D-I-TASSER results for Q8TBE1-D1

Input Sequence in FASTA format

>Q8TBE1 (160 residues)
MAFTFAAFCYMLSLVLCAALIFFAIWHIIAFDELRTDFKSPIDQCNPVHARERLRNIERI
CFLLRKLVLPEYSIHSLFCIMFLCAQEWLTLGLNVPLLFYHFWRYFHCPADSSELAYDPP
VVMNADTLSYCQKEAWCKLAFYLLSFFYYLYCMIYTLVSS

Predicted Secondary Structure

                  20                  40                  60                  80                 100                 120                 140                 160
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Sequence
MAFTFAAFCYMLSLVLCAALIFFAIWHIIAFDELRTDFKSPIDQCNPVHARERLRNIERICFLLRKLVLPEYSIHSLFCIMFLCAQEWLTLGLNVPLLFYHFWRYFHCPADSSELAYDPPVVMNADTLSYCQKEAWCKLAFYLLSFFYYLYCMIYTLVSS
Prediction
CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHCCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHCHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Confidence
9873899999999999999999999999999864113478377425212555543268899985203548999999999999998799999997999999999999612568886656254333023688877889999999999999999999999609

H:Helix; S:Strand; C:Coil

Predicted Solvent Accessibility

                  20                  40                  60                  80                 100                 120                 140                 160
                   |                   |                   |                   |                   |                   |                   |                   |
Sequence
MAFTFAAFCYMLSLVLCAALIFFAIWHIIAFDELRTDFKSPIDQCNPVHARERLRNIERICFLLRKLVLPEYSIHSLFCIMFLCAQEWLTLGLNVPLLFYHFWRYFHCPADSSELAYDPPVVMNADTLSYCQKEAWCKLAFYLLSFFYYLYCMIYTLVSS
Prediction
6414333321130333223211121111000230433232024204534544444425400430231012200101210011233433200130311022103312423353452232023024363044243310010111322233333321320258

Values range from 0 (buried residue) to 8 (highly exposed residue)

Predicted Contact, Hydrogen and Distance Map Used in D-I-TASSER simulation

D-I-TASSER simulation is guided by the consensus contact map (left figure), distance map (middle figure) and Hydrogen bond network (right figure) derived based on confidence scores of AttentionPotential. In the contact, distance map and hydrogen bond networks, the axes mark the residue index along the sequence. For the contact map, each dot represents a residue pair with predicted contact, while for the distance map and hydrogen bond network, a color scale represents a distance of 1-20+ angstroms or a angle of 0-180 degree.

