OMB APPROVAL -------------------------- OMB Number: 3235-0006 Expires: October 31, 2003 Estimated average burden hours per response....23.3 UNITED STATES SECURITIES AND EXCHANGE COMMISSION Washington, D.C. 20549 Form 13F Form 13F COVER PAGE Report for the Calendar Year or Quarter Ended: December 31, 2006 --------------------------- Check here if Amendment [ ]; Amendment Number: ------- This Amendment (Check only one.): [ ] is a restatement. [ ] adds new holdings entries. Institutional Investment Manager Filing this Report: Name: Piper Jaffray Companies ------------------------------------------ Address: 800 Nicollet Mall ------------------------------------------ Suite 800 ------------------------------------------ Minneapolis, MN 55402-7020 ------------------------------------------ Form 13F File Number: 28-10776 ------------- The institutional investment manager filing this report and the person by whom it is signed hereby represent that the person signing the report is authorized to submit it, that all information contained herein is true, correct and complete, and that it is understood that all required items, statements, schedules, lists, and tables, are considered integral parts of this form. Person Signing this Report on Behalf of Reporting Manager: Name: Greg Meyer -------------------------------------------- Title: Controller -------------------------------------------- Phone: 612-303-6000 -------------------------------------------- Signature, Place, and Date of Signing: /s/ Greg Meyer Minneapolis, MN 2/7/07 --------------------- -------------------------------------- ------------- [Signature] [City, State] [Date] Report Type (Check only one.): [X] 13F HOLDINGS REPORT. (Check here if all holdings of this reporting manager are reported in this report.) [ ] 13F NOTICE. (Check here if no holdings reported are in this report, and all holdings are reported by other reporting manager(s).) [ ] 13F COMBINATION REPORT. (Check here if a portion of the holdings for this reporting manager are reported in this report and a portion are reported by other reporting manager(s).) FORM 13F SUMMARY PAGE Report Summary: Number of Other Included Managers: 0 ----------------------- Form 13F Information Table Entry Total: 79 ----------------------- Form 13F Information Table Value Total: $ 61,651 ----------------------- (thousands) List of Other Included Managers: Provide a numbered list of the name(s) and Form 13F file number(s) of all institutional investment managers with respect to which this report is filed, other than the manager filing this report. NONE COLUMN 1 COLUMN 2 COLUMN 3 COLUMN 4 COLUMN 5 COLUMN 6 COLUMN 7 COLUMN 8 --------------------------------------------------------------------------------------------------------------------------------- VALUE SHRS OR SH/ PUT/ INVESTMENT OTHER VOTING AUTHORITY NAME OF ISSUER TITLE OF CLASS CUSIP (X$1000) PRN AMT PRN CALL DISCRETION MANAGERS