T0514

Server only Targets
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512 513 514  

T0514

invasion associated protein B from Bartonella henselae

Target type: Server only

Target sequence:

>T0514 INVASION ASSOCIATED PROTEIN B, BARTONELLA HENSELAE, 145 residues
SSLTETYGLWSINCGIQEGKKVCFMHRQEVNDQNRVVVAMSVVLNADGVVSGNLTVPFGILVSKPVRLQVDEGKAVIETGIRTCVPAGCIVPIVFDKNYVAALRAGKHLKLAMTIAAPGEPPLNDLFVQLNGFSNALNRLIALQK

Structure:
Method: X-ray, res=2.35Å, R/Rfree=0.24/0.27
Determined by: NYSGRC
PDB ID: 3dtd

3dtd_A cartoon
Cartoon diagram of 514: 3dtd chain A

PyMOL of 3dtd

Domains:  PyMOL of domains

Single domain protein.

Structure classification:

Immunoglobulin-like topology (in a broad sense) with extra 3-stranded meander β-sheet at the N-terminus covered by an extra-C-terminal α-helix. This extra-region may even be viewed as a separate β3α domain. Another interesting aspect of this structure is topological similarity to circularly permuted reversed ferredoxin-like fold, if the two helices are considered core elements, but the strands in one of the sheets are treated as insertions and extensions.

3dtd_A cartoon
Cartoon diagram of 514: 3dtd chain A possible domains:
42-72, 171-186 (blue) and 73-170 (red)

3dtd_A cartoon
Cartoon diagram of 514: 3dtd chain A
IG-like core colored rainbow

3dtd_A cartoon
Cartoon diagram of 514: 3dtd chain A
circular permutation of
reversed ferredoxin-like core colored rainbow

CASP category:

Fold recognition.

Closest templates:

2zf8, 2jug.

Target sequence - PDB file inconsistencies:

T0514    3dtd.pdb    T0514.pdb    PyMOL    PyMOL of domains    

T0514    1 SSLTETYGLWSINCGIQEGKKVCFMHRQEVNDQNRVVVAMSVVLNADGVVSGNLTVPFGILVSKPVRLQVDEGKAVIETGIRTCVPAGCIVPIVFDKNYVAALRAGKHLKLAMTIAAPGEPPLNDLFVQLNGFSNALNRLIALQK- 145
           ~||||||||||||||||~~~|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||~
3dtdA   42 -SLTETYGLWSINCGIQ---KVCFMHRQEVNDQNRVVVAMSVVLNADGVVSGNLTVPFGILVSKPVRLQVDEGKAVIETGIRTCVPAGCIVPIVFDKNYVAALRAGKHLKLAMTIAAPGEPPLNDLFVQLNGFSNALNRLIALQKE 186

Single domain protein: target 2-17, 21-145 ; pdb 42-57, 61-185

Sequence classification:

Invasion associated locus B protein IalB in Pfam.

Server predictions:

T0514:pdb 42-185:seq 2-145:FR;   alignment

distribution of first scores
First models for T0514: 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 #
T0514 T0514 T0514 T0514
First score First Z-score Best score Best Z-score
1 pro−sp3−TASSER 50.71 37.23 51.86 3.35 2.71 2.52 50.89 38.83 51.97 2.96 2.65 2.26 pro−sp3−TASSER 1
2 MUProt 43.79 36.70 44.79 2.54 2.63 1.81 43.79 36.70 44.79 2.16 2.34 1.50 MUProt 2
3 MULTICOM−CMFR 43.62 35.46 44.71 2.52 2.45 1.80 43.62 35.46 44.71 2.14 2.15 1.50 MULTICOM−CMFR 3
4 MULTICOM−CLUSTER 43.44 33.92 44.71 2.50 2.23 1.80 43.44 33.92 44.71 2.12 1.93 1.50 MULTICOM−CLUSTER 4
5 MULTICOM−REFINE 43.09 35.99 44.71 2.46 2.53 1.80 43.09 35.99 44.71 2.08 2.23 1.50 MULTICOM−REFINE 5
6 MULTICOM−RANK 43.09 33.16 44.73 2.46 2.12 1.80 43.09 33.16 44.73 2.08 1.81 1.50 MULTICOM−RANK 6
7 METATASSER 39.36 32.15 40.79 2.02 1.97 1.40 44.50 34.81 51.73 2.24 2.06 2.24 METATASSER 7
8 HHpred4 35.11 29.55 30.88 1.53 1.59 0.39 35.11 29.55 30.88 1.18 1.28 0.03 HHpred4 8
9 HHpred5 33.33 28.84 35.01 1.32 1.49 0.81 33.33 28.84 35.01 0.98 1.17 0.47 HHpred5 9
10 FAMSD 29.61 25.00 30.90 0.88 0.93 0.40 29.61 25.00 30.90 0.56 0.61 0.03 FAMSD 10
11 RBO−Proteus 28.90 25.59 43.83 0.80 1.01 1.71 28.90 25.59 44.55 0.48 0.69 1.48 RBO−Proteus 11
12 GS−KudlatyPred 28.37 23.88 39.21 0.74 0.77 1.24 29.61 25.59 40.55 0.56 0.69 1.06 GS−KudlatyPred 12
13 forecast 26.24 19.62 22.50 0.49 0.15 -0.46 26.24 20.15 22.50 0.18 -0.11 -0.86 forecast 13
14 MUSTER 25.89 20.21 27.22 0.45 0.23 0.02 49.11 42.49 45.14 2.76 3.19 1.54 MUSTER 14
15 Zhang−Server 25.89 19.74 37.98 0.45 0.16 1.11 39.01 29.85 44.04 1.62 1.32 1.42 Zhang−Server 15
16 PSI 25.53 21.39 42.69 0.41 0.40 1.59 26.95 22.81 44.00 0.26 0.28 1.42 PSI 16
17 circle 23.94 20.15 22.62 0.22 0.22 -0.44 24.11 20.15 27.44 -0.06 -0.11 -0.33 circle 17
18 BAKER−ROBETTA 23.58 19.80 41.73 0.18 0.17 1.50 29.61 25.59 43.32 0.56 0.69 1.35 BAKER−ROBETTA 18
19 LEE−SERVER 23.23 22.28 37.59 0.14 0.53 1.08 23.23 22.28 37.59 -0.16 0.21 0.74 LEE−SERVER 19
20 MUFOLD−MD 21.63 18.14 37.07 -0.05 -0.07 1.02 27.13 19.86 41.37 0.28 -0.15 1.14 MUFOLD−MD 20
21 FEIG 20.21 18.85 28.74 -0.21 0.03 0.18 23.23 21.45 40.28 -0.16 0.08 1.03 FEIG 21
22 FALCON_CONSENSUS 20.21 18.44 28.24 -0.21 -0.03 0.13 20.21 18.44 32.42 -0.50 -0.36 0.19 FALCON_CONSENSUS 22
23 FALCON 20.21 18.44 28.24 -0.21 -0.03 0.13 21.45 18.44 32.72 -0.36 -0.36 0.23 FALCON 23
24 mGenTHREADER 19.86 18.79 19.22 -0.26 0.03 -0.79 19.86 18.79 19.22 -0.54 -0.31 -1.20 mGenTHREADER 24
