Supero X9DBU-iF User manual

USER’S MANUAL
Revision 1.1
X9DBU-3F
X9DBU-iF

Manual Revision 1.1
Release Date: May 22, 2013
Unless you request and receive written permission from Super Micro Computer, Inc., you may not
copy any part of this document.
Information in this document is subject to change without notice. Other products and companies
referred to herein are trademarks or registered trademarks of their respective companies or mark
holders.
Copyright © 2013 by Super Micro Computer, Inc.
All rights reserved.
Printed in the United States of America
The information in this User’s Manual has been carefully reviewed and is believed to be accurate.
The vendor assumes no responsibility for any inaccuracies that may be contained in this document,
and makes no commitment to update or to keep current the information in this manual, or to notify
any person or organization of the updates. Please Note: For the most up-to-date version of this
manual, please see our Website at www.supermicro.com.
Super Micro Computer, Inc. ("Supermicro") reserves the right to make changes to the product
described in this manual at any time and without notice. This product, including software and docu-
mentation, is the property of Supermicro and/or its licensors, and is supplied only under a license.
Any use or reproduction of this product is not allowed, except as expressly permitted by the terms
of said license.
IN NO EVENT WILL SUPER MICRO COMPUTER, INC. BE LIABLE FOR DIRECT, INDIRECT,
SPECIAL, INCIDENTAL, SPECULATIVE OR CONSEQUENTIAL DAMAGES ARISING FROM THE
USE OR INABILITY TO USE THIS PRODUCT OR DOCUMENTATION, EVEN IF ADVISED OF
THE POSSIBILITY OF SUCH DAMAGES. IN PARTICULAR, SUPER MICRO COMPUTER, INC.
SHALL NOT HAVE LIABILITY FORANY HARDWARE, SOFTWARE, OR DATASTORED OR USED
WITH THE PRODUCT, INCLUDING THE COSTS OF REPAIRING, REPLACING, INTEGRATING,
INSTALLING OR RECOVERING SUCH HARDWARE, SOFTWARE, OR DATA.
Any disputes arising between the manufacturer and the customer shall be governed by the laws of
Santa Clara County in the State of California, USA. The State of California, County of Santa Clara
shall be the exclusive venue for the resolution of any such disputes. Supermicro's total liability for
all claims will not exceed the price paid for the hardware product.
FCC Statement: This equipment has been tested and found to comply with the limits for a Class
A digital device pursuant to Part 15 of the FCC Rules. These limits are designed to provide
reasonable protection against harmful interference when the equipment is operated in a commercial
environment. This equipment generates, uses, and can radiate radio frequency energy and, if not
installed and used in accordance with the manufacturer’s instruction manual, may cause harmful
interference with radio communications. Operation of this equipment in a residential area is likely
to cause harmful interference, in which case you will be required to correct the interference at your
own expense.
California Best Management Practices Regulations for Perchlorate Materials: This Perchlorate
warning applies only to products containing CR (Manganese Dioxide) Lithium coin cells. “Perchlorate
Material-special handling may apply. See www.dtsc.ca.gov/hazardouswaste/perchlorate”.
WARNING: Handling of lead solder materials used in this
product may expose you to lead, a chemical known to
the State of California to cause birth defects and other
reproductive harm.

Preface
This manual is written for system integrators, PC technicians and
knowledgeable PC users. It provides information for the installation and use of the
X9DBU-3F/X9DBU-iF motherboard.
About This Motherboard
The Super X9DBU-3F/X9DBU-iF motherboard supports dual Intel E5-2400 (Socket
B2) processors and Intel QPI (QuickPath Interface) Technology (V.1.1), providing
point-to-point connections with transfer speeds of up to 8.0 TG/s. With the C602/
C606 chipset built in, the X9DBU-3F/X9DBU-iF motherboard supports Intel® Man-
ageability Engine (ME), Rapid Storage Technology, Digital Media Interface (DMI),
PCI-E Gen. 3.0, and DDR3 memory of up to 1600 MHz, greatly enhancing system
performance. This motherboard is ideal for high-end server platforms. Please refer
to our website at http://www.supermicro.com for processor and memory update
and support.
Manual Organization
Chapter 1 describes the features, specifications and performance of the mother-
board. It also provides detailed information on the Intel C602/C606 chipset.
Chapter 2 provides hardware installation instructions. Read this chapter when in-
stalling the processor, memory modules, and other hardware components into the
system. If you encounter any problems, see Chapter 3, which describes trouble-
shooting procedures for video, memory, and system setup stored in the CMOS.
Chapter 4 includes an introduction to the BIOS, and provides detailed information
on running the CMOS Setup utility.
Appendix A provides BIOS Error Beep Codes.
Appendix B lists software installation instructions.
Preface
iii

