2024-12-06 10:35:05,061 Running colabfold 1.5.5 (a69c85fb950bb5a8936e440e12bdb7d2f358d2e3)
2024-12-06 10:35:05,379 Running on GPU
2024-12-06 10:35:10,287 Found 6 citations for tools or databases
2024-12-06 10:35:10,287 Query 1/1: HERC3_NUDCD2 (length 1207)
2024-12-06 10:35:10,605 Sleeping for 10s. Reason: PENDING
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2024-12-06 10:41:35,815 Setting max_seq=508, max_extra_seq=2048
2024-12-06 10:44:48,190 alphafold2_multimer_v3_model_1_seed_000 recycle=0 pLDDT=80.2 pTM=0.714 ipTM=0.167
2024-12-06 10:45:23,727 alphafold2_multimer_v3_model_1_seed_000 recycle=1 pLDDT=81.4 pTM=0.719 ipTM=0.169 tol=3.27
2024-12-06 10:45:59,454 alphafold2_multimer_v3_model_1_seed_000 recycle=2 pLDDT=81.7 pTM=0.725 ipTM=0.228 tol=12.5
2024-12-06 10:46:35,376 alphafold2_multimer_v3_model_1_seed_000 recycle=3 pLDDT=81.6 pTM=0.718 ipTM=0.171 tol=2.85
2024-12-06 10:47:11,320 alphafold2_multimer_v3_model_1_seed_000 recycle=4 pLDDT=81.8 pTM=0.723 ipTM=0.171 tol=2.04
2024-12-06 10:47:47,317 alphafold2_multimer_v3_model_1_seed_000 recycle=5 pLDDT=81.6 pTM=0.721 ipTM=0.17 tol=1.03
2024-12-06 10:48:23,324 alphafold2_multimer_v3_model_1_seed_000 recycle=6 pLDDT=81.8 pTM=0.723 ipTM=0.167 tol=0.539
2024-12-06 10:48:59,306 alphafold2_multimer_v3_model_1_seed_000 recycle=7 pLDDT=81.9 pTM=0.728 ipTM=0.22 tol=4.8
2024-12-06 10:49:35,361 alphafold2_multimer_v3_model_1_seed_000 recycle=8 pLDDT=82.2 pTM=0.725 ipTM=0.181 tol=1.72
2024-12-06 10:50:11,427 alphafold2_multimer_v3_model_1_seed_000 recycle=9 pLDDT=81.6 pTM=0.719 ipTM=0.175 tol=1.37
2024-12-06 10:50:47,510 alphafold2_multimer_v3_model_1_seed_000 recycle=10 pLDDT=81.1 pTM=0.719 ipTM=0.168 tol=3.2
2024-12-06 10:51:23,555 alphafold2_multimer_v3_model_1_seed_000 recycle=11 pLDDT=81.7 pTM=0.724 ipTM=0.191 tol=2.91
2024-12-06 10:51:59,621 alphafold2_multimer_v3_model_1_seed_000 recycle=12 pLDDT=81.5 pTM=0.719 ipTM=0.167 tol=1.22
2024-12-06 10:52:35,711 alphafold2_multimer_v3_model_1_seed_000 recycle=13 pLDDT=81.6 pTM=0.721 ipTM=0.158 tol=1.54
2024-12-06 10:53:11,779 alphafold2_multimer_v3_model_1_seed_000 recycle=14 pLDDT=81.9 pTM=0.716 ipTM=0.154 tol=2.13
2024-12-06 10:53:47,873 alphafold2_multimer_v3_model_1_seed_000 recycle=15 pLDDT=82.1 pTM=0.72 ipTM=0.151 tol=1.81
2024-12-06 10:54:23,936 alphafold2_multimer_v3_model_1_seed_000 recycle=16 pLDDT=81.6 pTM=0.716 ipTM=0.159 tol=1.03
2024-12-06 10:55:00,039 alphafold2_multimer_v3_model_1_seed_000 recycle=17 pLDDT=82 pTM=0.717 ipTM=0.152 tol=1.33
2024-12-06 10:55:36,083 alphafold2_multimer_v3_model_1_seed_000 recycle=18 pLDDT=82.4 pTM=0.727 ipTM=0.215 tol=5.18
