T0463

Server only Targets
388 390 392 394
398 400 402 404
406 408 410 412
414 416 418 420
422 424 426 428
430 432 433 435
436 438 439 441
442 444 445 447
448 450 452 453
455 456 458 459
461 463 470 472
475 477 478 479
481 483 485 486
488 490 491 494
497 501 502 503
504 505 506 507
508 509 510 511
512 513 514  

T0463

putative epimerase Q89Z24_BACTN from Bacteroides thetaiotaomicron

Target type: Server only

Target sequence:

>T0463 Q89Z24_BACTN, Bacteroides thetaiotaomicron, 219 residues
MEKVKKIVLIGASGFVGSALLNEALNRGFEVTAVVRHPEKIKIENEHLKVKKADVSSLDEVCEVCKGADAVISAFNPGWNNPDIYDETIKVYLTIIDGVKKAGVNRFLMVGGAGSLFIAPGLRLMDSGEVPENILPGVKALGEFYLNFLMKEKEIDWVFFSPAADMRPGVRTGRYRLGKDDMIVDIVGNSHISVEDYAAAMIDELEHPKHHQERFTIGY

Structure:
Method: X-ray, res=2.0Å, R/Rfree=0.23/0.24
Determined by: NESG
PDB ID: 3dhn

3dhn cartoon
Cartoon diagram of 463: 3dhn

PyMOL of 3dhn

Domains:  PyMOL of domains

Single domain protein.

Structure classification:

NAD(P)-binding Rossmann fold.

CASP category:

Comparative modeling:medium.

Closest templates:

1sb8, 1r6d, 2hun, 2pk3, 1oc2.

Target sequence - PDB file inconsistencies:

T0463    3dhn.pdb    T0463.pdb    PyMOL    PyMOL of domains    

T0463    1 MEKVKKIVLIGASGFVGSALLNEALNRGFEVTAVVRHPEKIKIENEHLKVKKADVSSLDEVCEVCKGADAVISAFNPGWNNPDIYDETIKVYLTIIDGVKKAGVNRFLMVGGAGSLFIAPGLRLMDSGEVPENILPGVKALGEFYLNFLMKEKEIDWVFFSPAADMRPGVRTGRYRLGKDDMIVDIVGNSHISVEDYAAAMIDELEHPKHHQERFTIGY----- 219
           ~~|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||~~~~~~||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||~~~~~
3dhnA    3 --KVKKIVLIGASGFVGSALLNEALNRGFEVTAVVRHPEKIKIENEHLKVKKADVSSLDEVCEVCKGADAVISAFNP------IYDETIKVYLTIIDGVKKAGVNRFLMVGGAGSLFIAPGLRLMDSGEVPENILPGVKALGEFYLNFLMKEKEIDWVFFSPAADMRPGVRTGRYRLGKDDMIVDIVGNSHISVEDYAAAMIDELEHPKHHQERFTIGYLEHHH 224

Residue change log: change 109, 125, 150, 166, 182, 201, MSE to MET; remove 220-LEHHH-224 as it is not present in target sequence;

Single domain protein: target 3-77, 84-219 ; pdb 3-77, 84-219

Sequence classification:

NAD dependent epimerase/dehydratase family PF01370 in Pfam.

Server predictions:

T0463:pdb 3-219:seq 3-219:CM_medium;   alignment

distribution of first scores
First models for T0463: Gaussian kernel density estimation for GDT-TS scores of the first server models, plotted at various bandwidths (=standard deviations). The GDT-TS scores are shown as a spectrum along the horizontal axis: each bar represents first server model. The bars are colored green, gray and black for top 10, bottom 25% and the rest of servers. The family of curves with varying bandwidth is shown. Bandwidth varies from 0.3 to 8.2 GDT-TS % units with a step of 0.1, which corresponds to the color ramp from magenta through blue to cyan. Thicker curves: red, yellow-framed brown and black, correspond to bandwidths 1, 2 and 4 respectively.