iv
Conventions Used in the Manual
Pay special attention to the following symbols for proper system installation and to
prevent damage to the system or injury to yourself:
Warning: Important information is given to ensure proper system installation or to
avoid damaging system components
Note: Additional is information given to differentiate between models or to
provide information for correct system setup.
X9DBU-3F/X9DBU-iF Motherboard User’s Manual

Preface
v
Contacting Supermicro
Headquarters
Address: Super Micro Computer, Inc.
980 Rock Ave.
San Jose, CA 95131 U.S.A.
Tel: [phone]
Fax: [phone]
Email: [email protected] (General Information)
[email protected] (Technical Support)
Web Site: www.supermicro.com
Europe
Address: Super Micro Computer B.V.
Het Sterrenbeeld 28, 5215 ML
's-Hertogenbosch, The Netherlands
Tel: [phone]
Fax: [phone]
Email: [email protected] (General Information)
[email protected] (Technical Support)
[email protected] (Customer Support)
Asia-Pacific
Address: Super Micro Computer, Inc.
4F, No. 232-1, Liancheng Rd
Chung-Ho Dist., New Taipei City 235
Taiwan
Tel: [phone]
Fax: [phone]
Web Site: www.supermicro.com.tw
Technical Support:
Email: [email protected]
Tel: [phone]

vi
Table of Contents
Preface
Chapter 1 Overview
1-1 Overview .........................................................................................................1-1
1-2 Processor and Chipset Overview...................................................................1-11
1-3 Special Features...........................................................................................1-12
1-4 PC Health Monitoring....................................................................................1-12
1-5 ACPI Features............................................................................................... 1-13
1-6 Power Supply................................................................................................1-13
1-7 Super I/O.......................................................................................................1-14
1-8 Advanced Power Management.....................................................................1-14
Intel®Intelligent Power Node Manager (IPNM) ............................................ 1-14
Management Engine (ME)............................................................................1-15
1-9 Introduction to the IPMI Controller................................................................ 1-15
Chapter 2 Installation
2-1 Standardized Warning Statements ................................................................. 2-1
2-2 Static-Sensitive Devices..................................................................................2-4
2-3 Processor and Heatsink Installation................................................................2-5
Installing an LGA 1356 Processor..................................................................2-5
Installing a Passive CPU Heatsink ................................................................. 2-7
Removing the Passive Heatsink..................................................................... 2-8
2-4 Installing and Removing the Memory Modules............................................... 2-9
Installing & Removing DIMMs......................................................................... 2-9
Removing Memory Modules ........................................................................... 2-9
2-5 Motherboard Installation................................................................................2-13
Tools Needed................................................................................................ 2-13
Location of Mounting Holes.......................................................................... 2-13
Installing the Motherboard ............................................................................ 2-14
2-6 Control Panel Connectors and I/O Ports...................................................... 2-15
Back Panel Connectors and I/O Ports..........................................................2-15
Back Panel I/O Port Locations and Definitions ...........................................2-15
ATX PS/2 Keyboard and Mouse Ports..................................................... 2-16
Universal Serial Bus (USB)...................................................................... 2-16
Serial Ports............................................................................................... 2-17
Video Connection.....................................................................................2-17
Ethernet Ports ..........................................................................................2-18
Unit Identifier Switch ................................................................................2-19
X9DBU-3F/X9DBU-iF Motherboard User’s Manual