SOLE SHARED NONE --------------------------------------------------------------------------------------------------------------------------------- 24/7 REAL MEDIA INC COM NEW 901314203 36 4,000 SH SOLE 4,000 0 0 8X8 INC NEW COM 282914100 9 8,000 SH SOLE 8,000 0 0 ACORDA THERAPEUTICS INC COM 00484M106 2 96 SH SOLE 96 0 0 ADVANCED MEDICAL OPTICS INC NOTE 2.500% 7/1 00763MAG3 4,533 4,685,000 PRN SOLE 4,685,000 0 0 AGCO CORP NOTE 1.750%12/3 001084AL6 3,781 2,500,000 PRN SOLE 2,500,000 0 0 AGCO CORP NOTE 1.250%12/1 001084AM4 246 250,000 PRN SOLE 250,000 0 0 ALASKA COMMUNICATIONS SYS GR COM 01167P101 9 563 SH SOLE 563 0 0 ALEXION PHARMACEUTICALS INC NOTE 1.375% 2/0 015351AF6 2,308 1,610,000 PRN SOLE 1,610,000 0 0 ALLSCRIPTS HEALTHCARE SOLUTI COM 01988P108 4 139 SH SOLE 139 0 0 ALNYLAM PHARMACEUTICALS INC COM 02043Q107 2 100 SH SOLE 100 0 0 AMERICAN MED SYS HLDGS INC NOTE 3.250% 7/0 02744MAA6 9,222 7,907,000 PRN SOLE 7,907,000 0 0 ARENA PHARMACEUTICALS INC COM 040047102 1 100 SH SOLE 100 0 0 ARTHROCARE CORP COM 043136100 2 56 SH SOLE 56 0 0 BEACON ROOFING SUPPLY INC COM 073685109 2 100 SH SOLE 100 0 0 BIOMARIN PHARMACEUTICAL INC NOTE 2.500% 3/2 09061GAC5 1,460 1,207,000 PRN SOLE 1,207,000 0 0 CADENCE DESIGN SYSTEM INC COM 127387108 1,481 82,700 SH SOLE 82,700 0 0 CASTLE BRANDS INC COM 148435100 5 800 SH SOLE 800 0 0 CELGENE CORP COM 151020104 3 52 SH SOLE 52 0 0 CIENA CORP NOTE 3.750% 2/0 171779AA9 484 500,000 PRN SOLE 500,000 0 0 CIENA CORP NOTE 0.250% 5/0 171779AB7 227 250,000 PRN SOLE 250,000 0 0 COHEN & STEERS INC COM 19247A100 522 13,000 SH SOLE 13,000 0 0 CORTS TR VI IBM DEB CTF CAL 6.375% 22080F202 102 4,000 SH SOLE 4,000 0 0 CREDENCE SYS CORP NOTE 1.500% 5/1 225302AF5 2,341 2,500,000 PRN SOLE 2,500,000 0 0 CUBIST PHARMACEUTICALS INC NOTE 2.250% 6/1 229678AC1 904 1,000,000 PRN SOLE 1,000,000 0 0 CYBERONICS INC COM 23251P102 826 40,000 SH CALL SOLE 40,000 0 0 CYTORI THERAPEUTICS INC COM 23283K105 1 80 SH SOLE 80 0 0 CYTYC CORP NOTE 2.250% 3/1 232946AB9 2,455 2,284,000 PRN SOLE 2,284,000 0 0 DIODES INC NOTE 2.250%10/0 254543AA9 2,378 2,500,000 PRN SOLE 2,500,000 0 0 EARTHLINK INC NOTE 3.250%11/1 270321AA0 2,128 2,000,000 PRN SOLE 2,000,000 0 0 ECLIPSYS CORP COM 278856109 210 10,205 SH SOLE 10,205 0 0 EDWARDS LIFESCIENCES CORP COM 28176E108 376 8,000 SH SOLE 8,000 0 0 EDWARDS LIFESCIENCES CORP COM 28176E108 517 11,000 SH PUT SOLE 11,000 0 0 ELECTRONIC ARTS INC COM 285512109 10 198 SH SOLE 198 0 0 ELONG INC SPONSORED ADR 290138205 1 100 SH SOLE 100 0 0 EMULEX CORP COM NEW 292475209 585 30,000 SH CALL SOLE 30,000 0 0 EURONET WORLDWIDE INC COM 298736109 3 100 SH SOLE 100 0 0 FORD MTR CO DEL NOTE 4.250%12/1 345370CF5 908 850,000 PRN SOLE 850,000 0 0 GAMETECH INTERNATIONAL INC COM 36466D102 19 1,600 SH SOLE 1,600 0 0 GENCO SHIPPING & TRADING LTD SHS Y2685T107 3 100 SH SOLE 100 0 0 HARRIS INTERACTIVE INC COM 414549105 2 400 SH SOLE 400 0 0 COLUMN 1 COLUMN 2 COLUMN 3 COLUMN 4 COLUMN 