNTHASE COMPLEX AUXILIARY COMPONENT P43; COMPND 6 ENGINEERED: YES; COMPND 7 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: AIMP1, EMAP2, SCYE1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CYTOKINES, EMAP II, NMR SPECTROSCOPY, MOLECULAR DYNAMIC SIMULATIONS, KEYWDS 2 CYTOKINE EXPDTA SOLUTION NMR; SOLUTION SCATTERING NUMMDL 19 AUTHOR D.LOZHKO,L.KOLOMIIETS,A.I.KORNELYUK,I.ZHUKOV REVDAT 1 10-APR-24 8ONG 0 JRNL AUTH D.LOZHKO,L.KOLOMIIETS,L.ZHUKOVA,M.TAUBE,M.DADLEZ,M.KOZAK, JRNL AUTH 2 A.I.KORNELYUK,I.ZHUKOV JRNL TITL STRUCTURAL ANALYSIS AND CONFORMATIONAL FLEXIBILITY OF JRNL TITL 2 ENDOTHELIAL MONOCYTE ACTIVATING POLYPEPTIDE II (EMAP II) BY JRNL TITL 3 MEANS NMR SPECTROSCOPY AND MOLECULAR DYNAMICS SIMULATIONS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMRJ, YASARA REMARK 3 AUTHORS : AGILENT INC. (VNMRJ), KRIEGER E, KORAIMANNG & REMARK 3 VRIENDG (YASARA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: MOLECULAR DYNAMIC IN WATER BOX REMARK 4 REMARK 4 8ONG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-APR-23. REMARK 100 THE DEPOSITION ID IS D_1292129291. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 8.0 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : 1 BAR REMARK 210 SAMPLE CONTENTS : 0.7 MM [U-13C; U-15N] EMAP II, REMARK 210 90% H2O/10% D2O; 0.4 MM [U-15N] REMARK 210 EMAP II, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCO; 3D REMARK 210 HN(CO)CA; 3D HNCA; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 4D HNCOCA NUS; 4D REMARK 210 HNCACO NUS; 4D HCCH-TOCSY; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D C(CO)NH; 3D HCCH- REMARK 210 TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 700 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : VNMRS; INOVA REMARK 210 SPECTROMETER MANUFACTURER : AGILENT; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, NMRFAM-SPARKY, CYANA REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 19 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 265 REMARK 265 EXPERIMENTAL DETAILS 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: 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 H VAL A 47 HG SER A 80 0.95 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 ALA A 28 144.53 -31.38 REMARK 500 1 ASN A 52 51.29 -141.26 REMARK 500 1 HIS A 53 -161.05 -126.56 REMARK 500 1 ARG A 76 -44.63 68.17 REMARK 500 1 PRO A 104 73.92 -69.32 REMARK 500 1 LYS A 153 -148.11 46.49 REMARK 500 1 LYS A 155 146.08 82.46 REMARK 500 2 MET A 2 15.76 51.65 REMARK 500 2 ASP A 3 37.28 38.03 REMARK 500 2 ALA A 28 133.91 -29.85 REMARK 500 2 ASP A 29 -1.74 -59.08 REMARK 500 2 VAL A 51 -56.89 -162.34 REMARK 500 2 ASN A 52 37.38 -91.93 REMARK 500 2 HIS A 53 -160.11 -124.49 REMARK 500 2 ARG A 76 -46.90 70.19 REMARK 500 2 PRO A 104 74.12 -69.97 REMARK 500 2 GLU A 120 154.31 91.39 REMARK 500 2 ASN A 138 -167.66 -74.86 REMARK 500 2 LYS A 146 15.67 56.78 REMARK 500 2 LYS A 155 -173.93 85.18 REMARK 500 3 ALA A 28 140.94 -36.72 REMARK 500 3 ASP A 29 -7.99 -56.22 REMARK 500 3 VAL A 51 -73.68 -118.11 REMARK 500 3 HIS A 53 -160.28 -103.17 REMARK 500 3 ARG A 76 -43.75 67.91 REMARK 500 3 PHE A 113 66.87 -160.54 REMARK 500 3 GLU A 120 162.61 86.29 REMARK 500 3 LYS A 146 22.18 49.47 REMARK 500 3 LYS A 153 77.19 25.56 REMARK 500 4 ASP A 3 -91.93 -144.74 REMARK 500 4 ALA A 28 139.68 -32.31 REMARK 500 4 ASP A 29 -1.07 -57.93 REMARK 500 4 ASN A 52 62.77 -150.06 REMARK 500 4 HIS A 53 -162.79 -128.35 REMARK 500 4 ARG A 76 -44.10 69.97 REMARK 500 4 ASP A 118 0.28 -58.91 REMARK 500 4 LYS A 119 1.82 -63.38 REMARK 500 4 GLU A 120 118.45 74.36 REMARK 500 4 ALA A 143 98.70 -69.62 REMARK 500 4 LYS A 153 67.43 22.90 REMARK 500 5 ASP A 3 30.34 -70.73 REMARK 500 5 LYS A 5 79.44 -163.26 REMARK 500 5 PRO A 43 170.91 -56.85 REMARK 500 5 ASN A 52 58.77 -152.64 REMARK 500 5 HIS A 53 -157.90 -129.41 REMARK 500 5 ARG A 76 -60.41 66.40 REMARK 500 5 PRO A 104 73.87 -68.80 REMARK 500 5 PHE A 113 53.06 -147.62 REMARK 500 5 GLU A 120 162.78 84.65 REMARK 500 5 LYS A 126 12.55 55.57 REMARK 500 REMARK 500 THIS ENTRY HAS 195 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 18045 RELATED DB: BMRB DBREF 8ONG A 3 169 UNP Q12904 AIMP1_HUMAN 146 312 SEQADV 8ONG ALA A 1 UNP Q12904 EXPRESSION TAG SEQADV 8ONG MET A 2 UNP Q12904 EXPRESSION TAG SEQRES 1 A 169 ALA MET ASP SER LYS PRO ILE ASP VAL SER ARG LEU ASP SEQRES 2 A 169 LEU ARG ILE GLY CYS ILE ILE THR ALA ARG LYS HIS PRO SEQRES 3 A 169 ASP ALA ASP SER LEU TYR VAL GLU GLU VAL ASP VAL GLY SEQRES 4 A 169 GLU ILE ALA PRO ARG THR VAL VAL SER GLY LEU VAL ASN SEQRES 5 A 169 HIS VAL PRO LEU GLU GLN MET GLN ASN ARG MET VAL ILE SEQRES 6 A 169 LEU LEU CYS ASN LEU LYS PRO ALA LYS MET ARG GLY VAL SEQRES 7 A 169 LEU SER GLN ALA MET VAL MET CYS ALA SER SER PRO GLU SEQRES 8 A 169 LYS ILE GLU ILE LEU ALA PRO PRO ASN GLY SER VAL PRO SEQRES 9 A 169 GLY ASP ARG ILE THR PHE ASP ALA PHE PRO GLY GLU PRO SEQRES 10 A 169 ASP LYS GLU LEU ASN PRO LYS LYS LYS ILE TRP GLU GLN SEQRES 11 A 169 ILE GLN PRO ASP LEU HIS THR ASN ASP GLU CYS VAL ALA SEQRES 12 A 169 THR TYR LYS GLY VAL PRO PHE GLU VAL LYS GLY LYS GLY SEQRES 13 A 169 VAL CYS ARG ALA GLN THR MET SER ASN SER GLY ILE LYS HELIX 1 AA1 ASP A 8 LEU A 12 5 5 HELIX 2 AA2 ASN A 122 LYS A 125 5 4 HELIX 3 AA3 LYS A 126 GLN A 132 1 7 SHEET 1 AA1 4 ARG A 44 SER A 48 0 SHEET 2 AA1 4 TYR A 32 VAL A 36 -1 N GLU A 34 O VAL A 46 SHEET 3 AA1 4 LEU A 14 LYS A 24 -1 N ILE A 20 O GLU A 35 SHEET 4 AA1 4 MET A 63 LEU A 67 -1 O LEU A 66 N ARG A 15 SHEET 1 AA2 4 ARG A 44 SER A 48 0 SHEET 2 AA2 4 TYR A 32 VAL A 36 -1 N GLU A 34 O VAL A 46 SHEET 3 AA2 4 LEU A 14 LYS A 24 -1 N ILE A 20 O GLU A 35 SHEET 4 AA2 4 ARG A 107 ILE A 108 -1 O ILE A 108 N LEU A 14 SHEET 1 AA3 2 LYS A 74 MET A 75 0 SHEET 2 AA3 2 VAL A 78 LEU A 79 -1 O VAL A 78 N MET A 75 SHEET 1 AA4 3 ILE A 93 ILE A 95 0 SHEET 2 AA4 3 CYS A 86 SER A 88 -1 N ALA A 87 O GLU A 94 SHEET 3 AA4 3 GLY A 167 ILE A 168 -1 O GLY A 167 N SER A 88 SHEET 1 AA5 3 LEU A 135 THR A 137 0 SHEET 2 AA5 3 ALA A 143 TYR A 145 -1 O THR A 144 N HIS A 136 SHEET 3 AA5 3 VAL A 148 PRO A 149 -1 O VAL A 148 N TYR A 145 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