2024-12-06 10:54:00,178 Running colabfold 1.5.5 (a69c85fb950bb5a8936e440e12bdb7d2f358d2e3)
2024-12-06 10:54:00,527 Running on GPU
2024-12-06 10:54:04,768 Found 6 citations for tools or databases
2024-12-06 10:54:04,768 Query 1/1: HERC4_MOCS3 (length 1517)
2024-12-06 10:54:05,058 Sleeping for 10s. Reason: PENDING
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2024-12-06 10:59:23,190 Sleeping for 7s. Reason: PENDING
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2024-12-06 11:01:35,588 Sleeping for 5s. Reason: RUNNING
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2024-12-06 11:02:04,639 Sleeping for 8s. Reason: RUNNING
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2024-12-06 11:02:22,168 Sleeping for 9s. Reason: RUNNING
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2024-12-06 11:02:38,697 Sleeping for 8s. Reason: RUNNING
2024-12-06 11:02:58,023 Setting max_seq=508, max_extra_seq=2048
2024-12-06 11:07:38,525 alphafold2_multimer_v3_model_1_seed_000 recycle=0 pLDDT=84.2 pTM=0.616 ipTM=0.176
2024-12-06 11:08:41,827 alphafold2_multimer_v3_model_1_seed_000 recycle=1 pLDDT=84.8 pTM=0.605 ipTM=0.209 tol=5.55
2024-12-06 11:09:45,336 alphafold2_multimer_v3_model_1_seed_000 recycle=2 pLDDT=84.9 pTM=0.599 ipTM=0.181 tol=5.86
2024-12-06 11:10:48,887 alphafold2_multimer_v3_model_1_seed_000 recycle=3 pLDDT=84.6 pTM=0.595 ipTM=0.179 tol=1.35
2024-12-06 11:11:52,488 alphafold2_multimer_v3_model_1_seed_000 recycle=4 pLDDT=84.6 pTM=0.594 ipTM=0.181 tol=3.31
2024-12-06 11:12:56,150 alphafold2_multimer_v3_model_1_seed_000 recycle=5 pLDDT=84.5 pTM=0.595 ipTM=0.184 tol=1.04
2024-12-06 11:13:59,857 alphafold2_multimer_v3_model_1_seed_000 recycle=6 pLDDT=84.4 pTM=0.593 ipTM=0.173 tol=0.95
2024-12-06 11:15:03,538 alphafold2_multimer_v3_model_1_seed_000 recycle=7 pLDDT=84.4 pTM=0.597 ipTM=0.171 tol=4.54
2024-12-06 11:16:07,206 alphafold2_multimer_v3_model_1_seed_000 recycle=8 pLDDT=84.2 pTM=0.596 ipTM=0.191 tol=2.71
2024-12-06 11:17:10,844 alphafold2_multimer_v3_model_1_seed_000 recycle=9 pLDDT=83.9 pTM=0.596 ipTM=0.224 tol=2.66
2024-12-06 11:18:14,469 alphafold2_multimer_v3_model_1_seed_000 recycle=10 pLDDT=83.8 pTM=0.595 ipTM=0.23 tol=1.78
2024-12-06 11:19:18,094 alphafold2_multimer_v3_model_1_seed_000 recycle=11 pLDDT=83.9 pTM=0.595 ipTM=0.206 tol=0.705
2024-12-06 11:20:21,742 alphafold2_multimer_v3_model_1_seed_000 recycle=12 pLDDT=83.8 pTM=0.591 ipTM=0.202 tol=1.85
2024-12-06 11:21:25,396 alphafold2_multimer_v3_model_1_seed_000 recycle=13 pLDDT=83.8 pTM=0.596 ipTM=0.217 tol=0.969
2024-12-06 11:22:29,017 alphafold2_multimer_v3_model_1_seed_000 recycle=14 pLDDT=83.9 pTM=0.595 ipTM=0.223 tol=0.542
2024-12-06 11:23:32,657 alphafold2_multimer_v3_model_1_seed_000 recycle=15 pLDDT=83.7 pTM=0.593 ipTM=0.21 tol=1.02
2024-12-06 11:24:36,272 alphafold2_multimer_v3_model_1_seed_000 recycle=16 pLDDT=83.7 pTM=0.591 ipTM=0.189 tol=0.894
