HEADER METAL BINDING PROTEIN 25-JUL-11 2LGF TITLE SOLUTION STRUCTURE OF CA2+/CALMODULIN COMPLEXED WITH A PEPTIDE TITLE 2 REPRESENTING THE CALMODULIN-BINDING DOMAIN OF L-SELECTIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: CALMODULIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 4-149; COMPND 5 SYNONYM: CAM; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: L-SELECTIN; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: SEQUENCE DATABASE RESIDUES 349-363; COMPND 11 SYNONYM: CD62 ANTIGEN-LIKE FAMILY MEMBER L, LEUKOCYTE ADHESION COMPND 12 MOLECULE 1, LAM-1, LEUKOCYTE SURFACE ANTIGEN LEU-8, LEUKOCYTE- COMPND 13 ENDOTHELIAL CELL ADHESION MOLECULE 1, LECAM1, LYMPH NODE HOMING COMPND 14 RECEPTOR, TQ1, GP90-MEL; COMPND 15 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: CALM1, CALM, CAM, CAM1, CALM2, CAM2, CAMB, CALM3, CALML2, SOURCE 6 CAM3, CAMC, CAMIII; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET30B(+); SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606 KEYWDS METAL BINDING PROTEIN EXPDTA SOLUTION NMR AUTHOR J.L.GIFFORD,H.ISHIDA,H.J.VOGEL REVDAT 6 15-MAY-24 2LGF 1 REMARK REVDAT 5 14-JUN-23 2LGF 1 REMARK LINK REVDAT 4 27-APR-16 2LGF 1 ATOM REMARK SEQRES REVDAT 3 29-AUG-12 2LGF 1 JRNL REVDAT 2 22-AUG-12 2LGF 1 JRNL REVDAT 1 13-JUN-12 2LGF 0 JRNL AUTH J.L.GIFFORD,H.ISHIDA,H.J.VOGEL JRNL TITL STRUCTURAL INSIGHTS INTO CALMODULIN-REGULATED L-SELECTIN JRNL TITL 2 ECTODOMAIN SHEDDING. JRNL REF J.BIOL.CHEM. V. 287 26513 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22711531 JRNL DOI 10.1074/JBC.M112.373373 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE, CYANA, X-PLOR NIH REMARK 3 AUTHORS : DELAGLIO, GRZESIEK, VUISTER, ZHU, PFEIFER AND BAX REMARK 3 (NMRPIPE), GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 (CYANA), SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 (X-PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LGF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-AUG-11. REMARK 100 THE DEPOSITION ID IS D_1000102361. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303; 303 REMARK 210 PH : 6.8; 6.8 REMARK 210 IONIC STRENGTH : 0.1; 0.3 REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5-0.8 MM [U-13C; U-15N] REMARK 210 PROTEIN_1, 0.5-0.8 MM PROTEIN_2, REMARK 210 4 MM CALCIUM ION, 0.5 MM DSS, REMARK 210 100 MM POTASSIUM CHLORIDE, 0.03 % REMARK 210 SODIUM AZIDE, 20 MM BIS-TRIS, REMARK 210 90% H2O/10% D2O; 0.5-0.8 MM [U- REMARK 210 2H; U-15N] PROTEIN_1, 0.5-0.8 MM REMARK 210 PROTEIN_2, 4 MM CALCIUM ION, 0.5 REMARK 210 MM DSS, 100 MM POTASSIUM REMARK 210 CHLORIDE, 0.03 % SODIUM AZIDE, REMARK 210 20 MM BIS-TRIS, 90% H2O/10% D2O; REMARK 210 0.5-0.8 MM [1H/13C-METHYL MET; U- REMARK 210 2H; U-15N] PROTEIN_1, 0.5-0.8 MM REMARK 210 PROTEIN_2, 4 MM CALCIUM ION, 0.5 REMARK 210 MM DSS, 100 MM POTASSIUM REMARK 210 CHLORIDE, 0.03 % SODIUM AZIDE, REMARK 210 20 MM BIS-TRIS, 100% D2O; 0.5- REMARK 210 0.8 MM [U-13C; U-15N] PROTEIN_1, REMARK 210 0.5-0.8 MM PROTEIN_2, 4 MM REMARK 210 CALCIUM ION, 0.5 MM DSS, 300 MM REMARK 210 POTASSIUM CHLORIDE, 0.03 % REMARK 210 SODIUM AZIDE, 20 MM BIS-TRIS, 90% REMARK 210 H2O/10% D2O; 0.5-0.8 MM [U-13C; REMARK 210 