5 COLUMN 6 COLUMN 7 COLUMN 8 --------------------------------------------------------------------------------------------------------------------------------- VALUE SHRS OR SH/ PUT/ INVESTMENT OTHER VOTING AUTHORITY NAME OF ISSUER TITLE OF CLASS CUSIP (X$1000) PRN AMT PRN CALL DISCRETION MANAGERS SOLE SHARED NONE --------------------------------------------------------------------------------------------------------------------------------- HITTITE MICROWAVE CORP COM 43365Y104 555 17,182 SH SOLE 17,182 0 0 INCYTE CORP NOTE 3.500% 2/1 45337CAE2 804 1,000,000 PRN SOLE 1,000,000 0 0 INNERWORKINGS INC COM 45773Y105 2 100 SH SOLE 100 0 0 INSPIRE PHARMACEUTICALS INC COM 457733103 12 1,820 SH SOLE 1,820 0 0 INTEL CORP SDCV 2.950%12/1 458140AD2 176 195,000 PRN SOLE 195,000 0 0 INTERNATIONAL RECTIFIER CORP COM 460254105 87 2,246 SH SOLE 2,246 0 0 INVITROGEN CORP COM 46185R100 6 111 SH SOLE 111 0 0 JABIL CIRCUIT INC COM 466313103 39 1,600 SH SOLE 1,600 0 0 JONES SODA CO COM 48023P106 36 2,940 SH SOLE 2,940 0 0 JUPITERMEDIA CORP COM 48207D101 2 312 SH SOLE 312 0 0 KLA-TENCOR CORP COM 482480100 1 17 SH SOLE 17 0 0 KOMAG INC COM NEW 500453204 3 79 SH SOLE 79 0 0 KRAFT FOODS INC CL A 50075N104 893 25,000 SH CALL SOLE 25,000 0 0 LATTICE SEMICONDUCTOR CORP NOTE 7/0 518415AE4 4,738 5,000,000 PRN SOLE 5,000,000 0 0 MAF BANCORP INC COM 55261R108 8 189 SH SOLE 189 0 0 MELLON FINL CORP COM 58551A108 25 600 SH SOLE 600 0 0 MENTOR CORP MINN NOTE 2.750% 1/0 587188AC7 4,275 2,500,000 PRN SOLE 2,500,000 0 0 METABOLIX INC COM 591018809 17 888 SH SOLE 888 0 0 MILLENNIUM PHARMACEUTICALS I NOTE 2.250%11/1 599902AD5 740 750,000 PRN SOLE 750,000 0 0 MOTOROLA INC COM 620076109 33 1,600 SH SOLE 1,600 0 0 NASDAQ STOCK MARKET INC COM 631103108 9 300 SH SOLE 300 0 0 NEUROCHEM INC COM 64125K101 4 200 SH SOLE 200 0 0 NYSE GROUP INC COM 62949W103 5,389 55,440 SH SOLE 55,440 0 0 O I CORP COM 670841105 9 800 SH SOLE 800 0 0 O2MICRO INTERNATIONAL LTD SPONS ADR 67107W100 43 5,011 SH SOLE 5,011 0 0 OMRIX BIOPHARMACEUTICALS INC COM 681989109 2 50 SH SOLE 50 0 0 PAIN THERAPEUTICS INC COM 69562K100 183 20,536 SH SOLE 20,536 0 0 PEOPLESUPPORT INC COM 712714302 2 100 SH SOLE 100 0 0 POZEN INC COM 73941U102 8 478 SH SOLE 478 0 0 RF MICRODEVICES INC NOTE 1.500% 7/0 749941AE0 2,641 2,500,000 PRN SOLE 2,500,000 0 0 ROYAL BK SCOTLAND GROUP PLC SP ADR L RP PF 780097788 63 2,600 SH SOLE 2,600 0 0 ROYAL BK SCOTLAND GROUP PLC SPON ADR PRF G 780097887 50 2,000 SH SOLE 2,000 0 0 SANDISK CORP NOTE 1.000% 5/1 80004CAC5 89 100,000 PRN SOLE 100,000 0 0 SEABRIGHT INSURANCE HLDGS IN COM 811656107 1 37 SH SOLE 37 0 0 SHANDA INTERACTIVE ENTMT LTD SPONSORED ADR 81941Q203 7 328 SH SOLE 328 0 0 SYBASE INC NOTE 1.750% 2/2 871130AB6 789 709,000 PRN SOLE 709,000 0 0 TRIZETTO GROUP INC NOTE 2.750%10/0 896882AB3 1,757 1,500,000 PRN SOLE 1,500,000 0 0 VITAL IMAGES INC COM 92846N104 3 100 SH SOLE 100 0 0 VITAL SIGNS INC COM 928469105 42 832 SH SOLE 832 0 0