Top 10 threading templates used by D-I-TASSER

Rank	PDB hit	ID1	ID2	Cov	Norm. Zscore	Download alignment		20                  40                  60                  80                 100                 120                 140                 160                    |                   |                   |                   |                   |                   |                   |                   |
							SS	CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHCCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHCHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
							Seq	MAFTFAAFCYMLSLVLCAALIFFAIWHIIAFDELRTDFKSPIDQCNPVHARERLRNIERICFLLRKLVLPEYSIHSLFCIMFLCAQEWLTLGLNVPLLFYHFWRYFHCPADSSELAYDPPVVMNADTLSYCQKEAWCKLAFYLLSFFYYLYCMIYTLVSS
1	7jh6A	0.08	0.07	2.96	1.17	DEthreader		DYLRELLKLELQAIKQYEKLRQTGDELVQAF-QRL--R----EIFDKGDDDSLEQVLEEIEELIQKHR-QLASELPKLELQAIKQYLEDEEKHIEWLKEAAKQGDQWVQFQRFREA--LEQLLE-ELEQALQKIRELTEKTGRKILEDEEKHIEWLETIL
2	6peqE	1.00	0.82	23.10	2.26	SPARKS-K		-AFTFAAFCYMLSLVLCAALIFFAIWHIIAFDELRTD------------ARERLRNIERICFLLRKLVLPEYSIHSLFCIMFLCAQEWLTLGLNVPLLFYHFWRYFHCPA---------------DTLSYCQKEAWCKLAFYLLSFFYYLYCMIYTLVSS
3	6peqE	1.00	0.82	23.10	2.07	MUSTER		-AFTFAAFCYMLSLVLCAALIFFAIWHIIAFDELRTD------------ARERLRNIERICFLLRKLVLPEYSIHSLFCIMFLCAQEWLTLGLNVPLLFYHFWRYFHCPA---------------DTLSYCQKEAWCKLAFYLLSFFYYLYCMIYTLVSS
4	6peqE	0.95	0.78	21.92	2.28	FFAS-3D		-AFTFAAFCYMLSLVLCAALIFFAIWHIIAFDELRTDARERLR------------NIERICFLLRKLVLPEYSIHSLFCIMFLCAQEWLTLGLNVPLLFYHFWRYFHCPADT---------------LSYCQKEAWCKLAFYLLSFFYYLYCMIYTLVSS
5	6peqE	1.00	0.82	23.10	1.08	CNFpred		-AFTFAAFCYMLSLVLCAALIFFAIWHIIAFDELRTD------------ARERLRNIERICFLLRKLVLPEYSIHSLFCIMFLCAQEWLTLGLNVPLLFYHFWRYFHCPA---------------DTLSYCQKEAWCKLAFYLLSFFYYLYCMIYTLVSS
6	6peqE	0.92	0.76	21.41	1.17	DEthreader		A-FTFAAFCYMLSLVLCAALIFFAIWHIIAFDELR--T--D------AR-ERL-RNIERICFLLRKLVLPEYSIHSLFCIMFLCAQEWLTLGLNVPLLFYHFWRYFHCP------A----DT-----LSYCQKEAWCKLAFYLLSFFYYLYCMIYTLVSS
7	4ui9I	0.08	0.07	3.01	1.17	DEthreader		YSFLPEVTRMARKFTHISALLQYINLSLTCMCEAW-EE-ILMQMDLGQSIESSYSSIQKLVIHLQSGSESLLYHLSELKGMASWKYEGLDAAGIEEAITAVGSFILKNELLQVIDSSMVERVGQDDLVKSLHFVKRRMENIIDQCLQKPADVIGKSMNQD
8	6m31A	0.09	0.09	3.36	0.77	SPARKS-K		GGIIGYLISSSLLVFFVVFFVCAYGNVINDIFDIEIDPSRPLVLSLFIN-IYALIIAVINALFLYLYAPIGNFIIGYLTGSVFLFGGVILFLCSLLSIWGREIVKDFEDMEGKEGVISLPIKYGKKSLYFATFLVVLAVILYLILIAICDILFIYAMALL
9	5doqA2	0.07	0.06	2.31	0.79	MapAlign		----PAMPTKVAHVLATSYMTSAFVLASIAAWHLWKGNR-----------------HIYHRKALHLTMKTAFIFSVASALVGDLSGFDVMVTIGVFLMVVAAVYWL------------GSIFRWKWTANWFFGLLVAGGPLAMIAIEAGWYLAEVGRQP-
10	6peqE	0.99	0.82	22.93	0.62	CEthreader		-AFTFAAFCYMLSLVLCAALIFFAIWHIIAFDELRTDA------------RERLRNIERICFLLRKLVLPEYSIHSLFCIMFLCAQEWLTLGLNVPLLFYHFWRYFHCPA---------------DTLSYCQKEAWCKLAFYLLSFFYYLYCMIYTLVSS


(a) ID1 is the number of template residues identical to query divided by number of aligned residues.
(b) ID2 is the number of template residues identical to query divided by query sequence length.
(c) Cov is equal the number of aligned template residues divided by query sequence length.
(d) Norm. Zscore is the normalized Z-score of the threading alignments. A Normalized Z-score >1 means a good alignment and is highlighted in bold.
(e) Download alignment lists the threading program used to identify the template, and provide the 3D structure of aligned regions of threading templates (threading[1-10].pdb.gz).
(f) Template residues identical to query sequence are highlighted in color.

Top 1 final models from D-I-TASSER

Rank^a	Estimated TM-score^b
1	0.7108


(a) D-I-TASSER simulations generate a large ensemble of structural conformations, i.e. decoys. These decoys are clustered by SPICKER based on pairwise structure similarity to report up to five final models from the five largest clusters. Models are ranked in descending order of cluster size. If the simulations converge well, it is possible to have less than 5 models generated, which is usually an indication of good model quality.
(b) The model confidence is quantitatified by estimated TM-score (eTM-score), calculated based on significance of threading template alignments, contact map satisfaction rate, mean absolute error between distance of model and distance of AttentionPotential, and convergence of D-I-TASSER simulations. eTM-score is typically in the range of [0, 1], with higher eTM-score signifies higher model confidence.

Proteins with similar structure

Top 10 structural analogs in PDB (as identified by TM-align)


Rank	PDB Hit	TM-score	RMSD^a	IDEN^a	Cov.
1	6peqE	0.78	1.27	0.962	0.825
2	7jh6A	0.75	2.96	0.079	0.950
3	4k1pA1	0.69	3.48	0.068	0.925
4	2d4yA	0.69	3.73	0.052	0.956
5	5ziyA	0.69	3.40	0.041	0.919
6	5ytiA	0.69	3.88	0.052	0.950
7	5wk5A1	0.69	3.71	0.074	0.925
8	5mawD	0.69	3.72	0.052	0.931
9	6xkyA	0.68	3.58	0.072	0.906
10	6x80A	0.68	3.50	0.067	0.906



(a) Query structure is shown in cartoon, while the structural analog is displayed using backbone trace.
(b) Ranking of proteins is based on TM-score of the structural alignment between the query structure and known structures in the PDB library.
(c) RMSD^a is the RMSD between residues that are structurally aligned by TM-align.
(d) IDEN^a is the percentage sequence identity in the structurally aligned region.
(e) Cov. represents the coverage of the alignment by TM-align and is equal to the number of structurally aligned residues divided by length of the query protein.

