HEADER HORMONE 15-FEB-12 2LPN TITLE SOLUTION STRUCTURE OF N-TERMINAL DOMAIN OF HUMAN CONSERVED DOPAMINE TITLE 2 NEUROTROPHIC FACTOR (CDNF) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CEREBRAL DOPAMINE NEUROTROPHIC FACTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 27-131; COMPND 5 SYNONYM: ARMET-LIKE PROTEIN 1, CONSERVED DOPAMINE NEUROTROPHIC COMPND 6 FACTOR; COMPND 7 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: CDNF, ARMETL1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA GAMI B (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PET25B KEYWDS NERVE GROWTH FACTOR, NEUROTROPHIC FACTOR, INTERCELLULAR SIGNALING KEYWDS 2 PROTEIN, NERVE TISSUE PROTEIN, NEURONAL GROWTH-ASSOCIATED, HORMONE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.LATGE,K.M.S.CABRAL,D.FOGUEL,J.R.M.PIRES,M.S.ALMEIDA REVDAT 2 22-MAY-13 2LPN 1 JRNL REVDAT 1 20-FEB-13 2LPN 0 JRNL AUTH C.LATGE,K.M.CABRAL,M.S.ALMEIDA,D.FOGUEL JRNL TITL (1)H-, (13)C- AND (15)N-NMR ASSIGNMENT OF THE N-TERMINAL JRNL TITL 2 DOMAIN OF HUMAN CEREBRAL DOPAMINE NEUROTROPHIC FACTOR JRNL TITL 3 (CDNF). JRNL REF BIOMOL.NMR ASSIGN. V. 7 101 2013 JRNL REFN ISSN 1874-2718 JRNL PMID 22528768 JRNL DOI 10.1007/S12104-012-9388-8 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.LATGE,K.M.CABRAL,M.S.ALMEIDA,D.FOGUEL REMARK 1 TITL (1)H-, (13)C- AND (15)N-NMR ASSIGNMENT OF THE N-TERMINAL REMARK 1 TITL 2 DOMAIN OF HUMAN CEREBRAL DOPAMINE NEUROTROPHIC FACTOR REMARK 1 TITL 3 (CDNF). REMARK 1 REF BIOMOL.NMR ASSIGN. 2012 REMARK 1 REFN ESSN 1874-270X REMARK 1 PMID 22528768 REMARK 1 DOI 10.1007/S12104-012-9388-8 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA, CNSSOLVE 1.1. REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES (ARIA), BRUNGER, REMARK 3 ADAMS, CLORE, GROS, NILGES AND READ (CNSSOLVE) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LPN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-FEB-12. REMARK 100 THE RCSB ID CODE IS RCSB102676. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 175 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.7 MM [U-100% 13C; U-100% 15N] REMARK 210 PROTEIN, 10 % [U-2H] D2O, 5 MM REMARK 210 SODIUM AZIDE, 20 MM MES, 150 MM REMARK 210 SODIUM CHLORIDE, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCA; 3D HNCACB; 3D HBHA(CO) REMARK 210 NH; 3D HCCH-TOCSY; 3D 1H-15N REMARK 210 TOCSY; 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 2D 1H-13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ARIA, TOPSPIN 3, CARA 1.8.4.2., REMARK 210 CNSSOLVE 1.1. REMARK 210 METHOD USED : SIMULATED ANNEALING 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: 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 HA2 GLY A 8 HB2 ASN A 19 1.28 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 15 PRO A 82 C - N - CA ANGL. DEV. = 9.1 DEGREES REMARK 500 19 PRO A 82 C - N - CA ANGL. DEV. = 9.1 DEGREES REMARK 500 20 PRO A 82 C - N - CA ANGL. DEV. = 9.0 DEGREES 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 A 2 -169.87 65.30 REMARK 500 1 PRO A 7 55.46 -93.80 REMARK 500 