2024-12-06 11:25:39,899 alphafold2_multimer_v3_model_1_seed_000 recycle=17 pLDDT=83.4 pTM=0.589 ipTM=0.237 tol=0.773
2024-12-06 11:26:43,551 alphafold2_multimer_v3_model_1_seed_000 recycle=18 pLDDT=83.9 pTM=0.591 ipTM=0.209 tol=0.645
2024-12-06 11:27:47,171 alphafold2_multimer_v3_model_1_seed_000 recycle=19 pLDDT=83.6 pTM=0.592 ipTM=0.223 tol=0.687
2024-12-06 11:28:50,766 alphafold2_multimer_v3_model_1_seed_000 recycle=20 pLDDT=83.5 pTM=0.591 ipTM=0.236 tol=0.695
2024-12-06 11:29:54,349 alphafold2_multimer_v3_model_1_seed_000 recycle=21 pLDDT=83.6 pTM=0.594 ipTM=0.233 tol=1.11
2024-12-06 11:30:57,970 alphafold2_multimer_v3_model_1_seed_000 recycle=22 pLDDT=83.4 pTM=0.587 ipTM=0.234 tol=1.22
2024-12-06 11:32:01,596 alphafold2_multimer_v3_model_1_seed_000 recycle=23 pLDDT=83.3 pTM=0.587 ipTM=0.197 tol=0.829
2024-12-06 11:33:05,181 alphafold2_multimer_v3_model_1_seed_000 recycle=24 pLDDT=83.4 pTM=0.587 ipTM=0.186 tol=1.3
2024-12-06 11:34:08,767 alphafold2_multimer_v3_model_1_seed_000 recycle=25 pLDDT=83.3 pTM=0.587 ipTM=0.186 tol=0.712
2024-12-06 11:35:12,373 alphafold2_multimer_v3_model_1_seed_000 recycle=26 pLDDT=83.4 pTM=0.589 ipTM=0.216 tol=1.43
2024-12-06 11:36:15,972 alphafold2_multimer_v3_model_1_seed_000 recycle=27 pLDDT=83.4 pTM=0.588 ipTM=0.226 tol=1.38
2024-12-06 11:37:19,550 alphafold2_multimer_v3_model_1_seed_000 recycle=28 pLDDT=83.5 pTM=0.589 ipTM=0.193 tol=0.903
2024-12-06 11:38:23,245 alphafold2_multimer_v3_model_1_seed_000 recycle=29 pLDDT=83.4 pTM=0.589 ipTM=0.223 tol=0.996
2024-12-06 11:39:26,866 alphafold2_multimer_v3_model_1_seed_000 recycle=30 pLDDT=83.6 pTM=0.592 ipTM=0.214 tol=0.99
2024-12-06 11:39:26,868 alphafold2_multimer_v3_model_1_seed_000 took 2181.9s (30 recycles)
2024-12-06 11:40:32,185 alphafold2_multimer_v3_model_2_seed_000 recycle=0 pLDDT=84.2 pTM=0.616 ipTM=0.222
2024-12-06 11:41:35,902 alphafold2_multimer_v3_model_2_seed_000 recycle=1 pLDDT=85.4 pTM=0.62 ipTM=0.183 tol=6.79
2024-12-06 11:42:39,663 alphafold2_multimer_v3_model_2_seed_000 recycle=2 pLDDT=85.6 pTM=0.614 ipTM=0.161 tol=7.66
2024-12-06 11:43:43,461 alphafold2_multimer_v3_model_2_seed_000 recycle=3 pLDDT=85.5 pTM=0.608 ipTM=0.158 tol=3.12
2024-12-06 11:44:47,203 alphafold2_multimer_v3_model_2_seed_000 recycle=4 pLDDT=85.7 pTM=0.608 ipTM=0.162 tol=2.67
2024-12-06 11:45:50,978 alphafold2_multimer_v3_model_2_seed_000 recycle=5 pLDDT=85.9 pTM=0.609 ipTM=0.16 tol=6.7
2024-12-06 11:46:54,791 alphafold2_multimer_v3_model_2_seed_000 recycle=6 pLDDT=85.8 pTM=0.607 ipTM=0.155 tol=2.43
2024-12-06 11:47:58,606 alphafold2_multimer_v3_model_2_seed_000 recycle=7 pLDDT=85.8 pTM=0.608 ipTM=0.157 tol=7.56
2024-12-06 11:49:02,440 alphafold2_multimer_v3_model_2_seed_000 recycle=8 pLDDT=85.9 pTM=0.608 ipTM=0.156 tol=1.5
2024-12-06 11:50:06,263 alphafold2_multimer_v3_model_2_seed_000 recycle=9 pLDDT=85.8 pTM=0.611 ipTM=0.157 tol=3.5
