HEADER SUGAR BINDING PROTEIN 16-JUL-09 2KM2 TITLE GALECTIN-1 DIMER COMPND MOL_ID: 1; COMPND 2 MOLECULE: GALECTIN-1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: LECTIN GALACTOSIDE-BINDING SOLUBLE 1, BETA-GALACTOSIDE- COMPND 5 BINDING LECTIN L-14-I, LACTOSE-BINDING LECTIN 1, S-LAC LECTIN 1, COMPND 6 GALAPTIN, 14 KDA LECTIN, HPL, HBL, PUTATIVE MAPK-ACTIVATING PROTEIN COMPND 7 PM12; 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: LGALS1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PT7IML-1 KEYWDS GALECTIN, DIMER, LECTIN, BETA-SHEET, ACETYLATION, EXTRACELLULAR KEYWDS 2 MATRIX, SECRETED, SUGAR BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR I.V.NESMELOVA,E.ERMAKOVA,V.A.DARAGAN,M.PANG,L.G.BAUM,K.H.MAYO REVDAT 2 16-MAR-22 2KM2 1 REMARK REVDAT 1 14-APR-10 2KM2 0 JRNL AUTH I.V.NESMELOVA,E.ERMAKOVA,V.A.DARAGAN,M.PANG,M.MENENDEZ, JRNL AUTH 2 L.LAGARTERA,D.SOLIS,L.G.BAUM,K.H.MAYO JRNL TITL LACTOSE BINDING TO GALECTIN-1 MODULATES STRUCTURAL DYNAMICS, JRNL TITL 2 INCREASES CONFORMATIONAL ENTROPY, AND OCCURS WITH APPARENT JRNL TITL 3 NEGATIVE COOPERATIVITY. JRNL REF J.MOL.BIOL. V. 397 1209 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 20184898 JRNL DOI 10.1016/J.JMB.2010.02.033 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH 2.18 REMARK 3 AUTHORS : BRUNGER A. T. ET.AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KM2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000101289. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 5.2 REMARK 210 IONIC STRENGTH : 20 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.8-1 MM [U-100% 13C; U-100% REMARK 210 15N] GALECTIN-1-1, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : HNCACB, CBCA(CO)NH, 3D_1H-15N REMARK 210 NOESY, 3D_1H-13C NOESY, HCCH- REMARK 210 TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XPLOR-NIH 2.18, NMRPIPE, NMRVIEW REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 GLU B 22 O LYS B 127 1.58 REMARK 500 H GLU A 22 O LYS A 127 1.58 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 ASN A 10 78.10 6.09 REMARK 500 1 ASP A 26 56.76 -113.61 REMARK 500 1 ALA A 27 84.87 -59.80 REMARK 500 1 LYS A 36 -46.12 -130.40 REMARK 500 1 ASN A 40 61.70 -117.37 REMARK 500 1 ASN A 46 69.94 -154.72 REMARK 500 1 ASN A 50 99.45 -164.64 REMARK 500 1 ALA A 51 -89.81 -109.97 REMARK 500 1 ASN A 56 56.79 23.09 REMARK 500 1 ALA A 67 -85.32 -81.20 REMARK 500 1 TRP A 68 -146.89 -135.35 REMARK 500 1 GLN A 72 -162.00 -109.53 REMARK 500 1 ALA A 75 45.70 -105.83 REMARK 500 1 PRO A 78 41.29 -79.99 REMARK 500 1 ASP A 102 78.23 -152.09 REMARK 500 1 TYR A 104 -150.80 -87.59 REMARK 500 1 ASN A 110 78.49 -100.39 REMARK 500 1 ASN A 113 40.56 -104.42 REMARK 500 1 ASN B 10 80.65 -0.16 REMARK 500 1 ASP B 26 56.94 -113.30 REMARK 500 1 ALA B 27 84.89 -59.96 REMARK 500 1 LYS B 36 -46.12 -130.83 REMARK 500 1 ASN B 40 61.88 -117.62 REMARK 500 1 ASN B 46 69.87 -154.20 REMARK 