puzzle picture
1892: Coronavirus Binder Design: Round 18
Status: Closed

Summary

Name: 1892: Coronavirus Binder Design: Round 18
Status: Closed
Created: 09/17/2020
Points: 100
Expired: 09/24/2020 - 23:00
Difficulty: Intermediate
Description: Design a binder against coronavirus! The new metrics have been left out to preserve regular recipe performance, but other Objectives are still in effect. Remember, if your designed protein creates Buried Unsats, then it will be less likely to fold and bind to the coronavirus target. (Note that this target protein includes 8 buried unsats that players may be unable to fix.) See the blog for more details about buried unsats, and for helpful tips to make a successful protein binder! Players may not load solutions from previous puzzles.

In late 2019, a new highly-infections virus emerged out of Wuhan, China. This virus belongs to the coronavirus family, and is similar to the virus that caused the SARS epidemic in 2002. Coronaviruses display a "spike" protein on their surface, which binds tightly to a receptor protein found on the surface of human cells. Once the coronavirus spike binds to the human receptor, the virus can infect the human cell and replicate. In recent weeks, researchers have determined the structure of the 2019 coronavirus spike protein and how it binds to human receptors. If we can design a protein that binds to this coronavirus spike protein, it could be used to block the interaction with human cells and halt infection!

In this puzzle, players are presented with the binding site of the coronavirus spike protein. The backbone and most of the sidechains are completely frozen, except for flexible sidechains at the binding site, where the spike protein normally interacts with the human receptor protein. Players can design a new protein that binds to these sidechains, blocking interactions with the human receptor. In order to bind the coronavirus target, designs will need to make lots of hydrophobic contacts and H-bonds with the flexible sidechains at the binding site. But designs will also need to have lots of secondary structure (helices or sheets) and a large core, so that they fold up correctly! See the puzzle comments for Objective details.
Categories: Design, Overall

Top Groups

RankGroupScorePoints
1Gargleblasters14,946100
2Go Science14,75376
3Anthropic Dreams14,70356
4Beta Folders14,63841
5Contenders14,43929

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Comments

bkoep's picture
User offline. Last seen 22 hours 6 min ago. Offline
Joined: 11/15/2012
Groups: Foldit Staff
Objectives

Buried Unsats (max +20)
Penalizes 60 points for each polar atom that cannot make any hydrogen bonds. Note that the frozen target includes 8 buried unsats that may be impossible for players to satisfy.

Residue Count (max +275)
Penalizes extra residues inserted beyond the 177, at a cost of 55 points per residue. Players may use up to 182 residues in total.

Core Existence (max +2400)
Ensures that at least 25 percent of residues are buried in the core of the monomer unit.

Ideal Loops (max +500)
Penalizes any loop region that does not match one of the Building Blocks in the Blueprint tool. Use "Auto Structures" to see which regions of your protein count as loops.

SS Design (max +500)
Disabled use of CYS residues. Penalizes GLY, ALA residues in sheets. Penalizes GLY, ALA in helices.

bkoep's picture
User offline. Last seen 22 hours 6 min ago. Offline
Joined: 11/15/2012
Groups: Foldit Staff
Sandbox puzzle with binder metrics

We've also posted a non-competitive version of this puzzle with binder metric Objectives, as Sandbox Puzzle 1892 with Binder Metrics.

Players may share solutions freely between this puzzle and the sandbox puzzle to check the binder metrics of their Puzzle 1892 solutions.

Joined: 09/29/2016
Groups: Gargleblasters
BootsMcGraw encountered a scenario...

One he felt was rather odd, and so I asked BKoep over Discord about what Boots had asked, as well as a bit of stuff I'd been wondering myself...
I figured for those (like Boots) who aren't on the Discord server, it would be helpful for you to have access to it as well. Here is the direct link to his response, should you want or need it.

[This is basically copy-pasted from Discord. Since I don't think the comment system has a "quote" feature, I'll be putting my questions that he quoted, in bold]

.
#1 Is it normal for a bunch of Serines and Threonine's that are inside a Triple Helix Monomer's core, to not be BUNS?

It depends. If the SER and THR form H-bonds with one another, then they can be satisfied. There are also some cases where a helical SER or THR will form an H-bond with the helix backbone. This isn't supposed to satisfy BUNS in Foldit, but it's worth checking on. This is great feedback for improving the BUNS Objective, and the Scientist Share should be really helpful!

.
#2 Is normal for the Core Existence filter to deem a "Core" be made up, almost exclusively, by Serine's and Threonines?

The Core Existence Objective doesn't care about residue types. The objective determines if a residue is in the "core" based on its position and the density of atoms nearby. Mutating a single residue should never change its core/boundary/surface designation.

.
#3 Is it normal for Mutate to not replace them with something else?

Mutate will only replace a residue if the replacement scores better. A VAL would probably have a better Hiding subscore than one of these buried SER, but the VAL might introduce new clashes that make for a net loss. If Mutate is packing your helices with a bunch of SER and THR, then the helices might just be too close together for any other residue type (since ALA and GLY are prohibited and everything else is larger).

Joined: 12/06/2008
Groups: Contenders
Can't see the Discord response.

F350, thanks for posting this. I am not a member of Discord, so I can't read the response.

With respect to point #1, I had several serines and at least one threonine in the core that were neither bonded to other atoms or to the backbone, which is why I brought up this observation and shared my solution with the scientists.

I didn't know about point #2. I thought the core had to be made up of mostly hydrophobics to be valid.

With respect to point #3, I started the puzzle by changing all residues from isoleucine to serine so that I could pack a tight core. I suspect I packed it *too* tightly, which is why, after a global mutate, I still have over a half dozen serines and threonines buried inside the core.