click on a score in the table below to display the model in PyMOL

# GROUP ↓ TS ↓ TR ↓ CS ↓ TS ↓ TR ↓ CS ↓ TS ↓ TR ↓ CS ↓ TS ↓ TR ↓ CS ↓ ↓ GROUP #
T0463 T0463 T0463 T0463
First score First Z-score Best score Best Z-score
1 ACOMPMOD 73.93 65.72 71.94 3.33 2.82 2.23 73.93 65.72 71.94 2.19 2.18 1.70 ACOMPMOD 1
2 FUGUE_KM 70.38 63.59 67.76 2.49 2.33 1.47 70.38 63.59 67.76 1.51 1.71 0.92 FUGUE_KM 2
3 FALCON 70.26 60.86 71.10 2.46 1.70 2.08 70.26 60.86 71.10 1.49 1.12 1.54 FALCON 3
4 LEE−SERVER 68.72 62.72 68.85 2.10 2.13 1.67 69.19 63.98 70.22 1.29 1.80 1.38 LEE−SERVER 4
5 LOOPP_Server 67.30 57.66 67.10 1.77 0.96 1.35 67.30 57.66 67.10 0.93 0.43 0.79 LOOPP_Server 5
6 MUSTER 66.94 59.99 68.96 1.68 1.50 1.69 66.94 59.99 68.96 0.86 0.93 1.14 MUSTER 6
7 fais−server 66.35 57.03 67.36 1.54 0.81 1.39 66.35 57.03 67.36 0.75 0.29 0.84 fais−server 7
8 Zhang−Server 65.76 60.55 65.84 1.40 1.63 1.12 70.62 61.37 70.84 1.56 1.23 1.49 Zhang−Server 8
9 YASARA 64.34 55.96 64.61 1.07 0.57 0.89 65.88 58.85 66.82 0.66 0.69 0.74 YASARA 9
10 Phyre_de_novo 63.15 54.34 65.37 0.79 0.19 1.03 63.15 54.46 65.37 0.14 -0.27 0.47 Phyre_de_novo 10
11 FEIG 62.68 53.20 62.99 0.68 -0.07 0.59 72.39 65.20 70.88 1.89 2.06 1.50 FEIG 11
12 BAKER−ROBETTA 62.56 55.21 61.85 0.65 0.39 0.39 62.68 55.88 61.85 0.05 0.04 -0.19 BAKER−ROBETTA 12
13 mGenTHREADER 62.20 53.75 58.60 0.56 0.06 -0.21 62.20 53.75 58.60 -0.04 -0.42 -0.80 mGenTHREADER 13
14 pro−sp3−TASSER 61.97 57.07 62.27 0.51 0.82 0.46 68.13 62.20 67.31 1.09 1.41 0.83 pro−sp3−TASSER 14
15 MULTICOM−REFINE 61.73 58.73 63.55 0.45 1.21 0.70 61.73 58.73 64.06 -0.13 0.66 0.23 MULTICOM−REFINE 15
16 COMA−M 61.73 56.91 61.00 0.45 0.79 0.23 62.44 57.07 61.17 0.01 0.30 -0.32 COMA−M 16
17 COMA 61.73 56.28 60.59 0.45 0.64 0.16 61.73 56.28 61.17 -0.13 0.13 -0.32 COMA 17
18 MUProt 61.37 55.69 63.75 0.37 0.50 0.73 61.37 58.14 64.07 -0.19 0.53 0.23 MUProt 18
19 RAPTOR 61.26 56.67 61.85 0.34 0.73 0.39 69.08 59.83 70.14 1.27 0.90 1.36 RAPTOR 19
20 MULTICOM−CMFR 61.14 57.58 63.18 0.31 0.94 0.63 61.37 57.58 63.54 -0.19 0.41 0.13 MULTICOM−CMFR 20
21 Pcons_multi 61.02 55.41 60.18 0.29 0.44 0.08 62.68 57.62 63.73 0.05 0.42 0.16 Pcons_multi 21
22 MULTICOM−CLUSTER 60.90 54.34 63.10 0.26 0.19 0.61 61.49 55.13 63.72 -0.17 -0.12 0.16 MULTICOM−CLUSTER 22
23 METATASSER 60.78 53.12 63.26 0.23 -0.09 0.64 63.03 59.72 63.26 0.12 0.87 0.08 METATASSER 23
24 keasar−server 60.55 53.59 61.62 0.18 0.02 0.34 67.54 60.19 68.06 0.97 0.98 0.97 keasar−server 24