Predicted Gene Ontology (GO) Terms

Molecular Function (MF)


GO term	Cscore^GO	Name
GO:0098772	0.40	molecular function regulator
GO:0016247	0.39	channel regulator activity
GO:0097159	0.35	organic cyclic compound binding
GO:1901363	0.34	heterocyclic compound binding
GO:0000166	0.30	nucleotide binding






(a) Cscore^GO is the confidence score of predicted GO terms. Cscore^GO values range in between [0-1]; where a higher value indicates a better confidence in predicting the function using the template.
(b) The graph shows the predicted terms within the Gene Ontology hierachy for Molecular Function. Confidently predicted terms are color coded by Cscore^GO:

Biological Process (BP)


GO term	Cscore^GO	Name
GO:0051179	0.83	localization
GO:0065007	0.82	biological regulation
GO:0050794	0.81	regulation of cellular process
GO:0051641	0.78	cellular localization
GO:0009987	0.74	cellular process
GO:0044699	0.64	single-organism process
GO:0023051	0.63	regulation of signaling
GO:0010646	0.63	regulation of cell communication
GO:0006810	0.63	transport
GO:0009966	0.62	regulation of signal transduction
GO:0065009	0.61	regulation of molecular function
GO:0032879	0.61	regulation of localization
GO:2000311	0.60	regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity
GO:0016192	0.56	vesicle-mediated transport
GO:0046907	0.54	intracellular transport
GO:0006888	0.52	ER to Golgi vesicle-mediated transport
GO:0044763	0.51	single-organism cellular process






(a) Cscore^GO is the confidence score of predicted GO terms. Cscore^GO values range in between [0-1]; where a higher value indicates a better confidence in predicting the function using the template.
(b) The graph shows the predicted terms within the Gene Ontology hierachy for Biological Process. Confidently predicted terms are color coded by Cscore^GO:

Cellular Component (CC)


GO term	Cscore^GO	Name
GO:0044464	1.00	cell part
GO:0044424	0.88	intracellular part
GO:0016020	0.86	membrane
GO:0044425	0.82	membrane part
GO:0044444	0.73	cytoplasmic part
GO:0097458	0.61	neuron part
GO:0043226	0.61	organelle
GO:0044459	0.60	plasma membrane part
GO:0043229	0.60	intracellular organelle
GO:0032991	0.60	macromolecular complex
GO:0043234	0.59	protein complex
GO:0098797	0.58	plasma membrane protein complex
GO:0097060	0.57	synaptic membrane
GO:0008328	0.57	ionotropic glutamate receptor complex
GO:0045211	0.56	postsynaptic membrane
GO:0044463	0.56	cell projection part
GO:0044446	0.56	intracellular organelle part
GO:0032281	0.56	AMPA glutamate receptor complex
GO:0043198	0.55	dendritic shaft






(a) Cscore^GO is the confidence score of predicted GO terms. Cscore^GO values range in between [0-1]; where a higher value indicates a better confidence in predicting the function using the template.
(b) The graph shows the predicted terms within the Gene Ontology hierachy for Cellular Component. Confidently predicted terms are color coded by Cscore^GO:

Predicted Enzyme Commission (EC) Numbers

Top 5 enzyme homologs in PDB


Rank	Cscore^EC	PDB Hit	TM-score	RMSD^a	IDEN^a	Cov.	EC Number	Predicted Active Site Residues
1	0.067	1q0mD	0.538	3.33	0.060	0.706	1.15.1.1	NA
2	0.067	3gm1B	0.556	3.87	0.044	0.800	2.7.10.2	NA
3	0.067	3g4xA	0.539	3.19	0.077	0.706	1.15.1.1	NA
4	0.067	1i5nD	0.531	2.49	0.038	0.631	2.7.13.3	NA
5	0.060	2occN	0.562	4.21	0.068	0.838	1.9.3.1	NA



(a) Cscore^EC is the confidence score for the Enzyme Commission (EC) number prediction. Cscore^EC values range in between [0-1]; where a higher score indicates a more reliable EC number prediction.
(b) TM-score is a measure of global structural similarity between query and template protein.
(c) RMSD^a is the RMSD between residues that are structurally aligned by TM-align.
(d) IDEN^a is the percentage sequence identity in the structurally aligned region.
(e) Cov. represents the coverage of global structural alignment and is equal to the number of structurally aligned residues divided by length of the query protein.

Predicted Ligand Binding Sites

Template proteins with similar binding site:

No Binding sites was predicted

References:
1. Wei Zheng, Chengxin Zhang, Yang Li, Robin Pearce, Eric W. Bell, Yang Zhang. Folding non-homology proteins by coupling deep-learning contact maps with I-TASSER assembly simulations. In preparation, 2020.