Joined: 09/29/2016
Groups: Gargleblasters
Indeed

I had mentioned to him after his response, that I believe most of the community is not aware of that fact about #2! As I'd brought up the question once, wondering why it was that my Cores were including Phillics, and most were just as perplexed as I. All that could be speculated was that they were providing protection for the actual "Core" (Phobics) and it therefore was deemed "required" to keep the Core, in itself becoming a Core. lol

As for being packed too tight, I imagine that's it exactly!

bkoep's picture
User offline. Last seen 22 hours 6 min ago. Offline
Joined: 11/15/2012
Groups: Foldit Staff
BUNS

#1 Yes, looking at your shared solution, I think this is a bug in the BUNS Objective, but will need to dig into it more.

#2 From a scientific view, you are absolutely right. The protein core must be hydrophobic. If the core is not hydrophobic, the protein will not fold. However, the Core Existence Objective in Foldit doesn't address the hydrophobicity of your core; the Objective only encourages you to design a compact overall shape. We rely on the score function (the Hiding subscore) to make sure that residues in the core are actually hydrophobic.

#3 Yes! This is a curious pitfall in protein design that wasn't really appreciated before Foldit players exposed it. Little details in the shape of the backbone (like too-close helices) can cause big problems in design. I don't think the score function is to blame (probably you would be able to get a higher score with a slightly expanded fold packed with bulkier hydrophobic sidechains). But it is really easy to get yourself in this position.

Joined: 06/24/2008
Groups: Void Crushers
Cant open the puzzle

Process: game_dynamic [1284]
Path: /Applications/Foldit.app/Contents/MacOS/game_dynamic
Identifier: edu.washington.foldit
Version: 1.0
Code Type: X86-64 (Native)
Parent Process: ??? [1]
Responsible: game_dynamic [1284]
User ID: 501

Date/Time: 2020-09-20 13:41:06.840 -0400
OS Version: Mac OS X 10.15.6 (19G2021)
Report Version: 12
Anonymous UUID: 02F110A1-8FE4-6A66-D372-CDB5BC14E36B

Sleep/Wake UUID: 563302A2-18E4-4D3B-B599-37428D13C511

Time Awake Since Boot: 2600 seconds
Time Since Wake: 900 seconds

System Integrity Protection: enabled

Crashed Thread: 5

Exception Type: EXC_BAD_ACCESS (SIGSEGV)
Exception Codes: KERN_INVALID_ADDRESS at 0x0000000000000021
Exception Note: EXC_CORPSE_NOTIFY

VM Regions Near 0x21:
-->
__TEXT 00000001058be000-00000001058c4000 [ 24K] r-x/rwx SM=COW /Applications/Foldit.app/Contents/MacOS/game_dynamic

Thread 0:: Dispatch queue: com.apple.main-thread
0 libsystem_kernel.dylib 0x00007fff6b052062 __psynch_mutexwait + 10
1 libsystem_pthread.dylib 0x00007fff6b110917 _pthread_mutex_firstfit_lock_wait + 83
2 libsystem_pthread.dylib 0x00007fff6b10e937 _pthread_mutex_firstfit_lock_slow + 222
3 game_library.dylib 0x000000010c16b841 boost::unique_lock::lock() + 33
4 game_library.dylib 0x000000010bc62ba3 cocoa_wrapper_process_async_events + 32
5 game_library.dylib 0x000000010bc6114d -[CocoaOpenGLView redrawTimer:] + 16
6 com.apple.Foundation 0x00007fff3359a2ea __NSFireTimer + 67
7 com.apple.CoreFoundation 0x00007fff30ebc7f9 __CFRUNLOOP_IS_CALLING_OUT_TO_A_TIMER_CALLBACK_FUNCTION__ + 20
8 com.apple.CoreFoundation 0x00007fff30ebc35f __CFRunLoopDoTimer + 859
9 com.apple.CoreFoundation 0x00007fff30ebbe47 __CFRunLoopDoTimers + 322
10 com.apple.CoreFoundation 0x00007fff30ea0bea __CFRunLoopRun + 1871
11 com.apple.CoreFoundation 0x00007fff30e9fe3e CFRunLoopRunSpecific + 462
12 com.apple.HIToolbox 0x00007fff2faccabd RunCurrentEventLoopInMode + 292
13 com.apple.HIToolbox 0x00007fff2facc6f4 ReceiveNextEventCommon + 359
14 com.apple.HIToolbox 0x00007fff2facc579 _BlockUntilNextEventMatchingListInModeWithFilter + 64
15 com.apple.AppKit 0x00007fff2e112039 _DPSNextEvent + 883
16 com.apple.AppKit 0x00007fff2e110880 -[NSApplication(NSEvent) _nextEventMatchingEventMask:untilDate:inMode:dequeue:] + 1352
17 com.apple.AppKit 0x00007fff2e10258e -[NSApplication run] + 658
18 game_library.dylib 0x000000010bc67a19 cocoa_glue_start + 912
19 game_library.dylib 0x000000010bc633c1 interactive::guiwrapper::cocoa::CocoaWrapper::start() + 29
20 game_library.dylib 0x000000010b92ba5a interactive::application::interactive_main(utility::vector1, std::__1::allocator >, std::__1::allocator, std::__1::allocator > > > const&, boost::function, boost::function, bool) + 4006
21 game_library.dylib 0x000000010c10c6d9 game::application::game_main(int, char**, char const*, game::application::ExecutableKindEnum) + 1494
22 edu.washington.foldit 0x00000001058c1ca6 run_library_main(std::__1::basic_string, std::__1::allocator > const&, bool, std::__1::basic_string, std::__1::allocator > const&, int&, int, char**, std::__1::basic_string, std::__1::allocator >&) + 198
23 edu.washington.foldit 0x00000001058c18ed main + 292
24 edu.washington.foldit 0x00000001058bf194 start + 52

Thread 1:
0 libsystem_pthread.dylib 0x00007fff6b10eb68 start_wqthread + 0

Thread 2:: AMCP Logging Spool
0 libsystem_kernel.dylib 0x00007fff6b04fe36 semaphore_wait_trap + 10
1 com.apple.audio.caulk 0x00007fff64ae2b16 caulk::mach::semaphore::wait() + 16
2 com.apple.audio.caulk 0x00007fff64ae29b2 caulk::semaphore::timed_wait(double) + 106
3 com.apple.audio.caulk 0x00007fff64ae27c4 caulk::concurrent::details::worker_thread::run() + 30
4 com.apple.audio.caulk 0x00007fff64ae21e4 void* caulk::thread_proxy > >(void*) + 45
5 libsystem_pthread.dylib 0x00007fff6b113109 _pthread_start + 148
6 libsystem_pthread.dylib 0x00007fff6b10eb8b thread_start + 15

Thread 3:
0 libsystem_kernel.dylib 0x00007fff6b04fe36 semaphore_wait_trap + 10
1 com.apple.audio.caulk 0x00007fff64ae2b16 caulk::mach::semaphore::wait() + 16
2 com.apple.audio.caulk 0x00007fff64ae29b2 caulk::semaphore::timed_wait(double) + 106
3 com.apple.audio.caulk 0x00007fff64ae27c4 caulk::concurrent::details::worker_thread::run() + 30
4 com.apple.audio.caulk 0x00007fff64ae21e4 void* caulk::thread_proxy > >(void*) + 45
5 libsystem_pthread.dylib 0x00007fff6b113109 _pthread_start + 148
6 libsystem_pthread.dylib 0x00007fff6b10eb8b thread_start + 15

Thread 4:: com.apple.audio.IOThread.client
0 libsystem_kernel.dylib 0x00007fff6b04fdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6b050170 mach_msg + 60
2 com.apple.audio.CoreAudio 0x00007fff30583c75 HALB_MachPort::SendSimpleMessageWithSimpleReply(unsigned int, unsigned int, int, int&, bool, unsigned int) + 111
3 com.apple.audio.CoreAudio 0x00007fff3047ff18 invocation function for block in HALC_ProxyIOContext::HALC_ProxyIOContext(unsigned int, unsigned int) + 2677
4 com.apple.audio.CoreAudio 0x00007fff305b3c22 HALB_IOThread::Entry(void*) + 72
5 libsystem_pthread.dylib 0x00007fff6b113109 _pthread_start + 148
6 libsystem_pthread.dylib 0x00007fff6b10eb8b thread_start + 15

Thread 5 Crashed:
0 game_library.dylib 0x000000010ba75e78 interactive::application::appfiltergeom::BunsFilterGeom::set_visible(bool) + 488
1 game_library.dylib 0x000000010bd4c709 standalone::application::FilterWidget::init_for_filters(utility::vector1, std::__1::allocator > > const&) + 4075
2 game_library.dylib 0x000000010bde5385 standalone::application::StandaloneApplication::setup_for_puzzle(unsigned int, standalone::application::StartingStructure, boost::shared_ptr, utility::vector1 > const&, boost::shared_ptr, interactive::util::owning_ptr, std::__1::basic_string, std::__1::allocator > const&, bool) + 9387
3 game_library.dylib 0x000000010c0601f2 game::application::GameApplication::setup_for_puzzle(unsigned int, standalone::application::StartingStructure, boost::shared_ptr, utility::vector1 > const&, boost::shared_ptr, interactive::util::owning_ptr, std::__1::basic_string, std::__1::allocator > const&, bool) + 882
4 game_library.dylib 0x000000010c065f5f game::application::GameApplication::choose_new_puzzle(unsigned int) + 1851
5 game_library.dylib 0x000000010c066965 game::application::GameApplication::start_game() + 413
6 game_library.dylib 0x000000010c04da5b game::application::GameApplication::init() + 593
7 game_library.dylib 0x000000010be1c355 void interactive::util::detail::checked_fxn_wrapper::operator()(interactive::util::access_ptr) + 53
8 game_library.dylib 0x000000010be1c2d1 void boost::_bi::list1 > >::operator(), boost::_bi::list0>(boost::_bi::type, interactive::util::detail::checked_fxn_wrapper&, boost::_bi::list0&, int) + 49
9 game_library.dylib 0x000000010be53e2a boost::detail::function::void_function_obj_invoker0, boost::_bi::list1 > > >, void>::invoke(boost::detail::function::function_buffer&) + 26
10 game_library.dylib 0x000000010bd1a63f interactive::util::Thread::thread_entry_func() + 39
11 game_library.dylib 0x000000010bd1a0bc interactive::util::Thread::pthread_startup_helper(void*) + 36
12 libsystem_pthread.dylib 0x00007fff6b113109 _pthread_start + 148
13 libsystem_pthread.dylib 0x00007fff6b10eb8b thread_start + 15

Thread 6:: com.apple.NSEventThread
0 libsystem_kernel.dylib 0x00007fff6b04fdfa mach_msg_trap + 10
1 libsystem_kernel.dylib 0x00007fff6b050170 mach_msg + 60
2 com.apple.CoreFoundation 0x00007fff30ea1ef5 __CFRunLoopServiceMachPort + 247
3 com.apple.CoreFoundation 0x00007fff30ea09c2 __CFRunLoopRun + 1319
4 com.apple.CoreFoundation 0x00007fff30e9fe3e CFRunLoopRunSpecific + 462
5 com.apple.AppKit 0x00007fff2e2b3954 _NSEventThread + 132
6 libsystem_pthread.dylib 0x00007fff6b113109 _pthread_start + 148
7 libsystem_pthread.dylib 0x00007fff6b10eb8b thread_start + 15

Thread 7:
0 libsystem_kernel.dylib 0x00007fff6b052062 __psynch_mutexwait + 10
1 libsystem_pthread.dylib 0x00007fff6b110917 _pthread_mutex_firstfit_lock_wait + 83
2 libsystem_pthread.dylib 0x00007fff6b10e937 _pthread_mutex_firstfit_lock_slow + 222
3 game_library.dylib 0x000000010c16b841 boost::unique_lock::lock() + 33
4 game_library.dylib 0x000000010bab9147 interactive::application::appposeview::VoidGeom::VoidThread::operator()() + 69
5 game_library.dylib 0x000000010bd1a63f interactive::util::Thread::thread_entry_func() + 39
6 game_library.dylib 0x000000010bd1a0bc interactive::util::Thread::pthread_startup_helper(void*) + 36
7 libsystem_pthread.dylib 0x00007fff6b113109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff6b10eb8b thread_start + 15

Thread 8:
0 libsystem_kernel.dylib 0x00007fff6b052062 __psynch_mutexwait + 10
1 libsystem_pthread.dylib 0x00007fff6b110917 _pthread_mutex_firstfit_lock_wait + 83
2 libsystem_pthread.dylib 0x00007fff6b10e937 _pthread_mutex_firstfit_lock_slow + 222
3 game_library.dylib 0x000000010c16b841 boost::unique_lock::lock() + 33
4 game_library.dylib 0x000000010baa3c3f interactive::application::appposeview::HydrophobicComposite::HydroThread::operator()() + 69
5 game_library.dylib 0x000000010bd1a63f interactive::util::Thread::thread_entry_func() + 39
6 game_library.dylib 0x000000010bd1a0bc interactive::util::Thread::pthread_startup_helper(void*) + 36
7 libsystem_pthread.dylib 0x00007fff6b113109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff6b10eb8b thread_start + 15

Thread 9:
0 libsystem_kernel.dylib 0x00007fff6b052062 __psynch_mutexwait + 10
1 libsystem_pthread.dylib 0x00007fff6b110917 _pthread_mutex_firstfit_lock_wait + 83
2 libsystem_pthread.dylib 0x00007fff6b10e937 _pthread_mutex_firstfit_lock_slow + 222
3 game_library.dylib 0x000000010c16b841 boost::unique_lock::lock() + 33
4 game_library.dylib 0x000000010bab5269 interactive::application::appposeview::ResidueBurialComposite::ResidueBurialThread::operator()() + 121
5 game_library.dylib 0x000000010bd1a63f interactive::util::Thread::thread_entry_func() + 39
6 game_library.dylib 0x000000010bd1a0bc interactive::util::Thread::pthread_startup_helper(void*) + 36
7 libsystem_pthread.dylib 0x00007fff6b113109 _pthread_start + 148
8 libsystem_pthread.dylib 0x00007fff6b10eb8b thread_start + 15

Thread 10:
0 libsystem_kernel.dylib 0x00007fff6b052756 __semwait_signal + 10
1 libsystem_c.dylib 0x00007fff6afd5eea nanosleep + 196
2 libsystem_c.dylib 0x00007fff6afd5de4 usleep + 53
3 game_library.dylib 0x000000010bddc8fc standalone::application::StandaloneApplication::autosave_thread_body() + 44
4 game_library.dylib 0x000000010be1c355 void interactive::util::detail::checked_fxn_wrapper::operator()(interactive::util::access_ptr) + 53
5 game_library.dylib 0x000000010be1c2d1 void boost::_bi::list1 > >::operator(), boost::_bi::list0>(boost::_bi::type, interactive::util::detail::checked_fxn_wrapper&, boost::_bi::list0&, int) + 49
6 game_library.dylib 0x000000010be53e2a boost::detail::function::void_function_obj_invoker0, boost::_bi::list1 > > >, void>::invoke(boost::detail::function::function_buffer&) + 26
7 game_library.dylib 0x000000010bd1a63f interactive::util::Thread::thread_entry_func() + 39
8 game_library.dylib 0x000000010bd1a0bc interactive::util::Thread::pthread_startup_helper(void*) + 36
9 libsystem_pthread.dylib 0x00007fff6b113109 _pthread_start + 148
10 libsystem_pthread.dylib 0x00007fff6b10eb8b thread_start + 15

Thread 5 crashed with X86 Thread State (64-bit):
rax: 0x0000000000000001 rbx: 0x0000000000000000 rcx: 0x0000600003a54920 rdx: 0x0000000000040000
rdi: 0x0000000000000000 rsi: 0x00007fa9f88de600 rbp: 0x0000700003f21b70 rsp: 0x0000700003f21af0
r8: 0x00000000000520a8 r9: 0x00000000000007fb r10: 0x0000600002f16b60 r11: 0x0000600002f16b58
r12: 0x0000700003f21de0 r13: 0x00007faa030de9d0 r14: 0x0000000000000000 r15: 0x0000000000000000
rip: 0x000000010ba75e78 rfl: 0x0000000000000246 cr2: 0x000000010bd4f7e0