25 FFASsuboptimal 60.43 55.53 60.07 0.15 0.47 0.06 60.55 55.53 60.11 -0.35 -0.03 -0.51 FFASsuboptimal 25
26 Pcons_local 60.31 54.46 59.46 0.12 0.22 -0.05 72.51 64.77 72.19 1.92 1.97 1.75 Pcons_local 26
27 Pcons_dot_net 60.31 54.46 59.46 0.12 0.22 -0.05 62.56 55.21 61.85 0.03 -0.10 -0.19 Pcons_dot_net 27
28 3DShot2 60.19 56.24 58.17 0.09 0.63 -0.29 60.19 56.24 58.17 -0.42 0.12 -0.88 3DShot2 28
29 SAM−T06−server 60.07 54.78 60.09 0.06 0.29 0.06 60.07 54.78 60.09 -0.44 -0.20 -0.52 SAM−T06−server 29
30 CpHModels 60.07 52.80 60.96 0.06 -0.16 0.22 60.07 52.80 60.96 -0.44 -0.63 -0.35 CpHModels 30
31 nFOLD3 59.95 54.19 58.94 0.03 0.16 -0.15 68.84 60.23 68.73 1.22 0.99 1.10 nFOLD3 31
32 forecast 59.72 52.21 59.62 -0.02 -0.30 -0.02 59.72 52.37 60.78 -0.51 -0.72 -0.39 forecast 32
33 GS−KudlatyPred 59.60 53.99 61.23 -0.05 0.11 0.27 65.17 55.21 64.89 0.53 -0.10 0.38 GS−KudlatyPred 33
34 HHpred5 59.36 55.09 62.75 -0.11 0.36 0.55 59.36 55.09 62.75 -0.58 -0.13 -0.02 HHpred5 34
35 FFASflextemplate 59.36 55.02 58.27 -0.11 0.35 -0.27 59.95 55.02 59.35 -0.46 -0.14 -0.66 FFASflextemplate 35
36 MULTICOM−RANK 59.12 52.09 61.15 -0.16 -0.33 0.26 60.07 52.09 61.50 -0.44 -0.78 -0.25 MULTICOM−RANK 36
37 FFASstandard 59.01 53.32 59.73 -0.19 -0.04 -0.00 65.64 56.75 65.49 0.61 0.23 0.49 FFASstandard 37
38 SAM−T02−server 58.65 53.75 57.47 -0.27 0.06 -0.42 59.60 53.75 57.95 -0.53 -0.42 -0.92 SAM−T02−server 38
39 Pushchino 58.53 53.28 53.10 -0.30 -0.05 -1.22 58.53 53.28 53.10 -0.73 -0.52 -1.83 Pushchino 39
40 SAM−T08−server 58.41 50.83 61.97 -0.33 -0.62 0.41 58.41 50.83 61.97 -0.76 -1.05 -0.17 SAM−T08−server 40
41 Frankenstein 58.06 50.99 58.91 -0.41 -0.58 -0.15 58.06 54.23 61.48 -0.82 -0.32 -0.26 Frankenstein 41
42 BioSerf 57.94 50.00 59.47 -0.44 -0.81 -0.05 57.94 50.00 59.47 -0.84 -1.23 -0.63 BioSerf 42
43 FAMSD 57.82 51.78 56.55 -0.47 -0.40 -0.58 69.91 61.22 69.65 1.42 1.20 1.27 FAMSD 43
44 HHpred2 57.58 51.03 60.81 -0.53 -0.57 0.20 57.58 51.03 60.81 -0.91 -1.01 -0.38 HHpred2 44
45 PS2−server 56.87 51.94 58.80 -0.69 -0.36 -0.17 57.23 51.94 59.10 -0.98 -0.81 -0.70 PS2−server 45
46 pipe_int 56.75 51.22 53.65 -0.72 -0.53 -1.11 56.75 51.22 53.65 -1.07 -0.97 -1.72 pipe_int 46
47 Fiser−M4T 56.63 51.98 52.74 -0.75 -0.35 -1.28 56.63 51.98 52.74 -1.09 -0.80 -1.89 Fiser−M4T 47
48 circle 56.63 49.29 60.17 -0.75 -0.97 0.08 61.26 55.02 61.42 -0.22 -0.14 -0.27 circle 48
49 Poing 56.28 52.80 54.48 -0.83 -0.16 -0.96 65.88 57.31 66.14 0.66 0.35 0.62 Poing 49
50 Phyre2 56.28 52.80 54.48 -0.83 -0.16 -0.96 65.88 57.23 66.16 0.66 0.33 0.62 Phyre2 50
