PDB Short entry for 2JXZ HEADER HORMONE 03-DEC-07 2JXZ TITLE SOLUTION CONFORMATION OF A NON-AMYLOIDOGENIC ANALOGUE OF HUMAN TITLE 2 CALCITONIN IN SODIUM DODECYL SULFATE MICELLES COMPND MOL_ID: 1; COMPND 2 MOLECULE: CALCITONIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CALCITONIN, UNP RESIDUES 85-116; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: PEPTIDE SYNTHESIS KEYWDS A-HELIX, AMIDATION, CLEAVAGE ON PAIR OF BASIC RESIDUES, HORMONE, KEYWDS 2 SECRETED EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR G.ANDREOTTI,R.VITALE,C.AVIDAN-SHPALTER,P.AMODEO,E.GAZIT,A.MOTTA REVDAT 3 12-JAN-11 2JXZ 1 JRNL REVDAT 2 24-FEB-09 2JXZ 1 VERSN REVDAT 1 25-NOV-08 2JXZ 0 JRNL AUTH G.ANDREOTTI,R.M.VITALE,C.AVIDAN-SHPALTER,P.AMODEO,E.GAZIT, JRNL AUTH 2 A.MOTTA JRNL TITL CONVERTING THE HIGHLY AMYLOIDOGENIC HUMAN CALCITONIN INTO A JRNL TITL 2 POWERFUL FIBRIL INHIBITOR BY 3D STRUCTURE HOMOLOGY WITH A JRNL TITL 3 NON-AMYLOIDOGENIC ANALOGUE JRNL REF J.BIOL.CHEM. V. 286 2707 2011 JRNL REFN ISSN 0021-9258 JRNL PMID 21078667 JRNL DOI 10.1074/JBC.M110.182014 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AMBER 6.0 REMARK 3 AUTHORS : CASE, DARDEN, CHEATHAM, SIMMERLING, WANG, DUKE, REMARK 3 LUO, KOLL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2JXZ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-DEC-07. REMARK 100 THE RCSB ID CODE IS RCSB100430. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.6 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.5 MM PHCALCITONIN, 159 MM [U- REMARK 210 2H] SDS, 95% H20, 5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 2D TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : AMBER 6.0 REMARK 210 METHOD USED : RESTRAINED SIMULATED ANNEALING/ REMARK 210 ENERGY MINIMIZATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : RESTRAINT VIOLATIONS, AMBER REMARK 210 ENERGY, PROCHECK PARAMETERS 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 OD1 ASP A 15 HZ3 LYS A 18 1.76 REMARK 500 HZ2 LYS A 18 OD1 ASN A 26 1.80 REMARK 500 O LEU A 9 HG1 THR A 13 1.84 REMARK 500 HE22 GLN A 24 O THR A 31 1.86 REMARK 500 O CYS A 7 HG1 THR A 11 1.87 REMARK 500 O LEU A 12 H PHE A 16 1.90 REMARK 500 O MET A 8 H LEU A 12 1.90 REMARK 500 O THR A 6 H GLY A 10 1.91 REMARK 500 O LEU A 4 H MET A 8 1.91 REMARK 500 O GLY A 10 H GLN A 14 1.92 REMARK 500 O THR A 13 H HIS A 17 1.94 REMARK 500 O CYS A 7 H THR A 11 1.94 REMARK 500 O GLN A 14 H LYS A 18 1.95 REMARK 500 O THR A 25 H GLY A 28 1.95 REMARK 500 O THR A 11 H ASP A 15 1.96 REMARK 500 O LYS A 18 HG1 THR A 25 1.98 REMARK 500 O ASN A 3 H CYS A 7 1.98 REMARK 500 O ASP A 15 H PHE A 19 2.00 REMARK 500 OD1 ASN A 3 HG1 THR A 6 2.00 REMARK 500 O SER A 5 H LEU A 9 2.01 REMARK 500 OD1 ASN A 3 H THR A 6 2.01 REMARK 500 O LEU A 9 H THR A 13 2.01 REMARK 500 O PHE A 16 H HIS A 20 2.05 REMARK 500 O GLY A 28 H THR A 31 2.18 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 1 CA - CB - SG ANGL. DEV. = 10.1 DEGREES REMARK 500 3 PHE A 16 