500 1 ASN B 50 99.33 -164.51 REMARK 500 1 ALA B 51 -89.78 -109.88 REMARK 500 1 ASN B 56 59.90 15.06 REMARK 500 1 ALA B 67 -85.04 -81.10 REMARK 500 1 TRP B 68 -145.38 -135.20 REMARK 500 1 GLN B 72 -161.94 -110.53 REMARK 500 1 ALA B 75 45.89 -105.86 REMARK 500 1 PRO B 78 41.66 -80.16 REMARK 500 1 ASP B 102 80.06 -152.11 REMARK 500 1 TYR B 104 -150.68 -87.13 REMARK 500 1 ASN B 110 78.58 -100.58 REMARK 500 1 ASN B 113 40.71 -103.78 REMARK 500 2 ASN A 10 63.06 5.43 REMARK 500 2 ALA A 27 92.67 -54.00 REMARK 500 2 ASN A 40 71.89 -107.27 REMARK 500 2 ALA A 51 -151.04 -87.50 REMARK 500 2 ASN A 56 59.31 29.51 REMARK 500 2 ALA A 67 -79.03 -78.20 REMARK 500 2 TRP A 68 -144.67 -141.98 REMARK 500 2 GLN A 72 -154.38 -124.73 REMARK 500 2 PHE A 77 77.87 -151.65 REMARK 500 2 ASN A 110 62.31 -65.82 REMARK 500 2 PHE A 133 -102.76 -64.25 REMARK 500 2 ASN B 10 66.14 -0.28 REMARK 500 2 ALA B 27 92.53 -53.98 REMARK 500 2 ASN B 40 71.74 -107.45 REMARK 500 REMARK 500 THIS ENTRY HAS 220 RAMACHANDRAN OUTLIERS. 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 1 ARG A 18 0.27 SIDE CHAIN REMARK 500 1 ARG A 20 0.32 SIDE CHAIN REMARK 500 1 ARG A 48 0.19 SIDE CHAIN REMARK 500 1 ARG A 73 0.11 SIDE CHAIN REMARK 500 1 ARG A 111 0.15 SIDE CHAIN REMARK 500 1 ARG B 18 0.27 SIDE CHAIN REMARK 500 1 ARG B 20 0.32 SIDE CHAIN REMARK 500 1 ARG B 48 0.19 SIDE CHAIN REMARK 500 1 ARG B 73 0.11 SIDE CHAIN REMARK 500 1 ARG B 111 0.15 SIDE CHAIN REMARK 500 2 ARG A 18 0.30 SIDE CHAIN REMARK 500 2 ARG A 20 0.24 SIDE CHAIN REMARK 500 2 ARG A 48 0.32 SIDE CHAIN REMARK 500 2 ARG A 73 0.29 SIDE CHAIN REMARK 500 2 ARG A 111 0.31 SIDE CHAIN REMARK 500 2 ARG B 18 0.30 SIDE CHAIN REMARK 500 2 ARG B 20 0.24 SIDE CHAIN REMARK 500 2 ARG B 48 0.32 SIDE CHAIN REMARK 500 2 ARG B 73 0.29 SIDE CHAIN REMARK 500 2 ARG B 111 0.31 SIDE CHAIN REMARK 500 3 ARG A 18 0.31 SIDE CHAIN REMARK 500 3 ARG A 20 0.26 SIDE CHAIN REMARK 500 3 ARG A 48 0.22 SIDE CHAIN REMARK 500 3 ARG A 73 0.26 SIDE CHAIN REMARK 500 3 ARG A 111 0.13 SIDE CHAIN REMARK 500 3 ARG B 18 0.32 SIDE CHAIN REMARK 500 3 ARG B 20 0.26 SIDE CHAIN REMARK 500 3 ARG B 48 0.22 SIDE CHAIN REMARK 500 3 ARG B 73 0.26 SIDE CHAIN REMARK 500 3 ARG B 111 0.13 SIDE CHAIN REMARK 500 4 ARG A 18 0.31 SIDE CHAIN REMARK 500 4 ARG A 20 0.32 SIDE CHAIN REMARK 500 4 ARG A 48 0.29 SIDE CHAIN REMARK 500 4 ARG A 73 0.30 SIDE CHAIN REMARK 500 4 ARG B 18 0.31 SIDE CHAIN REMARK 500 4 ARG B 20 0.32 SIDE CHAIN REMARK 500 4 ARG B 48 0.29 SIDE CHAIN REMARK 500 4 ARG B 73 0.30 SIDE CHAIN REMARK 500 5 ARG A 18 0.15 SIDE CHAIN REMARK 500 5 ARG A 20 0.32 SIDE CHAIN REMARK 500 5 ARG A 48 0.23 SIDE CHAIN REMARK 500 5 ARG A 73 0.28 SIDE CHAIN REMARK 500 5 ARG A 111 0.27 SIDE CHAIN REMARK 500 5 ARG B 18 0.15 SIDE CHAIN REMARK 500 5 ARG B 20 0.32 SIDE CHAIN REMARK 500 5 ARG B 48 0.23 SIDE CHAIN REMARK 500 5 ARG B 73 0.28 SIDE CHAIN REMARK 500 5 ARG B 111 0.27 SIDE CHAIN REMARK 500 6 