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The Russian Soyuz system has two compartments: one for the cosmonauts the other for the space junk they're going to let burn up in the re-entry. It's a sort of figure-8 arrangement with the cosmonauts in the bottom part and the junk in the top part, falling downward.
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You can see this figure-8 shaped Soyuz in the unit attached to the ISS. Soyuz is the dark gray thing in the following image:
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The following diagram shows 6 visiting vehicles in Feb 2011; two Soyuz modules (TMA-01M and TMA-20) as well as a Progress M-09M, HTV-2, ATV-2, and STS-133 Discovery (Space Shuttle), all attached to the ISS:
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There is a heat shield on one end of the crew's compartment:
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The internal quarters for the cosmonauts is very cramped, but they say it's "comfortable." The seats are custom-molded to the shape of each man's body, but they don't have much room to move around inside:
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When it's all over, the Soyuz re-entry unit gets quite charred on the outside from the hot air friction of re-entry: