## 688b: error reading: problem with non polymer bonds.

Case number: | 845829-994816 |

Topic: | Crash/Hang |

Opened by: | truestone |

Status: | Closed |

Type: | Bug |

Opened on: | Sunday, March 24, 2013 - 12:37 |

Last modified: | Thursday, October 3, 2013 - 01:02 |

I introduced a few disulfide bond in my 688b solution until I found one that seemed to stick. It happens to be between the monomeres. I settled everything until close to my best. Then when restarting foldit, it refuses to load the solution saying "problem with non polymer bonds." Log says:

loading solution: puzzle_994769_time_1364091890.ir_solution

core.conformation.symmetry.SymmData: Setting weight of master jump ( jump-id=1 ) to 1.0 (was undefined)

core.conformation.symmetry.SymmData: Setting jump_group GJDB: [master 1] 2:0

core.conformation.symmetry.SymmData: symmetry name: c2

core.conformation.symmetry.SymmData: number of subunits: 2

core.conformation.symmetry.SymmData: number of interfaces: 1

core.conformation.symmetry.SymmData: score subunit number: BD11

core.conformation.symmetry.SymmData: anchor the subunits at residue: 42

core.conformation.symmetry.SymmData: Virtual coordinate system BD11

core.conformation.symmetry.SymmData: x: 1 0 0

core.conformation.symmetry.SymmData: y: 0 1 0

core.conformation.symmetry.SymmData: origin: 0 0 0

core.conformation.symmetry.SymmData: Virtual coordinate system BD12

core.conformation.symmetry.SymmData: x: -1 0 0

core.conformation.symmetry.SymmData: y: 0 -1 0

core.conformation.symmetry.SymmData: origin: 0 0 0

core.conformation.symmetry.SymmData: Dof for jump: 1

core.conformation.symmetry.SymmData: x 0:0,0:0,0 n2c

core.conformation.symmetry.SymmData: y 1:0,0:0,0 n2c

core.conformation.symmetry.SymmData: z 1:0,0:0,0 n2c

core.conformation.symmetry.SymmData: x_angle 1:0,0:0,0 n2c

core.conformation.symmetry.SymmData: y_angle 1:0,0:0,0 n2c

core.conformation.symmetry.SymmData: z_angle 1:0,0:0,0 n2c

core.conformation.symmetry.SymmData: Jump J1 BD11 BD12

core.conformation.symmetry.SymmData: Jump JDB11 BD11 SUBUNIT

core.conformation.symmetry.SymmData: Jump JDB12 BD12 SUBUNIT

core.conformation.symmetry.SymmData: Include subunit: 1 2

core.conformation.symmetry.SymmData: Output subunit: 1 2

core.conformation.symmetry.SymmData: SlideType: RANDOM

core.conformation.symmetry.SymmData: SlideCriteriaType: CEN_DOCK_SCORE

core.conformation.symmetry.SymmData: SlideCriteriaVal: AUTOMATIC

core.conformation.symmetry.SymmData: SlideOrder: none

core.conformation.symmetry.SymmData: Setting weight of master jump ( jump-id=1 ) to 1.0 (was undefined)

core.conformation.symmetry.SymmData: Setting jump_group GJDB: [master 1] 2:0

core.conformation.symmetry.SymmData: symmetry name: c2

core.conformation.symmetry.SymmData: number of subunits: 2

core.conformation.symmetry.SymmData: number of interfaces: 1

core.conformation.symmetry.SymmData: score subunit number: BD11

core.conformation.symmetry.SymmData: anchor the subunits at residue: 42

core.conformation.symmetry.SymmData: Virtual coordinate system BD11

core.conformation.symmetry.SymmData: x: 1 0 0

core.conformation.symmetry.SymmData: y: 0 1 0

core.conformation.symmetry.SymmData: origin: 0 0 0

core.conformation.symmetry.SymmData: Virtual coordinate system BD12

core.conformation.symmetry.SymmData: x: -1 0 0

core.conformation.symmetry.SymmData: y: 0 -1 0

core.conformation.symmetry.SymmData: origin: 0 0 0

core.conformation.symmetry.SymmData: Dof for jump: 1

core.conformation.symmetry.SymmData: x 0:0,0:0,0 n2c

core.conformation.symmetry.SymmData: y 1:0,0:0,0 n2c

core.conformation.symmetry.SymmData: z 1:0,0:0,0 n2c

core.conformation.symmetry.SymmData: x_angle 1:0,0:0,0 n2c

core.conformation.symmetry.SymmData: y_angle 1:0,0:0,0 n2c

core.conformation.symmetry.SymmData: z_angle 1:0,0:0,0 n2c

core.conformation.symmetry.SymmData: Jump J1 BD11 BD12

core.conformation.symmetry.SymmData: Jump JDB11 BD11 SUBUNIT

core.conformation.symmetry.SymmData: Jump JDB12 BD12 SUBUNIT

core.conformation.symmetry.SymmData: Include subunit: 1 2

core.conformation.symmetry.SymmData: Output subunit: 1 2

core.conformation.symmetry.SymmData: SlideType: RANDOM

core.conformation.symmetry.SymmData: SlideCriteriaType: CEN_DOCK_SCORE

core.conformation.symmetry.SymmData: SlideCriteriaVal: AUTOMATIC

core.conformation.symmetry.SymmData: SlideOrder: none

core.pose.util: WARNING: conf2pdb_chain(): PDBInfo does not exist, returning empty map

core.conformation.symmetry.util: =================== SYM FOLD TREE, jump notation: =symfixed= *indep* #symdof# jump[=follows] ========================

BD11(85)

|----#j5#---->Sub1

This is a HIGH priority error. Once you close your client, you cannot load your solution. Every time I have loaded this puzzle, I've started back at the denovo, with no best in the track.