2024-12-06 11:51:10,031 alphafold2_multimer_v3_model_2_seed_000 recycle=10 pLDDT=85.6 pTM=0.604 ipTM=0.156 tol=9.76
2024-12-06 11:52:13,856 alphafold2_multimer_v3_model_2_seed_000 recycle=11 pLDDT=85.7 pTM=0.607 ipTM=0.157 tol=10.3
2024-12-06 11:53:17,631 alphafold2_multimer_v3_model_2_seed_000 recycle=12 pLDDT=85.7 pTM=0.604 ipTM=0.156 tol=11.5
2024-12-06 11:54:21,379 alphafold2_multimer_v3_model_2_seed_000 recycle=13 pLDDT=85.5 pTM=0.605 ipTM=0.157 tol=9.62
2024-12-06 11:55:25,130 alphafold2_multimer_v3_model_2_seed_000 recycle=14 pLDDT=85.9 pTM=0.607 ipTM=0.156 tol=11.5
2024-12-06 11:56:28,907 alphafold2_multimer_v3_model_2_seed_000 recycle=15 pLDDT=85.8 pTM=0.608 ipTM=0.155 tol=3.05
2024-12-06 11:57:32,705 alphafold2_multimer_v3_model_2_seed_000 recycle=16 pLDDT=85.6 pTM=0.604 ipTM=0.157 tol=3.24
2024-12-06 11:58:36,524 alphafold2_multimer_v3_model_2_seed_000 recycle=17 pLDDT=85.6 pTM=0.603 ipTM=0.158 tol=6.25
2024-12-06 11:59:40,360 alphafold2_multimer_v3_model_2_seed_000 recycle=18 pLDDT=85.8 pTM=0.605 ipTM=0.155 tol=6.63
2024-12-06 12:00:44,190 alphafold2_multimer_v3_model_2_seed_000 recycle=19 pLDDT=85.7 pTM=0.605 ipTM=0.158 tol=6.1
2024-12-06 12:01:48,022 alphafold2_multimer_v3_model_2_seed_000 recycle=20 pLDDT=85.9 pTM=0.607 ipTM=0.155 tol=3.69
2024-12-06 12:02:51,866 alphafold2_multimer_v3_model_2_seed_000 recycle=21 pLDDT=86 pTM=0.607 ipTM=0.156 tol=1.25
2024-12-06 12:03:55,630 alphafold2_multimer_v3_model_2_seed_000 recycle=22 pLDDT=85.6 pTM=0.602 ipTM=0.159 tol=5.67
2024-12-06 12:04:59,416 alphafold2_multimer_v3_model_2_seed_000 recycle=23 pLDDT=85.1 pTM=0.6 ipTM=0.156 tol=8.14
2024-12-06 12:06:03,149 alphafold2_multimer_v3_model_2_seed_000 recycle=24 pLDDT=85.7 pTM=0.605 ipTM=0.16 tol=4.63
2024-12-06 12:07:06,910 alphafold2_multimer_v3_model_2_seed_000 recycle=25 pLDDT=85.4 pTM=0.604 ipTM=0.159 tol=1.48
2024-12-06 12:08:10,680 alphafold2_multimer_v3_model_2_seed_000 recycle=26 pLDDT=85.6 pTM=0.605 ipTM=0.162 tol=2.31
2024-12-06 12:09:14,455 alphafold2_multimer_v3_model_2_seed_000 recycle=27 pLDDT=85.6 pTM=0.604 ipTM=0.16 tol=1.88
2024-12-06 12:10:18,262 alphafold2_multimer_v3_model_2_seed_000 recycle=28 pLDDT=85.6 pTM=0.605 ipTM=0.158 tol=2.66
2024-12-06 12:11:22,102 alphafold2_multimer_v3_model_2_seed_000 recycle=29 pLDDT=85.5 pTM=0.604 ipTM=0.156 tol=8.72
2024-12-06 12:12:25,886 alphafold2_multimer_v3_model_2_seed_000 recycle=30 pLDDT=85.6 pTM=0.604 ipTM=0.159 tol=2.93
2024-12-06 12:12:25,888 alphafold2_multimer_v3_model_2_seed_000 took 1977.3s (30 recycles)
2024-12-06 12:13:31,266 alphafold2_multimer_v3_model_3_seed_000 recycle=0 pLDDT=83.8 pTM=0.602 ipTM=0.163
2024-12-06 12:14:34,901 alphafold2_multimer_v3_model_3_seed_000 recycle=1 pLDDT=83.9 pTM=0.611 ipTM=0.191 tol=23.3
2024-12-06 12:15:38,335 alphafold2_multimer_v3_model_3_seed_000 recycle=2 pLDDT=85.4 pTM=0.699 ipTM=0.545 tol=11.4
