I-TASSER and QUARK decoys for single domain proteins in CASP9

This page includes structural decoys generated by I-TASSER and QUARK servers during CASP9, for all proteins that the I-TASSER server deemed to be of a single domain. It only contains the proteins that have the experimental structure solved before the CASP9 conference. The data demonstrated a big gap between the submitted model and the best model in the decoy pool. As an unsolved problem, it is extremely challenging to select (or refine) the best models which are the closest to the experimental structures.

Reference: Dong Xu, Jian Zhang, Ambrish Roy, Yang Zhang. Automated protein structure modeling in CASP9 by I-TASSER pipeline combined with QUARK-based ab initio folding and FG-MD-based structure refinement. Proteins: Structure, Function, and Bioinformatics, 2011, 79 (Suppl 10) 147-160 (download the PDF file).



[CASP8 Decoys] [CASP9 Decoys] [CASP10 Decoys] [CASP11 Decoys] [Decoy Hompage]

Target ID #decoys Length Type Native Sequence Zhang-Server_model1 (TM-score) QUARK_model1 (TM-score) Decoys (Best TM-score)
T0515 125 366 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.888) QUARK_model1.pdb (0.886) T0515.tar.bz2 (0.892)
T0516 230 230 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.886) QUARK_model1.pdb (0.881) T0516.tar.bz2 (0.891)
T0517 285 160 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.675) QUARK_model1.pdb (0.677) T0517.tar.bz2 (0.744)
T0518 180 288 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.797) QUARK_model1.pdb (0.797) T0518.tar.bz2 (0.805)
T0520 285 190 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.828) QUARK_model1.pdb (0.823) T0520.tar.bz2 (0.838)
T0521 285 180 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.523) QUARK_model1.pdb (0.533) T0521.tar.bz2 (0.534)
T0522 225 135 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.957) QUARK_model1.pdb (0.949) T0522.tar.bz2 (0.960)
T0523 260 120 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.807) QUARK_model1.pdb (0.820) T0523.tar.bz2 (0.833)
T0524 150 326 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.869) QUARK_model1.pdb (0.862) T0524.tar.bz2 (0.872)
T0525 285 216 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.806) QUARK_model1.pdb (0.807) T0525.tar.bz2 (0.812)
T0526 180 291 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.881) QUARK_model1.pdb (0.879) T0526.tar.bz2 (0.884)
T0527 285 142 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.756) QUARK_model1.pdb (0.747) T0527.tar.bz2 (0.791)
T0528 150 389 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.760) QUARK_model1.pdb (0.759) T0528.tar.bz2 (0.783)
T0530 285 116 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.779) QUARK_model1.pdb (0.791) T0530.tar.bz2 (0.809)
T0531 510 65 Very Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.202) QUARK_model1.pdb (0.239) T0531.tar.bz2 (0.262)
T0532 150 507 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.910) QUARK_model1.pdb (0.910) T0532.tar.bz2 (0.925)
T0533 150 313 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.795) QUARK_model1.pdb (0.795) T0533.tar.bz2 (0.797)
T0535 210 294 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.537) QUARK_model1.pdb (0.537) T0535.tar.bz2 (0.574)
T0536 285 152 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.611) QUARK_model1.pdb (0.610) T0536.tar.bz2 (0.657)
T0538 285 55 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.726) QUARK_model1.pdb (0.732) T0538.tar.bz2 (0.854)
T0539 285 82 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.641) QUARK_model1.pdb (0.645) T0539.tar.bz2 (0.661)
T0541 270 107 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.804) QUARK_model1.pdb (0.812) T0541.tar.bz2 (0.823)
T0544 510 136 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.385) QUARK_model1.pdb (0.347) T0544.tar.bz2 (0.535)
T0545 220 159 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.753) QUARK_model1.pdb (0.759) T0545.tar.bz2 (0.783)
T0548 585 107 Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.558) QUARK_model1.pdb (0.524) T0548.tar.bz2 (0.656)
T0549 285 84 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.577) QUARK_model1.pdb (0.589) T0549.tar.bz2 (0.663)
T0551 510 75 Very Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.341) QUARK_model1.pdb (0.255) T0551.tar.bz2 (0.384)
T0552 585 123 Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.548) QUARK_model1.pdb (0.566) T0552.tar.bz2 (0.613)
T0555 780 149 Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.315) QUARK_model1.pdb (0.343) T0555.tar.bz2 (0.555)
T0556 330 74 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.539) QUARK_model1.pdb (0.564) T0556.tar.bz2 (0.618)
T0557 330 146 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.597) QUARK_model1.pdb (0.627) T0557.tar.bz2 (0.641)
T0558 240 295 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.649) QUARK_model1.pdb (0.651) T0558.tar.bz2 (0.690)
T0559 300 69 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.769) QUARK_model1.pdb (0.770) T0559.tar.bz2 (0.811)
T0560 330 74 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.743) QUARK_model1.pdb (0.719) T0560.tar.bz2 (0.769)
T0561 690 161 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.364) QUARK_model1.pdb (0.364) T0561.tar.bz2 (0.398)
T0562 690 124 Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.344) QUARK_model1.pdb (0.364) T0562.tar.bz2 (0.444)
T0563 240 280 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.781) QUARK_model1.pdb (0.788) T0563.tar.bz2 (0.791)
T0566 420 156 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.789) QUARK_model1.pdb (0.794) T0566.tar.bz2 (0.807)