U-15N] PROTEIN_1, 0.5-0.8 MM REMARK 210 PROTEIN_2, 4 MM CALCIUM ION, 0.5 REMARK 210 MM DSS, 300 MM POTASSIUM REMARK 210 CHLORIDE, 0.03 % SODIUM AZIDE, REMARK 210 20 MM BIS-TRIS, 16 W/V PF1 PHAGE, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-1H COSY; 3D CBCA(CO)NH; 3D REMARK 210 C(CO)NH; 3D HNCO; 3D HNCACB; 3D REMARK 210 HBHA(CO)NH; 3D H(CCO)NH; 3D 1H- REMARK 210 13C NOESY; 3D HN(CA)CO; 2D HMBC; REMARK 210 3D LRCH; F2-FILTERED 2D 1H-1H REMARK 210 NOESY; 2D 1H-15N IPAP HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRVIEW, CYANA, X-PLOR NIH, REMARK 210 PROCHECKNMR, TALOS, MOLMOL, REMARK 210 XWINNMR REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 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 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 RES C SSSEQI REMARK 465 ASP A 2 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 HG SER A 81 H GLU A 84 1.32 REMARK 500 O ILE A 125 H ASP A 129 1.57 REMARK 500 O PHE A 12 H PHE A 16 1.58 REMARK 500 OD1 ASP A 20 H GLY A 23 1.60 REMARK 500 O GLU A 45 H GLN A 49 1.60 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 THR A 79 -14.95 -45.81 REMARK 500 ASN A 111 -2.40 -49.41 REMARK 500 PHE B 350 -22.35 -39.80 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 CA A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 20 OD2 REMARK 620 2 ASP A 20 OD1 47.3 REMARK 620 3 ASP A 22 OD1 98.9 52.4 REMARK 620 4 ASP A 22 OD2 93.7 67.7 44.7 REMARK 620 5 ASP A 24 OD2 93.4 102.6 93.4 49.2 REMARK 620 6 ASP A 24 OD1 49.4 77.2 105.8 69.2 44.8 REMARK 620 7 THR A 26 O 53.5 100.3 152.4 127.8 89.1 58.5 REMARK 620 8 GLU A 31 OE2 112.1 81.1 61.8 104.9 146.0 158.1 123.9 REMARK 620 9 GLU A 31 OE1 108.2 112.7 110.0 150.1 144.5 140.6 82.1 48.4 REMARK 620 N 1 2 3 4 5 6 7 8 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 56 OD1 REMARK 620 2 ASP A 56 OD2 47.6 REMARK 620 3 ASP A 58 OD2 73.0 113.1 REMARK 620 4 ASP A 58 OD1 54.2 70.0 49.1 REMARK 620 5 ASN A 60 OD1 94.5 52.7 120.0 75.6 REMARK 620 6 THR A 62 O 107.6 65.1 174.2 126.4 54.4 REMARK 620 7 GLU A 67 OE2 114.2 139.1 86.6 135.3 146.2 98.2 REMARK 620 8 GLU A 67 OE1 77.0 90.4 105.4 128.4 129.1 80.2 49.0 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 93 OD2 REMARK 620 2 ASP A 93 OD1 42.9 REMARK 620 3 ASP A 95 OD1 86.9 48.2 REMARK 620 4 ASP A 95 OD2 130.8 97.1 49.0 REMARK 620 5 ASN A 97 OD1 53.5 55.2 59.0 81.8 REMARK 620 6 TYR A 99 O 69.8 107.4 123.0 112.8 65.6 REMARK 620 7 GLU A 104 OE1 109.0 129.1 146.9 120.0 153.1 90.0 REMARK 620 8 GLU A 104 OE2 123.9 105.0 97.9 87.8 155.7 138.5 49.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 404 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 129 OD1 REMARK 620 2 ASP A 131 OD2 90.7 REMARK 620 3 ASP A 131 OD1 50.7 45.5 REMARK 620 4 ASP A 133 OD2 100.1 69.5 64.9 REMARK 620 5 ASP A 133 OD1 63.4 96.3 60.8 45.4 REMARK 620 6 GLN A 135 O 85.1 143.7 109.4 75.8 50.0 REMARK 620 7 GLU A 140 OE2 98.0 81.7 107.1 145.9 161.4 134.6 REMARK 620 8 GLU A 140 OE1 96.4 130.5 140.0 154.0 130.4 85.7 48.8 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 404 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 17807 RELATED DB: BMRB DBREF 2LGF A 2 148 UNP P62158 