vii
Table of Contents
Front Control Panel....................................................................................... 2-20
Front Control Panel Pin Definitions...............................................................2-21
NMI Button ...............................................................................................2-21
Power LED ..............................................................................................2-21
HDD LED.................................................................................................. 2-22
NIC1/NIC2 LED Indicators....................................................................... 2-22
Overheat (OH)/Fan Fail LED....................................................................2-23
Power Fail LED........................................................................................2-23
Reset Button ...........................................................................................2-24
Power Button ........................................................................................... 2-24
2-7 Connecting Cables........................................................................................2-25
Power Connectors ................................................................................... 2-25
Fan Headers............................................................................................. 2-26
Chassis Intrusion ..................................................................................... 2-26
Buzzer ...................................................................................................... 2-27
Overheat/Fan Fail LED ............................................................................ 2-27
TPM Header/Port 80................................................................................2-28
IPMB.........................................................................................................2-28
Power SMB (I2C) Connector ....................................................................2-29
Standby Header .......................................................................................2-29
T-SGPIO 1/2 Headers.............................................................................. 2-30
DOM Power Connector............................................................................ 2-30
Power LED/Speaker.................................................................................2-31
2-8 Jumper Settings............................................................................................2-32
Explanation of Jumpers ................................................................................ 2-32
GLAN/10G_LAN Enable/Disable.............................................................. 2-32
CMOS Clear.............................................................................................2-33
Watch Dog Enable/Disable ...................................................................... 2-33
VGA Enable.............................................................................................. 2-34
BMC Enable ............................................................................................ 2-34
Management Engine (ME) Recovery ...................................................... 2-35
Manufacturer Mode Select....................................................................... 2-35
2-9 Onboard LED Indicators ............................................................................... 2-37
GLAN LEDs.............................................................................................. 2-37
IPMI Dedicated LAN LEDs....................................................................... 2-37
Onboard Power LED ...............................................................................2-38
Rear UID LED ......................................................................................... 2-38
BMC Heartbeat LED ................................................................................ 2-39
2-10 Serial ATA Connections................................................................................. 2-40

viii
Serial ATA Ports........................................................................................2-40
SAS Ports................................................................................................. 2-40
Chapter 3 Troubleshooting
3-1 Troubleshooting Procedures...........................................................................3-1
3-2 Technical Support Procedures........................................................................ 3-5
3-3 Battery Removal and Installation....................................................................3-6
3-4 Frequently Asked Questions...........................................................................3-7
3-5 Returning Merchandise for Service.................................................................3-8
Chapter 4 BIOS
4-1 Introduction...................................................................................................... 4-1
4-2 Main Setup......................................................................................................4-2
4-3 Advanced Setup Configurations......................................................................4-4
4-4 Event Logs....................................................................................................4-25
4-5 IPMI...............................................................................................................4-27
4-6 Boot...............................................................................................................4-29
4-7 Security.........................................................................................................4-30
4-8 Save & Exit...................................................................................................4-31
Appendix A BIOS Error Beep Codes
A-1 BIOS Error Beep Codes .................................................................................A-1
Appendix B Software Installation Instructions
B-1 Installing Software Programs..........................................................................B-1
B-2 Configuring SuperDoctor® III..........................................................................B-2
X9DBU-3F/X9DBU-iF Motherboard User’s Manual

Chapter 1: Overview
1-1
Chapter 1
Overview
1-1 Overview
Checklist
Congratulations on purchasing your computer motherboard from an acknowledged
leader in the industry. Supermicro boards are designed with the utmost attention to
detail to provide you with the highest standards in quality and performance.
Please check that the following items have all been included with your motherboard.
If anything listed here is damaged or missing, contact your retailer.
The following items are included in the retail box.
• One (1) Supermicro Mainboard
• Two (2) Serial ATA cables (CBL-0044Lx2)
• Two (2) I-Pass to 4 Serial ATA (50-cm) cables (CBL-097L-03x2) (X9DBU-3F)
• One (1) I-Pass to 4 Serial ATA (50-cm) cables (CBL-097L-03) (X9DBU-iF)
• One I/O Shield (MCP-260-00027-0N)
• One (1) Quick Reference Guide (MNL-1294-QRG)
Note: For your system to work properly, please follow the links below to
download all necessary drivers/utilities and the user's manual for your
motherboard.
SMCI product manuals: http://www.supermicro.com/support/manuals/
Product Drivers and utilities: ftp://ftp.supermicro.com/
If you have any questions, please contact our support team at support@supermicro.
com.

1-2
X9DBU-3F/X9DBU-iF Motherboard User’s Manual
Motherboard Image
Note: All graphics shown in this manual were based upon the latest PCB
revision available at the time of publishing of the manual. The motherboard
you've received may or may not look exactly the same as the graphics
shown in this manual.

