HEADER HORMONE/GROWTH FACTOR 18-SEP-06 2J5H TITLE NMR ANALYSIS OF MOUSE CRIPTO CFC DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: TERATOCARCINOMA-DERIVED GROWTH FACTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CRIPTO DOMAIN, RESIDUES 96-134; COMPND 5 SYNONYM: CRIPTO, EPIDERMAL GROWTH FACTOR-LIKE CRIPTO PROTEIN, CRIPTO COMPND 6 GROWTH FACTOR; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: THREE DISULFIDE BRIDGES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 4 ORGANISM_COMMON: MOUSE; SOURCE 5 ORGANISM_TAXID: 10090 KEYWDS HORMONE/GROWTH FACTOR, GROWTH FACTOR, EGF-CFC FAMILY, CRIPTO, TUMOUR KEYWDS 2 PROGRESSION, CYSTEINE-RICH DOMAINS, HORMONE-GROWTH FACTOR COMPLEX EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR L.CALVANESE,A.SAPORITO,D.MARASCO,G.D'AURIA,G.MINCHIOTTI,C.PEDONE, AUTHOR 2 L.PAOLILLO,L.FALCIGNO,M.RUVO REVDAT 5 09-MAY-18 2J5H 1 JRNL REMARK REVDAT 4 24-FEB-09 2J5H 1 VERSN REVDAT 3 03-APR-07 2J5H 1 ATOM REVDAT 2 30-NOV-06 2J5H 1 JRNL REVDAT 1 02-OCT-06 2J5H 0 JRNL AUTH L.CALVANESE,A.SAPORITO,D.MARASCO,G.D'AURIA,G.MINCHIOTTI, JRNL AUTH 2 C.PEDONE,L.PAOLILLO,L.FALCIGNO,M.RUVO JRNL TITL SOLUTION STRUCTURE OF MOUSE CRIPTO CFC DOMAIN AND ITS JRNL TITL 2 INACTIVE VARIANT TRP107ALA. JRNL REF J. MED. CHEM. V. 49 7054 2006 JRNL REFN ISSN 0022-2623 JRNL PMID 17125258 JRNL DOI 10.1021/JM060772R REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER REMARK 3 AUTHORS : CASE,PEARLMAN,ET. AL. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 JOURNAL CITATION ABOVE REMARK 4 REMARK 4 2J5H COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1290029966. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298.0 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : 90%WATER/10%D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : TOCSY; NOESY; DQFCOSY REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRVIEW;DYANA;AMBER REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATION AND REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING 2D NMR ON UNLABELLED REMARK 210 SAMPLE 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (RES=RESIDUE NAME; REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 470 MODELS 1-10 REMARK 470 RES CSSEQI ATOMS REMARK 470 GLU A 2 OE1 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 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 1 GLU A 2 CD GLU A 2 OE2 0.104 REMARK 500 2 GLU A 2 CD GLU A 2 OE2 0.110 REMARK 500 3 GLU A 2 CD GLU A 2 OE2 0.106 REMARK 500 4 GLU A 2 CD GLU A 2 OE2 0.103 REMARK 500 5 GLU A 2 CD GLU A 2 OE2 0.107 REMARK 500 6 GLU A 2 CD GLU A 2 OE2 0.104 REMARK 500 7 GLU A 2 CD GLU A 2 OE2 0.104 REMARK 500 8 GLU A 2 CD GLU A 2 OE2 0.104 REMARK 500 9 GLU A 2 CD GLU A 2 OE2 0.104 REMARK 500 10 GLU A 2 CD GLU A 2 OE2 0.106 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 2 CYS A 22 CA - CB - SG ANGL. DEV. = 8.7 DEGREES REMARK 500 4 CYS A 20 CA - CB - SG ANGL. DEV. = 7.3 DEGREES REMARK 500 5 CYS A 4 CA - CB - SG ANGL. DEV. = 9.4 DEGREES REMARK 500 5 CYS A 20 CA - CB - SG ANGL. DEV. = 8.1 DEGREES REMARK 500 9 CYS A 4 CA - CB - SG ANGL. DEV. = 8.8 DEGREES REMARK 500 9 CYS A 17 CA - CB - SG ANGL. DEV. = 7.0 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 