2024-12-06 10:56:12,116 alphafold2_multimer_v3_model_1_seed_000 recycle=19 pLDDT=82.1 pTM=0.715 ipTM=0.165 tol=1.99
2024-12-06 10:56:48,139 alphafold2_multimer_v3_model_1_seed_000 recycle=20 pLDDT=81.9 pTM=0.715 ipTM=0.165 tol=1.64
2024-12-06 10:57:24,159 alphafold2_multimer_v3_model_1_seed_000 recycle=21 pLDDT=81.6 pTM=0.712 ipTM=0.153 tol=3.71
2024-12-06 10:58:00,181 alphafold2_multimer_v3_model_1_seed_000 recycle=22 pLDDT=81.8 pTM=0.72 ipTM=0.194 tol=3.87
2024-12-06 10:58:36,214 alphafold2_multimer_v3_model_1_seed_000 recycle=23 pLDDT=81.7 pTM=0.715 ipTM=0.172 tol=1.14
2024-12-06 10:59:12,261 alphafold2_multimer_v3_model_1_seed_000 recycle=24 pLDDT=81.8 pTM=0.714 ipTM=0.167 tol=1.59
2024-12-06 10:59:48,330 alphafold2_multimer_v3_model_1_seed_000 recycle=25 pLDDT=82 pTM=0.72 ipTM=0.168 tol=1.73
2024-12-06 11:00:24,451 alphafold2_multimer_v3_model_1_seed_000 recycle=26 pLDDT=81.9 pTM=0.715 ipTM=0.156 tol=1.31
2024-12-06 11:01:00,545 alphafold2_multimer_v3_model_1_seed_000 recycle=27 pLDDT=81.6 pTM=0.709 ipTM=0.154 tol=0.644
2024-12-06 11:01:36,607 alphafold2_multimer_v3_model_1_seed_000 recycle=28 pLDDT=81.4 pTM=0.711 ipTM=0.155 tol=2.09
2024-12-06 11:02:12,618 alphafold2_multimer_v3_model_1_seed_000 recycle=29 pLDDT=81.8 pTM=0.719 ipTM=0.183 tol=4.01
2024-12-06 11:02:48,598 alphafold2_multimer_v3_model_1_seed_000 recycle=30 pLDDT=81.9 pTM=0.718 ipTM=0.179 tol=0.837
2024-12-06 11:02:48,599 alphafold2_multimer_v3_model_1_seed_000 took 1267.5s (30 recycles)
2024-12-06 11:03:25,411 alphafold2_multimer_v3_model_2_seed_000 recycle=0 pLDDT=80.8 pTM=0.73 ipTM=0.208
2024-12-06 11:04:01,429 alphafold2_multimer_v3_model_2_seed_000 recycle=1 pLDDT=81.7 pTM=0.732 ipTM=0.187 tol=6.46
2024-12-06 11:04:37,424 alphafold2_multimer_v3_model_2_seed_000 recycle=2 pLDDT=83.2 pTM=0.738 ipTM=0.211 tol=8.72
2024-12-06 11:05:13,352 alphafold2_multimer_v3_model_2_seed_000 recycle=3 pLDDT=84.1 pTM=0.749 ipTM=0.301 tol=2.89
2024-12-06 11:05:49,326 alphafold2_multimer_v3_model_2_seed_000 recycle=4 pLDDT=84.5 pTM=0.753 ipTM=0.31 tol=0.739
2024-12-06 11:06:25,301 alphafold2_multimer_v3_model_2_seed_000 recycle=5 pLDDT=84.2 pTM=0.745 ipTM=0.255 tol=1.17
2024-12-06 11:07:01,293 alphafold2_multimer_v3_model_2_seed_000 recycle=6 pLDDT=84.1 pTM=0.744 ipTM=0.225 tol=1.47
2024-12-06 11:07:37,316 alphafold2_multimer_v3_model_2_seed_000 recycle=7 pLDDT=83.7 pTM=0.737 ipTM=0.202 tol=2.25
2024-12-06 11:08:13,387 alphafold2_multimer_v3_model_2_seed_000 recycle=8 pLDDT=83.7 pTM=0.738 ipTM=0.179 tol=3.95
2024-12-06 11:08:49,447 alphafold2_multimer_v3_model_2_seed_000 recycle=9 pLDDT=82.9 pTM=0.732 ipTM=0.174 tol=3.8
2024-12-06 11:09:25,454 alphafold2_multimer_v3_model_2_seed_000 recycle=10 pLDDT=82.6 pTM=0.727 ipTM=0.173 tol=0.991