A possible work-around is to manually rotate your cysteines to break bridges before saving. I cannot test this, because I cannot load my solution.

Operation ID: ClientInformation Correlation ID: 61880

SOP Success Operation ID: ReportAchievements Correlation ID: 61879

core.pose.util: WARNING: conf2pdb_chain(): PDBInfo does not exist, returning default map 1=A, 2=B, ...

core.conformation.symmetry.Conformation: Found disulfide between residues 1 26

core.conformation.symmetry.Conformation: current variant for 1 CYD

core.conformation.symmetry.Conformation: current variant for 26 CYD

core.conformation.symmetry.Conformation: current variant for 1 CYD

core.conformation.symmetry.Conformation: current variant for 26 CYD

core.conformation.symmetry.Conformation: Found disulfide between residues 12 49

core.conformation.symmetry.Conformation: current variant for 12 CYD

core.conformation.symmetry.Conformation: current variant for 49 CYD

core.conformation.symmetry.Conformation: current variant for 12 CYD

core.conformation.symmetry.Conformation: current variant for 49 CYD

core.conformation.symmetry.Conformation: Found disulfide between residues 22 44

core.conformation.symmetry.Conformation: current variant for 22 CYD

core.conformation.symmetry.Conformation: current variant for 44 CYD

core.conformation.symmetry.Conformation: current variant for 22 CYD

core.conformation.symmetry.Conformation: current variant for 44 CYD

core.conformation.symmetry.Conformation: Found disulfide between residues 39 100

core.conformation.symmetry.Conformation: current variant for 39 CYD

core.conformation.symmetry.Conformation: current variant for 100 CYD

core.conformation.symmetry.Conformation: current variant for 39 CYD

core.conformation.symmetry.Conformation: current variant for 100 CYD

core.conformation.symmetry.Conformation: Found disulfide between residues 50 118

core.conformation.symmetry.Conformation: current variant for 50 CYD

core.conformation.symmetry.Conformation: current variant for 118 CYD

core.conformation.symmetry.Conformation: current variant for 50 CYD

core.conformation.symmetry.Conformation: current variant for 118 CYD

core.conformation.symmetry.Conformation: Found disulfide between residues 57 111

core.conformation.symmetry.Conformation: current variant for 57 CYD

core.conformation.symmetry.Conformation: current variant for 111 CYD

core.conformation.symmetry.Conformation: current variant for 57 CYD

core.conformation.symmetry.Conformation: current variant for 111 CYD

core.conformation.Conformation: Connecting residues: 62 ( CYD_p:NtermProteinFull ) and 87 ( CYD ) at atoms SG and SG

core.conformation.Conformation: with mututal distances: 3.44072 and 1.49822

core.conformation.Conformation: Connecting residues: 73 ( CYD ) and 110 ( CYD ) at atoms SG and SG

core.conformation.Conformation: with mututal distances: 0.737511 and 2.09003

core.conformation.Conformation: Connecting residues: 83 ( CYD ) and 105 ( CYD ) at atoms SG and SG

core.conformation.Conformation: with mututal distances: 0.0471812 and 2.30072

RSD CYD_p:NtermProteinFull 1 (6 2), 26 OTHER CONN INDEX OUT OF BOUNDS

RSD CYD 12 (6 3), 49

RSD 13 CYS -

RSD CYD 22 (6 3), 44

RSD CYD 26 (6 3), 1 OTHER CONN INDEX OUT OF BOUNDS

RSD CYD 39 (6 3), 100

RSD CYD 44 (6 3), 22

RSD CYD 49 (6 3), 12

RSD CYD 50 (6 3), 118

RSD 53 CYS -

RSD CYD 57 (6 3), 111

RSD CYD_p:NtermProteinFull 62 (6 2), 87 OTHER CONN INDEX OUT OF BOUNDS

RSD CYD 73 (6 3), 110

RSD 74 CYS -

RSD CYD 83 (6 3), 105

RSD CYD 87 (6 3), 62 OTHER CONN INDEX OUT OF BOUNDS

RSD CYD 100 (6 3), 39

RSD CYD 105 (6 3), 83

RSD CYD 110 (6 3), 73

RSD CYD 111 (6 3), 57

RSD 114 CYS -

RSD CYD 118 (6 3), 50

Error reading puzzle_995989_time_1380631567.ir_solution[BUFFER]; problem with non polymer bonds.

(..\..\..\source\src\interactive\util\rosetta_util.cc:1124)

I just had this happen to me, though i had quite a bit more cysteines than normal. and all 4 were between the bridges. I cannot open my save at all and it re started me off as a de-novo.

Status: Open » Closed |

Closing this thread, as it is a duplicate, as shown by brow42.

Bumping this feedback up to the top, since it was never resolved, and I'm having the exact problem on puzzle # 783. Anyone else?