CYS A 4 -175.37 -177.46 REMARK 500 1 SER A 6 -145.31 -170.83 REMARK 500 1 HIS A 9 70.68 169.01 REMARK 500 1 THR A 11 -55.72 -155.06 REMARK 500 1 TRP A 12 172.30 48.52 REMARK 500 1 LEU A 13 -168.40 59.92 REMARK 500 1 SER A 18 142.44 84.39 REMARK 500 1 LEU A 27 100.67 57.75 REMARK 500 1 HIS A 28 -88.61 -74.08 REMARK 500 1 GLN A 32 67.90 69.82 REMARK 500 1 CYS A 38 73.90 -168.12 REMARK 500 2 HIS A 9 62.90 146.40 REMARK 500 2 LEU A 13 172.83 56.38 REMARK 500 2 LYS A 15 175.20 73.30 REMARK 500 2 LYS A 16 -45.66 174.73 REMARK 500 2 SER A 18 115.14 125.31 REMARK 500 2 GLN A 26 68.71 34.99 REMARK 500 2 LEU A 27 -87.32 10.80 REMARK 500 2 GLN A 32 -70.88 -160.16 REMARK 500 2 LEU A 35 -63.44 -141.57 REMARK 500 2 CYS A 38 75.26 -157.02 REMARK 500 3 GLU A 2 47.88 -71.81 REMARK 500 3 HIS A 3 35.01 -72.10 REMARK 500 3 CYS A 4 -128.06 -132.75 REMARK 500 3 SER A 6 -167.68 -165.14 REMARK 500 3 HIS A 9 9.12 -163.23 REMARK 500 3 LEU A 13 -179.18 56.64 REMARK 500 3 PRO A 14 38.24 -75.70 REMARK 500 3 LYS A 16 86.58 -65.05 REMARK 500 3 GLN A 26 123.89 71.62 REMARK 500 3 LEU A 27 102.29 2.22 REMARK 500 3 CYS A 29 90.42 20.16 REMARK 500 3 GLN A 32 -52.74 69.10 REMARK 500 3 LEU A 35 89.69 59.75 REMARK 500 3 CYS A 38 76.71 -167.78 REMARK 500 4 GLU A 2 -114.09 33.61 REMARK 500 4 CYS A 4 -100.76 -123.69 REMARK 500 4 SER A 6 -126.55 -108.56 REMARK 500 4 THR A 11 90.79 -62.58 REMARK 500 4 LEU A 13 175.87 62.44 REMARK 500 4 LYS A 15 -167.28 -109.35 REMARK 500 4 LYS A 16 66.24 -68.65 REMARK 500 4 SER A 18 128.69 -30.44 REMARK 500 4 CYS A 20 -175.99 60.21 REMARK 500 4 TRP A 23 -60.53 -150.92 REMARK 500 4 HIS A 24 20.43 -155.15 REMARK 500 4 LEU A 27 118.82 78.87 REMARK 500 4 CYS A 29 157.62 67.52 REMARK 500 4 GLN A 32 -83.61 -66.65 REMARK 500 4 LEU A 35 106.45 -160.04 REMARK 500 REMARK 500 THIS ENTRY HAS 136 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 LEU A 27 HIS A 28 2 146.29 REMARK 500 LEU A 35 PRO A 36 2 144.28 REMARK 500 TRP A 12 LEU A 13 4 -147.98 REMARK 500 LEU A 27 HIS A 28 6 -147.23 REMARK 500 CYS A 20 ARG A 21 9 131.31 REMARK 500 SER A 18 LEU A 19 10 137.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7299 RELATED DB: BMRB DBREF 2J5H A 0 0 PDB 2J5H 2J5H 0 0 DBREF 2J5H A 1 39 UNP P51865 TDGF1_MOUSE 96 134 DBREF 2J5H A 40 40 PDB 2J5H 2J5H 40 40 SEQRES 1 A 41 ACE LYS GLU HIS CYS GLY SER ILE LEU HIS GLY THR TRP SEQRES 2 A 41 LEU PRO LYS LYS CYS SER LEU CYS ARG CYS TRP HIS GLY SEQRES 3 A 41 GLN LEU HIS CYS LEU PRO GLN THR PHE LEU PRO GLY CYS SEQRES 4 A 41 ASP NH2 HET ACE A 0 6 HET NH2 A 40 3 HETNAM ACE ACETYL GROUP HETNAM NH2 AMINO GROUP FORMUL 1 ACE C2 H4 O FORMUL 1 NH2 H2 N SSBOND 1 CYS A 4 CYS A 22 1555 1555 2.02 SSBOND 2 CYS A 17 CYS A 38 1555 1555 2.03 SSBOND 3 CYS A 20 CYS A 29 1555 1555 2.04 LINK C ACE A 0 N LYS A 1 1555 1555 1.34 LINK C ASP A 39 N NH2 A 40 1555 1555 1.33 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 HETATM 1 C ACE A 0 14.334 10.866 -8.099 1.00 0.00 C HETATM 2 O ACE A 0 14.489 11.160 -6.915 1.00 0.00 O HETATM 3 CH3 ACE A 0 14.779 9.509 -8.617 1.00 -1.00 C HETATM 4 H1 ACE A 0 15.180 8.921 -7.791 1.00 -1.00 H HETATM 5 H2 ACE A 0 13.926 8.978 -9.040 1.00 0.00 H HETATM 6 H3 ACE A 0 15.553 9.635 -9.373 1.00 0.00 H