2024-12-06 11:10:01,474 alphafold2_multimer_v3_model_2_seed_000 recycle=11 pLDDT=82.8 pTM=0.729 ipTM=0.17 tol=1.06
2024-12-06 11:10:37,482 alphafold2_multimer_v3_model_2_seed_000 recycle=12 pLDDT=82.8 pTM=0.729 ipTM=0.173 tol=1.24
2024-12-06 11:11:13,497 alphafold2_multimer_v3_model_2_seed_000 recycle=13 pLDDT=82.9 pTM=0.729 ipTM=0.166 tol=1.81
2024-12-06 11:11:49,527 alphafold2_multimer_v3_model_2_seed_000 recycle=14 pLDDT=83 pTM=0.728 ipTM=0.164 tol=0.838
2024-12-06 11:12:25,548 alphafold2_multimer_v3_model_2_seed_000 recycle=15 pLDDT=83.3 pTM=0.734 ipTM=0.169 tol=0.561
2024-12-06 11:13:01,526 alphafold2_multimer_v3_model_2_seed_000 recycle=16 pLDDT=83.1 pTM=0.73 ipTM=0.165 tol=0.458
2024-12-06 11:13:01,527 alphafold2_multimer_v3_model_2_seed_000 took 612.1s (16 recycles)
2024-12-06 11:13:38,365 alphafold2_multimer_v3_model_3_seed_000 recycle=0 pLDDT=82.9 pTM=0.724 ipTM=0.212
2024-12-06 11:14:14,319 alphafold2_multimer_v3_model_3_seed_000 recycle=1 pLDDT=82.3 pTM=0.718 ipTM=0.149 tol=11.9
2024-12-06 11:14:50,275 alphafold2_multimer_v3_model_3_seed_000 recycle=2 pLDDT=82.2 pTM=0.73 ipTM=0.175 tol=9.02
2024-12-06 11:15:26,203 alphafold2_multimer_v3_model_3_seed_000 recycle=3 pLDDT=81.8 pTM=0.726 ipTM=0.175 tol=14.4
2024-12-06 11:16:02,154 alphafold2_multimer_v3_model_3_seed_000 recycle=4 pLDDT=82.4 pTM=0.734 ipTM=0.186 tol=14.9
2024-12-06 11:16:38,129 alphafold2_multimer_v3_model_3_seed_000 recycle=5 pLDDT=82.7 pTM=0.738 ipTM=0.2 tol=15.4
2024-12-06 11:17:14,099 alphafold2_multimer_v3_model_3_seed_000 recycle=6 pLDDT=84.4 pTM=0.763 ipTM=0.349 tol=17.7
2024-12-06 11:17:50,089 alphafold2_multimer_v3_model_3_seed_000 recycle=7 pLDDT=83.4 pTM=0.747 ipTM=0.246 tol=0.862
2024-12-06 11:18:26,116 alphafold2_multimer_v3_model_3_seed_000 recycle=8 pLDDT=83.8 pTM=0.751 ipTM=0.287 tol=0.775
2024-12-06 11:19:02,157 alphafold2_multimer_v3_model_3_seed_000 recycle=9 pLDDT=84.5 pTM=0.759 ipTM=0.32 tol=0.295
2024-12-06 11:19:02,158 alphafold2_multimer_v3_model_3_seed_000 took 359.7s (9 recycles)
2024-12-06 11:19:39,098 alphafold2_multimer_v3_model_4_seed_000 recycle=0 pLDDT=81.1 pTM=0.722 ipTM=0.167
2024-12-06 11:20:15,106 alphafold2_multimer_v3_model_4_seed_000 recycle=1 pLDDT=80.8 pTM=0.725 ipTM=0.187 tol=3.88
2024-12-06 11:20:51,147 alphafold2_multimer_v3_model_4_seed_000 recycle=2 pLDDT=79.9 pTM=0.72 ipTM=0.177 tol=7.95
2024-12-06 11:21:27,159 alphafold2_multimer_v3_model_4_seed_000 recycle=3 pLDDT=82.4 pTM=0.74 ipTM=0.274 tol=15.2
2024-12-06 11:22:03,193 alphafold2_multimer_v3_model_4_seed_000 recycle=4 pLDDT=83.8 pTM=0.749 ipTM=0.268 tol=2.72