Chapter 1: Overview
1-3
Motherboard Layout
Note : For the latest CPU/Memory updates, please refer to our website at
http://www.supermicro.com/products/motherboard/ for details.
LED3
JSTBY1
JD1
JPB1
JPG1
JBR1
JWD1
JVRM_SMB
JPL1
I-SATA1
I-SATA0
I-SATA4
I-SATA3
I-SATA2
I-SATA5
JSD1
DIMM_C2
JPMB1
JPME2
JPME1
T-SGPIO1
T-SGPIO2
JBT1
JPI2C1
JF1
JTPM1
JI2C2
JI2C1
JL1
LED2
Battery
COM1
JPW4
JPW1
JPW3
JPW2
XDP_PCH
XDP_CPU
JTAG OF CPLD
BUZZER
SAS4~7 SAS0~3
USB7
USB6 USB4/5 USB2/3
SXB2: CPU2 PCI-E 3.0 X8
SXB1: CPU2/CPU1 PCI-E 3.0 X8 + x8
P1 DIMMC2
P1 DIMMC1
P1 DIMMB2
P1 DIMMB1
P1 DIMM1A ALWAYS POPULATE DIMMxA FIRST
P2 DIMMF2 P2 DIMMF1
P2 DIMME2
P2 DIMMD2
P2 DIMME1
P2 DIMMD1
FANB
FANA
FAN3
FAN4
FAN2 FAN1
USB0/1
UIOP
COM2
IPMI_LAN KB/MOUSE
LAN2 LAN1
VGA
UID
P1 DIMMA1
P1 DIMMA2
24-Pin Main PWR
8-Pin PWR
8-Pin PWR
JOH1
BIOS
Intel IOH
BMC
CTRL
LAN
CTRL
82580
PHY
X9DBU
Rev. 1.02
1
[CPU2_Port3D] [CPU2_Port3C]
[CPU2_Port1B] [CPU2_Port1A] [CPU1_Port3A] [CPU1_Port3B]
1
1
1
1
1
1
1
3
2
1
4
LED1

1-4
X9DBU-3F/X9DBU-iF Motherboard User’s Manual
Notes:
• See Chapter 3 for detailed information on jumpers, I/O ports and JF1 front
panel connections.
• " " indicates the location of "Pin 1".
• Jumpers/LED Indicators/connectors/headers not indicated or documented are
for testing only.
• Use only the correct type of onboard CMOS battery as specified by the manu-
facturer. Do not install the onboard battery upside down to avoid possible short
circuit.
X9DBU-3F/X9DBU-iF Quick Reference
LED3
JSTBY1
JD1
JPB1
JPG1
JBR1
JWD1
JVRM_SMB
JPL1
I-SATA1
I-SATA0
I-SATA4
I-SATA3
I-SATA2
I-SATA5
JSD1
DIMM_C2
JPMB1
JPME2
JPME1
T-SGPIO1
T-SGPIO2
JBT1
JPI2C1
JF1
JTPM1
JI2C2
JI2C1
JL1
LED2
Battery
COM1
JPW4
JPW1
JPW3
JPW2
XDP_PCH
XDP_CPU
JTAG OF CPLD
BUZZER
SAS4~7 SAS0~3
USB7
USB6 USB4/5 USB2/3
SXB2: CPU2 PCI-E 3.0 X8
SXB1: CPU2/CPU1 PCI-E 3.0 X8 + x8
P1 DIMMC2
P1 DIMMC1
P1 DIMMB2
P1 DIMMB1
P1 DIMM1A ALWAYS POPULATE DIMMxA FIRST
P2 DIMMF2 P2 DIMMF1
P2 DIMME2
P2 DIMMD2
P2 DIMME1
P2 DIMMD1
FANB
FANA
FAN3
FAN4
FAN2 FAN1
USB0/1
UIOP
COM2
IPMI_LAN KB/MOUSE
LAN2 LAN1
VGA
UID
P1 DIMMA1
P1 DIMMA2
24-Pin Main PWR
8-Pin PWR
8-Pin PWR
JOH1
BIOS
Intel IOH
BMC
CTRL
LAN
CTRL
82580
PHY
X9DBU
Rev. 1.02
1
[CPU2_Port3D] [CPU2_Port3C]
[CPU2_Port1B] [CPU2_Port1A] [CPU1_Port3A] [CPU1_Port3B]
1
1
1
1
1
1
1
3
2
1
4
LED1