1 ALA A 9 -91.56 -174.10 REMARK 500 1 ASP A 10 -80.70 -134.75 REMARK 500 1 CYS A 11 -88.01 -71.14 REMARK 500 1 GLU A 12 -77.83 -163.64 REMARK 500 1 VAL A 30 51.81 -111.93 REMARK 500 1 ASP A 47 58.71 -92.23 REMARK 500 1 ALA A 61 -167.72 57.24 REMARK 500 1 THR A 62 11.04 56.68 REMARK 500 1 ALA A 65 -84.03 70.94 REMARK 500 1 PRO A 82 2.44 -41.25 REMARK 500 1 ALA A 83 -24.37 -38.50 REMARK 500 1 GLU A 99 -139.11 179.37 REMARK 500 2 GLU A 2 157.38 62.19 REMARK 500 2 ALA A 9 -109.54 175.33 REMARK 500 2 ASP A 10 -35.22 -149.85 REMARK 500 2 THR A 48 -169.63 -73.50 REMARK 500 2 THR A 62 -117.76 -113.02 REMARK 500 2 PRO A 82 0.90 -40.64 REMARK 500 2 ALA A 83 -32.31 -36.41 REMARK 500 2 LYS A 101 163.30 63.79 REMARK 500 2 TYR A 102 -154.95 -107.79 REMARK 500 2 GLU A 103 -82.02 -63.09 REMARK 500 2 LYS A 104 -150.79 54.47 REMARK 500 3 GLU A 2 -91.42 66.00 REMARK 500 3 ARG A 6 71.10 51.55 REMARK 500 3 ALA A 9 -83.58 -172.31 REMARK 500 3 ASP A 10 -27.94 176.02 REMARK 500 3 CYS A 11 -147.38 -73.09 REMARK 500 3 GLU A 12 -73.84 -130.34 REMARK 500 3 PHE A 32 -11.03 75.39 REMARK 500 3 ASP A 64 -152.69 -92.63 REMARK 500 3 ALA A 65 -164.83 69.52 REMARK 500 3 PRO A 82 -0.21 -42.44 REMARK 500 3 ALA A 83 -35.07 -36.82 REMARK 500 3 LYS A 104 -14.06 159.68 REMARK 500 4 GLU A 2 86.05 51.25 REMARK 500 4 ARG A 6 75.36 55.49 REMARK 500 4 ALA A 9 -153.08 173.21 REMARK 500 4 CYS A 11 -81.85 -56.36 REMARK 500 4 GLU A 12 -79.73 170.41 REMARK 500 4 ASP A 47 48.35 -79.17 REMARK 500 4 ALA A 61 53.22 -92.44 REMARK 500 4 THR A 62 -84.94 -126.07 REMARK 500 4 LYS A 63 -70.21 -146.09 REMARK 500 4 ALA A 65 -79.47 -161.18 REMARK 500 4 PRO A 82 3.50 -40.55 REMARK 500 4 ALA A 83 -29.34 -38.91 REMARK 500 4 GLU A 99 43.94 -85.09 REMARK 500 REMARK 500 THIS ENTRY HAS 269 RAMACHANDRAN OUTLIERS. 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 PRO A 82 ALA A 83 10 -148.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2W50 RELATED DB: PDB REMARK 900 STRUCTURE SOLVED BY X-RAY CRYSTALLOGRAPHY. RECOMBINANT REMARK 900 PROTEIN PRODUCED IN SPODOPTERA FRUGIPERDA. REMARK 900 RELATED ID: 18269 RELATED DB: BMRB DBREF 2LPN A 1 105 UNP Q49AH0 CDNF_HUMAN 27 131 SEQRES 1 A 105 GLN GLU ALA GLY GLY ARG PRO GLY ALA ASP CYS GLU VAL SEQRES 2 A 105 CYS LYS GLU PHE LEU ASN ARG PHE TYR LYS SER LEU ILE SEQRES 3 A 105 ASP ARG GLY VAL ASN PHE SER LEU ASP THR ILE GLU LYS SEQRES 4 A 105 GLU LEU ILE SER PHE CYS LEU ASP THR LYS GLY LYS GLU SEQRES 5 A 105 ASN ARG LEU CYS TYR TYR LEU GLY ALA THR LYS ASP ALA SEQRES 6 A 105 ALA THR LYS ILE LEU SER GLU VAL THR ARG PRO MET SER SEQRES 7 A 105 VAL HIS MET PRO ALA MET LYS ILE CYS GLU LYS LEU LYS SEQRES 8 A 105 LYS LEU ASP SER GLN ILE CYS GLU LEU LYS TYR GLU LYS SEQRES 9 A 105 THR HELIX 1 1 GLU A 12 GLY A 29 1 18 HELIX 2 2 SER A 33 ASP A 47 1 15 HELIX 3 3 LYS A 49 GLY A 60 1 12 HELIX 4 4 ALA A 66 SER A 78 1 13 HELIX 5 5 PRO A 82 LYS A 91 1 10 SSBOND 1 CYS A 11 CYS A 98 1555 1555 2.03 SSBOND 2 CYS A 14 CYS A 87 1555 1555 2.03 SSBOND 3 CYS A 45 CYS A 56 1555 1555 2.02 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