Logical CPU: 0
Error Code: 0x020000b8
Trap Number: 133

Binary Images:
0x1058be000 - 0x1058c3ff7 +edu.washington.foldit (1.0) <932EE394-1910-344E-A994-433FDBA8AD68> /Applications/Foldit.app/Contents/MacOS/game_dynamic
0x108410000 - 0x108413047 libobjc-trampolines.dylib (787.1) <88F9B648-C455-36F8-BBB9-7D1A9F57D073> /usr/lib/libobjc-trampolines.dylib
0x1086d4000 - 0x1086d8fff com.apple.audio.AppleHDAHALPlugIn (283.15 - 283.15) /System/Library/Extensions/AppleHDA.kext/Contents/PlugIns/AppleHDAHALPlugIn.bundle/Contents/MacOS/AppleHDAHALPlugIn
0x1086e1000 - 0x10883aff7 com.apple.audio.units.Components (1.14 - 1.14) /System/Library/Components/CoreAudio.component/Contents/MacOS/CoreAudio
0x1088ed000 - 0x10897ef47 dyld (750.6) /usr/lib/dyld
0x1089f2000 - 0x10d5f1fff +game_library.dylib (1) /Applications/Foldit.app/Contents/Resources/cmp-binary-25cc3e106fa70ecafb48def41e77fe4c/game_library.dylib
0x1132fd000 - 0x11375dfff com.apple.audio.AudioDSPComponents (1.0 - 1) /System/Library/Components/AudioDSP.component/Contents/MacOS/AudioDSP
0x7fff23f10000 - 0x7fff2415dff8 com.apple.RawCamera.bundle (9.02.0 - 1350.29) <59F81722-039E-33F5-A20E-936E997575A3> /System/Library/CoreServices/RawCamera.bundle/Contents/MacOS/RawCamera
0x7fff26dbf000 - 0x7fff272ccfff com.apple.driver.AppleIntelHD5000GraphicsGLDriver (14.7.8 - 14.0.7) <9742AB68-2112-3964-AA79-45D379B7E5B1> /System/Library/Extensions/AppleIntelHD5000GraphicsGLDriver.bundle/Contents/MacOS/AppleIntelHD5000GraphicsGLDriver
0x7fff272cd000 - 0x7fff27360ffd com.apple.driver.AppleIntelHD5000GraphicsMTLDriver (14.7.8 - 14.0.7) /System/Library/Extensions/AppleIntelHD5000GraphicsMTLDriver.bundle/Contents/MacOS/AppleIntelHD5000GraphicsMTLDriver
0x7fff2b51f000 - 0x7fff2be2bfff com.apple.GeForceGLDriver (14.0.32 - 14.0.0) <734528D2-738B-39A1-83EA-34466DDE126E> /System/Library/Extensions/GeForceGLDriver.bundle/Contents/MacOS/GeForceGLDriver
0x7fff2be2c000 - 0x7fff2c503fff libclh.dylib (14.0.32) <75F076BE-DA73-36EF-94CF-832F66F193D0> /System/Library/Extensions/GeForceGLDriver.bundle/Contents/MacOS/libclh.dylib
0x7fff2c504000 - 0x7fff2c6b7ff3 com.apple.GeForceMTLDriver (14.0.32 - 14.0.0) /System/Library/Extensions/GeForceMTLDriver.bundle/Contents/MacOS/GeForceMTLDriver
0x7fff2c6b8000 - 0x7fff2c6bcffb com.apple.agl (3.3.3 - AGL-3.3.3) <204E20A9-AEA9-3F9F-AE23-EECE3AFFFC54> /System/Library/Frameworks/AGL.framework/Versions/A/AGL
0x7fff2caa5000 - 0x7fff2caa5fff com.apple.Accelerate (1.11 - Accelerate 1.11) <4F9977AE-DBDB-3A16-A536-AC1F9938DCDD> /System/Library/Frameworks/Accelerate.framework/Versions/A/Accelerate
0x7fff2caa6000 - 0x7fff2cabcfef libCGInterfaces.dylib (524.2.1) <8FD09D09-BB19-36C5-ADE9-4F22DA235AEE> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vImage.framework/Versions/A/Libraries/libCGInterfaces.dylib
0x7fff2cabd000 - 0x7fff2d113fff com.apple.vImage (8.1 - 524.2.1) /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vImage.framework/Versions/A/vImage
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0x7fff67f81000 - 0x7fff67f82fff libThaiTokenizer.dylib (3) <4F4ADE99-0D09-3223-B7C0-C407AB6DE8DC> /usr/lib/libThaiTokenizer.dylib
0x7fff67f9a000 - 0x7fff67fb0fff libapple_nghttp2.dylib (1.39.2) <07FEC48A-87CF-32A3-8194-FA70B361713A> /usr/lib/libapple_nghttp2.dylib
0x7fff67fe5000 - 0x7fff68057ff7 libarchive.2.dylib (72.140.1) /usr/lib/libarchive.2.dylib
0x7fff68058000 - 0x7fff680f1fe5 libate.dylib (3.0.1) <76EA60FB-748C-313F-8951-B076540BEA97> /usr/lib/libate.dylib
0x7fff680f5000 - 0x7fff680f5ff3 libauto.dylib (187) /usr/lib/libauto.dylib
0x7fff681bb000 - 0x7fff681cbffb libbsm.0.dylib (60.100.1) <00BFFB9A-2FFE-3C24-896A-251BC61917FD> /usr/lib/libbsm.0.dylib
0x7fff681cc000 - 0x7fff681d8fff libbz2.1.0.dylib (44) <14CC4988-B6D4-3879-AFC2-9A0DDC6388DE> /usr/lib/libbz2.1.0.dylib
0x7fff681d9000 - 0x7fff6822bfff libc++.1.dylib (902.1) <59A8239F-C28A-3B59-B8FA-11340DC85EDC> /usr/lib/libc++.1.dylib