2024-12-06 11:22:39,222 alphafold2_multimer_v3_model_4_seed_000 recycle=5 pLDDT=81.9 pTM=0.733 ipTM=0.195 tol=7.02
2024-12-06 11:23:15,236 alphafold2_multimer_v3_model_4_seed_000 recycle=6 pLDDT=81.2 pTM=0.731 ipTM=0.183 tol=2.68
2024-12-06 11:23:51,222 alphafold2_multimer_v3_model_4_seed_000 recycle=7 pLDDT=82.2 pTM=0.736 ipTM=0.244 tol=9.74
2024-12-06 11:24:27,196 alphafold2_multimer_v3_model_4_seed_000 recycle=8 pLDDT=83.6 pTM=0.745 ipTM=0.259 tol=1.08
2024-12-06 11:25:03,170 alphafold2_multimer_v3_model_4_seed_000 recycle=9 pLDDT=82.3 pTM=0.735 ipTM=0.233 tol=0.869
2024-12-06 11:25:39,140 alphafold2_multimer_v3_model_4_seed_000 recycle=10 pLDDT=82.1 pTM=0.735 ipTM=0.242 tol=0.31
2024-12-06 11:25:39,141 alphafold2_multimer_v3_model_4_seed_000 took 396.1s (10 recycles)
2024-12-06 11:26:16,091 alphafold2_multimer_v3_model_5_seed_000 recycle=0 pLDDT=81.8 pTM=0.718 ipTM=0.182
2024-12-06 11:26:52,205 alphafold2_multimer_v3_model_5_seed_000 recycle=1 pLDDT=81.4 pTM=0.713 ipTM=0.155 tol=15.4
2024-12-06 11:27:28,313 alphafold2_multimer_v3_model_5_seed_000 recycle=2 pLDDT=81.2 pTM=0.71 ipTM=0.159 tol=2.31
2024-12-06 11:28:04,415 alphafold2_multimer_v3_model_5_seed_000 recycle=3 pLDDT=81.6 pTM=0.709 ipTM=0.161 tol=3.52
2024-12-06 11:28:40,452 alphafold2_multimer_v3_model_5_seed_000 recycle=4 pLDDT=81.7 pTM=0.709 ipTM=0.162 tol=1.49
2024-12-06 11:29:16,509 alphafold2_multimer_v3_model_5_seed_000 recycle=5 pLDDT=82.2 pTM=0.712 ipTM=0.161 tol=9.49
2024-12-06 11:29:52,525 alphafold2_multimer_v3_model_5_seed_000 recycle=6 pLDDT=82.2 pTM=0.716 ipTM=0.159 tol=1.57
2024-12-06 11:30:28,546 alphafold2_multimer_v3_model_5_seed_000 recycle=7 pLDDT=81.6 pTM=0.711 ipTM=0.154 tol=4.75
2024-12-06 11:31:04,592 alphafold2_multimer_v3_model_5_seed_000 recycle=8 pLDDT=82.4 pTM=0.716 ipTM=0.156 tol=3.3
2024-12-06 11:31:40,566 alphafold2_multimer_v3_model_5_seed_000 recycle=9 pLDDT=82.1 pTM=0.712 ipTM=0.157 tol=1.45
2024-12-06 11:32:16,498 alphafold2_multimer_v3_model_5_seed_000 recycle=10 pLDDT=81.8 pTM=0.712 ipTM=0.163 tol=2.22
2024-12-06 11:32:52,429 alphafold2_multimer_v3_model_5_seed_000 recycle=11 pLDDT=81.6 pTM=0.712 ipTM=0.155 tol=4.26
2024-12-06 11:33:28,320 alphafold2_multimer_v3_model_5_seed_000 recycle=12 pLDDT=82.5 pTM=0.722 ipTM=0.193 tol=10.9
2024-12-06 11:34:04,255 alphafold2_multimer_v3_model_5_seed_000 recycle=13 pLDDT=82.2 pTM=0.722 ipTM=0.176 tol=1.62
2024-12-06 11:34:40,221 alphafold2_multimer_v3_model_5_seed_000 recycle=14 pLDDT=81.6 pTM=0.711 ipTM=0.157 tol=7.11
2024-12-06 11:35:16,190 alphafold2_multimer_v3_model_5_seed_000 recycle=15 pLDDT=82.3 pTM=0.718 ipTM=0.164 tol=2.39
2024-12-06 11:35:52,165 alphafold2_multimer_v3_model_5_seed_000 recycle=16 pLDDT=82.4 pTM=0.719 ipTM=0.172 tol=3.43
