HEADER IMMUNE SYSTEM 10-FEB-14 2MKL TITLE SOLUTION STRUCTURE OF THE FOURTH CONSTANT IMMUNOGLOBULIN DOMAIN OF TITLE 2 NURSE SHARK IGNAR COMPND MOL_ID: 1; COMPND 2 MOLECULE: NOVEL ANTIGEN RECEPTOR; COMPND 3 CHAIN: C; COMPND 4 FRAGMENT: THE FOURTH CONSTANT IMMUNOGLOBULIN DOMAIN (UNP RESIDUES COMPND 5 454-556); COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: GINGLYMOSTOMA CIRRATUM; SOURCE 3 ORGANISM_COMMON: NURSE SHARK; SOURCE 4 ORGANISM_TAXID: 7801; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS IG DOMAIN, IGNAR, IMMUNE SYSTEM EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR J.HENNIG,M.SATTLER REVDAT 2 14-JUN-23 2MKL 1 REMARK SEQADV REVDAT 1 02-JUL-14 2MKL 0 JRNL AUTH M.J.FEIGE,M.A.GRAWERT,M.MARCINOWSKI,J.HENNIG,J.BEHNKE, JRNL AUTH 2 D.AUSLANDER,E.M.HEROLD,J.PESCHEK,C.D.CASTRO,M.FLAJNIK, JRNL AUTH 3 L.M.HENDERSHOT,M.SATTLER,M.GROLL,J.BUCHNER JRNL TITL THE STRUCTURAL ANALYSIS OF SHARK IGNAR ANTIBODIES REVEALS JRNL TITL 2 EVOLUTIONARY PRINCIPLES OF IMMUNOGLOBULINS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 111 8155 2014 JRNL REFN ISSN 0027-8424 JRNL PMID 24830426 JRNL DOI 10.1073/PNAS.1321502111 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CARA, ARIA REMARK 3 AUTHORS : KELLER AND WUTHRICH (CARA), LINGE, O'DONOGHUE AND REMARK 3 NILGES (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MKL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-FEB-14. REMARK 100 THE DEPOSITION ID IS D_1000103726. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 300-500 UM [U-100% 13C; U-100% REMARK 210 15N] PROTEIN, 137 MM SODIUM REMARK 210 CHLORIDE, 2.7 MM POTASSIUM REMARK 210 CHLORIDE, 10 MM SODIUM PHOSPHATE, REMARK 210 2 MM POTASSIUM PHOSPHATE, 0.02 % REMARK 210 SODIUM AZIDE, 90% H2O/10% D2O; REMARK 210 300-500 UM [U-10% 13C] PROTEIN, REMARK 210 137 MM SODIUM CHLORIDE, 2.7 MM REMARK 210 POTASSIUM CHLORIDE, 10 MM SODIUM REMARK 210 PHOSPHATE, 2 MM POTASSIUM REMARK 210 PHOSPHATE, 0.02 % SODIUM AZIDE, REMARK 210 90% H2O/10% D2O; 300-500 UM [U- REMARK 210 100% 13C; U-100% 15N] PROTEIN, REMARK 210 137 MM SODIUM CHLORIDE, 2.7 MM REMARK 210 POTASSIUM CHLORIDE, 10 MM SODIUM REMARK 210 PHOSPHATE, 2 MM POTASSIUM REMARK 210 PHOSPHATE, 0.02 % SODIUM AZIDE, REMARK 210 10 MG/ML PF1 PHAGE, 90% H2O/10% REMARK 210 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; 3D CBCA(CO)NH; 3D HNCO; REMARK 210 3D HNCA; 3D HNCACB; 3D HBHA(CO) REMARK 210 NH; 3D HCCH-TOCSY; 3D 1H-15N REMARK 210 NOESY; 3D 1H-13C NOESY ALIPHATIC; REMARK 210 3D 1H-13C NOESY AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 750 MHZ; 800 MHZ; 900 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CARA, NMRPIPE, CYANA 3.0, ARIA REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY 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: C 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 