0x7fff6822c000 - 0x7fff68241ffb libc++abi.dylib (902) /usr/lib/libc++abi.dylib
0x7fff68242000 - 0x7fff68242fff libcharset.1.dylib (59) <72447768-9244-39AB-8E79-2FA14EC0AD33> /usr/lib/libcharset.1.dylib
0x7fff68243000 - 0x7fff68254fff libcmph.dylib (8) /usr/lib/libcmph.dylib
0x7fff68255000 - 0x7fff6826cfd7 libcompression.dylib (87) <64C91066-586D-38C0-A2F3-3E60A940F859> /usr/lib/libcompression.dylib
0x7fff68546000 - 0x7fff6855cff7 libcoretls.dylib (167) <770A5B96-936E-34E3-B006-B1CEC299B5A5> /usr/lib/libcoretls.dylib
0x7fff6855d000 - 0x7fff6855efff libcoretls_cfhelpers.dylib (167) <940BF370-FD0C-30A8-AA05-FF48DA44FA4C> /usr/lib/libcoretls_cfhelpers.dylib
0x7fff68b1b000 - 0x7fff68b7aff7 libcups.2.dylib (483.6) /usr/lib/libcups.2.dylib
0x7fff68c84000 - 0x7fff68c84fff libenergytrace.dylib (21) <162DFCC0-8F48-3DD0-914F-FA8653E27B26> /usr/lib/libenergytrace.dylib
0x7fff68c85000 - 0x7fff68c9dfff libexpat.1.dylib (19.60.2) /usr/lib/libexpat.1.dylib
0x7fff68cab000 - 0x7fff68cadfff libfakelink.dylib (149.1) <36146CB2-E6A5-37BB-9EE8-1B4034D8F3AD> /usr/lib/libfakelink.dylib
0x7fff68cbc000 - 0x7fff68cc1fff libgermantok.dylib (24) /usr/lib/libgermantok.dylib
0x7fff68cc2000 - 0x7fff68ccbff7 libheimdal-asn1.dylib (564.140.1) <0AC6FB62-2B0F-3E93-A931-E4DC4B1D757A> /usr/lib/libheimdal-asn1.dylib
0x7fff68ccc000 - 0x7fff68dbcfff libiconv.2.dylib (59) <18311A67-E4EF-3CC7-95B3-C0EDEE3A282F> /usr/lib/libiconv.2.dylib
0x7fff68dbd000 - 0x7fff69014fff libicucore.A.dylib (64260.0.1) <8AC2CB07-E7E0-340D-A849-186FA1F27251> /usr/lib/libicucore.A.dylib
0x7fff6902e000 - 0x7fff6902ffff liblangid.dylib (133) <30CFC08C-EF36-3CF5-8AEA-C1CB070306B7> /usr/lib/liblangid.dylib
0x7fff69030000 - 0x7fff69048ff3 liblzma.5.dylib (16) /usr/lib/liblzma.5.dylib
0x7fff69060000 - 0x7fff69107ff7 libmecab.dylib (883.11) <0D5BFD01-D4A7-3C8D-AA69-C329C1A69792> /usr/lib/libmecab.dylib
0x7fff69108000 - 0x7fff6936aff1 libmecabra.dylib (883.11) /usr/lib/libmecabra.dylib
0x7fff696d7000 - 0x7fff69706fff libncurses.5.4.dylib (57) <995DFEEA-40F3-377F-B73D-D02AC59D591F> /usr/lib/libncurses.5.4.dylib
0x7fff69836000 - 0x7fff69cb2ff5 libnetwork.dylib (1880.120.4) /usr/lib/libnetwork.dylib
0x7fff69d53000 - 0x7fff69d86fde libobjc.A.dylib (787.1) <6DF81160-5E7F-3E31-AA1E-C875E3B98AF6> /usr/lib/libobjc.A.dylib
0x7fff69d99000 - 0x7fff69d9dfff libpam.2.dylib (25.100.1) <0502F395-8EE6-3D2A-9239-06FD5622E19E> /usr/lib/libpam.2.dylib
0x7fff69da0000 - 0x7fff69dd6ff7 libpcap.A.dylib (89.120.1) /usr/lib/libpcap.A.dylib
0x7fff69e5a000 - 0x7fff69e72fff libresolv.9.dylib (67.40.1) /usr/lib/libresolv.9.dylib
0x7fff69e74000 - 0x7fff69eb8ff7 libsandbox.1.dylib (1217.141.1) <363BBD96-E1F0-38CF-90EF-EF41C0C7044E> /usr/lib/libsandbox.1.dylib
0x7fff69ecc000 - 0x7fff69ecdff7 libspindump.dylib (281.3) /usr/lib/libspindump.dylib
0x7fff69ece000 - 0x7fff6a0b8ff7 libsqlite3.dylib (308.5) <35A2BD9F-4E33-30DE-A994-4AB585AC3AFE> /usr/lib/libsqlite3.dylib
0x7fff6a2ae000 - 0x7fff6a308ff8 libusrtcp.dylib (1880.120.4) <05346A91-737C-33D0-B21B-F040950DFB28> /usr/lib/libusrtcp.dylib
0x7fff6a309000 - 0x7fff6a30cffb libutil.dylib (57) /usr/lib/libutil.dylib
0x7fff6a30d000 - 0x7fff6a31aff7 libxar.1.dylib (425.2) /usr/lib/libxar.1.dylib
0x7fff6a320000 - 0x7fff6a402ff7 libxml2.2.dylib (33.4) /usr/lib/libxml2.2.dylib
0x7fff6a406000 - 0x7fff6a42efff libxslt.1.dylib (16.9) <34A45627-DA5B-37D2-9609-65B425E0010A> /usr/lib/libxslt.1.dylib
0x7fff6a42f000 - 0x7fff6a441ff3 libz.1.dylib (76) <793D9643-CD83-3AAC-8B96-88D548FAB620> /usr/lib/libz.1.dylib
0x7fff6acf0000 - 0x7fff6acf5ff3 libcache.dylib (83) /usr/lib/system/libcache.dylib
0x7fff6acf6000 - 0x7fff6ad01fff libcommonCrypto.dylib (60165.120.1) /usr/lib/system/libcommonCrypto.dylib
0x7fff6ad02000 - 0x7fff6ad09fff libcompiler_rt.dylib (101.2) <49B8F644-5705-3F16-BBE0-6FFF9B17C36E> /usr/lib/system/libcompiler_rt.dylib
0x7fff6ad0a000 - 0x7fff6ad13ff7 libcopyfile.dylib (166.40.1) <3C481225-21E7-370A-A30E-0CCFDD64A92C> /usr/lib/system/libcopyfile.dylib
0x7fff6ad14000 - 0x7fff6ada6fdb libcorecrypto.dylib (866.140.1) <60567BF8-80FA-359A-B2F3-A3BAEFB288FD> /usr/lib/system/libcorecrypto.dylib
0x7fff6aeb3000 - 0x7fff6aef3ff0 libdispatch.dylib (1173.100.2) /usr/lib/system/libdispatch.dylib
0x7fff6aef4000 - 0x7fff6af2afff libdyld.dylib (750.6) <789A18C2-8AC7-3C88-813D-CD674376585D> /usr/lib/system/libdyld.dylib
0x7fff6af2b000 - 0x7fff6af2bffb libkeymgr.dylib (30) /usr/lib/system/libkeymgr.dylib
0x7fff6af2c000 - 0x7fff6af38ff3 libkxld.dylib (6153.141.1) <756B1F0D-2E37-31A7-A6F0-2E5C22E62C3D> /usr/lib/system/libkxld.dylib
0x7fff6af39000 - 0x7fff6af39ff7 liblaunch.dylib (1738.140.1) /usr/lib/system/liblaunch.dylib
0x7fff6af3a000 - 0x7fff6af3fff7 libmacho.dylib (959.0.1) /usr/lib/system/libmacho.dylib
0x7fff6af40000 - 0x7fff6af42ff3 libquarantine.dylib (110.40.3) /usr/lib/system/libquarantine.dylib
0x7fff6af43000 - 0x7fff6af44ff7 libremovefile.dylib (48) <7C7EFC79-BD24-33EF-B073-06AED234593E> /usr/lib/system/libremovefile.dylib
0x7fff6af45000 - 0x7fff6af5cff3 libsystem_asl.dylib (377.60.2) <1563EE02-0657-3B78-99BE-A947C24122EF> /usr/lib/system/libsystem_asl.dylib
0x7fff6af5d000 - 0x7fff6af5dff7 libsystem_blocks.dylib (74) <0D53847E-AF5F-3ACF-B51F-A15DEA4DEC58> /usr/lib/system/libsystem_blocks.dylib
0x7fff6af5e000 - 0x7fff6afe5fff libsystem_c.dylib (1353.100.2) /usr/lib/system/libsystem_c.dylib
0x7fff6afe6000 - 0x7fff6afe9ffb libsystem_configuration.dylib (1061.141.1) <0EE84C33-64FD-372B-974A-AF7A136F2068> /usr/lib/system/libsystem_configuration.dylib
0x7fff6afea000 - 0x7fff6afedfff libsystem_coreservices.dylib (114) /usr/lib/system/libsystem_coreservices.dylib
0x7fff6afee000 - 0x7fff6aff6fff libsystem_darwin.dylib (1353.100.2) <5B12B5DB-3F30-37C1-8ECC-49A66B1F2864> /usr/lib/system/libsystem_darwin.dylib
0x7fff6aff7000 - 0x7fff6affefff libsystem_dnssd.dylib (1096.100.3) /usr/lib/system/libsystem_dnssd.dylib
0x7fff6afff000 - 0x7fff6b000ffb libsystem_featureflags.dylib (17) <29FD922A-EC2C-3F25-BCCC-B58D716E60EC> /usr/lib/system/libsystem_featureflags.dylib
0x7fff6b001000 - 0x7fff6b04eff7 libsystem_info.dylib (538) <8A321605-5480-330B-AF9E-64E65DE61747> /usr/lib/system/libsystem_info.dylib
0x7fff6b04f000 - 0x7fff6b07bff7 libsystem_kernel.dylib (6153.141.1) <2B6311E6-6240-3EF7-8C87-475B66F7452C> /usr/lib/system/libsystem_kernel.dylib
0x7fff6b07c000 - 0x7fff6b0c3fff libsystem_m.dylib (3178) <00F331F1-0D09-39B3-8736-1FE90E64E903> /usr/lib/system/libsystem_m.dylib
0x7fff6b0c4000 - 0x7fff6b0ebfff libsystem_malloc.dylib (283.100.6) <8549294E-4C53-36EB-99F3-584A7393D8D5> /usr/lib/system/libsystem_malloc.dylib
0x7fff6b0ec000 - 0x7fff6b0f9ffb libsystem_networkextension.dylib (1095.140.2) /usr/lib/system/libsystem_networkextension.dylib
0x7fff6b0fa000 - 0x7fff6b103ff7 libsystem_notify.dylib (241.100.2) /usr/lib/system/libsystem_notify.dylib
0x7fff6b104000 - 0x7fff6b10cfef libsystem_platform.dylib (220.100.1) <009A7C1F-313A-318E-B9F2-30F4C06FEA5C> /usr/lib/system/libsystem_platform.dylib
0x7fff6b10d000 - 0x7fff6b117fff libsystem_pthread.dylib (416.100.3) <62CB1A98-0B8F-31E7-A02B-A1139927F61D> /usr/lib/system/libsystem_pthread.dylib
0x7fff6b118000 - 0x7fff6b11cff3 libsystem_sandbox.dylib (1217.141.1) <6DE13684-5A67-3009-A53A-C9086CF241C3> /usr/lib/system/libsystem_sandbox.dylib
0x7fff6b11d000 - 0x7fff6b11ffff libsystem_secinit.dylib (62.100.2) /usr/lib/system/libsystem_secinit.dylib
0x7fff6b120000 - 0x7fff6b127ffb libsystem_symptoms.dylib (1238.120.1) <5820A2AF-CE72-3AB3-ABCC-273A3419FB55> /usr/lib/system/libsystem_symptoms.dylib
0x7fff6b128000 - 0x7fff6b13eff2 libsystem_trace.dylib (1147.120) <04B47629-847B-3D74-8ABE-C05EF9DEEFE4> /usr/lib/system/libsystem_trace.dylib
0x7fff6b140000 - 0x7fff6b145ff7 libunwind.dylib (35.4) <42B7B509-BAFE-365B-893A-72414C92F5BF> /usr/lib/system/libunwind.dylib
0x7fff6b146000 - 0x7fff6b17bffe libxpc.dylib (1738.140.1) <3E243A41-030F-38E3-9FD2-7B38C66C35B1> /usr/lib/system/libxpc.dylib

