T0511

Targets
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T0511

dehydrogenase from Xanthomonas campestris

Target type: Server only

Target sequence:

>T0511 dehydrogenase, Xanthomonas campestris, 271 residues
MTLSGKTLFITGASRGIGLAIALRAARDGANVAIAAKSAVANPKLPGTIHSAAAAVNAAGGQGLALKCDIREEDQVRAAVAATVDTFGGIDILVNNASAIWLRGTLDTPMKRFDLMQQVNARGSFVCAQACLPHLLQAPNPHILTLAPPPSLNPAWWGAHTGYTLAKMGMSLVTLGLAAEFGPQGVAINALWPRTVIATDAINMLPGVDAAACRRPEIMADAAHAVLTREAAGFHGQFLIDDEVLAQAGITDLSGYAVDPQRALLPDLFLE

Structure:
Method: X-ray, res=1.69Å, R/Rfree=0.16/0.20
Determined by: NYSGRC
PDB ID: 3e03

3e03_A cartoon
Cartoon diagram of 511: chain A

PyMOL of 3e03

Domains:  PyMOL of domains

Single domain protein.

Structure classification:

NAD(P)-binding Rossmann fold.

CASP category:

Comparative modeling:medium.

Closest templates:

2ae2, 1ae1.

Target sequence - PDB file inconsistencies:

T0511    3e03.pdb    T0511.pdb    PyMOL    PyMOL of domains    

T0511    1 -MTLSGKTLFITGASRGIGLAIALRAARDGANVAIAAKSAVANPKLPGTIHSAAAAVNAAGGQGLALKCDIREEDQVRAAVAATVDTFGGIDILVNNASAIWLRGTLDTPMKRFDLMQQVNARGSFVCAQACLPHLLQAPNPHILTLAPPPSLNPAWWGAHTGYTLAKMGMSLVTLGLAAEFGPQGVAINALWPRTVIATDAINMLPGVDAAACRRPEIMADAAHAVLTREAAGFHGQFLIDDEVLAQAGITDLSGYAVDPQRALLPDLFLE-- 271
           ~:||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||~~~~~~~|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||~~
3e03A    2 SLTLSGKTLFITGASRGIGLAIALRAARDGANVAIAAKSAVANPKLPGTIHSAAAAVNAAGGQGLALKCDIREEDQVRAAVAATVDTFGGIDILVNNASAIWLRGTLDTPMKRFDLMQQVNARGSFVCAQACLPHLLQAPNPHILTLAPPPSLNPAWWGAHTGYTLAKMGMSLVTLGLAAEFGPQGVAINALWPRTVIAT-------GVDAAACRRPEIMADAAHAVLTREAAGFHGQFLIDDEVLAQAGITDLSGYAVDPQRALLPDLFLEEG 275

Residue change log: change 3 L to M; change 112, 118, 170, 172, 221, MSE to MET; remove 2-S-2, 274-EG-275 as it is not present in target sequence;

Single domain protein: target 1-199, 207-271 ; pdb 3-201, 209-273

Sequence classification:

Short chain dehydrogenase (adh_short) in Pfam.

Server predictions:

T0511:pdb 3-273:seq 1-271:CM_medium;   alignment

distribution of first scores
First models for T0511: 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 #
T0511 T0511 T0511 T0511
First score First Z-score Best score Best Z-score
1 BioSerf 68.37 63.89 68.81 1.22 1.63 1.22 68.37 63.89 68.81 0.92 1.28 1.02 BioSerf 1
2 MULTICOM−RANK 68.28 62.59 67.81 1.20 1.34 1.06 68.75 63.01 68.28 1.04 1.04 0.91 MULTICOM−RANK 2
3 Pcons_local 67.99 59.53 65.67 1.13 0.65 0.70 67.99 61.36 66.26 0.81 0.58 0.50 Pcons_local 3
4 Pcons_dot_net 67.99 59.53 65.67 1.13 0.65 0.70 67.99 61.36 66.26 0.81 0.58 0.50 Pcons_dot_net 4
5 Pcons_multi 67.99 59.53 65.67 1.13 0.65 0.70 68.56 62.44 68.81 0.98 0.88 1.02 Pcons_multi 5
6 pro−sp3−TASSER 67.90 63.86 67.47 1.10 1.63 1.00 68.47 63.86 69.43 0.95 1.28 1.15 pro−sp3−TASSER 6
7 Zhang−Server 67.52 61.77 67.43 1.01 1.16 1.00 68.56 63.64 68.18 0.98 1.21 0.89 Zhang−Server 7
8 RAPTOR 67.42 59.85 68.32 0.98 0.73 1.14 67.71 61.65 68.32 0.72 0.66 0.92 RAPTOR 8
9 mGenTHREADER 67.14 62.03 62.62 0.91 1.22 0.20 67.14 62.03 62.62 0.55 0.77 -0.25 mGenTHREADER 9
10 nFOLD3 67.14 57.13 67.86 0.91 0.11 1.07 67.42 62.69 68.78 0.63 0.95 1.01 nFOLD3 10
11 pipe_int 67.05 59.53 67.94 0.89 0.65 1.08 67.42 63.89 67.94 0.63 1.28 0.84 pipe_int 11
12 circle 66.86 60.67 59.44 0.84 0.91 -0.33 66.86 61.33 64.13 0.46 0.58 0.06 circle 12
13 3D−JIGSAW_V3 66.76 61.77 67.04 0.81 1.16 0.93 66.95 62.59 67.04 0.49 0.92 0.66 3D−JIGSAW_V3 13
14 GeneSilicoMetaServer 66.76 60.70 64.62 0.81 0.92 0.53 66.76 61.87 64.62 0.43 0.73 0.16 GeneSilicoMetaServer 14
15 FAMSD 66.76 60.20 59.37 0.81 0.80 -0.34 67.90 60.20 60.53 0.78 0.26 -0.68 FAMSD 15
16 PS2−server 66.67 61.36 67.06 0.79 1.07 0.93 67.42 62.44 67.06 0.63 0.88 0.66 PS2−server 16
17 YASARA 66.57 58.55 65.07 0.76 0.43 0.60 69.13 60.26 71.83 1.15 0.28 1.64 YASARA 17
18 3DShot2 66.48 60.73 66.07 0.74 0.92 0.77 66.48 60.73 66.07 0.35 0.41 0.46 3DShot2 18
19 HHpred5 66.48 54.80 65.78 0.74 -0.41 0.72 66.48 54.80 65.78 0.35 -1.23 0.40 HHpred5 19
20 3D−JIGSAW_AEP 66.38 58.55 66.97 0.71 0.43 0.92 66.48 59.53 67.08 0.35 0.08 0.66 3D−JIGSAW_AEP 20
21 MULTICOM−CMFR 66.19 58.93 68.13 0.67 0.52 1.11 66.95 60.61 68.13 0.49 0.38 0.88 MULTICOM−CMFR 21
22 MULTICOM−CLUSTER 66.10 59.78 66.88 0.64 0.71 0.90 68.18 62.69 68.28 0.86 0.95 0.91 MULTICOM−CLUSTER 22
23 MULTICOM−REFINE 66.00 59.25 66.46 0.62 0.59 0.84 68.09 62.41 68.15 0.84 0.87 0.88 MULTICOM−REFINE 23
24 MUProt 65.81 60.01 66.78 0.57 0.76 0.89 66.86 60.86 67.01 0.46 0.45 0.65 MUProt 24
