Alcatraz - Xcode command line tools are not currently installed
After installing git-2.5.3-intel-universal-mavericks you have at least three git executables on your Mac: 


/Applications/Xcode.app/Contents/Developer/usr/bin/git (v2.3.8 (Apple Git-58))
/usr/local/git/bin/git (v2.5.3)
/usr/bin/git (which is a stub only)


If you've followed the instructions in the README.txt inside the git-2.5.3-intel-universal-mavericks.dmg you probably renamed the original git stub:

sudo mv /usr/bin/git /usr/bin/git-system


Renaming or removing the stub already breaks Alcatraz.

You may now whether rename git-system:

sudo mv /usr/bin/git-system /usr/bin/git


or reinstall git-2.5.3-intel-universal-mavericks and link the GIT-git to /usr/bin:

sudo ln -s /usr/local/git/bin/git /usr/bin


to fix your issue.