External Modification Summary:
Calls made by other processes targeting this process:
task_for_pid: 1
thread_create: 0
thread_set_state: 0
Calls made by this process:
task_for_pid: 0
thread_create: 0
thread_set_state: 0
Calls made by all processes on this machine:
task_for_pid: 1541
thread_create: 0
thread_set_state: 0

VM Region Summary:
ReadOnly portion of Libraries: Total=771.5M resident=0K(0%) swapped_out_or_unallocated=771.5M(100%)
Writable regions: Total=914.7M written=0K(0%) resident=0K(0%) swapped_out=0K(0%) unallocated=914.7M(100%)

VIRTUAL REGION
REGION TYPE SIZE COUNT (non-coalesced)
=========== ======= =======
Accelerate framework 128K 1
Activity Tracing 256K 1
CG backing stores 4756K 3
CG image 12K 2
CoreAnimation 32K 7
CoreGraphics 8K 1
CoreImage 24K 2
CoreUI image data 264K 4
Foundation 4K 1
Kernel Alloc Once 8K 1
MALLOC 867.2M 376
MALLOC guard page 32K 8
MALLOC_LARGE (reserved) 160K 1 reserved VM address space (unallocated)
STACK GUARD 32.0M 11
Stack 40.9M 12
VM_ALLOCATE 384K 17
__DATA 37.9M 303
__DATA_CONST 344K 4
__FONT_DATA 4K 1
__GLSLBUILTINS 5176K 1
__LINKEDIT 479.2M 9
__OBJC_RO 32.3M 1
__OBJC_RW 1908K 2
__TEXT 292.2M 300
__UNICODE 564K 1
mapped file 66.4M 22
shared memory 640K 16
=========== ======= =======
TOTAL 1.8G 1108
TOTAL, minus reserved VM space 1.8G 1108

Model: MacBookPro11,3, BootROM 162.0.0.0.0, 4 processors, Quad-Core Intel Core i7, 2.6 GHz, 16 GB, SMC 2.19f12
Graphics: kHW_IntelIrisProItem, Intel Iris Pro, spdisplays_builtin
Graphics: kHW_NVidiaGeForceGTX750MItem, NVIDIA GeForce GT 750M, spdisplays_pcie_device, 2 GB
Memory Module: BANK 0/DIMM0, 8 GB, DDR3, 1600 MHz, 0x80AD, 0x484D54343147533641465238412D50422020
Memory Module: BANK 1/DIMM0, 8 GB, DDR3, 1600 MHz, 0x80AD, 0x484D54343147533641465238412D50422020
AirPort: spairport_wireless_card_type_airport_extreme (0x14E4, 0x134), Broadcom BCM43xx 1.0 (7.77.111.1 AirPortDriverBrcmNIC-1615.1)
Bluetooth: Version 7.0.6f7, 3 services, 27 devices, 1 incoming serial ports
Network Service: AirPort, AirPort, en0
Serial ATA Device: APPLE SSD SM1024G, 1 TB
USB Device: USB 3.0 Bus
USB Device: Apple Internal Keyboard / Trackpad
USB Device: BRCM20702 Hub
USB Device: Bluetooth USB Host Controller
Thunderbolt Bus: MacBook Pro, Apple Inc., 17.1

bkoep's picture
User offline. Last seen 22 hours 6 min ago. Offline
Joined: 11/15/2012
Groups: Foldit Staff
Fix coming soon

Thanks for the feedback! Looks like the same as posted here, and we should have a fix up later today.

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Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
Supported by: DARPA, NSF, NIH, HHMI, Amazon, Microsoft, Adobe, RosettaCommons