Chapter 1: Overview
1-5
X9DBU-3F/X9DBU-iF Jumpers
Jumper Description Default Setting
JBT1 Clear CMOS See Chapter 3
JI2C1/JI2C2 SMB to PCI-E Slots Open (Normal)
JPB1 BMC Enable Pins 1-2 (Enabled)
JPG1 VGA Enable Pins 1-2 (Enabled)
JPL1 LAN1/LAN2 Enable Pins 1-2 (Enabled)
JPME1 Management Engine (ME)
Recovery Mode Pins 1-2 (Normal)
JPME2 Management Engine (ME)
Manufacture Mode Pins 1-2 (Normal)
JWD1 Watch Dog Pins 1-2 (Reset)
X9DBU-3F/X9DBU-iF Connectors
Connectors Description
Buzzer Internal Buzzer
COM1/COM2 Backplane COM Port1/Front Accessible COM2 Header
FAN1~4, FANA/B CPU/System Fan Headers
IPMB1 4-pin External BMC I2C Header (for an IPMI Card)
I-SATA 0~5 Intel PCH SATA Connectors 0~5 (SATA 3.0 Ports 0/1, SATA 2.0
Ports 2~5)
JBAT1 Onboard Battery (See Chpt. 4 for Used Battery Disposal)
JD1 Power LED/Speaker (PWR LED Pins 1~3, Speaker: Pins 4~7)
JF1 Front Panel Control Header
JL1 Chassis Intrusion
JOH1 Overheat/Fan Fail LED
JPI2C1 Power Supply SMBbus I2C Header
JPW1 ATX 24-Pin Power Connector (See Warning on Pg. 1-6.)
JPW2~JPW3 12V 8-Pin Power Connectors (See Warning on Pg. 1-6.)
JPW4 4-Pin Power Connector
JSTBY1 Standby
JTAG of CPLD JTAG of CPLD (Complex Programming Logical Device)
JTPM1 TPM (Trusted Platform Module)/Port 80
JSD1 SATA DOM (Device On Module) Power Connector
KB/Mouse Keyboard/Mouse
LAN1/2 G-bit Ethernet Ports 1/2
(IPMI) LAN IPMI Dedicated LAN

1-6
X9DBU-3F/X9DBU-iF Motherboard User’s Manual
Warning: To avoid damaging your motherboard and components, please use a
power supply that supports a 24-pin, two 8-pin and one 4-pin power connectors. Be
sure to connect the 24-pin and the 8-pin power connectors to your power supply
for adequate power delivery to your system. The 4-pin power connector is optional;
however, Supermicro recommends that this connector also be plugged in for optimal
power delivery.
SAS 0~3, 4~7 Serial-Link S-SATA/SAS 0~3, SAS 4~7
SXB1 CPU1/CPU2 PCI-Exp. 3.0 x8 + x8 Slot
SXB2(CPU2)/
SXB3 (CPU1) (CPU2) SXB2 PCI-Exp. 3.0 x8/CPU1)/SXB3 PCI-Exp. 3.0 x8 Slots
T-SGPIO 1/2 Serial link General Purpose I/O Connections 1/2
UIOP SMC-Proprietary Universal I/O Slot
USB 0/1 Back Panel USB 0/1
USB 2/3, 4/5 Front Panel Accessible USB 2/3, 4/5 Connections
USB 6, USB7 Front Panel Type A USB 6 Port
UID Switch UID (Unit Identifier) Switch
VGA1 Backpanel VGA Port 1/Front Panel VGA Port2
X9DBU-3F/X9DBU-iF LED Indicators
LED Description State Status
LED1 BMC Heatbeat Green: Blinking BMC: Normal
LED2 Standby PWR LED Green: On SB Power On
LED3 UID LED Blue: On (Windows OS)
Blinking (Linux) Unit Identified

Chapter 1: Overview
1-7
Motherboard Features
CPU • Dual Intel®E5-2400 (Socket B2) processors; each
processor supports two full-width QuickPath Intercon-
nect (QPI) links of up to 8.0 GT/s per link and with
data transfer rate of up to 16 GB/s direction peak
bandwidth per port
Memory • Integrated memory controller supports up to 384
GB of 240-pin Registered (RDIMM)/Load Reduced
(LRDIMM) ECC or Unbuffered (UDIMM) ECC/Non-
ECC DDR3 with speeds of 800/1066/1333/1600 MHz
in 12 memory modules
Note: For the latest CPU/memory updates,
please refer to our Website at http://www.super-
micro.com/products/motherboard.
DIMM sizes
• R_DIMM/LR_
DIMM 1GB, 2GB, 4GB, 8GB,16GB and 32GB @ 1.35V/1.5V
• Virtualization: VT-x, VT-d, and VT-c
Chipset • Intel® C602 (X9DBU-iF)/C606 (X9DBU-3F) PCH
Graphics • Matrox G200eW Video Controller
Network • Intel I350 Gigabit Ethernet Controller for LAN ports 1/2
I/O Devices SATA/SAS Connections
• SATA Ports Two (2) SATA 3.0 ports (SATA
0/1),
Four (4) SATA 2.0 ports (SATA
2~5),
One (1) mini-iPass port with
SATA 2.0 (X9DBU-iF Only)
• RAID RAID 0, 1, 5, 10
• S-SATA/SAS Four (4) S-SATA/SAS 0~3,
Four (4) SAS 4~7,
Two (2) mini-iPass port with
SATA 2.0 (X9DBU-3F Only)
• RAID RAID 0, 1, 10
Super I/O
• Nuvoton W83527 SI/O
• Nuvoton WPCM450R-F Base-board Controller (BMC)
supports IPMI LAN 2.0

1-8
X9DBU-3F/X9DBU-iF Motherboard User’s Manual
IPMI 2.0
• Nuvoton WPCM450R Base-board Controller (BMC)
supports IPMI_LAN 2.0
Serial (COM) Port
• Two (2) Fast UART 16550 connections: 9-pin RS-
232 port
Keyboard/Mouse
• Back Panel USB Keyboard/Mouse
• PS/2 Keyboard/Mouse
Graphics Output
• Graphic Output
UIO Platform
• PCI-E 3.0 x16
• Two (2) PCI-E 3.0 x8
• One (1) SMC-Proprietary Universal IO (UIO)
Peripheral
Devices USB Devices
• Two (2) USB 2.0 ports on the rear I/O panel (USB
0/1),
• Two (2) Front Panel USB headers for 4 connections
(USB 2/3, USB 4/5),
• Two Type A USB connectors for onboard-access
(USB 6/USB7)
BIOS • 64 Mb AMI BIOS®Flash EEPROM
• APM 1.2, DMI 2.3, PCI 2.3, ACPI 1.0/2.0, USB Key-
board, Plug & Play (PnP) and SMBIOS 2.3
Power • ACPI/ACPM Power Management
Config. • Main switch override mechanism
• Keyboard Wake-up from Soft-Off
• Power-on mode for AC power recovery
• Intel® Intelligent Node Management (IPNM)
• Intel® Management Engine (ME)
PC Health CPU Monitoring
Monitoring • Onboard voltage monitors for 1.5V, 1.8V, +3.3V, 3.3V
Standby, +5V, +5V Standby and Battery Voltage.
• CPU Thermal Design Power (TDP): support up to
95W (See Note 1 next page)
• CPU 6-Phase switching voltage regulator

Chapter 1: Overview
1-9
• CPU/System overheat LED and control
• CPU Thermal Trip support
• Thermal Monitor 2 (TM2) support
Fan Control
• Fan status monitoring with firmware thermal man-
agement control via IPMI
• Low noise fan speed control
LED Indicators
• System/CPU Overheat LED
• Suspend-state LED
• UID/Remote UID LED
System
Management
• PECI (Platform Environment Configuration Interface)
2.0 support
• System resource alert via SuperDoctor® III
• Dual Cooling Zones
• Thermal Monitor 2 (TM2) support
• PECI (Platform-Environment Configuration Interface)
support
• SuperoDoctor® III, Watch Dog, NMI
• Chassis Intrusion Header and Detection
Dimensions • 13.050" (L) x 12.075" (W) (331.47 mm x 306.71
mm)
Note 1: CPU Maximum Thermal Design Power (TDP) is subject to chassis
and heatsink cooling restrictions. For proper thermal management, please
check the chassis and heatsink specifications for proper CPU TDP sizing.
Note 2: For IPMI Configuration Instructions, please refer to the Embedded
IPMI Configuration User's Guide available @ http://www.supermicro.com/
support/manuals/.

