When arbitrary application is run maximalized, gnome panel is over it, what is very uncomfortable.

Other information:
I use gentoo, gnome-panel-2.24.3-r1, gnome  2.24.3. 
emerge --info
Portage 2.1.6.13 (default/linux/amd64/2008.0/desktop, gcc-4.3.3, glibc-2.9_p20081201-r2, 2.6.29-gentoo-r1 x86_64)
=================================================================
System uname: Linux-2.6.29-gentoo-r1-x86_64-Intel-R-_Core-TM-2_Duo_CPU_T7700_@_2.40GHz-with-gentoo-2.0.0
Timestamp of tree: Wed, 06 May 2009 01:45:03 +0000
ccache version 2.4 [enabled]
app-shells/bash:     4.0_p17-r1
dev-java/java-config: 1.3.7-r1, 2.1.7
dev-lang/python:     2.5.4-r2, 2.6.2
dev-python/pycrypto: 2.0.1-r8
dev-util/ccache:     2.4-r8
dev-util/cmake:      2.6.3-r1
sys-apps/baselayout: 2.0.0
sys-apps/openrc:     0.4.3-r2
sys-apps/sandbox:    1.9
sys-devel/autoconf:  2.13, 2.63-r1
sys-devel/automake:  1.5, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10.2
sys-devel/binutils:  2.19.1-r1
sys-devel/gcc-config: 1.4.1
sys-devel/libtool:   2.2.6a
virtual/os-headers:  2.6.28-r1
ACCEPT_KEYWORDS="amd64 ~amd64"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -pipe -march=nocona"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/kde/3.5/env /usr/kde/3.5/share/config /usr/kde/3.5/shutdown /usr/share/config"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo /etc/udev/rules.d"
CXXFLAGS="-O2 -pipe -march=nocona"
DISTDIR="/usr/portage/distfiles"
FEATURES="ccache distlocks fixpackages parallel-fetch protect-owned sandbox sfperms strict unmerge-orphans userfetch"
GENTOO_MIRRORS="http://ftp.fi.muni.cz/pub/linux/gentoo/ ftp://ftp.fi.muni.cz/pub/linux/gentoo/ http://gentoo.supp.name/ http://gentoo.mirror.web4u.cz/ ftp://gentoo.mirror.web4u.cz/ ftp://ftp.wh2.tu-dresden.de/pub/mirrors/gentoo "
LANG="cs_CZ.UTF-8"
LC_ALL="cs_CZ.UTF-8"
LDFLAGS="-Wl,-O1"
LINGUAS="cs en"
MAKEOPTS="-j3"