51 Phragment 56.28 52.80 54.48 -0.83 -0.16 -0.96 65.17 54.46 65.70 0.53 -0.27 0.53 Phragment 51
52 FALCON_CONSENSUS 55.92 46.68 58.50 -0.92 -1.58 -0.23 70.26 60.86 71.10 1.49 1.12 1.54 FALCON_CONSENSUS 52
53 3D−JIGSAW_AEP 55.81 48.46 55.09 -0.94 -1.17 -0.85 55.81 50.04 55.96 -1.25 -1.22 -1.29 3D−JIGSAW_AEP 53
54 PSI 55.21 45.73 55.07 -1.08 -1.80 -0.85 56.63 51.94 58.91 -1.09 -0.81 -0.74 PSI 54
55 HHpred4 55.09 47.59 60.97 -1.11 -1.37 0.22 55.09 47.59 60.97 -1.38 -1.76 -0.35 HHpred4 55
56 3D−JIGSAW_V3 54.62 49.33 50.77 -1.22 -0.97 -1.64 54.62 49.68 51.14 -1.47 -1.30 -2.19 3D−JIGSAW_V3 56
57 panther_server 54.50 49.76 49.21 -1.25 -0.87 -1.93 55.69 49.76 51.84 -1.27 -1.29 -2.06 panther_server 57
58 MUFOLD−Server 52.96 44.59 53.27 -1.61 -2.06 -1.18 54.03 46.64 54.58 -1.59 -1.96 -1.55 MUFOLD−Server 58
59 3Dpro 52.84 48.18 53.22 -1.64 -1.23 -1.19 52.84 48.18 53.22 -1.81 -1.63 -1.80 3Dpro 59
60 rehtnap 46.68 37.91 36.21 -3.10 -3.60 -4.30 49.41 42.93 38.54 -2.46 -2.77 -4.55 rehtnap 60
61 FOLDpro 29.74 23.34 26.63 -7.09 -6.97 -6.06 36.26 31.91 30.75 -4.95 -5.16 -6.01 FOLDpro 61
62 Distill 29.50 25.00 34.54 -7.15 -6.59 -4.61 29.86 25.00 34.98 -6.17 -6.66 -5.22 Distill 62
63 mariner1 27.73 22.43 28.91 -7.56 -7.18 -5.64 68.01 58.85 67.59 1.06 0.69 0.89 mariner1 63
64 MUFOLD−MD 23.82 17.42 36.97 -8.49 -8.34 -4.17 25.36 20.46 36.97 -7.02 -7.64 -4.84 MUFOLD−MD 64
65 RBO−Proteus 17.54 16.94 35.04 -9.97 -8.45 -4.52 19.31 17.50 35.93 -8.17 -8.28 -5.04 RBO−Proteus 65
66 OLGAFS 14.34 11.81 0.95 -10.72 -9.63 -10.75 31.40 26.42 27.86 -5.87 -6.35 -6.55 OLGAFS 66
67 RANDOM 11.85 10.33 11.85 -11.31 -9.97 -8.76 11.85 10.33 11.85 -9.58 -9.84 -9.55 RANDOM 67
68 schenk−torda−server 10.78 9.40 15.97 -11.56 -10.19 -8.01 11.61 9.99 15.97 -9.63 -9.91 -8.78 schenk−torda−server 68
69 BHAGEERATH                   -11.31 -9.97 -8.76                   -9.58 -9.84 -9.55 BHAGEERATH 69
70 GS−MetaServer2                   -11.31 -9.97 -8.76                   -9.58 -9.84 -9.55 GS−MetaServer2 70
71 GeneSilicoMetaServer                   -11.31 -9.97 -8.76                   -9.58 -9.84 -9.55 GeneSilicoMetaServer 71
72 huber−torda−server                   -11.31 -9.97 -8.76                   -9.58 -9.84 -9.55 huber−torda−server 72
73 mahmood−torda−server                   -11.31 -9.97 -8.76                   -9.81 -10.12 -9.55 mahmood−torda−server 73
74 test_http_server_01                   -11.31 -9.97 -8.76                   -9.58 -9.84 -9.55 test_http_server_01 74