1-10
X9DBU-3F/X9DBU-iF Motherboard User’s Manual
System Block Diagram
Note: This is a general block diagram and may not exactly represent the
features on your motherboard. See the Motherboard Features pages for
the actual specifications of each motherboard. 2. This block diagram is
intended for your reference only.
CPU1
DDR3
QPI
8G
3.0 Gb/S
3.0 Gb/S
6.0 Gb/S
#3A/B
#3C/D #1B #1A
P1
DMI
PEG0 DMI
SAS [0:3] SATA [2:5]
SATA [0:1]
USB [0:7]
USB [9,10] LPC
SAS [4:7]
PCI
Uplink DMI
4GB/sPCI-E
X4 G3
#2~#5
#0~#1
SPI
SAS
I-PASS
SAS
MUX
COM1
External
COM2
Header
MUX
BMC
WPCM450
RJ45
I-PASS
GLAN
I350-AM2
PCH
SSB-A/D
PCI-E X8 G3 PCI-E X8 G3
PCI-E X8 G3
PCI-E X8 G3
PCI-E X4 G3
CPU2
DDR3
#1A/B #3C/D
P1
3.0 Gb/S
RJ45
RJ45
SPI
SPI
VGA RTL8201F
TPM Header
DDR2 RAM
SPI PCI USB
LPC
Serial
PortRMII
RMII
DDR
CRT
#C-2
#C-1
#B-2
#B-1
#A-2
#A-1
DDR3
PCI-E X16 SLOT 2 LOWER
PCI-E X16 SLOT 2 UPPER
PCI-E X8 in x4 Slot SLOT 3
PCI-E X8 SLOT 1
800/1066/1333/1600
#F-2
#F-1
#E-2
#E-1
#D-2
#D-1
DDR3 800/1066/1333/1600
I-SATA
I-SATA
REAR
HDR 2X5
REAR
4,52,3
TYPE-A
6
TYPE-A
7
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Chapter 1: Overview
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1-2 Processor and Chipset Overview
Built upon the functionality and the capabilities of the Intel E5-2400 (Socket B2)
processor and the C602/C606 chipset, the X9DBU-3F/X9DBU-iF motherboard
provides the performance and feature sets required for dual_processor-based
high-end system platforms.
With support of Intel QuickPath interconnect (QPI) Technology, the X9DBU-3F/
X9DBU-iF motherboard offers point-to-point serial interconnect interface with a
transfer speed of up to 8.0 GT/s, providing superb system performance.
The C602/C606 chipset provides extensive IO support, including the following
functions and capabilities:
• PCI-Express Rev. 2.0 support
• PCI-Express Gen. 3 uplink supported by some SKUs
• ACPI Power Management Logic Support Rev. 3.0b or Rev. 4.0
• USB host interface back panel and front access support
• Intel Rapid Storage Technology supported
• Intel Virtualization Technology for Directed I/O (Intel VT-d) supported
• Intel Trusted Execution Technology supported
• Serial Peripheral Interface (SPI) Supported
• Digital Media Interface (DMI) supported
• Advanced Host Controller Interface (AHCI) supported

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X9DBU-3F/X9DBU-iF Motherboard User’s Manual
1-3 Special Features
Recovery from AC Power Loss
The Basic I/O System (BIOS) provides a setting that determines how the system will
respond whenAC power is lost and then restored to the system. You can choose for
the system to remain powered off (in which case you must press the power switch
to turn it back on), or for it to automatically return to the power-on state. See the
Advanced BIOS Setup section for this setting. The default setting is Last State.
1-4 PC Health Monitoring
This section describes the features of PC health monitoring of the motherboard. This
motherboard has onboard system management firmware that supports PC health
monitoring. An onboard voltage monitor will scan the following onboard voltages
continuously: 1.5V, 1.8V, +3.3V, 3.3V Standby, +5V, +5V Standby and Battery Volt-
age. Once a voltage becomes unstable, a warning is given, or an error message
is sent to the screen.
Fan Status Monitor with Firmware Control
The PC health monitor chip can check the RPM status of a cooling fan. The on-
board CPU and chassis fans are controlled by the firmware thermal management
under IPMI.
Environmental Temperature Control
A thermal control sensor monitors the CPU temperature in real time and will turn
on the thermal control fan whenever the CPU temperature exceeds a user-defined
threshold. The overheat circuitry runs independently from the CPU. Once it detects
that the CPU temperature is too high, it will automatically turn on the thermal fan
control to prevent the CPU from overheating. The onboard chassis thermal circuitry
can monitor the overall system temperature and alert the user when the chassis
temperature is too high.
Note: To avoid possible system overheating, please be sure to provide
adequate airflow to your system.
System Resource Alert
This feature is available when used with SuperDoctor III in the Windows OS
environment or used with SuperDoctor II in Linux. SuperDoctor is used to notify
the user of certain system events. For example, you can configure SuperDoctor to