| Venue: Kings Park Stadium. |   
| Final started at 16:45 | time |   | bib |  | 1. Baboloki Thebe |  BOT | 44.69s | Oq | 319 |  | 2. Karabo Sibanda |  BOT | 45.42s |   | 316 |  | 3. Chidi Okezie |  NGR | 45.76s |   | 767 |  | 4. Isaac Makwala |  BOT | 46.58s |   | 304 |  | 5. Alagie Salim Drammeh |  GAM | 46.71s |   | 506 |  | 6. Raymond Kibet |  KEN | 46.80s |   | 588 |  | 7. Alphas Kishoyian |  KEN | 46.95s |   | 600 |  | -. Sadam Koumi |  SUD | Disq |   | 141 |   
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| Entry Standard 46.5s/46.64s to be obtained from January 1, 2015 to May 23, 2016. |  | Olympic Standard 45.40s to be obtained from January 1, 2015 to July 11, 2016. |   
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| Semi 1 started at 16:30 | time |   | bib |  | 1. Karabo Sibanda |  BOT | 46.23m |   | 316 |  | 2. Alagie Salim Drammeh |  GAM | 46.41m |   | 506 |  | 3. Raymond Kibet |  KEN | 46.70m |   | 588 |  | 4. Pieter Conradie |  RSA | 46.94m |   | 51 |  | 5. Tubotein Taylor |  NGR | 47.00m |   | 768 |  | 6. Nigel Tom |  ZIM | 47.93m |   | 234 |  | 7. Louis Mashaba |  SWZ | 48.33m |   | 151 |  | -. Abdelazim M Mohmed |  SUD | DNS |   | 143 |   
| Semi 2 | time |   | bib |  | 1. Baboloki Thebe |  BOT | 45.75s |   | 319 |  | 2. Chidi Okezie |  NGR | 45.80s |   | 767 |  | 3. Alphas Kishoyian |  KEN | 46.51s |   | 600 |  | 4. Emmanuel Dasor |  GHA | 47.12s |   | 546 |  | 5. Leonard Opiny |  UGA | 47.40s |   | 185 |  | 6. Thapelo Phora |  RSA | 47.73s |   | 82 |  | 7. Manqoba Nyoni |  SWZ | 48.08s |   | 155 |  | 8. Basilius Karupu |  NAM | 49.29s |   | 715 |   
| Semi 3 | time |   | bib |  | 1. Sadam Koumi |  SUD | 45.80s |   | 141 |  | 2. Isaac Makwala |  BOT | 45.96s |   | 304 |  | 3. Stanley Kieti |  KEN | 46.81s |   | 590 |  | 4. Orukpe Eraiyokan |  NGR | 46.84s |   | 758 |  | 5. Gilles Antonny Afoumba |  CGO | 47.62s |   | 342 |  | 6. Connias Mudzingwa |  ZIM | 47.82s |   | 221 |  | 7. Ahmat Mahamat Bachir |  CHA | 49.36s |   | 354 |  | -. Shaun De Jager |  RSA | Disq |   | 54 |  | -. Francine Niyomukunzi |  BDI | DNS |   | 278 |  | -. Alemaz Samuel Teshale |  ETH | DNS |   | 466 |   
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| Heat 1 started at 16:00 | time |   | bib |  | 1. Isaac Makwala |  BOT | 46.14s |   | 304 |  | 2. Alphas Kishoyian |  KEN | 46.56s |   | 600 |  | 3. Gilles Antonny Afoumba |  CGO | 47.08s |   | 342 |  | 4. Nigel Tom |  ZIM | 47.45s |   | 234 |  | 5. Thapelo Phora |  RSA | 47.64s |   | 82 |  | 6. Louis Mashaba |  SWZ | 47.92s |   | 151 |  | 7. Pius Adome |  UGA | 49.44s |   | 181 |  | -. Papy Kibambe-Ngoy |  COD | DNS |   | 395 |   
| Heat 2 | time |   | bib |  | 1. Baboloki Thebe |  BOT | 46.00s |   | 319 |  | 2. Chidi Okezie |  NGR | 46.30s |   | 767 |  | 3. Raymond Kibet |  KEN | 46.78s |   | 588 |  | 4. Leonard Opiny |  UGA | 47.15s |   | 185 |  | 5. Manqoba Nyoni |  SWZ | 48.76s |   | 155 |  | 6. Saviour Kombe |  ZAM | 49.07s |   | 936 |  | 7. Gilberto Leite |  STP | 51.77s |   | 125 |  | -. Abdallah Albein Abbo |  CHA | DNS |   | 352 |   
| Heat 3 | time |   | bib |  | 1. Pieter Conradie |  RSA | 46.45s |   | 51 |  | 2. Alagie Salim Drammeh |  GAM | 46.55s |   | 506 |  | 3. Emmanuel Dasor |  GHA | 46.71s |   | 546 |  | 4. Tubotein Taylor |  NGR | 46.93s |   | 768 |  | 5. Orukpe Eraiyokan |  NGR | 48.10s |   | 758 |  | 6. Gemchu Alemu Lema |  ETH | 49.07s |   | 486 |  | 7. Gift Ngwenya |  ZIM | 50.58s |   | 229 |   
| Heat 4 | time |   | bib |  | 1. Shaun De Jager |  RSA | 48.06s |   | 54 |  | 2. Ahmat Mahamat Bachir |  CHA | 49.13s |   | 354 |  | 3. Abdelazim M Mohmed |  SUD | 50.42s |   | 143 |  | -. Onkabetse Nkobolo |  BOT | Disq |   | 312 |  | -. Samuel Yaro |  GHA | DNS |   | 557 |  | -. Adekunle Fasasi |  NGR | DNS |   | 759 |  | -. Abduraman Abdo Buse |  ETH | DNS |   | 479 |   
| Heat 5 | time |   | bib |  | 1. Karabo Sibanda |  BOT | 45.99s |   | 316 |  | 2. Sadam Koumi |  SUD | 46.04s |   | 141 |  | 3. Stanley Kieti |  KEN | 46.64s |   | 590 |  | 4. Basilius Karupu |  NAM | 48.86s |   | 715 |  | 5. Connias Mudzingwa |  ZIM | 48.89s |   | 221 |  | -. Creve Machava |  MOZ | DNS |   | 675 |  | -. Stephan Ukele |  SSD | DNS |   | 785 |   
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