T0567 324 146 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.817) QUARK_model1.pdb (0.815) T0567.tar.bz2 (0.827)
T0569 690 80 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.459) QUARK_model1.pdb (0.395) T0569.tar.bz2 (0.637)
T0570 330 259 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.878) QUARK_model1.pdb (0.890) T0570.tar.bz2 (0.897)
T0572 420 94 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.524) QUARK_model1.pdb (0.563) T0572.tar.bz2 (0.597)
T0574 780 127 Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.627) QUARK_model1.pdb (0.591) T0574.tar.bz2 (0.633)
T0575 420 217 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.689) QUARK_model1.pdb (0.701) T0575.tar.bz2 (0.772)
T0580 294 106 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.853) QUARK_model1.pdb (0.865) T0580.tar.bz2 (0.910)
T0584 270 353 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.829) QUARK_model1.pdb (0.821) T0584.tar.bz2 (0.903)
T0585 330 235 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.777) QUARK_model1.pdb (0.798) T0585.tar.bz2 (0.810)
T0586 354 125 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.827) QUARK_model1.pdb (0.832) T0586.tar.bz2 (0.874)
T0591 240 407 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.892) QUARK_model1.pdb (0.893) T0591.tar.bz2 (0.895)
T0592 420 144 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.759) QUARK_model1.pdb (0.754) T0592.tar.bz2 (0.803)
T0593 420 209 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.804) QUARK_model1.pdb (0.800) T0593.tar.bz2 (0.835)
T0594 360 141 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.896) QUARK_model1.pdb (0.889) T0594.tar.bz2 (0.900)
T0596 420 213 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.756) QUARK_model1.pdb (0.764) T0596.tar.bz2 (0.785)
T0597 270 429 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.863) QUARK_model1.pdb (0.878) T0597.tar.bz2 (0.889)
T0598 420 161 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.675) QUARK_model1.pdb (0.672) T0598.tar.bz2 (0.715)
T0599 270 400 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.947) QUARK_model1.pdb (0.946) T0599.tar.bz2 (0.953)
T0600 390 125 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.483) QUARK_model1.pdb (0.483) T0600.tar.bz2 (0.504)
T0603 270 306 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.645) QUARK_model1.pdb (0.651) T0603.tar.bz2 (0.716)
T0605 420 72 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.783) QUARK_model1.pdb (0.797) T0605.tar.bz2 (0.878)
T0607 186 472 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.860) QUARK_model1.pdb (0.855) T0607.tar.bz2 (0.867)
T0609 270 341 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.783) QUARK_model1.pdb (0.784) T0609.tar.bz2 (0.819)
T0610 330 187 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.808) QUARK_model1.pdb (0.808) T0610.tar.bz2 (0.813)
T0611 330 228 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.640) QUARK_model1.pdb (0.646) T0611.tar.bz2 (0.703)
T0612 780 130 Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.665) QUARK_model1.pdb (0.661) T0612.tar.bz2 (0.689)
T0613 258 287 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.964) QUARK_model1.pdb (0.963) T0613.tar.bz2 (0.964)
T0615 420 180 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.715) QUARK_model1.pdb (0.733) T0615.tar.bz2 (0.738)
T0616 600 104 Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.302) QUARK_model1.pdb (0.330) T0616.tar.bz2 (0.367)
T0617 420 148 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.771) QUARK_model1.pdb (0.764) T0617.tar.bz2 (0.870)
T0620 270 313 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.868) QUARK_model1.pdb (0.866) T0620.tar.bz2 (0.920)
T0622 420 138 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.694) QUARK_model1.pdb (0.708) T0622.tar.bz2 (0.734)
T0623 420 220 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.627) QUARK_model1.pdb (0.624) T0623.tar.bz2 (0.785)
T0624 780 81 Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.398) QUARK_model1.pdb (0.378) T0624.tar.bz2 (0.412)
T0625 318 233 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.746) QUARK_model1.pdb (0.745) T0625.tar.bz2 (0.757)
T0627 330 262 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.752) QUARK_model1.pdb (0.750) T0627.tar.bz2 (0.823)
T0629 420 216 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.336) QUARK_model1.pdb (0.321) T0629.tar.bz2 (0.346)
T0632 420 169 Easy native.pdb seq.txt Zhang-Server_model1.pdb (0.740) QUARK_model1.pdb (0.740) T0632.tar.bz2 (0.752)
T0634 420 140 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.880) QUARK_model1.pdb (0.881) T0634.tar.bz2 (0.884)
T0635 420 192 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.913) QUARK_model1.pdb (0.913) T0635.tar.bz2 (0.937)
T0636 270 337 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.930) QUARK_model1.pdb (0.928) T0636.tar.bz2 (0.931)
T0637 780 146 Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.366) QUARK_model1.pdb (0.368) T0637.tar.bz2 (0.408)
T0638 330 270 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.896) QUARK_model1.pdb (0.899) T0638.tar.bz2 (0.905)
T0639 780 129 Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.318) QUARK_model1.pdb (0.348) T0639.tar.bz2 (0.435)
T0640 330 251 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.877) QUARK_model1.pdb (0.860) T0640.tar.bz2 (0.884)
T0641 114 297 Trivial native.pdb seq.txt Zhang-Server_model1.pdb (0.907) QUARK_model1.pdb (0.909) T0641.tar.bz2 (0.914)
T0643 780 83 Hard native.pdb seq.txt Zhang-Server_model1.pdb (0.520) QUARK_model1.pdb (0.520) T0643.tar.bz2 (0.597)
average 373 198 (0.701) (0.701) (0.743)


 


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