CALM_HUMAN 3 149 DBREF 2LGF B 349 363 UNP P14151 LYAM1_HUMAN 349 363 SEQRES 1 A 147 ASP GLN LEU THR GLU GLU GLN ILE ALA GLU PHE LYS GLU SEQRES 2 A 147 ALA PHE SER LEU PHE ASP LYS ASP GLY ASP GLY THR ILE SEQRES 3 A 147 THR THR LYS GLU LEU GLY THR VAL MET ARG SER LEU GLY SEQRES 4 A 147 GLN ASN PRO THR GLU ALA GLU LEU GLN ASP MET ILE ASN SEQRES 5 A 147 GLU VAL ASP ALA ASP GLY ASN GLY THR ILE ASP PHE PRO SEQRES 6 A 147 GLU PHE LEU THR MET MET ALA ARG LYS MET LYS ASP THR SEQRES 7 A 147 ASP SER GLU GLU GLU ILE ARG GLU ALA PHE ARG VAL PHE SEQRES 8 A 147 ASP LYS ASP GLY ASN GLY TYR ILE SER ALA ALA GLU LEU SEQRES 9 A 147 ARG HIS VAL MET THR ASN LEU GLY GLU LYS LEU THR ASP SEQRES 10 A 147 GLU GLU VAL ASP GLU MET ILE ARG GLU ALA ASP ILE ASP SEQRES 11 A 147 GLY ASP GLY GLN VAL ASN TYR GLU GLU PHE VAL GLN MET SEQRES 12 A 147 MET THR ALA LYS SEQRES 1 B 15 ALA PHE ILE ILE TRP LEU ALA ARG ARG LEU LYS LYS GLY SEQRES 2 B 15 LYS LYS HET CA A 401 1 HET CA A 402 1 HET CA A 403 1 HET CA A 404 1 HETNAM CA CALCIUM ION FORMUL 3 CA 4(CA 2+) HELIX 1 1 THR A 5 ASP A 20 1 16 HELIX 2 2 THR A 28 LEU A 39 1 12 HELIX 3 3 THR A 44 ASP A 56 1 13 HELIX 4 4 ASP A 64 ASP A 78 1 15 HELIX 5 5 SER A 81 ASP A 93 1 13 HELIX 6 6 SER A 101 ASN A 111 1 11 HELIX 7 7 THR A 117 ASP A 129 1 13 HELIX 8 8 ASN A 137 MET A 145 1 9 HELIX 9 9 ALA B 349 LYS B 363 1 15 LINK OD2 ASP A 20 CA CA A 401 1555 1555 2.65 LINK OD1 ASP A 20 CA CA A 401 1555 1555 2.71 LINK OD1 ASP A 22 CA CA A 401 1555 1555 2.61 LINK OD2 ASP A 22 CA CA A 401 1555 1555 2.98 LINK OD2 ASP A 24 CA CA A 401 1555 1555 2.65 LINK OD1 ASP A 24 CA CA A 401 1555 1555 2.95 LINK O THR A 26 CA CA A 401 1555 1555 2.60 LINK OE2 GLU A 31 CA CA A 401 1555 1555 2.61 LINK OE1 GLU A 31 CA CA A 401 1555 1555 2.65 LINK OD1 ASP A 56 CA CA A 402 1555 1555 2.60 LINK OD2 ASP A 56 CA CA A 402 1555 1555 2.73 LINK OD2 ASP A 58 CA CA A 402 1555 1555 2.59 LINK OD1 ASP A 58 CA CA A 402 1555 1555 2.60 LINK OD1 ASN A 60 CA CA A 402 1555 1555 2.59 LINK O THR A 62 CA CA A 402 1555 1555 2.56 LINK OE2 GLU A 67 CA CA A 402 1555 1555 2.59 LINK OE1 GLU A 67 CA CA A 402 1555 1555 2.61 LINK OD2 ASP A 93 CA CA A 403 1555 1555 2.63 LINK OD1 ASP A 93 CA CA A 403 1555 1555 3.12 LINK OD1 ASP A 95 CA CA A 403 1555 1555 2.59 LINK OD2 ASP A 95 CA CA A 403 1555 1555 2.61 LINK OD1 ASN A 97 CA CA A 403 1555 1555 2.60 LINK O TYR A 99 CA CA A 403 1555 1555 2.55 LINK OE1 GLU A 104 CA CA A 403 1555 1555 2.58 LINK OE2 GLU A 104 CA CA A 403 1555 1555 2.60 LINK OD1 ASP A 129 CA CA A 404 1555 1555 2.60 LINK OD2 ASP A 131 CA CA A 404 1555 1555 2.64 LINK OD1 ASP A 131 CA CA A 404 1555 1555 2.89 LINK OD2 ASP A 133 CA CA A 404 1555 1555 2.60 LINK OD1 ASP A 133 CA CA A 404 1555 1555 2.92 LINK O GLN A 135 CA CA A 404 1555 1555 2.62 LINK OE2 GLU A 140 CA CA A 404 1555 1555 2.59 LINK OE1 GLU A 140 CA CA A 404 1555 1555 2.62 SITE 1 AC1 5 ASP A 20 ASP A 22 ASP A 24 THR A 26 SITE 2 AC1 5 GLU A 31 SITE 1 AC2 5 ASP A 56 ASP A 58 ASN A 60 THR A 62 SITE 2 AC2 5 GLU A 67 SITE 1 AC3 5 ASP A 93 ASP A 95 ASN A 97 TYR A 99 SITE 2 AC3 5 GLU A 104 SITE 1 AC4 5 ASP A 129 ASP A 131 ASP A 133 GLN A 135 SITE 2 AC4 5 GLU A 140 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