25 HHpred4 65.81 57.67 66.39 0.57 0.23 0.82 65.81 57.67 66.39 0.15 -0.44 0.52 HHpred4 25
26 MUSTER 65.81 56.98 65.40 0.57 0.08 0.66 67.90 61.14 69.06 0.78 0.52 1.07 MUSTER 26
27 FFASstandard 65.62 59.88 59.80 0.52 0.73 -0.27 67.05 61.99 65.97 0.52 0.76 0.44 FFASstandard 27
28 HHpred2 65.53 56.19 65.35 0.50 -0.10 0.65 65.53 56.19 65.35 0.06 -0.84 0.31 HHpred2 28
29 fais−server 65.34 61.52 61.13 0.45 1.10 -0.05 67.14 61.52 66.87 0.55 0.63 0.62 fais−server 29
30 FFASsuboptimal 65.34 61.43 59.35 0.45 1.08 -0.34 66.48 63.01 60.90 0.35 1.04 -0.60 FFASsuboptimal 30
31 forecast 64.87 58.93 65.64 0.33 0.52 0.70 68.37 61.81 68.64 0.92 0.71 0.98 forecast 31
32 SAM−T08−server 64.87 54.83 65.61 0.33 -0.40 0.69 65.25 57.64 66.40 -0.02 -0.44 0.53 SAM−T08−server 32
33 FFASflextemplate 64.68 59.82 57.17 0.28 0.72 -0.70 65.62 61.36 59.80 0.09 0.58 -0.83 FFASflextemplate 33
34 METATASSER 64.58 57.39 65.58 0.26 0.17 0.69 67.90 62.63 68.38 0.78 0.94 0.93 METATASSER 34
35 MUFOLD−Server 64.49 56.00 66.19 0.23 -0.14 0.79 64.49 56.98 66.37 -0.25 -0.63 0.52 MUFOLD−Server 35
36 LOOPP_Server 64.02 57.58 61.05 0.11 0.21 -0.06 67.23 60.10 65.19 0.58 0.24 0.28 LOOPP_Server 36
37 FALCON_CONSENSUS 63.45 54.86 62.69 -0.03 -0.40 0.21 63.64 54.86 65.26 -0.51 -1.21 0.29 FALCON_CONSENSUS 37
38 FALCON 63.45 54.86 62.69 -0.03 -0.40 0.21 63.64 54.86 65.26 -0.51 -1.21 0.29 FALCON 38
39 PSI 63.16 53.76 62.27 -0.11 -0.65 0.14 67.33 61.90 63.17 0.61 0.73 -0.14 PSI 39
40 SAM−T02−server 62.41 58.49 60.00 -0.30 0.42 -0.24 64.30 58.49 60.78 -0.31 -0.21 -0.63 SAM−T02−server 40
41 SAM−T06−server 62.41 58.18 64.71 -0.30 0.35 0.55 64.77 59.03 64.71 -0.17 -0.06 0.18 SAM−T06−server 41
42 Pushchino 62.41 53.85 51.25 -0.30 -0.62 -1.68 62.41 53.85 51.25 -0.88 -1.49 -2.58 Pushchino 42
43 GS−KudlatyPred 62.12 57.32 62.42 -0.37 0.16 0.17 62.22 58.30 63.08 -0.94 -0.26 -0.16 GS−KudlatyPred 43
44 3Dpro 62.12 53.85 61.99 -0.37 -0.62 0.09 62.12 53.95 62.66 -0.97 -1.46 -0.24 3Dpro 44
45 LEE−SERVER 62.03 55.78 62.06 -0.40 -0.19 0.11 69.51 62.66 70.47 1.27 0.94 1.36 LEE−SERVER 45
46 BAKER−ROBETTA 61.84 57.04 61.84 -0.44 0.09 0.07 62.12 58.11 62.42 -0.97 -0.31 -0.29 BAKER−ROBETTA 46
47 COMA−M 61.46 56.34 58.25 -0.54 -0.06 -0.52 61.55 56.34 58.25 -1.14 -0.80 -1.15 COMA−M 47
48 panther_server 61.17 53.35 59.38 -0.61 -0.74 -0.34 65.53 59.03 61.35 0.06 -0.06 -0.51 panther_server 48
49 rehtnap 61.17 50.57 56.40 -0.61 -1.36 -0.83 61.17 50.57 56.40 -1.26 -2.40 -1.52 rehtnap 49