CB - CG - CD2 ANGL. DEV. = -4.2 DEGREES REMARK 500 4 PHE A 16 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 10 PHE A 16 CB - CG - CD2 ANGL. DEV. = -4.2 DEGREES REMARK 500 12 PHE A 16 CB - CG - CD2 ANGL. DEV. = -4.4 DEGREES REMARK 500 14 PHE A 16 CB - CG - CD2 ANGL. DEV. = -4.2 DEGREES REMARK 500 15 PHE A 16 CB - CG - CD2 ANGL. DEV. = -4.2 DEGREES REMARK 500 17 PHE A 16 CB - CG - CD2 ANGL. DEV. = -4.3 DEGREES REMARK 500 19 PHE A 16 CB - CG - CD2 ANGL. DEV. = -4.3 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 THR A 25 -27.48 -27.21 REMARK 500 2 THR A 25 -6.90 42.88 REMARK 500 2 VAL A 29 -44.23 -140.91 REMARK 500 3 THR A 25 -7.85 44.75 REMARK 500 3 THR A 27 114.36 -163.78 REMARK 500 4 ASN A 26 40.75 -60.57 REMARK 500 4 VAL A 29 -18.16 -48.83 REMARK 500 5 VAL A 29 -47.00 -156.64 REMARK 500 6 PHE A 22 114.32 -176.06 REMARK 500 6 VAL A 29 -26.12 -142.78 REMARK 500 7 VAL A 29 -52.58 -149.18 REMARK 500 7 THR A 31 162.72 -49.06 REMARK 500 8 THR A 25 -101.74 -140.79 REMARK 500 8 THR A 27 -42.90 -139.15 REMARK 500 9 ASN A 26 43.72 -61.21 REMARK 500 10 PHE A 22 85.91 -151.09 REMARK 500 10 THR A 25 -40.30 -134.76 REMARK 500 10 THR A 27 110.31 -166.15 REMARK 500 10 THR A 31 70.89 42.49 REMARK 500 11 PHE A 22 87.59 -155.17 REMARK 500 11 THR A 27 112.00 -161.78 REMARK 500 12 THR A 25 -9.40 44.61 REMARK 500 12 THR A 27 111.66 -163.39 REMARK 500 13 THR A 27 -1.89 -146.89 REMARK 500 13 VAL A 29 -13.11 -45.81 REMARK 500 13 THR A 31 74.98 40.38 REMARK 500 14 VAL A 29 -48.84 -156.48 REMARK 500 15 THR A 25 -30.35 -39.48 REMARK 500 15 VAL A 29 -28.52 -165.13 REMARK 500 16 THR A 25 2.26 -67.82 REMARK 500 16 VAL A 29 -38.01 -162.37 REMARK 500 17 VAL A 29 -44.00 -166.48 REMARK 500 18 THR A 25 129.14 149.92 REMARK 500 18 VAL A 29 -64.97 -143.29 REMARK 500 19 VAL A 29 -43.82 -160.65 REMARK 500 20 GLN A 24 -40.51 -164.77 REMARK 500 20 THR A 27 -18.59 -40.19 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 GLY A 30 THR A 31 15 -145.85 REMARK 500 GLY A 30 THR A 31 16 -147.55 REMARK 500 GLY A 30 THR A 31 18 -149.61 REMARK 500 GLN A 24 THR A 25 20 -138.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NH2 A 33 DBREF 2JXZ A 1 32 UNP P01258 CALC_HUMAN 85 116 SEQADV 2JXZ LEU A 12 UNP P01258 TYR 96 ENGINEERED MUTATION SEQADV 2JXZ HIS A 17 UNP P01258 ASN 101 ENGINEERED MUTATION SEQADV 2JXZ ASN A 26 UNP P01258 ALA 110 ENGINEERED MUTATION SEQADV 2JXZ THR A 27 UNP P01258 ILE 111 ENGINEERED MUTATION SEQADV 2JXZ THR A 31 UNP P01258 ALA 115 ENGINEERED MUTATION SEQRES 1 A 33 CYS GLY ASN LEU SER THR CYS MET LEU GLY THR LEU THR SEQRES 2 A 33 GLN ASP PHE HIS LYS PHE HIS THR PHE PRO GLN THR ASN SEQRES 3 A 33 THR GLY VAL GLY THR PRO NH2 HET NH2 A 33 3 HETNAM NH2 AMINO GROUP FORMUL 1 NH2 H2 N HELIX 1 1 ASN A 3 PHE A 22 1 20 HELIX 2 2 GLN A 24 GLY A 28 5 5 SSBOND 1 CYS A 1 CYS A 7 1555 1555 2.03 LINK N NH2 A 33 C PRO A 32 1555 1555 1.33 SITE 1 AC1 3 PHE A 22 GLN A 24 THR A 31 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