HG1 THR C 24 O VAL C 74 1.57 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 GLU C 17 -77.48 -66.79 REMARK 500 1 GLU C 18 -84.19 -144.40 REMARK 500 1 GLN C 22 78.66 -166.66 REMARK 500 1 ALA C 25 -54.05 -128.43 REMARK 500 2 GLN C 4 -67.21 69.61 REMARK 500 2 PHE C 16 153.39 72.66 REMARK 500 2 GLU C 18 -165.97 62.44 REMARK 500 2 GLN C 23 -63.88 -166.35 REMARK 500 2 ALA C 25 28.20 -78.22 REMARK 500 2 LYS C 52 164.59 -43.68 REMARK 500 3 ALA C 25 26.62 -71.47 REMARK 500 3 LYS C 52 166.56 -49.63 REMARK 500 4 GLN C 4 -71.65 -179.41 REMARK 500 4 GLN C 22 94.03 66.68 REMARK 500 4 ALA C 25 26.71 -78.10 REMARK 500 4 LYS C 52 165.79 -45.31 REMARK 500 5 GLU C 18 -165.35 62.85 REMARK 500 5 GLN C 23 -157.34 -129.77 REMARK 500 5 LYS C 52 164.52 -42.72 REMARK 500 6 GLN C 4 -86.53 61.65 REMARK 500 6 GLU C 18 -79.43 -70.82 REMARK 500 6 GLN C 22 50.14 -150.16 REMARK 500 6 GLN C 23 -148.83 57.22 REMARK 500 6 ALA C 25 -53.32 -126.42 REMARK 500 6 LYS C 52 163.75 -41.77 REMARK 500 7 GLU C 17 -65.87 66.10 REMARK 500 7 GLU C 18 -43.84 -177.27 REMARK 500 7 GLN C 22 72.42 -110.96 REMARK 500 7 GLN C 23 -68.13 68.41 REMARK 500 7 ASP C 35 9.96 81.60 REMARK 500 7 LYS C 52 164.12 -45.51 REMARK 500 8 LYS C 52 162.66 -42.19 REMARK 500 9 ARG C 3 -80.64 -140.93 REMARK 500 9 GLU C 18 -179.04 67.16 REMARK 500 9 ALA C 25 30.31 -78.08 REMARK 500 9 LYS C 52 163.02 -40.65 REMARK 500 10 PRO C 14 103.33 -34.23 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 GLU C 37 ASN C 38 8 136.48 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19783 RELATED DB: BMRB DBREF 2MKL C 3 105 UNP Q90544 Q90544_GINCI 454 556 SEQADV 2MKL MET C 1 UNP Q90544 EXPRESSION TAG SEQADV 2MKL GLY C 2 UNP Q90544 EXPRESSION TAG SEQRES 1 C 105 MET GLY ARG GLN THR ASP ILE SER VAL SER LEU LEU LYS SEQRES 2 C 105 PRO PRO PHE GLU GLU ILE TRP THR GLN GLN THR ALA THR SEQRES 3 C 105 ILE VAL CYS GLU ILE VAL TYR SER ASP LEU GLU ASN ILE SEQRES 4 C 105 LYS VAL PHE TRP GLN VAL ASN GLY VAL GLU ARG LYS LYS SEQRES 5 C 105 GLY VAL GLU THR GLN ASN PRO GLU TRP SER GLY SER LYS SEQRES 6 C 105 SER THR ILE VAL SER LYS LEU LYS VAL MET ALA SER GLU SEQRES 7 C 105 TRP ASP SER GLY THR GLU TYR VAL CYS LEU VAL GLU ASP SEQRES 8 C 105 SER GLU LEU PRO THR PRO VAL LYS ALA SER ILE ARG LYS SEQRES 9 C 105 ALA HELIX 1 1 MET C 75 SER C 81 1 7 SHEET 1 A 4 SER C 8 LEU C 12 0 SHEET 2 A 4 ILE C 27 TYR C 33 -1 O GLU C 30 N SER C 10 SHEET 3 A 4 LYS C 65 LEU C 72 -1 O ILE C 68 N ILE C 31 SHEET 4 A 4 VAL C 54 SER C 62 -1 N GLN C 57 O VAL C 69 SHEET 1 B 4 VAL C 48 GLU C 49 0 SHEET 2 B 4 LYS C 40 VAL C 45 -1 N VAL C 45 O VAL C 48 SHEET 3 B 4 TYR C 85 GLU C 90 -1 O GLU C 90 N LYS C 40 SHEET 4 B 4 VAL C 98 ILE C 102 -1 O ALA C 100 N CYS C 87 SSBOND 1 CYS C 29 CYS C 87 1555 1555 2.03 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