ARG A 18 0.25 SIDE CHAIN REMARK 500 6 ARG A 20 0.32 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 98 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2KM2 A 1 134 UNP P09382 LEG1_HUMAN 2 135 DBREF 2KM2 B 1 134 UNP P09382 LEG1_HUMAN 2 135 SEQRES 1 A 134 ALA CYS GLY LEU VAL ALA SER ASN LEU ASN LEU LYS PRO SEQRES 2 A 134 GLY GLU CYS LEU ARG VAL ARG GLY GLU VAL ALA PRO ASP SEQRES 3 A 134 ALA LYS SER PHE VAL LEU ASN LEU GLY LYS ASP SER ASN SEQRES 4 A 134 ASN LEU CYS LEU HIS PHE ASN PRO ARG PHE ASN ALA HIS SEQRES 5 A 134 GLY ASP ALA ASN THR ILE VAL CYS ASN SER LYS ASP GLY SEQRES 6 A 134 GLY ALA TRP GLY THR GLU GLN ARG GLU ALA VAL PHE PRO SEQRES 7 A 134 PHE GLN PRO GLY SER VAL ALA GLU VAL CYS ILE THR PHE SEQRES 8 A 134 ASP GLN ALA ASN LEU THR VAL LYS LEU PRO ASP GLY TYR SEQRES 9 A 134 GLU PHE LYS PHE PRO ASN ARG LEU ASN LEU GLU ALA ILE SEQRES 10 A 134 ASN TYR MET ALA ALA ASP GLY ASP PHE LYS ILE LYS CYS SEQRES 11 A 134 VAL ALA PHE ASP SEQRES 1 B 134 ALA CYS GLY LEU VAL ALA SER ASN LEU ASN LEU LYS PRO SEQRES 2 B 134 GLY GLU CYS LEU ARG VAL ARG GLY GLU VAL ALA PRO ASP SEQRES 3 B 134 ALA LYS SER PHE VAL LEU ASN LEU GLY LYS ASP SER ASN SEQRES 4 B 134 ASN LEU CYS LEU HIS PHE ASN PRO ARG PHE ASN ALA HIS SEQRES 5 B 134 GLY ASP ALA ASN THR ILE VAL CYS ASN SER LYS ASP GLY SEQRES 6 B 134 GLY ALA TRP GLY THR GLU GLN ARG GLU ALA VAL PHE PRO SEQRES 7 B 134 PHE GLN PRO GLY SER VAL ALA GLU VAL CYS ILE THR PHE SEQRES 8 B 134 ASP GLN ALA ASN LEU THR VAL LYS LEU PRO ASP GLY TYR SEQRES 9 B 134 GLU PHE LYS PHE PRO ASN ARG LEU ASN LEU GLU ALA ILE SEQRES 10 B 134 ASN TYR MET ALA ALA ASP GLY ASP PHE LYS ILE LYS CYS SEQRES 11 B 134 VAL ALA PHE ASP SHEET 1 A12 GLN A 72 GLU A 74 0 SHEET 2 A12 THR A 57 ASN A 61 -1 N CYS A 60 O GLN A 72 SHEET 3 A12 ASN A 40 ARG A 48 -1 N ARG A 48 O THR A 57 SHEET 4 A12 PHE A 30 ASP A 37 -1 N LEU A 34 O LEU A 43 SHEET 5 A12 ILE A 117 GLY A 124 -1 O TYR A 119 N GLY A 35 SHEET 6 A12 VAL A 5 LEU A 11 -1 N ALA A 6 O MET A 120 SHEET 7 A12 VAL B 5 LEU B 11 -1 O VAL B 5 N SER A 7 SHEET 8 A12 ILE B 117 GLY B 124 -1 O MET B 120 N ALA B 6 SHEET 9 A12 PHE B 30 ASP B 37 -1 N GLY B 35 O TYR B 119 SHEET 10 A12 ASN B 40 ARG B 48 -1 O LEU B 43 N LEU B 34 SHEET 11 A12 THR B 57 ASN B 61 -1 O THR B 57 N ARG B 48 SHEET 12 A12 GLN B 72 GLU B 74 -1 O GLN B 72 N CYS B 60 SHEET 1 B10 GLU A 105 PHE A 108 0 SHEET 2 B10 LEU A 96 LYS A 99 -1 N VAL A 98 O PHE A 106 SHEET 3 B10 VAL A 84 PHE A 91 -1 N THR A 90 O THR A 97 SHEET 4 B10 CYS A 16 VAL A 23 -1 N LEU A 17 O ILE A 89 SHEET 5 B10 PHE A 126 PHE A 133 -1 O LYS A 127 N GLU A 22 SHEET 6 B10 PHE B 126 PHE B 133 -1 O VAL B 131 N VAL A 131 SHEET 7 B10 CYS B 16 VAL B 23 -1 N GLU B 22 O LYS B 127 SHEET 8 B10 VAL B 84 PHE B 91 -1 O ILE B 89 N LEU B 17 SHEET 9 B10 LEU B 96 LYS B 99 -1 O THR B 97 N THR B 90 SHEET 10 B10 GLU B 105 PHE B 108 -1 O PHE B 106 N VAL B 98 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