2024-12-06 11:36:28,180 alphafold2_multimer_v3_model_5_seed_000 recycle=17 pLDDT=81.6 pTM=0.708 ipTM=0.157 tol=3.91
2024-12-06 11:37:04,185 alphafold2_multimer_v3_model_5_seed_000 recycle=18 pLDDT=82.1 pTM=0.714 ipTM=0.161 tol=0.791
2024-12-06 11:37:40,147 alphafold2_multimer_v3_model_5_seed_000 recycle=19 pLDDT=82.3 pTM=0.72 ipTM=0.201 tol=7.88
2024-12-06 11:38:16,172 alphafold2_multimer_v3_model_5_seed_000 recycle=20 pLDDT=82 pTM=0.715 ipTM=0.164 tol=5.62
2024-12-06 11:38:52,212 alphafold2_multimer_v3_model_5_seed_000 recycle=21 pLDDT=81.5 pTM=0.71 ipTM=0.152 tol=4.7
2024-12-06 11:39:28,241 alphafold2_multimer_v3_model_5_seed_000 recycle=22 pLDDT=81.8 pTM=0.708 ipTM=0.16 tol=0.995
2024-12-06 11:40:04,289 alphafold2_multimer_v3_model_5_seed_000 recycle=23 pLDDT=81.5 pTM=0.706 ipTM=0.156 tol=0.922
2024-12-06 11:40:40,336 alphafold2_multimer_v3_model_5_seed_000 recycle=24 pLDDT=81.6 pTM=0.709 ipTM=0.159 tol=0.644
2024-12-06 11:41:16,421 alphafold2_multimer_v3_model_5_seed_000 recycle=25 pLDDT=81.4 pTM=0.708 ipTM=0.158 tol=2.48
2024-12-06 11:41:52,455 alphafold2_multimer_v3_model_5_seed_000 recycle=26 pLDDT=81.9 pTM=0.715 ipTM=0.202 tol=11.1
2024-12-06 11:42:28,520 alphafold2_multimer_v3_model_5_seed_000 recycle=27 pLDDT=81.9 pTM=0.719 ipTM=0.181 tol=1.27
2024-12-06 11:43:04,584 alphafold2_multimer_v3_model_5_seed_000 recycle=28 pLDDT=81.6 pTM=0.709 ipTM=0.152 tol=8.81
2024-12-06 11:43:40,626 alphafold2_multimer_v3_model_5_seed_000 recycle=29 pLDDT=81.6 pTM=0.709 ipTM=0.159 tol=1.28
2024-12-06 11:44:16,627 alphafold2_multimer_v3_model_5_seed_000 recycle=30 pLDDT=81.3 pTM=0.707 ipTM=0.154 tol=1.67
2024-12-06 11:44:16,628 alphafold2_multimer_v3_model_5_seed_000 took 1116.6s (30 recycles)
2024-12-06 11:44:17,507 reranking models by 'multimer' metric
2024-12-06 11:44:21,027 Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
2024-12-06 11:45:04,542 Relaxation took 47.0s
2024-12-06 11:45:04,542 rank_001_alphafold2_multimer_v3_model_3_seed_000 pLDDT=84.5 pTM=0.759 ipTM=0.32
2024-12-06 11:47:05,820 Relaxation took 121.3s
2024-12-06 11:47:05,820 rank_002_alphafold2_multimer_v3_model_4_seed_000 pLDDT=82.1 pTM=0.735 ipTM=0.242
2024-12-06 11:49:07,248 Relaxation took 121.4s
2024-12-06 11:49:07,248 rank_003_alphafold2_multimer_v3_model_1_seed_000 pLDDT=81.9 pTM=0.718 ipTM=0.179
2024-12-06 11:50:37,180 Relaxation took 89.9s
2024-12-06 11:50:37,180 rank_004_alphafold2_multimer_v3_model_2_seed_000 pLDDT=83.1 pTM=0.73 ipTM=0.165
2024-12-06 12:00:44,322 Relaxation took 607.1s
2024-12-06 12:00:44,322 rank_005_alphafold2_multimer_v3_model_5_seed_000 pLDDT=81.3 pTM=0.707 ipTM=0.154
2024-12-06 12:00:46,693 Done