25 Frankenstein 19.68 16.90 29.15 -0.28 -0.25 0.22 20.57 17.85 29.15 -0.46 -0.45 -0.15 Frankenstein 25
26 BioSerf 19.50 17.79 33.35 -0.30 -0.12 0.64 19.50 17.79 33.35 -0.58 -0.46 0.29 BioSerf 26
27 RAPTOR 19.33 18.50 33.94 -0.32 -0.02 0.70 23.94 20.75 37.94 -0.08 -0.02 0.78 RAPTOR 27
28 keasar−server 19.33 17.91 25.91 -0.32 -0.10 -0.11 19.86 18.20 25.91 -0.54 -0.40 -0.49 keasar−server 28
29 mariner1 19.33 13.77 25.80 -0.32 -0.70 -0.12 20.39 19.33 30.54 -0.48 -0.23 -0.00 mariner1 29
30 Phyre_de_novo 18.62 16.25 25.52 -0.40 -0.34 -0.15 18.97 16.25 31.37 -0.64 -0.69 0.08 Phyre_de_novo 30
31 SAM−T06−server 18.62 15.48 26.25 -0.40 -0.46 -0.08 18.62 15.48 26.25 -0.68 -0.80 -0.46 SAM−T06−server 31
32 FFASsuboptimal 18.44 16.67 19.99 -0.42 -0.28 -0.71 18.44 16.67 20.00 -0.70 -0.62 -1.12 FFASsuboptimal 32
33 SAM−T08−server 17.91 14.95 26.65 -0.48 -0.53 -0.04 17.91 14.95 26.65 -0.76 -0.88 -0.42 SAM−T08−server 33
34 HHpred2 17.91 14.54 21.19 -0.48 -0.59 -0.59 17.91 14.54 21.19 -0.76 -0.94 -0.99 HHpred2 34
35 3D−JIGSAW_V3 17.55 15.31 22.39 -0.53 -0.48 -0.47 25.53 21.39 22.39 0.10 0.07 -0.87 3D−JIGSAW_V3 35
36 MUFOLD−Server 17.55 13.12 20.09 -0.53 -0.80 -0.70 17.55 14.42 20.09 -0.80 -0.96 -1.11 MUFOLD−Server 36
37 ACOMPMOD 17.38 15.90 21.73 -0.54 -0.40 -0.53 18.79 15.90 21.73 -0.66 -0.74 -0.94 ACOMPMOD 37
38 Distill 17.38 14.89 26.34 -0.54 -0.54 -0.07 19.15 16.84 28.78 -0.62 -0.60 -0.19 Distill 38
39 nFOLD3 17.02 13.47 18.12 -0.59 -0.75 -0.90 22.52 18.38 27.50 -0.24 -0.37 -0.33 nFOLD3 39
40 3DShot2 17.02 13.36 26.95 -0.59 -0.76 -0.00 17.02 13.36 26.95 -0.86 -1.11 -0.38 3DShot2 40
41 Phyre2 16.84 14.01 24.71 -0.61 -0.67 -0.23 20.75 18.62 35.63 -0.44 -0.33 0.53 Phyre2 41
42 CpHModels 16.67 15.48 22.07 -0.63 -0.46 -0.50 16.67 15.48 22.07 -0.90 -0.80 -0.90 CpHModels 42
43 3D−JIGSAW_AEP 16.67 15.37 17.53 -0.63 -0.47 -0.96 16.67 15.37 18.75 -0.90 -0.82 -1.25 3D−JIGSAW_AEP 43
44 Pcons_dot_net 16.49 14.95 17.43 -0.65 -0.53 -0.97 19.50 16.43 19.43 -0.58 -0.66 -1.18 Pcons_dot_net 44
45 Poing 16.31 12.18 28.65 -0.67 -0.94 0.17 24.11 19.39 31.16 -0.06 -0.22 0.06 Poing 45
46 Phragment 15.78 14.18 22.66 -0.73 -0.65 -0.44 17.38 14.18 26.56 -0.82 -0.99 -0.43 Phragment 46
47 fais−server 15.78 13.42 23.69 -0.73 -0.76 -0.34 19.86 16.79 34.84 -0.54 -0.61 0.45 fais−server 47
48 huber−torda−server 15.60 15.31 12.28 -0.75 -0.48 -1.49 15.78 15.31 15.61 -1.00 -0.82 -1.58 huber−torda−server 48
49 FUGUE_KM 15.43 14.84 14.16 -0.77 -0.55 -1.30 17.55 14.84 14.16 -0.80 -0.89 -1.74 FUGUE_KM 49