2024-12-06 12:16:41,830 alphafold2_multimer_v3_model_3_seed_000 recycle=3 pLDDT=85.3 pTM=0.699 ipTM=0.546 tol=1.11
2024-12-06 12:17:45,269 alphafold2_multimer_v3_model_3_seed_000 recycle=4 pLDDT=85.6 pTM=0.702 ipTM=0.543 tol=0.387
2024-12-06 12:17:45,271 alphafold2_multimer_v3_model_3_seed_000 took 317.6s (4 recycles)
2024-12-06 12:18:50,716 alphafold2_multimer_v3_model_4_seed_000 recycle=0 pLDDT=83 pTM=0.608 ipTM=0.161
2024-12-06 12:19:54,438 alphafold2_multimer_v3_model_4_seed_000 recycle=1 pLDDT=83.9 pTM=0.616 ipTM=0.172 tol=5.75
2024-12-06 12:20:58,140 alphafold2_multimer_v3_model_4_seed_000 recycle=2 pLDDT=84.1 pTM=0.615 ipTM=0.165 tol=2.81
2024-12-06 12:22:01,802 alphafold2_multimer_v3_model_4_seed_000 recycle=3 pLDDT=83.4 pTM=0.608 ipTM=0.165 tol=1.02
2024-12-06 12:23:05,441 alphafold2_multimer_v3_model_4_seed_000 recycle=4 pLDDT=84 pTM=0.612 ipTM=0.17 tol=3.91
2024-12-06 12:24:09,052 alphafold2_multimer_v3_model_4_seed_000 recycle=5 pLDDT=83.8 pTM=0.614 ipTM=0.178 tol=1.9
2024-12-06 12:25:12,691 alphafold2_multimer_v3_model_4_seed_000 recycle=6 pLDDT=84.1 pTM=0.616 ipTM=0.179 tol=0.827
2024-12-06 12:26:16,355 alphafold2_multimer_v3_model_4_seed_000 recycle=7 pLDDT=83.9 pTM=0.613 ipTM=0.175 tol=2.42
2024-12-06 12:27:19,994 alphafold2_multimer_v3_model_4_seed_000 recycle=8 pLDDT=83.8 pTM=0.611 ipTM=0.179 tol=4.21
2024-12-06 12:28:23,624 alphafold2_multimer_v3_model_4_seed_000 recycle=9 pLDDT=83.9 pTM=0.615 ipTM=0.184 tol=1.61
2024-12-06 12:29:27,239 alphafold2_multimer_v3_model_4_seed_000 recycle=10 pLDDT=83.9 pTM=0.615 ipTM=0.188 tol=2.39
2024-12-06 12:30:30,864 alphafold2_multimer_v3_model_4_seed_000 recycle=11 pLDDT=84.1 pTM=0.616 ipTM=0.186 tol=2.18
2024-12-06 12:31:34,500 alphafold2_multimer_v3_model_4_seed_000 recycle=12 pLDDT=84.1 pTM=0.617 ipTM=0.188 tol=0.56
2024-12-06 12:32:38,084 alphafold2_multimer_v3_model_4_seed_000 recycle=13 pLDDT=83.8 pTM=0.612 ipTM=0.184 tol=2.64
2024-12-06 12:33:41,692 alphafold2_multimer_v3_model_4_seed_000 recycle=14 pLDDT=83.7 pTM=0.61 ipTM=0.179 tol=1.06
2024-12-06 12:34:45,280 alphafold2_multimer_v3_model_4_seed_000 recycle=15 pLDDT=83.9 pTM=0.613 ipTM=0.185 tol=3.03
2024-12-06 12:35:48,816 alphafold2_multimer_v3_model_4_seed_000 recycle=16 pLDDT=83.7 pTM=0.609 ipTM=0.183 tol=0.754
2024-12-06 12:36:52,336 alphafold2_multimer_v3_model_4_seed_000 recycle=17 pLDDT=83.5 pTM=0.609 ipTM=0.185 tol=0.716
2024-12-06 12:37:55,886 alphafold2_multimer_v3_model_4_seed_000 recycle=18 pLDDT=83.9 pTM=0.611 ipTM=0.184 tol=0.799
2024-12-06 12:38:59,438 alphafold2_multimer_v3_model_4_seed_000 recycle=19 pLDDT=83.6 pTM=0.609 ipTM=0.183 tol=1.28
2024-12-06 12:40:02,985 alphafold2_multimer_v3_model_4_seed_000 recycle=20 pLDDT=83.6 pTM=0.609 ipTM=0.178 tol=2.94
2024-12-06 12:41:06,537 alphafold2_multimer_v3_model_4_seed_000 recycle=21 pLDDT=83.7 pTM=0.608 ipTM=0.178 tol=0.847