50 Fiser−M4T 60.80 57.51 59.06 -0.71 0.20 -0.39 60.80 57.51 59.06 -1.37 -0.48 -0.98 Fiser−M4T 50
51 GS−MetaServer2 59.09 53.09 53.16 -1.15 -0.80 -1.37 64.96 59.98 61.58 -0.11 0.20 -0.46 GS−MetaServer2 51
52 COMA 58.52 52.72 52.65 -1.29 -0.88 -1.45 62.41 55.65 58.62 -0.88 -0.99 -1.07 COMA 52
53 ACOMPMOD 58.24 50.79 55.85 -1.36 -1.31 -0.92 65.06 60.45 61.03 -0.08 0.33 -0.58 ACOMPMOD 53
54 Phyre_de_novo 58.14 49.59 56.43 -1.39 -1.58 -0.83 58.14 49.59 56.43 -2.17 -2.67 -1.52 Phyre_de_novo 54
55 mariner1 58.14 49.59 56.38 -1.39 -1.58 -0.83 69.13 63.51 67.70 1.15 1.18 0.79 mariner1 55
56 CpHModels 57.39 52.97 47.60 -1.58 -0.82 -2.29 57.39 52.97 47.60 -2.40 -1.74 -3.33 CpHModels 56
57 FUGUE_KM 56.72 44.35 50.38 -1.75 -2.76 -1.83 58.05 52.65 53.88 -2.20 -1.82 -2.04 FUGUE_KM 57
58 huber−torda−server 56.25 45.96 46.63 -1.87 -2.40 -2.45 59.66 55.43 50.29 -1.71 -1.05 -2.78 huber−torda−server 58
59 OLGAFS 55.49 48.11 46.65 -2.06 -1.92 -2.45 57.10 53.44 50.37 -2.49 -1.61 -2.76 OLGAFS 59
60 Distill 54.73 50.44 52.94 -2.26 -1.39 -1.40 55.87 51.20 53.25 -2.86 -2.22 -2.17 Distill 60
61 Poing 50.85 44.85 46.66 -3.25 -2.65 -2.45 56.34 50.35 53.35 -2.72 -2.46 -2.15 Poing 61
62 Phyre2 50.85 44.85 46.43 -3.25 -2.65 -2.48 56.25 50.76 53.26 -2.75 -2.35 -2.17 Phyre2 62
63 Phragment 50.85 44.85 46.60 -3.25 -2.65 -2.46 56.34 50.35 54.00 -2.72 -2.46 -2.02 Phragment 63
64 RBO−Proteus 31.82 22.22 41.02 -8.10 -7.74 -3.38 33.24 23.89 41.23 -9.71 -9.78 -4.64 RBO−Proteus 64
65 MUFOLD−MD 28.31 24.94 40.01 -9.00 -7.13 -3.55 28.31 24.94 40.54 -11.20 -9.49 -4.78 MUFOLD−MD 65
66 FOLDpro 15.72 11.49 15.65 -12.21 -10.16 -7.58 43.84 36.02 40.90 -6.50 -6.42 -4.70 FOLDpro 66
67 FEIG 12.69 9.60 16.28 -12.98 -10.58 -7.48 67.90 60.95 66.11 0.78 0.47 0.47 FEIG 67
68 RANDOM 10.90 8.99 10.90 -13.44 -10.72 -8.37 10.90 8.99 10.90 -16.47 -13.90 -10.85 RANDOM 68
69 schenk−torda−server 8.14 7.67 4.44 -14.14 -11.02 -9.44 8.52 7.67 9.89 -17.19 -14.26 -11.06 schenk−torda−server 69
70 BHAGEERATH                   -13.44 -10.72 -8.37                   -16.47 -13.90 -10.85 BHAGEERATH 70
71 Frankenstein                   -13.44 -10.72 -8.37                   -16.47 -13.90 -10.85 Frankenstein 71
72 keasar−server                   -13.44 -10.72 -8.37                   -16.47 -13.90 -10.85 keasar−server 72
73 mahmood−torda−server                   -13.44 -10.72 -8.37                   -16.47 -13.90 -10.85 mahmood−torda−server 73
74 test_http_server_01                   -13.44 -10.72 -8.37                   -16.47 -13.90 -10.85 test_http_server_01 74