50 COMA 15.43 12.23 13.85 -0.77 -0.93 -1.33 17.38 16.08 21.85 -0.82 -0.71 -0.92 COMA 50
51 COMA−M 15.43 12.23 13.85 -0.77 -0.93 -1.33 17.38 16.08 21.85 -0.82 -0.71 -0.92 COMA−M 51
52 PS2−server 15.07 11.29 13.90 -0.81 -1.07 -1.33 20.39 17.32 27.34 -0.48 -0.53 -0.34 PS2−server 52
53 LOOPP_Server 14.72 11.64 8.43 -0.86 -1.01 -1.88 25.00 20.86 28.35 0.04 -0.00 -0.24 LOOPP_Server 53
54 RANDOM 14.69 12.46 14.69 -0.86 -0.90 -1.25 14.69 12.46 14.69 -1.12 -1.24 -1.68 RANDOM 54
55 Pcons_multi 14.54 11.70 18.29 -0.88 -1.01 -0.88 17.20 14.95 21.25 -0.84 -0.88 -0.99 Pcons_multi 55
56 GS−MetaServer2 14.18 10.88 8.00 -0.92 -1.13 -1.93 20.92 19.86 25.83 -0.42 -0.15 -0.50 GS−MetaServer2 56
57 GeneSilicoMetaServer 14.18 10.88 8.00 -0.92 -1.13 -1.93 20.92 19.86 25.83 -0.42 -0.15 -0.50 GeneSilicoMetaServer 57
58 schenk−torda−server 13.65 13.36 17.81 -0.98 -0.76 -0.93 15.78 13.42 17.81 -1.00 -1.10 -1.35 schenk−torda−server 58
59 SAM−T02−server 13.12 11.05 14.14 -1.04 -1.10 -1.31 13.12 11.05 14.14 -1.30 -1.45 -1.74 SAM−T02−server 59
60 OLGAFS 12.94 9.99 10.61 -1.06 -1.25 -1.66 13.30 11.53 10.61 -1.28 -1.38 -2.11 OLGAFS 60
61 FFASstandard 12.77 10.64 4.09 -1.08 -1.16 -2.33 12.77 10.64 4.89 -1.34 -1.51 -2.72 FFASstandard 61
62 3Dpro 12.59 11.47 15.90 -1.10 -1.04 -1.13 16.31 12.41 15.90 -0.94 -1.25 -1.55 3Dpro 62
63 FOLDpro 12.59 11.47 15.90 -1.10 -1.04 -1.13 16.31 12.41 15.90 -0.94 -1.25 -1.55 FOLDpro 63
64 FFASflextemplate 11.70 10.05 4.89 -1.21 -1.25 -2.24 12.77 10.64 4.89 -1.34 -1.51 -2.72 FFASflextemplate 64
65 Pcons_local 11.70 9.93 1.36 -1.21 -1.26 -2.60 13.30 11.17 1.36 -1.28 -1.44 -3.09 Pcons_local 65
66 rehtnap 9.93 9.81 -7.22 -1.42 -1.28 -3.47 9.93 9.81 -7.22 -1.66 -1.64 -4.00 rehtnap 66
67 BHAGEERATH                   -0.86 -0.90 -1.25                   -1.12 -1.24 -1.68 BHAGEERATH 67
68 Fiser−M4T                   -0.86 -0.90 -1.25                   -1.12 -1.24 -1.68 Fiser−M4T 68
69 Pushchino                   -0.86 -0.90 -1.25                   -1.12 -1.24 -1.68 Pushchino 69
70 YASARA                   -0.86 -0.90 -1.25                   -1.12 -1.24 -1.68 YASARA 70
71 mahmood−torda−server                   -0.86 -0.90 -1.25                   -1.12 -1.24 -1.68 mahmood−torda−server 71
72 panther_server                   -0.86 -0.90 -1.25                   -1.12 -1.24 -1.68 panther_server 72
73 pipe_int                   -0.86 -0.90 -1.25                   -1.12 -1.24 -1.68 pipe_int 73
74 test_http_server_01                   -0.86 -0.90 -1.25                   -1.12 -1.24 -1.68 test_http_server_01 74