2024-12-06 12:42:10,120 alphafold2_multimer_v3_model_4_seed_000 recycle=22 pLDDT=83.8 pTM=0.607 ipTM=0.179 tol=2.07
2024-12-06 12:43:13,683 alphafold2_multimer_v3_model_4_seed_000 recycle=23 pLDDT=83.3 pTM=0.606 ipTM=0.182 tol=1.04
2024-12-06 12:44:17,265 alphafold2_multimer_v3_model_4_seed_000 recycle=24 pLDDT=83.7 pTM=0.608 ipTM=0.18 tol=0.769
2024-12-06 12:45:20,807 alphafold2_multimer_v3_model_4_seed_000 recycle=25 pLDDT=83.4 pTM=0.607 ipTM=0.182 tol=2.43
2024-12-06 12:46:24,366 alphafold2_multimer_v3_model_4_seed_000 recycle=26 pLDDT=83.6 pTM=0.609 ipTM=0.183 tol=1.6
2024-12-06 12:47:27,924 alphafold2_multimer_v3_model_4_seed_000 recycle=27 pLDDT=83.1 pTM=0.602 ipTM=0.18 tol=0.883
2024-12-06 12:48:31,526 alphafold2_multimer_v3_model_4_seed_000 recycle=28 pLDDT=83.6 pTM=0.605 ipTM=0.183 tol=2.82
2024-12-06 12:49:35,112 alphafold2_multimer_v3_model_4_seed_000 recycle=29 pLDDT=83.5 pTM=0.604 ipTM=0.182 tol=3.43
2024-12-06 12:50:38,717 alphafold2_multimer_v3_model_4_seed_000 recycle=30 pLDDT=83.6 pTM=0.608 ipTM=0.179 tol=1.17
2024-12-06 12:50:38,719 alphafold2_multimer_v3_model_4_seed_000 took 1971.7s (30 recycles)
2024-12-06 12:51:44,167 alphafold2_multimer_v3_model_5_seed_000 recycle=0 pLDDT=82.2 pTM=0.604 ipTM=0.165
2024-12-06 12:52:47,929 alphafold2_multimer_v3_model_5_seed_000 recycle=1 pLDDT=83.6 pTM=0.612 ipTM=0.163 tol=15.8
2024-12-06 12:53:51,470 alphafold2_multimer_v3_model_5_seed_000 recycle=2 pLDDT=84.5 pTM=0.69 ipTM=0.476 tol=11.6
2024-12-06 12:54:54,978 alphafold2_multimer_v3_model_5_seed_000 recycle=3 pLDDT=84.9 pTM=0.693 ipTM=0.473 tol=1.41
2024-12-06 12:55:58,475 alphafold2_multimer_v3_model_5_seed_000 recycle=4 pLDDT=84.9 pTM=0.685 ipTM=0.427 tol=0.62
2024-12-06 12:57:01,996 alphafold2_multimer_v3_model_5_seed_000 recycle=5 pLDDT=84.9 pTM=0.682 ipTM=0.422 tol=0.191
2024-12-06 12:57:01,997 alphafold2_multimer_v3_model_5_seed_000 took 381.5s (5 recycles)
2024-12-06 12:57:03,732 reranking models by 'multimer' metric
2024-12-06 12:57:07,797 Warning: importing 'simtk.openmm' is deprecated.  Import 'openmm' instead.
2024-12-06 12:58:24,809 Relaxation took 81.1s
2024-12-06 12:58:24,809 rank_001_alphafold2_multimer_v3_model_3_seed_000 pLDDT=85.6 pTM=0.702 ipTM=0.543
2024-12-06 12:59:29,398 Relaxation took 64.6s
2024-12-06 12:59:29,398 rank_002_alphafold2_multimer_v3_model_5_seed_000 pLDDT=84.9 pTM=0.682 ipTM=0.422
2024-12-06 13:02:29,261 Relaxation took 179.9s
2024-12-06 13:02:29,261 rank_003_alphafold2_multimer_v3_model_1_seed_000 pLDDT=83.6 pTM=0.592 ipTM=0.214
2024-12-06 13:06:12,214 Relaxation took 223.0s
2024-12-06 13:06:12,214 rank_004_alphafold2_multimer_v3_model_4_seed_000 pLDDT=83.6 pTM=0.608 ipTM=0.179
2024-12-06 13:08:22,064 Relaxation took 129.8s
2024-12-06 13:08:22,064 rank_005_alphafold2_multimer_v3_model_2_seed_000 pLDDT=85.6 pTM=0.604 ipTM=0.159
2024-12-06 13:08:26,263 Done